Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 59 of 135
Found at i:24048980 original size:41 final size:41
Alignment explanation
Indices: 24048935--24049061 Score: 114
Period size: 41 Copynumber: 3.0 Consensus size: 41
24048925 ATTTTCGAGG
* *
24048935 AGTGATTTCGTGGAAGACCATGTCTAGGACATTGGCATCGA-
1 AGTGA-TTCGTGTAAGACCATGTCTGGGACATTGGCATCGAT
** * *
24048976 AGTGAGAAAACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 AGT--G-ATTCGTGTAAGACCATGTCTGGGACATTGGCATCG-AT
* * *
24049021 A-TGATTCGTATAAGACCCTGTCTGGGACAGTGGCATCGAT
1 AGTGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGAT
24049061 A
1 A
24049062 TATGTTAACA
Statistics
Matches: 68, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
40 3 0.04
41 31 0.46
42 1 0.01
43 29 0.43
44 3 0.04
45 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.27
Consensus pattern (41 bp):
AGTGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGAT
Found at i:24054813 original size:45 final size:45
Alignment explanation
Indices: 24054749--24054835 Score: 165
Period size: 45 Copynumber: 1.9 Consensus size: 45
24054739 CCCAACCAGT
*
24054749 ATCTCAAACGGATCGATTTCTATTCTCTTCTTATTTTAGTTTGGC
1 ATCTCAAACGGATCGATTTCTATTCTCCTCTTATTTTAGTTTGGC
24054794 ATCTCAAACGGATCGATTTCTATTCTCCTCTTATTTTAGTTT
1 ATCTCAAACGGATCGATTTCTATTCTCCTCTTATTTTAGTTT
24054836 AATTTGTGTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (45 bp):
ATCTCAAACGGATCGATTTCTATTCTCCTCTTATTTTAGTTTGGC
Found at i:24057317 original size:48 final size:48
Alignment explanation
Indices: 24057220--24057319 Score: 112
Period size: 48 Copynumber: 2.1 Consensus size: 48
24057210 TGATATACTT
* * *
24057220 TAAAAGTTCAATTTTTACCTTTTCCTAAAATTATTTGCAGTTTATTTC
1 TAAAAGTTCAATTTTTACCTATTACTAAAATTATTTGCAGTTTAGTTC
* ** * *
24057268 TAAAATTTCAATTTTTTGCTATTACTAAAATTGTTTAGGA-TTTAGTTC
1 TAAAAGTTCAATTTTTACCTATTACTAAAATTATTT-GCAGTTTAGTTC
24057316 TAAA
1 TAAA
24057320 TCAACAGTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
48 41 0.95
49 2 0.05
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (48 bp):
TAAAAGTTCAATTTTTACCTATTACTAAAATTATTTGCAGTTTAGTTC
Found at i:24062288 original size:22 final size:21
Alignment explanation
Indices: 24062263--24062307 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
24062253 TTTTGCGCAA
* *
24062263 TTTAATTTTTCTTTTATGTTCT
1 TTTAAATTTCCTTTT-TGTTCT
*
24062285 TTTAAATTTCCTTTTTTTTCT
1 TTTAAATTTCCTTTTTGTTCT
24062306 TT
1 TT
24062308 ATTTTCTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTAAATTTCCTTTTTGTTCT
Found at i:24063477 original size:18 final size:17
Alignment explanation
Indices: 24063435--24063466 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24063425 TCTTTTCCTT
24063435 TTCTATTTCTTGTTCTC
1 TTCTATTTCTTGTTCTC
24063452 TTCTATTT-TTGTTCT
1 TTCTATTTCTTGTTCT
24063467 TTACTCTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.06, C:0.19, G:0.06, T:0.69
Consensus pattern (17 bp):
TTCTATTTCTTGTTCTC
Found at i:24065439 original size:12 final size:12
Alignment explanation
Indices: 24065422--24065455 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
24065412 GAAAAGAAAC
24065422 CCTAGCGCCACA
1 CCTAGCGCCACA
24065434 CCTAGCGCCACA
1 CCTAGCGCCACA
24065446 CCTAGGCGCC
1 CCTA-GCGCC
24065456 GCCCCTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.21, C:0.50, G:0.21, T:0.09
Consensus pattern (12 bp):
CCTAGCGCCACA
Found at i:24066438 original size:3 final size:3
Alignment explanation
Indices: 24066432--24066493 Score: 72
Period size: 3 Copynumber: 20.7 Consensus size: 3
24066422 TAATGTTACC
* * * *
24066432 ATT ATT ATT ATT ATT ATC ATCT -TT ATT ATT ATT AAT ATC AAT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
24066477 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
24066494 ATTTCCATTA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
2 1 0.02
3 48 0.98
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:24066459 original size:21 final size:21
Alignment explanation
Indices: 24066432--24066490 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
24066422 TAATGTTACC
24066432 ATTATTATTATTATTATC-AT
1 ATTATTATTATTATTATCAAT
* *
24066452 CTTTATTATTATTAATATCAAT
1 -ATTATTATTATTATTATCAAT
24066474 ATTATTATTATTATTAT
1 ATTATTATTATTATTAT
24066491 TATATTTCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 31 0.94
22 2 0.06
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTATTATTATTATTATCAAT
Found at i:24078473 original size:218 final size:218
Alignment explanation
Indices: 24078080--24078670 Score: 1011
Period size: 218 Copynumber: 2.7 Consensus size: 218
24078070 AATGAATATT
* * * *
24078080 AGAGATCTTACCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTAAAGT
1 AGAGATCTTATCTCTCTGAGATTACAGCAGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
* * *
24078145 TACAGTGGAGCAGATTAAAATAAAAGATCTTATCTCTCTGAAGTTATAGCAGAGTAGATCGCATC
66 TACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATC
24078210 AGGTCTTATCTCCCTGAGGTTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGG
131 AGGTCTTATCTCCCTGAGGTTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGG
24078275 TTACAGTGAAGCAGATTGAAGCC
196 TTACAGTGAAGCAGATTGAAGCC
* *
24078298 AGATATCTTATCTCTCTGAGATTACAGCAGAGCATATCGAAGACACTATCCTATCTCCCTGAAGT
1 AGAGATCTTATCTCTCTGAGATTACAGCAGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
24078363 TACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATC
66 TACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATC
* *
24078428 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCTCTGAGG
131 AGGTCTTATCTCCCTGAGGTTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGG
*
24078493 TTACAGTGGAGCAGATTGAAGCC
196 TTACAGTGAAGCAGATTGAAGCC
* *
24078516 AGAGATCTTATCTCTTTGAGATTATAGCAGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
1 AGAGATCTTATCTCTCTGAGATTACAGCAGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
* * *
24078581 TACAGTGAAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATC
66 TACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATC
* *
24078646 AGATCTTATCTCCCTGAGATTACAG
131 AGGTCTTATCTCCCTGAGGTTACAG
24078671 CAGAGCAGAT
Statistics
Matches: 352, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
218 352 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (218 bp):
AGAGATCTTATCTCTCTGAGATTACAGCAGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
TACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATC
AGGTCTTATCTCCCTGAGGTTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGG
TTACAGTGAAGCAGATTGAAGCC
Found at i:24078483 original size:46 final size:44
Alignment explanation
Indices: 24078082--24078768 Score: 296
Period size: 44 Copynumber: 15.8 Consensus size: 44
24078072 TGAATATTAG
* * *
24078082 AGATCTTACCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A-C
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
* * * * * *
24078124 ACTATCCTATCTCCCTAAAGTTACAGTGGAGCAGAT-TAA-AATAAA
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAAT--C
* * * ** * *
24078169 AGATCTTATCTCTCTGAAGTTATAGCAGAGTAGATC---GCATC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
* ** *
24078210 AGGTCTTATCTCCCTGAGGTTACAGTGGAATAGACCGAAGAATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA--TC
* * *
24078256 AGATCTTATCTCCCTGAGGTTACAGTGAAGCAGATTGAAG--CC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
* * ** *
24078298 AGATATCTTATCTCTCTGAGATTACAGCAGAGCATATCGAAG-A-C
1 AG--ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
* * * * * *
24078342 ACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAA-AATAA
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAAT-C
* * * * * *
24078386 ATGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATC---GCATC
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
* * *
24078428 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA--TC
* * * *
24078474 AGATCTTATCTCTCTGAGGTTACAGTGGAGCAGATTGAAGCCA-G
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAG-AATC
** * * **
24078518 AGATCTTATCTCTTTGAGATTATAGCAGAGCAGATCGAAG-A-C
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
* * * * * * *
24078560 ACTATCCTATCTCCCTGAAGTTACAGTGAAGCGGAT-TAA-AATAA
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAAT-C
* * * * *
24078604 ATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---GTATC
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
* ** *
24078646 AGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAG-AT-
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
** ** *
24078688 AGTAATCTTATCTCCCTGATATTACAGCAGAGCAGATTGAAG-AT-
1 AG--ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
* * **
24078732 AGTAATCCTATCTCCTTGAAATTACAGTGGAGCAGAT
1 AG--ATCTTATCTCCCTGAGGTTACAGTGGAGCAGAT
24078769 TAAGGGATCT
Statistics
Matches: 488, Mismatches: 119, Indels: 74
0.72 0.17 0.11
Matches are distributed among these distances:
41 86 0.18
42 19 0.04
43 83 0.17
44 225 0.46
45 1 0.00
46 73 0.15
47 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
Found at i:24078830 original size:168 final size:169
Alignment explanation
Indices: 24078472--24078830 Score: 454
Period size: 172 Copynumber: 2.1 Consensus size: 169
24078462 CCGAAGAATT
* * ** * **
24078472 TCAGATCTTATCTCTCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTTTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGACAGAGATCTTATCTCCCTGAGA
* * *
24078537 TTATAGCAGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGAAGCGGATTAAAAT
66 TTACAGCAGAGCAGATCGAAGACACTATCCTATCTCCCTGAAATTACAGTGAAGCAGATT---AT
*
24078602 AAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA
128 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA
* *
24078644 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGATAGTA-ATCTTATCTCCCTGAT
1 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGACAG-AGATCTTATCTCCCTGAG
* * * * *
24078708 ATTACAGCAGAGCAGATTGAAGATAGTAATCCTATCTCCTTGAAATTACAGTGGAGCAGA-T-TA
65 ATTACAGCAGAGCAGATCGAAGACACT-ATCCTATCTCCCTGAAATTACAGTGAAGCAGATTATA
* *
24078771 AGGGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTA
129 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA
* *
24078812 TCAGGTCTTATATCCCTGA
1 TCAGATCTTATCTCCCTGA
24078831 TGTTGCAGTG
Statistics
Matches: 163, Mismatches: 22, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
168 57 0.35
172 77 0.47
173 29 0.18
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (169 bp):
TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGACAGAGATCTTATCTCCCTGAGA
TTACAGCAGAGCAGATCGAAGACACTATCCTATCTCCCTGAAATTACAGTGAAGCAGATTATAAA
GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA
Found at i:24080325 original size:3 final size:3
Alignment explanation
Indices: 24080317--24080359 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
24080307 TAATGTTACC
* *
24080317 ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT ATC ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
24080360 CATTTAATCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:24082307 original size:18 final size:19
Alignment explanation
Indices: 24082270--24082307 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
24082260 AGTAAGTATT
*
24082270 TTAAATATATCATTTAAAA
1 TTAAATATATAATTTAAAA
*
24082289 TTAAATA-ATAATTTTAAA
1 TTAAATATATAATTTAAAA
24082307 T
1 T
24082308 CCACCAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
TTAAATATATAATTTAAAA
Found at i:24084025 original size:648 final size:648
Alignment explanation
Indices: 24082790--24084084 Score: 2590
Period size: 648 Copynumber: 2.0 Consensus size: 648
24082780 TTTCCTTCTA
24082790 TTTTTCTTTCCTTTCTCTCCTTCCCTTCCCTCTCACCCACCCACCCACCCACCCTCCCAAAAAAA
1 TTTTTCTTTCCTTTCTCTCCTTCCCTTCCCTCTCACCCACCCACCCACCCACCCTCCCAAAAAAA
24082855 ACAAGCTAGGCACATCTACAGTGCTTAGCTATAGTCTTGAAAATGCGATGATTAAACTTGTATAA
66 ACAAGCTAGGCACATCTACAGTGCTTAGCTATAGTCTTGAAAATGCGATGATTAAACTTGTATAA
24082920 AATGTCGAGCAAAGACGTAACTAAGGGAGGCAATCGGACAAGCAGTGGCCTTGGAACCCTTTAGT
131 AATGTCGAGCAAAGACGTAACTAAGGGAGGCAATCGGACAAGCAGTGGCCTTGGAACCCTTTAGT
24082985 TGAGGGGTAGAATAACATTTCCAATCCATTTTAATTATGAATTACTCAAATTAAGTCTTTTTTAA
196 TGAGGGGTAGAATAACATTTCCAATCCATTTTAATTATGAATTACTCAAATTAAGTCTTTTTTAA
24083050 GTATTTTTTGCTTTTTCCCCCAACATTTTAAAATTTTATTTTGCCCCCTCCCCTAATATCATAGT
261 GTATTTTTTGCTTTTTCCCCCAACATTTTAAAATTTTATTTTGCCCCCTCCCCTAATATCATAGT
24083115 ATTGGCTTTACCCCATATGCTAAGAAAGGGGTTTAAAAGACAATGAATTTAATGTTTGATAGCTT
326 ATTGGCTTTACCCCATATGCTAAGAAAGGGGTTTAAAAGACAATGAATTTAATGTTTGATAGCTT
24083180 AAGATAAGTGATGAGTAATGATTTTAGTTTAAGATATGTGATACGAGTAAAGTTAATAAGGATGG
391 AAGATAAGTGATGAGTAATGATTTTAGTTTAAGATATGTGATACGAGTAAAGTTAATAAGGATGG
24083245 ACTGAGGCATGATGTAAGCAACTTGTGAGGGGAAAAATTAGTATTTTTATTAAAAAATTGTTAGA
456 ACTGAGGCATGATGTAAGCAACTTGTGAGGGGAAAAATTAGTATTTTTATTAAAAAATTGTTAGA
24083310 AATTATTAAAATATTATAAAAAAATTAAAATTACTACCCTTTTATAAATATTTATAATTTTATAA
521 AATTATTAAAATATTATAAAAAAATTAAAATTACTACCCTTTTATAAATATTTATAATTTTATAA
24083375 AATTTTTGAAAATTTTTATATCCTTGAAAAGCAATTAAGCCCTCCTAATAAAATAATTATAAC
586 AATTTTTGAAAATTTTTATATCCTTGAAAAGCAATTAAGCCCTCCTAATAAAATAATTATAAC
24083438 TTTTTCTTTCCTTTCTCTCCTTCCCTTCCCTCTCACCCACCCACCCACCCACCCTCCCAAAAAAA
1 TTTTTCTTTCCTTTCTCTCCTTCCCTTCCCTCTCACCCACCCACCCACCCACCCTCCCAAAAAAA
24083503 ACAAGCTAGGCACATCTACAGTGCTTAGCTATAGTCTTGAAAATGCGATGATTAAACTTGTATAA
66 ACAAGCTAGGCACATCTACAGTGCTTAGCTATAGTCTTGAAAATGCGATGATTAAACTTGTATAA
24083568 AATGTCGAGCAAAGACGTAACTAAGGGAGGCAATCGGACAAGCAGTGGCCTTGGAACCCTTTAGT
131 AATGTCGAGCAAAGACGTAACTAAGGGAGGCAATCGGACAAGCAGTGGCCTTGGAACCCTTTAGT
24083633 TGAGGGGTAGAATAACATTTCCAATCCATTTTAATTATGAATTACTCAAATTAAGTCTTTTTTAA
196 TGAGGGGTAGAATAACATTTCCAATCCATTTTAATTATGAATTACTCAAATTAAGTCTTTTTTAA
24083698 GTATTTTTTGCTTTTTCCCCCAACATTTTAAAATTTTATTTTGCCCCCTCCCCTAATATCATAGT
261 GTATTTTTTGCTTTTTCCCCCAACATTTTAAAATTTTATTTTGCCCCCTCCCCTAATATCATAGT
24083763 ATTGGCTTTACCCCATATGCTAAGAAAGGGGTTTAAAAGACAATGAATTTAATGTTTGATAGCTT
326 ATTGGCTTTACCCCATATGCTAAGAAAGGGGTTTAAAAGACAATGAATTTAATGTTTGATAGCTT
24083828 AAGATAAGTGATGAGTAATGATTTTAGTTTAAGATATGTGATACGAGTAAAGTTAATAAGGATGG
391 AAGATAAGTGATGAGTAATGATTTTAGTTTAAGATATGTGATACGAGTAAAGTTAATAAGGATGG
24083893 ACTGAGGCATGATGTAAGCAACTTGTGAGGGGAAAAATTAGTATTTTTATTAAAAAATTGTTAGA
456 ACTGAGGCATGATGTAAGCAACTTGTGAGGGGAAAAATTAGTATTTTTATTAAAAAATTGTTAGA
24083958 AATTATTAAAATATTATAAAAAAATTAAAATTACTACCCTTTTATAAATATTTATAATTTTATAA
521 AATTATTAAAATATTATAAAAAAATTAAAATTACTACCCTTTTATAAATATTTATAATTTTATAA
24084023 AATTTTTGAAAATTTTTATATCCTTGAAAAGCAATTAAGCCCTCCTAATAAAATAATTATAA
586 AATTTTTGAAAATTTTTATATCCTTGAAAAGCAATTAAGCCCTCCTAATAAAATAATTATAA
24084085 AATTCACATG
Statistics
Matches: 647, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
648 647 1.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (648 bp):
TTTTTCTTTCCTTTCTCTCCTTCCCTTCCCTCTCACCCACCCACCCACCCACCCTCCCAAAAAAA
ACAAGCTAGGCACATCTACAGTGCTTAGCTATAGTCTTGAAAATGCGATGATTAAACTTGTATAA
AATGTCGAGCAAAGACGTAACTAAGGGAGGCAATCGGACAAGCAGTGGCCTTGGAACCCTTTAGT
TGAGGGGTAGAATAACATTTCCAATCCATTTTAATTATGAATTACTCAAATTAAGTCTTTTTTAA
GTATTTTTTGCTTTTTCCCCCAACATTTTAAAATTTTATTTTGCCCCCTCCCCTAATATCATAGT
ATTGGCTTTACCCCATATGCTAAGAAAGGGGTTTAAAAGACAATGAATTTAATGTTTGATAGCTT
AAGATAAGTGATGAGTAATGATTTTAGTTTAAGATATGTGATACGAGTAAAGTTAATAAGGATGG
ACTGAGGCATGATGTAAGCAACTTGTGAGGGGAAAAATTAGTATTTTTATTAAAAAATTGTTAGA
AATTATTAAAATATTATAAAAAAATTAAAATTACTACCCTTTTATAAATATTTATAATTTTATAA
AATTTTTGAAAATTTTTATATCCTTGAAAAGCAATTAAGCCCTCCTAATAAAATAATTATAAC
Found at i:24084917 original size:95 final size:97
Alignment explanation
Indices: 24084742--24084928 Score: 360
Period size: 95 Copynumber: 1.9 Consensus size: 97
24084732 ATGAACTCAA
24084742 CCGATCGCTAACTCTCAATTAATTGCAGTTTTTAATTAAACAGTCGATTGTCAATTATTTTATAA
1 CCGATCGCTAACTCTCAATTAATTGCAGTTTTTAATTAAACAGTCGATTGTCAATTATTTTATAA
24084807 AAAATTTTCAATTACCTAAAGCCTAATTTTAC
66 AAAATTTTCAATTACCTAAAGCCTAATTTTAC
24084839 CCGATCGCT-A-TCTCAATTAATTGCAGTTTTTAATTAAACAGTCGATTGTCAATTATTTTATAA
1 CCGATCGCTAACTCTCAATTAATTGCAGTTTTTAATTAAACAGTCGATTGTCAATTATTTTATAA
24084902 AAAATTTTCAATTACCTAAAGCCTAAT
66 AAAATTTTCAATTACCTAAAGCCTAAT
24084929 ATTATANNNN
Statistics
Matches: 90, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
95 80 0.89
96 1 0.01
97 9 0.10
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (97 bp):
CCGATCGCTAACTCTCAATTAATTGCAGTTTTTAATTAAACAGTCGATTGTCAATTATTTTATAA
AAAATTTTCAATTACCTAAAGCCTAATTTTAC
Found at i:24095695 original size:16 final size:16
Alignment explanation
Indices: 24095660--24095700 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
24095650 AAAATATAGC
*
24095660 ATTATATCTATTGTGT
1 ATTATATCAATTGTGT
24095676 ATTATATCAATTGATG-
1 ATTATATCAATTG-TGT
24095692 ATTA-ATCAA
1 ATTATATCAA
24095701 AAGTGTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.22
16 16 0.70
17 2 0.09
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (16 bp):
ATTATATCAATTGTGT
Found at i:24101520 original size:25 final size:24
Alignment explanation
Indices: 24101453--24101521 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 24
24101443 AGTTTTTTTC
* *
24101453 ATAATTTTTTTATTTTTAAAAATT
1 ATAATTTTTTAATTTTTTAAAATT
* *
24101477 ATATATTTTTTACTTTTTTAAATTT
1 ATA-ATTTTTTAATTTTTTAAAATT
24101502 ATAATTTCTTTAATTTTTTA
1 ATAATTT-TTTAATTTTTTA
24101522 TTGAAAATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
24 7 0.18
25 31 0.82
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (24 bp):
ATAATTTTTTAATTTTTTAAAATT
Found at i:24102396 original size:28 final size:30
Alignment explanation
Indices: 24102349--24102410 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 30
24102339 TATTCTTTTT
24102349 AAATAATTTTAATGA-TTTTT-AATTTTAA
1 AAATAATTTTAATGATTTTTTGAATTTTAA
* *
24102377 AAATAATTTTTAT-ATTTTTTTGAATTTTCA
1 AAATAATTTTAATGA-TTTTTTGAATTTTAA
24102407 AAAT
1 AAAT
24102411 TTTAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 1 0.03
28 12 0.41
29 5 0.17
30 11 0.38
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (30 bp):
AAATAATTTTAATGATTTTTTGAATTTTAA
Found at i:24103558 original size:35 final size:35
Alignment explanation
Indices: 24103513--24103582 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
24103503 ATACACTTAT
* *
24103513 TATAACTAAATGTATATATGTATTTATCACCTGCA
1 TATAACTAAATGCATATATGTACTTATCACCTGCA
* * *
24103548 TATATCTAAATGCATATATGTGCTTATCACTTGCA
1 TATAACTAAATGCATATATGTACTTATCACCTGCA
24103583 CTTCATCGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (35 bp):
TATAACTAAATGCATATATGTACTTATCACCTGCA
Found at i:24103774 original size:41 final size:41
Alignment explanation
Indices: 24103717--24104035 Score: 629
Period size: 41 Copynumber: 7.8 Consensus size: 41
24103707 ACACATATAT
24103717 TGATTTAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCC
1 TGATTTAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCC
24103758 TGATTTAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCC
1 TGATTTAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCC
24103799 TGATTTAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCC
1 TGATTTAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCC
24103840 TGATTTAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCC
1 TGATTTAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCC
24103881 TGATTTAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCC
1 TGATTTAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCC
24103922 TGATTTAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCC
1 TGATTTAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCC
24103963 TGATTTAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCC
1 TGATTTAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCC
*
24104004 TGATTCAGTTCACCGGCACTTAGCCTGCTAGG
1 TGATTTAGTTCACCGGCACTTAGCCTGCTAGG
24104036 TTTTAAAACC
Statistics
Matches: 277, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 277 1.00
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.31
Consensus pattern (41 bp):
TGATTTAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCC
Found at i:24106412 original size:86 final size:86
Alignment explanation
Indices: 24106262--24106437 Score: 289
Period size: 86 Copynumber: 2.0 Consensus size: 86
24106252 TTAGGTTTAT
* * * *
24106262 TTTTTTCCATATTGTACTCTCGTTTGTTTACTCATTTAGTGAAAAGTCGATGCCTCTTTTATCCA
1 TTTTCTCCATATTGTACTATCGTTTGTTTACTCATTTAGTGAAAAGTCAATGCCTCCTTTATCCA
* *
24106327 TGGTTTTTCTCTGTTTGAGGG
66 TGGTTTTTCCCTCTTTGAGGG
*
24106348 TTTTCTCCATATTGTACTATCGTTTGTTTACTCATTTAGTGAAAATTCAATGCCTCCTTTATCCA
1 TTTTCTCCATATTGTACTATCGTTTGTTTACTCATTTAGTGAAAAGTCAATGCCTCCTTTATCCA
24106413 TGGTTTTTCCCTCTTTGAGGG
66 TGGTTTTTCCCTCTTTGAGGG
24106434 TTTT
1 TTTT
24106438 TCACGTAAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.49
Consensus pattern (86 bp):
TTTTCTCCATATTGTACTATCGTTTGTTTACTCATTTAGTGAAAAGTCAATGCCTCCTTTATCCA
TGGTTTTTCCCTCTTTGAGGG
Found at i:24107904 original size:10 final size:9
Alignment explanation
Indices: 24107882--24108000 Score: 68
Period size: 10 Copynumber: 12.8 Consensus size: 9
24107872 NNNNNNNNNN
24107882 TTTTTAT-A
1 TTTTTATAA
24107890 TTTTTCATAA
1 TTTTT-ATAA
24107900 TTTTTATAA
1 TTTTTATAA
*
24107909 GTTTATATCAA
1 -TTTTTAT-AA
24107920 TTTTTA-ATA
1 TTTTTATA-A
24107929 TTTTT-TAA
1 TTTTTATAA
* *
24107937 TAGTTAATAA
1 T-TTTTATAA
24107947 -TTTTATAA
1 TTTTTATAA
*
24107955 TTTTT-TGAT
1 TTTTTAT-AA
24107964 TTTTTATAA
1 TTTTTATAA
* *
24107973 TTGTTTCTGAT
1 TT-TTTAT-AA
24107984 TTTTTAATAA
1 TTTTT-ATAA
24107994 TTTTTAT
1 TTTTTAT
24108001 GAGAAAAAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 27
0.69 0.10 0.22
Matches are distributed among these distances:
8 15 0.18
9 30 0.35
10 34 0.40
11 6 0.07
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:24107985 original size:20 final size:18
Alignment explanation
Indices: 24107947--24107998 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 18
24107937 TAGTTAATAA
24107947 TTTTATAATTTTTTGATT
1 TTTTATAATTTTTTGATT
24107965 TTTTATAATTGTTTCTGATT
1 TTTTATAATT-TTT-TGATT
24107985 TTTTAATAATTTTT
1 TTTT-ATAATTTTT
24107999 ATGAGAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.32
19 3 0.10
20 12 0.39
21 6 0.19
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (18 bp):
TTTTATAATTTTTTGATT
Found at i:24113076 original size:31 final size:31
Alignment explanation
Indices: 24113041--24113115 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
24113031 ATTTATTTAA
* *
24113041 ATTTATACAATTGAATCAAAATTAAAATTTC
1 ATTTATACAATTGAACCAAAATCAAAATTTC
* **
24113072 ATTTATACATTTGAACCGCAATCAAAATTTC
1 ATTTATACAATTGAACCAAAATCAAAATTTC
* *
24113103 ATGTATATAATTG
1 ATTTATACAATTG
24113116 CACTAAATCA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.39
Consensus pattern (31 bp):
ATTTATACAATTGAACCAAAATCAAAATTTC
Found at i:24115304 original size:42 final size:42
Alignment explanation
Indices: 24115258--24115349 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
24115248 GTGTCTCAAC
* * * *
24115258 CGTGTGTGACACTCGGCCTAGTACATGGGTGTGTGACATGGT
1 CGTGTGTCACACACGGCCTAGTACATGGGCGAGTGACATGGT
*
24115300 CGTGTGTCACACACGGCCTAGTACATGGGCGAGTGACATGGC
1 CGTGTGTCACACACGGCCTAGTACATGGGCGAGTGACATGGT
*
24115342 CATGTGTC
1 CGTGTGTC
24115350 CCCTGCATCT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.18, C:0.23, G:0.34, T:0.25
Consensus pattern (42 bp):
CGTGTGTCACACACGGCCTAGTACATGGGCGAGTGACATGGT
Found at i:24115836 original size:2 final size:2
Alignment explanation
Indices: 24115824--24115862 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
24115814 CTAGTCGTCC
*
24115824 CT CT C- CT CT CT CT CT CT CT CT CT CT CT CT CT CT CC CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
24115863 TCTATTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (2 bp):
CT
Found at i:24116127 original size:19 final size:20
Alignment explanation
Indices: 24116100--24116139 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
24116090 ACTTGTAGAT
*
24116100 TTTTGTTGTT-TTTACAGCC
1 TTTTATTGTTGTTTACAGCC
*
24116119 TTTTATTGTTGTTTCCAGCC
1 TTTTATTGTTGTTTACAGCC
24116139 T
1 T
24116140 CTACAAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.10, C:0.17, G:0.15, T:0.57
Consensus pattern (20 bp):
TTTTATTGTTGTTTACAGCC
Found at i:24121233 original size:22 final size:23
Alignment explanation
Indices: 24121201--24121249 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
24121191 AAATACTTTA
24121201 AAAATATTTTTATTTTTATTT-TT
1 AAAATATTTTT-TTTTTATTTATT
*
24121224 AAAATA-TTTTTTTTTGTTTATT
1 AAAATATTTTTTTTTTATTTATT
24121246 AAAA
1 AAAA
24121250 ATCGGGCCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 8 0.33
22 10 0.42
23 6 0.25
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
AAAATATTTTTTTTTTATTTATT
Found at i:24121250 original size:23 final size:23
Alignment explanation
Indices: 24121197--24121251 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
24121187 TTTAAAATAC
24121197 TTTAAAAATATTTTTATTTTTAT
1 TTTAAAAATATTTTTATTTTTAT
*
24121220 TTTTAAAATATTTTT-TTTTGT-T
1 TTTAAAAATATTTTTATTTT-TAT
24121242 TATTAAAAAT
1 T-TTAAAAAT
24121252 CGGGCCGGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 6 0.21
23 22 0.79
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
TTTAAAAATATTTTTATTTTTAT
Found at i:24123907 original size:40 final size:40
Alignment explanation
Indices: 24123816--24123924 Score: 110
Period size: 40 Copynumber: 2.7 Consensus size: 40
24123806 ATTTTCCCCA
** * * *
24123816 AAATCGCGTCCACGTTAGCGCGATGTCAGGGGACGTGTCAGT
1 AAATCGCGTCCACGTTAGCGCG--GTTTGCGGACGTGGCAGC
* *
24123858 AAATTGCGTCCACGTTAGCGCGGTTTGCTGACGTGGCAGC
1 AAATCGCGTCCACGTTAGCGCGGTTTGCGGACGTGGCAGC
* * *
24123898 AAATCGCGTCAACGTCAGCGCGCTTTG
1 AAATCGCGTCCACGTTAGCGCGGTTTG
24123925 TGTCCACGTC
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
40 35 0.62
42 21 0.38
ACGTcount: A:0.20, C:0.26, G:0.31, T:0.23
Consensus pattern (40 bp):
AAATCGCGTCCACGTTAGCGCGGTTTGCGGACGTGGCAGC
Found at i:24124114 original size:10 final size:10
Alignment explanation
Indices: 24124099--24124123 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24124089 TTTCATAATT
24124099 AAATTTATTA
1 AAATTTATTA
24124109 AAATTTATTA
1 AAATTTATTA
24124119 AAATT
1 AAATT
24124124 GGATTACGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
AAATTTATTA
Found at i:24124390 original size:126 final size:127
Alignment explanation
Indices: 24124164--24124459 Score: 452
Period size: 126 Copynumber: 2.3 Consensus size: 127
24124154 GATAAAATCA
* * * * * *
24124164 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
24124229 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTTCTGAGCAAATAGTT-TAAAAAACTCTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTTCTAAGCAAATAGTTAAAAAAAACGCTTC
*
24124290 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
*
24124355 TGGTCCTGGAAGAAATAATTTCGAGTTGACG-TTTCTAAGCAAATAGTTAAAAAAAAAACGCTTC
66 AGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTTCTAAGCAAATAGTT--AAAAAAAACGCTTC
24124419 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCC
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCC
24124460 NNNNNNNNNN
Statistics
Matches: 155, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
126 84 0.54
127 19 0.12
129 52 0.34
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (127 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTTCTAAGCAAATAGTTAAAAAAAACGCTTC
Found at i:24125396 original size:11 final size:11
Alignment explanation
Indices: 24125382--24125492 Score: 81
Period size: 11 Copynumber: 10.4 Consensus size: 11
24125372 GAGAAATTTA
24125382 AGAGGAAATTG
1 AGAGGAAATTG
*
24125393 AGAGCAAATTG
1 AGAGGAAATTG
**
24125404 AGATTAAA-T-
1 AGAGGAAATTG
* *
24125413 A-TGG-ATTTG
1 AGAGGAAATTG
24125422 AGA-GAAATTTG
1 AGAGGAAA-TTG
*
24125433 -GAAGGAATTTG
1 AG-AGGAAATTG
*
24125444 AGAGCAAATTG
1 AGAGGAAATTG
*
24125455 AGAGGAAATTT
1 AGAGGAAATTG
24125466 AGAGGAAATTG
1 AGAGGAAATTG
24125477 AGAGGAAATTTG
1 AGAGGAAA-TTG
24125489 AGAG
1 AGAG
24125493 AGGATTAGTT
Statistics
Matches: 76, Mismatches: 15, Indels: 17
0.70 0.14 0.16
Matches are distributed among these distances:
7 1 0.01
8 1 0.01
9 3 0.04
10 3 0.04
11 57 0.75
12 11 0.14
ACGTcount: A:0.43, C:0.02, G:0.31, T:0.24
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:24125426 original size:51 final size:51
Alignment explanation
Indices: 24125358--24125457 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
24125348 AATTATTTAA
24125358 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAGATT
* * * *
24125409 AAATATGGATTTGAGAGAAATTTGGAAGGAATTTGAGAGCAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGA
24125458 GGAAATTTAG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:24125442 original size:22 final size:22
Alignment explanation
Indices: 24125417--24125493 Score: 97
Period size: 22 Copynumber: 3.5 Consensus size: 22
24125407 TTAAATATGG
24125417 ATTTGAGAGAAATTTG-GAAGG-A
1 ATTTGAGAGAAA-TTGAG-AGGAA
24125439 ATTTGAGAGCAAATTGAGAGGAA
1 ATTTGAGAG-AAATTGAGAGGAA
24125462 ATTT-AGAGGAAATTGAGAGGAA
1 ATTTGAGA-GAAATTGAGAGGAA
24125484 ATTTGAGAGA
1 ATTTGAGAGA
24125494 GGATTAGTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
22 37 0.74
23 13 0.26
ACGTcount: A:0.43, C:0.01, G:0.31, T:0.25
Consensus pattern (22 bp):
ATTTGAGAGAAATTGAGAGGAA
Found at i:24125472 original size:33 final size:35
Alignment explanation
Indices: 24125417--24125492 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 35
24125407 TTAAATATGG
* *
24125417 ATTTGAGA-GAAATTTGGAAGGAATTTGAGAGCAA
1 ATTTGAGAGGAAATTTAGAAGGAAATTGAGAGCAA
*
24125451 A-TTGAGAGGAAATTTAG-AGGAAATTGAGAGGAA
1 ATTTGAGAGGAAATTTAGAAGGAAATTGAGAGCAA
24125484 ATTTGAGAG
1 ATTTGAGAG
24125493 AGGATTAGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 21 0.57
34 16 0.43
ACGTcount: A:0.42, C:0.01, G:0.32, T:0.25
Consensus pattern (35 bp):
ATTTGAGAGGAAATTTAGAAGGAAATTGAGAGCAA
Found at i:24125710 original size:19 final size:19
Alignment explanation
Indices: 24125683--24125724 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
24125673 ACACAAACCG
*
24125683 TGCTTACGTGGACGTGGTT
1 TGCTAACGTGGACGTGGTT
24125702 TGCTAACGTGGACGTGGTT
1 TGCTAACGTGGACGTGGTT
24125721 TGCT
1 TGCT
24125725 GACACGTCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.12, C:0.17, G:0.36, T:0.36
Consensus pattern (19 bp):
TGCTAACGTGGACGTGGTT
Found at i:24126029 original size:11 final size:11
Alignment explanation
Indices: 24126013--24126039 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
24126003 GTTTCCCGGC
24126013 TTCAAAGAGAT
1 TTCAAAGAGAT
24126024 TTCAAAGAGAT
1 TTCAAAGAGAT
24126035 TTCAA
1 TTCAA
24126040 CGAGTTCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (11 bp):
TTCAAAGAGAT
Found at i:24126737 original size:138 final size:138
Alignment explanation
Indices: 24126489--24126806 Score: 611
Period size: 138 Copynumber: 2.3 Consensus size: 138
24126479 TAATTTCGGT
*
24126489 TTTTAGGGTTGATTTGATGAAAGTTAATTGCTAATATTATTAGATTTGAGATGTTCTTGATTTTG
1 TTTTAGGGTTGAATTGATGAAAGTTAATTGCTAATATTATTAGATTTGAGATGTTCTTGATTTTG
24126554 TTAATAGAATAAATTTAGTATTAATTGTGAATTTGTCAAATTTGTTAGTTCGATGGATATCATTT
66 TTAATAGAATAAATTTAGTATTAATTGTGAATTTGTCAAATTTGTTAGTTCGATGGATATCATTT
24126619 ACTTTGGG
131 ACTTTGGG
24126627 TTTTAGGGTTGAATTGATGAAAGTTAATTGCTAATATTATTAGATTTGAGATGTTCTTGATTTTG
1 TTTTAGGGTTGAATTGATGAAAGTTAATTGCTAATATTATTAGATTTGAGATGTTCTTGATTTTG
24126692 TTAATAGAATAAATTTAGTATTAATTGTGAATTTGTCAAATTTGTTAGTTCGATGGATATCATTT
66 TTAATAGAATAAATTTAGTATTAATTGTGAATTTGTCAAATTTGTTAGTTCGATGGATATCATTT
24126757 ACTTTGGG
131 ACTTTGGG
*
24126765 TTTTAGGGTTGAATTGATGAAAGTTAATTGTTAATA-TATTAG
1 TTTTAGGGTTGAATTGATGAAAGTTAATTGCTAATATTATTAG
24126807 TTATTTATAA
Statistics
Matches: 178, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
137 6 0.03
138 172 0.97
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.47
Consensus pattern (138 bp):
TTTTAGGGTTGAATTGATGAAAGTTAATTGCTAATATTATTAGATTTGAGATGTTCTTGATTTTG
TTAATAGAATAAATTTAGTATTAATTGTGAATTTGTCAAATTTGTTAGTTCGATGGATATCATTT
ACTTTGGG
Found at i:24130628 original size:14 final size:14
Alignment explanation
Indices: 24130609--24130642 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
24130599 ATTGTTTTTC
24130609 TGGCCTGTAAGTTA
1 TGGCCTGTAAGTTA
24130623 TGGCCTGTAAGTTA
1 TGGCCTGTAAGTTA
*
24130637 AGGCCT
1 TGGCCT
24130643 ATATTTTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (14 bp):
TGGCCTGTAAGTTA
Found at i:24132670 original size:21 final size:21
Alignment explanation
Indices: 24132646--24132685 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24132636 AATTTGCTGC
* *
24132646 CTTCAGCTTTAATCTGCTCCT
1 CTTCAGCTTCAATCCGCTCCT
24132667 CTTCAGCTTCAATCCGCTC
1 CTTCAGCTTCAATCCGCTC
24132686 TACTGCAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.38, G:0.10, T:0.38
Consensus pattern (21 bp):
CTTCAGCTTCAATCCGCTCCT
Found at i:24132824 original size:46 final size:46
Alignment explanation
Indices: 24132766--24132881 Score: 112
Period size: 46 Copynumber: 2.5 Consensus size: 46
24132756 TGAGACTTGA
* *
24132766 TGCCTTCT-GCTTTAATCTATTGCAACACCAATGAAACAAGATTCGC
1 TGCCTT-TAGCTTTAATCTATTCCAACACCAAGGAAACAAGATTCGC
* * ** *
24132812 TGCCTTTAGCTTTAATTTGTTCCAATGCCAGGGAAACAAGATTCGC
1 TGCCTTTAGCTTTAATCTATTCCAACACCAAGGAAACAAGATTCGC
*
24132858 --CACTTTCAGCTTTAATCTGTTCCA
1 TGC-CTTT-AGCTTTAATCTATTCCA
24132882 CTAAAACTTC
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
44 1 0.02
45 5 0.08
46 53 0.90
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.34
Consensus pattern (46 bp):
TGCCTTTAGCTTTAATCTATTCCAACACCAAGGAAACAAGATTCGC
Found at i:24133206 original size:24 final size:24
Alignment explanation
Indices: 24133174--24133254 Score: 135
Period size: 24 Copynumber: 3.4 Consensus size: 24
24133164 CGGATTGTCC
24133174 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
* *
24133198 CCACTGTAATCTTCAAGGCTCGAT
1 CCACTGTAATCTTCAAGGTTCAAT
24133222 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
*
24133246 TCACTGTAA
1 CCACTGTAA
24133255 GTTTGGGACT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGTTCAAT
Found at i:24144551 original size:51 final size:50
Alignment explanation
Indices: 24144491--24144626 Score: 179
Period size: 51 Copynumber: 2.7 Consensus size: 50
24144481 ATACCCAGTT
24144491 CACATAGTAGCCTGCACATAGTACTACACACGTGATCGAAG-C-TATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-C-AAGTCAT-TCCGGTA
* * **
24144542 CACATAGTAGCCTGCACATAGTACTACACATGCGACCTGTCATTCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACAAGTCATTCCGGTA
*
24144592 CACGTAGTAGCCTGCACA-AGTACTACACACGTGAC
1 CACATAGTAGCCTGCACATAGTACTACACACGTGAC
24144627 TTAGCAACTT
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
49 16 0.21
50 26 0.34
51 34 0.45
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACAAGTCATTCCGGTA
Found at i:24146688 original size:16 final size:16
Alignment explanation
Indices: 24146667--24146700 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24146657 TTTTAGGATG
* *
24146667 AAATGCTATGCAGTCA
1 AAATGCCATGCAATCA
24146683 AAATGCCATGCAATCA
1 AAATGCCATGCAATCA
24146699 AA
1 AA
24146701 GCAAAACACA
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:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (16 bp):
AAATGCCATGCAATCA
Found at i:24147772 original size:15 final size:15
Alignment explanation
Indices: 24147754--24147783 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24147744 ATCCCGAGAT
*
24147754 TATTTTTTTAAAATG
1 TATTTTTTAAAAATG
24147769 TATTTTTTAAAAATG
1 TATTTTTTAAAAATG
24147784 GTTCGTATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (15 bp):
TATTTTTTAAAAATG
Found at i:24156144 original size:2 final size:2
Alignment explanation
Indices: 24156137--24156166 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24156127 CAAAACAAGA
24156137 AT AT AT AT 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
24156167 GCTTGTGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24159509 original size:6 final size:6
Alignment explanation
Indices: 24159494--24159531 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
24159484 AAGAAAGAAA
24159494 AGAA-G AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGA
1 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGA
24159532 GGGCGGGAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (6 bp):
AGAAGG
Found at i:24159637 original size:46 final size:47
Alignment explanation
Indices: 24159545--24159637 Score: 120
Period size: 47 Copynumber: 2.0 Consensus size: 47
24159535 CGGGAAGGGA
* *
24159545 AGGGAAGGGAAAAAGAAATAAAAAAAAATGAGAAGGAGAATAGAGAG
1 AGGGAAGGGAAAAAGAAAGAAAAAAAAATGAAAAGGAGAATAGAGAG
*
24159592 AGGGAA-GGAGAAAGAGAAGAAAAAAAAATAGAAAAGGA-AAT-GAGAG
1 AGGGAAGGGAAAAAGA-AAGAAAAAAAAAT-GAAAAGGAGAATAGAGAG
24159638 TTTGTTGTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
46 13 0.32
47 21 0.51
48 7 0.17
ACGTcount: A:0.62, C:0.00, G:0.32, T:0.05
Consensus pattern (47 bp):
AGGGAAGGGAAAAAGAAAGAAAAAAAAATGAAAAGGAGAATAGAGAG
Found at i:24161514 original size:14 final size:14
Alignment explanation
Indices: 24161495--24161528 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
24161485 GATATTTTTT
24161495 TTCTAATGATACTA
1 TTCTAATGATACTA
24161509 TTCTAATGATACTA
1 TTCTAATGATACTA
24161523 TTCTAA
1 TTCTAA
24161529 CATGTAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (14 bp):
TTCTAATGATACTA
Found at i:24162785 original size:48 final size:48
Alignment explanation
Indices: 24162727--24162838 Score: 188
Period size: 48 Copynumber: 2.3 Consensus size: 48
24162717 ATAAATTTTG
* *
24162727 TTTGTAATATAAATTAAATACATTACAACACTAAAAATTGGAACAAAT
1 TTTGTAATATAAATTAAATACATAACAACACTAAAAATTGGAACAAAC
* *
24162775 TTTGTTATATAAATTAAATACATAACAACATTAAAAATTGGAACAAAC
1 TTTGTAATATAAATTAAATACATAACAACACTAAAAATTGGAACAAAC
24162823 TTTGTAATATAAATTA
1 TTTGTAATATAAATTA
24162839 GGTATATTGG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (48 bp):
TTTGTAATATAAATTAAATACATAACAACACTAAAAATTGGAACAAAC
Found at i:24167528 original size:50 final size:50
Alignment explanation
Indices: 24167463--24167888 Score: 238
Period size: 50 Copynumber: 8.5 Consensus size: 50
24167453 TTTGGAAAGT
** * *
24167463 AAGATTCGCCATTGTGGCTTTAATCTTTTTAACTACAATGTCGGGGAAGC
1 AAGATTCGCTGTTGTGGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
* * * * *
24167513 ATGATTCGCTGTTGTGGCTTTAATCTATTCCACTGCACCACT-T--GAGAAGT
1 AAGATTCGCTGTTGTGGCTTTAATCTTTTCAACTGCA--A-TGTCGGGGAAGC
* ** * *
24167563 AAGATTCGCTGTTGTGGCTTTAAT-TTATTCCACTGCACCG-CTTGGGAGGC
1 AAGATTCGCTGTTGTGGCTTTAATCTT-TTCAACTGCAATGTC-GGGGAAGC
* * * * ***
24167613 AAGATTCGCTGTTGTAGCTTTAATCTTTTTAACCGCAATTTCAAAGAAGC
1 AAGATTCGCTGTTGTGGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
* * * * * * *
24167663 AAGATTCACCGATGTGGCTTTAATCTGTTCCACTGC-ATCGCCTGGGG-AGT
1 AAGATTCGCTGTTGTGGCTTTAATCTTTTCAACTGCAAT-GTC-GGGGAAGC
* * * * * * *
24167713 AAGATTCACTGTTATAGCTTTAATGTTTTTAACTACAATGTCGGGGAAGT
1 AAGATTCGCTGTTGTGGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
* * * * * * ** * * **
24167763 AAGATTCACCGATGGGGCTTTAATCTGTTCCACTGCACCG-CTAGAGAAAT
1 AAGATTCGCTGTTGTGGCTTTAATCTTTTCAACTGCAATGTC-GGGGAAGC
* * * *
24167813 AAGATTCGCTGTTGTAGCTTTAATATTTTTAACTGTAATGTCGGGGAAGC
1 AAGATTCGCTGTTGTGGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
* * *
24167863 AAGATTCACCGATGTGGCTTTAATCT
1 AAGATTCGCTGTTGTGGCTTTAATCT
24167889 GTTCCACTTC
Statistics
Matches: 273, Mismatches: 87, Indels: 32
0.70 0.22 0.08
Matches are distributed among these distances:
49 8 0.03
50 255 0.93
51 7 0.03
52 2 0.01
53 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (50 bp):
AAGATTCGCTGTTGTGGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
Found at i:24167661 original size:100 final size:100
Alignment explanation
Indices: 24167557--24167924 Score: 396
Period size: 100 Copynumber: 3.7 Consensus size: 100
24167547 GCACCACTTG
* * * * * *
24167557 AGAAGTAAGATTCGCTGTTGTGGCTTTAATTTATTCCACTGCACCGCTTGGGAGGCAAGATTCGC
1 AGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCTTGGGAGGTAAGATTCGC
* * *
24167622 TGTTGTAGCTTTAATCTTTTTAACCGCAATTTCAA
66 TGTTGTAGCTTTAATATTTTTAACCACAATGTCAA
* * * *
24167657 AGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG-GAGTAAGATTCA
1 AGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCTTGGGAG-GTAAGATTCG
* * * **
24167721 CTGTTATAGCTTTAATGTTTTTAACTACAATGTCGG
65 CTGTTGTAGCTTTAATATTTTTAACCACAATGTCAA
* * * * **
24167757 GGAAGTAAGATTCACCGATGGGGCTTTAATCTGTTCCACTGCACCGCTAGAGAAATAAGATTCGC
1 AGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCTTGGGAGGTAAGATTCGC
*** **
24167822 TGTTGTAGCTTTAATATTTTTAACTGTAATGTCGG
66 TGTTGTAGCTTTAATATTTTTAACCACAATGTCAA
* * * ** **
24167857 GGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTTCACCGCCAGGGAAATAAGATTCGC
1 AGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCTTGGGAGGTAAGATTCGC
24167922 TGT
66 TGT
24167925 CTTCACCGAT
Statistics
Matches: 230, Mismatches: 36, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
99 1 0.00
100 229 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (100 bp):
AGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCTTGGGAGGTAAGATTCGC
TGTTGTAGCTTTAATATTTTTAACCACAATGTCAA
Found at i:24167734 original size:150 final size:150
Alignment explanation
Indices: 24167463--24167736 Score: 350
Period size: 150 Copynumber: 1.8 Consensus size: 150
24167453 TTTGGAAAGT
* * *** * * * *
24167463 AAGATTCGCCATTGTGGCTTTAATCTTTTTAACTACAATGTCGGGGAAGCATGATTCGCTGTTGT
1 AAGATTCGCCATTGTAGCTTTAATCTTTTTAACCACAATGTCAAAGAAGCAAGATTCACCGATGT
* * * *
24167528 GGCTTTAATCTATTCCACTGCACCACTTGAGAAGTAAGATTCGCTGTTGTGGCTTTAATTTATTC
66 GGCTTTAATCTATTCCACTGCACCACCTGAGAAGTAAGATTCACTGTTATAGCTTTAATTTATTC
24167593 CACTGCACCGCTTGGGAGGC
131 CACTGCACCGCTTGGGAGGC
** * *
24167613 AAGATTCGCTGTTGTAGCTTTAATCTTTTTAACCGCAATTTCAAAGAAGCAAGATTCACCGATGT
1 AAGATTCGCCATTGTAGCTTTAATCTTTTTAACCACAATGTCAAAGAAGCAAGATTCACCGATGT
* * * * *
24167678 GGCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTAAGATTCACTGTTATAGCTTTAAT
66 GGCTTTAATCTATTCCACTGCACCACCTGAGAAGTAAGATTCACTGTTATAGCTTTAAT
24167737 GTTTTTAACT
Statistics
Matches: 102, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
150 102 1.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (150 bp):
AAGATTCGCCATTGTAGCTTTAATCTTTTTAACCACAATGTCAAAGAAGCAAGATTCACCGATGT
GGCTTTAATCTATTCCACTGCACCACCTGAGAAGTAAGATTCACTGTTATAGCTTTAATTTATTC
CACTGCACCGCTTGGGAGGC
Found at i:24167767 original size:150 final size:150
Alignment explanation
Indices: 24167459--24167769 Score: 320
Period size: 150 Copynumber: 2.1 Consensus size: 150
24167449 AACTTTTGGA
* * *** * * *
24167459 AAGTAAGATTCGCCATTGTGGCTTTAATCTTTTTAACTACAATGTCGGGGAAGCATGATTCGCTG
1 AAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACCACAATGTCAAAGAAGCAAGATTCACCG
* * * * *
24167524 TTGTGGCTTTAATCTATTCCACTGCACCACTTGAGAAGTAAGATTCGCTGTTGTGGCTTTAATTT
66 ATGTGGCTTTAATCTATTCCACTGCACCACCTGAGAAGTAAGATTCACTGTTATAGCTTTAATTT
* * * *
24167589 ATTCCACTGCACCGCTTGGG
131 ATTCAACTACAACGCTGGGG
* * ** * *
24167609 AGGCAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACCGCAATTTCAAAGAAGCAAGATTCACCG
1 AAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACCACAATGTCAAAGAAGCAAGATTCACCG
* * * * *
24167674 ATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTAAGATTCACTGTTATAGCTTTAATGT
66 ATGTGGCTTTAATCTATTCCACTGCACCACCTGAGAAGTAAGATTCACTGTTATAGCTTTAAT-T
* *
24167739 T-TTTAACTACAATG-TCGGGG
130 TATTCAACTACAACGCT-GGGG
24167759 AAGTAAGATTC
1 AAGTAAGATTC
24167770 ACCGATGGGG
Statistics
Matches: 127, Mismatches: 32, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
149 1 0.01
150 124 0.98
151 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (150 bp):
AAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACCACAATGTCAAAGAAGCAAGATTCACCG
ATGTGGCTTTAATCTATTCCACTGCACCACCTGAGAAGTAAGATTCACTGTTATAGCTTTAATTT
ATTCAACTACAACGCTGGGG
Found at i:24167819 original size:200 final size:200
Alignment explanation
Indices: 24167558--24167924 Score: 518
Period size: 200 Copynumber: 1.8 Consensus size: 200
24167548 CACCACTTGA
* * * * * * * **
24167558 GAAGTAAGATTCGCTGTTGTGGCTTTAATTTATTCCACTGCACCGCTTGGGAGGCAAGATTCGCT
1 GAAGTAAGATTCACCGATGGGGCTTTAATCTATTCCACTGCACCGCTAGAGAAACAAGATTCGCT
* *
24167623 GTTGTAGCTTTAATCTTTTTAACCGCAATTTCAAAGAAGCAAGATTCACCGATGTGGCTTTAATC
66 GTTGTAGCTTTAATATTTTTAACCGCAATGTCAAAGAAGCAAGATTCACCGATGTGGCTTTAATC
* * * *
24167688 TGTTCCACTGCATCGCCTGGGGAGTAAGATTCACTGTTATAGCTTTAATGTTTTTAACTACAATG
131 TGTTCCACTGCACCGCCAGGGAAATAAGATTCACTGTTATAGCTTTAATGTTTTTAACTACAATG
24167753 TCGGG
196 TCGGG
* *
24167758 GAAGTAAGATTCACCGATGGGGCTTTAATCTGTTCCACTGCACCGCTAGAGAAATAAGATTCGCT
1 GAAGTAAGATTCACCGATGGGGCTTTAATCTATTCCACTGCACCGCTAGAGAAACAAGATTCGCT
* * ***
24167823 GTTGTAGCTTTAATATTTTTAACTGTAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATC
66 GTTGTAGCTTTAATATTTTTAACCGCAATGTCAAAGAAGCAAGATTCACCGATGTGGCTTTAATC
* *
24167888 TGTTCCACTTCACCGCCAGGGAAATAAGATTCGCTGT
131 TGTTCCACTGCACCGCCAGGGAAATAAGATTCACTGT
24167925 CTTCACCGAT
Statistics
Matches: 143, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
200 143 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (200 bp):
GAAGTAAGATTCACCGATGGGGCTTTAATCTATTCCACTGCACCGCTAGAGAAACAAGATTCGCT
GTTGTAGCTTTAATATTTTTAACCGCAATGTCAAAGAAGCAAGATTCACCGATGTGGCTTTAATC
TGTTCCACTGCACCGCCAGGGAAATAAGATTCACTGTTATAGCTTTAATGTTTTTAACTACAATG
TCGGG
Found at i:24169269 original size:49 final size:49
Alignment explanation
Indices: 24169167--24169269 Score: 136
Period size: 49 Copynumber: 2.1 Consensus size: 49
24169157 TTTTTTTCAT
* * * *
24169167 TTTTTGGATTCAAAGTGCCCTTTGAGGGTTTTCACTTTGATCCCTTTTT
1 TTTTTGGACTCAAAGCGCCCTTTGAGGGTTTTCACCTTGATCCCTTTTC
* *
24169216 TTTTTGGACTCAAAGCGCCCTTTGTGGGTTTTCACCTTGAT-TCTTTCTC
1 TTTTTGGACTCAAAGCGCCCTTTGAGGGTTTTCACCTTGATCCCTTT-TC
24169265 TTTTT
1 TTTTT
24169270 TTAGGTGAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 4 0.09
49 43 0.91
ACGTcount: A:0.13, C:0.20, G:0.17, T:0.50
Consensus pattern (49 bp):
TTTTTGGACTCAAAGCGCCCTTTGAGGGTTTTCACCTTGATCCCTTTTC
Found at i:24175980 original size:18 final size:18
Alignment explanation
Indices: 24175957--24175991 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
24175947 ACTACTGTCG
24175957 TAGACTTTGCTCATATCA
1 TAGACTTTGCTCATATCA
24175975 TAGACTTTGCTCATATC
1 TAGACTTTGCTCATATC
24175992 GAGCTTTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (18 bp):
TAGACTTTGCTCATATCA
Found at i:24179341 original size:42 final size:41
Alignment explanation
Indices: 24179230--24179364 Score: 182
Period size: 41 Copynumber: 3.3 Consensus size: 41
24179220 TTTTTTAAAC
* *
24179230 CTTTAGCGGCGTTTTTGTCTAAGCCCCGCTAATGCTC-GAGT
1 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGA-T
* *
24179271 CTTTAGCGGCATTTTTGTCTATGCGCCGCTAATGGTCGGAT
1 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGAT
* * *
24179312 ATTTAGCGGCGTTTTTTTTCTATGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCG-TTTTTGTCTATGCGCCGCTAATGCTCGGAT
24179354 CTTTAGCGGCG
1 CTTTAGCGGCG
24179365 NNNNNNNNNN
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
41 43 0.52
42 39 0.48
ACGTcount: A:0.13, C:0.24, G:0.27, T:0.36
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGAT
Found at i:24183913 original size:151 final size:149
Alignment explanation
Indices: 24183348--24183996 Score: 721
Period size: 151 Copynumber: 4.3 Consensus size: 149
24183338 ATGTGTGTAT
* * * *
24183348 CCCTTATTTCGGCCATTTGTTCGTATTTTTTCTCGAGTTTTATTACTTT-A-AAAAATATACTAT
1 CCCTTATTTCGGCCCTTTGCTCGTATTTTTTCCCGAATTTTATTACTTTCATAAAAATATACTAT
* *
24183411 TTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGT
66 TTTCGAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTT--ATTAA-TTAGTGT
24183476 GTTTTTTAAATAAATTTA-AAAAAA
128 G-TTTTT--ATAAATTTAGAAAAAA
* * * *
24183500 CCCTTATTTCGGCCCTTTGCTCAT-TTTTTTCTCGAATTTTGTTACTTTCAATAAAAATATATTA
1 CCCTTATTTCGGCCCTTTGCTCGTATTTTTTCCCGAATTTTATTACTTTC-ATAAAAATATACTA
* * * * * *
24183564 TTTTCGTATTTTATTGTTTTACTTTATTTTAGTACATTATGTTTGAAATATATTAATTAAT-TCT
65 TTTTCGAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATTAATTAGTGTGT
* *
24183628 TTTTTTAAATTTAGTAAAAA
130 TTTTATAAATTTAGAAAAAA
* * *
24183648 CCCTTATTTCGACCATTTGTTCGTATTTTTTCCCGAATTTTATTAC-TT--TAAAAA-ATACTAT
1 CCCTTATTTCGGCCCTTTGCTCGTATTTTTTCCCGAATTTTATTACTTTCATAAAAATATACTAT
* * *
24183709 TTTCCAATTTTATTATTTTATATTATTTTAGTACATTATGTTTAAAATTTATTAATTTAGTGTGT
66 TTTCGAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATTAA-TTAGTGTGT
24183774 TTTTAAATAAATTTA-AAAAAA
130 TTTT--ATAAATTTAGAAAAAA
* * * *
24183795 CCCTTATTTCGTCCCTTTGCTAGTATTTTTTTCCCAAATTTTATTACTTTCAATAAAAATATATT
1 CCCTTATTTCGGCCCTTTGCTCGTA-TTTTTTCCCGAATTTTATTACTTTC-ATAAAAATATACT
* * * * *
24183860 ATTTTTGTATTTTA-T-TTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTATTTCT
64 ATTTTCGAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATTAATTA-GTGT
* *
24183923 GTTTTTTTTAATTTAGTAAAAAA
128 GTTTTTATAAATTTAG-AAAAAA
* * *
24183946 CCCTAACTTCGGCCCTTAGCTCGTATTTTTTCTCC-ACATTTTATTACTTTC
1 CCCTTATTTCGGCCCTTTGCTCGTATTTTTTC-CCGA-ATTTTATTACTTTC
24183997 GGTGAATATA
Statistics
Matches: 422, Mismatches: 55, Indels: 41
0.81 0.11 0.08
Matches are distributed among these distances:
144 54 0.13
145 10 0.02
146 6 0.01
147 34 0.08
148 55 0.13
149 33 0.08
150 12 0.03
151 113 0.27
152 32 0.08
153 16 0.04
154 57 0.14
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (149 bp):
CCCTTATTTCGGCCCTTTGCTCGTATTTTTTCCCGAATTTTATTACTTTCATAAAAATATACTAT
TTTCGAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATTAATTAGTGTGTT
TTTATAAATTTAGAAAAAA
Found at i:24183972 original size:298 final size:299
Alignment explanation
Indices: 24183368--24183995 Score: 937
Period size: 295 Copynumber: 2.1 Consensus size: 299
24183358 GGCCATTTGT
* * *
24183368 TCGTATTTTTTCTCGAGTTTTATTACTTTAAAAAATATACTATTTTCTAATTTTATTATTTTACA
1 TCGTATTTTTTCCCGAATTTTATTACTTTAAAAAATATACTATTTTCCAATTTTATTATTTTACA
*
24183433 TTATTTTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTGTTTTTTAAATAAATTTAAAAA
66 TTATTTTAGTACATTATGTTTAAAATTT-AATAAATTTAGTGTGTTTTTTAAATAAATTTAAAAA
* * *
24183498 AACCCTTATTTCGGCCCTTTGCTCATTTTTTTCTCGAATTTTGTTACTTTCAATAAAAATATATT
130 AACCCTTATTTCGGCCCTTTGCTCATTTTTTTCCCAAATTTTATTACTTTCAATAAAAATATATT
*
24183563 ATTTTCGTATTTTATTGTTTTACTTTATTTTAGTACATTATGTTTGAAATATATTAATTAATTCT
195 ATTTTCGTATTTTATTGTTTTACATTATTTTAGTACATTATGTTTGAAATATATTAATTAATTCT
* * * *
24183628 TTTTTTAAATTTAGTAAAAACCCTTATTTCGACCATTTGT
260 TTTTTTAAATTTAGTAAAAACCCTAACTTCGACCATTAGC
*
24183668 TCGTATTTTTTCCCGAATTTTATTACTTT-AAAAA-ATACTATTTTCCAATTTTATTATTTTATA
1 TCGTATTTTTTCCCGAATTTTATTACTTTAAAAAATATACTATTTTCCAATTTTATTATTTTACA
*
24183731 TTATTTTAGTACATTATGTTTAAAATTT-ATTAATTTAGTGTG-TTTTTAAATAAATTTAAAAAA
66 TTATTTTAGTACATTATGTTTAAAATTTAATAAATTTAGTGTGTTTTTTAAATAAATTTAAAAAA
* *
24183794 ACCCTTATTTCGTCCCTTTGCTAGTATTTTTTTCCCAAATTTTATTACTTTCAATAAAAATATAT
131 ACCCTTATTTCGGCCCTTTGCT--CATTTTTTTCCCAAATTTTATTACTTTCAATAAAAATATAT
* * *
24183859 TATTTTTGTATTTTA-T-TTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTATTTC
194 TATTTTCGTATTTTATTGTTTTACATTATTTTAGTACATTATGTTTGAAATATATTAATTAATTC
* * *
24183922 TGTTTTTTTTAATTTAGTAAAAAACCCTAACTTCGGCCCTTAGC
259 --TTTTTTTAAATTTAGT-AAAAACCCTAACTTCGACCATTAGC
24183966 TCGTATTTTTTCTCC-ACATTTTATTACTTT
1 TCGTATTTTTTC-CCGA-ATTTTATTACTTT
24183996 CGGTGAATAT
Statistics
Matches: 299, Mismatches: 22, Indels: 15
0.89 0.07 0.04
Matches are distributed among these distances:
295 86 0.29
296 14 0.05
297 66 0.22
298 86 0.29
299 20 0.07
300 27 0.09
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (299 bp):
TCGTATTTTTTCCCGAATTTTATTACTTTAAAAAATATACTATTTTCCAATTTTATTATTTTACA
TTATTTTAGTACATTATGTTTAAAATTTAATAAATTTAGTGTGTTTTTTAAATAAATTTAAAAAA
ACCCTTATTTCGGCCCTTTGCTCATTTTTTTCCCAAATTTTATTACTTTCAATAAAAATATATTA
TTTTCGTATTTTATTGTTTTACATTATTTTAGTACATTATGTTTGAAATATATTAATTAATTCTT
TTTTTAAATTTAGTAAAAACCCTAACTTCGACCATTAGC
Found at i:24184333 original size:4 final size:4
Alignment explanation
Indices: 24184326--24184430 Score: 69
Period size: 4 Copynumber: 25.5 Consensus size: 4
24184316 TTCCTTTCAT
* *
24184326 TTTC TTTC -TCC TTTCC TTTTC TTTC TTTCC TGT- TTT- TTTC TTCTCC
1 TTTC TTTC TTTC TTT-C T-TTC TTTC TTT-C TTTC TTTC TTTC TT-T-C
24184372 TTTCC TTTTC TTTC TTTC TTCTCC TTTC -TT- TTTC TTTC TTT- TTTC
1 TTT-C -TTTC TTTC TTTC TT-T-C TTTC TTTC TTTC TTTC TTTC TTTC
24184417 TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TT
24184431 CTCCTTTCCC
Statistics
Matches: 84, Mismatches: 4, Indels: 26
0.74 0.04 0.23
Matches are distributed among these distances:
3 14 0.17
4 45 0.54
5 14 0.17
6 11 0.13
ACGTcount: A:0.00, C:0.28, G:0.01, T:0.71
Consensus pattern (4 bp):
TTTC
Found at i:24184339 original size:17 final size:17
Alignment explanation
Indices: 24184317--24184421 Score: 83
Period size: 17 Copynumber: 6.1 Consensus size: 17
24184307 TCTTTTTCCT
*
24184317 TCCTTTCATTTTCTTTC
1 TCCTTTCCTTTTCTTTC
24184334 TCCTTTCCTTTTCTTTC
1 TCCTTTCCTTTTCTTTC
*
24184351 TTTCCTGTT-TTTTTC-TTC
1 --TCCT-TTCCTTTTCTTTC
24184369 TCCTTTCCTTTTCTTTC
1 TCCTTTCCTTTTCTTTC
*
24184386 TTTCTTCTCC-TTTCTTT-
1 -TCCTT-TCCTTTTCTTTC
* *
24184403 TTCTTTCTTTTTTCTTTC
1 TCCTTTC-CTTTTCTTTC
24184421 T
1 T
24184422 TTCTTTCTTC
Statistics
Matches: 73, Mismatches: 5, Indels: 19
0.75 0.05 0.20
Matches are distributed among these distances:
15 4 0.05
16 14 0.19
17 26 0.36
18 15 0.21
19 12 0.16
20 2 0.03
ACGTcount: A:0.01, C:0.29, G:0.01, T:0.70
Consensus pattern (17 bp):
TCCTTTCCTTTTCTTTC
Found at i:24184384 original size:52 final size:53
Alignment explanation
Indices: 24184309--24184428 Score: 140
Period size: 52 Copynumber: 2.3 Consensus size: 53
24184299 TTTTTATTTC
*
24184309 TTTTTCCTTCCTTTCATTTTCTTTC-TCCTT-TCCTTT-TCTTTCTTTCCTGTT
1 TTTTTCTTTCCTTTCATTTTCTTTCTTCCTTCTCCTTTCTCTTTCTTT-CTGTT
* * * *
24184360 TTTTTCTTCTCCTTTCCTTTTCTTTCTTTCTTCTCCTTTCTTTTTCTTTCTTTT
1 TTTTTCTT-TCCTTTCATTTTCTTTCTTCCTTCTCCTTTCTCTTTCTTTCTGTT
24184414 TTCTTTCTTT-CTTTC
1 TT-TTTCTTTCCTTTC
24184429 TTCTCCTTTC
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
51 7 0.12
52 16 0.27
53 9 0.15
54 13 0.22
55 14 0.24
ACGTcount: A:0.01, C:0.28, G:0.01, T:0.70
Consensus pattern (53 bp):
TTTTTCTTTCCTTTCATTTTCTTTCTTCCTTCTCCTTTCTCTTTCTTTCTGTT
Found at i:24184394 original size:24 final size:24
Alignment explanation
Indices: 24184362--24184430 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 24
24184352 TTCCTGTTTT
24184362 TTTCTTCTCCTTTCCTTTTCTTTC
1 TTTCTTCTCCTTTCCTTTTCTTTC
*
24184386 TTTCTTCTCCTTTCTTTTTCTTTC
1 TTTCTTCTCCTTTCCTTTTCTTTC
24184410 TTT-TT-T-CTTT-C-TTTCTTTC
1 TTTCTTCTCCTTTCCTTTTCTTTC
24184429 TT
1 TT
24184431 CTCCTTTCCC
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
19 10 0.23
21 4 0.09
22 1 0.02
23 2 0.05
24 26 0.60
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTCTTCTCCTTTCCTTTTCTTTC
Found at i:24184416 original size:35 final size:35
Alignment explanation
Indices: 24184298--24184426 Score: 111
Period size: 39 Copynumber: 3.5 Consensus size: 35
24184288 ATTACCTTAT
* *
24184298 TTTTTTATTTCTTT-TTCCTTCCTTTCATTTTCTTTC
1 TTTTTTCTTTCTTTCTT-C-TCCTTTCTTTTTCTTTC
* *
24184334 TCCTTTCCTTTTCTTTCTT-TCCTGTT-TTTTTCTTCTCC
1 T-TTTTTC-TTTCTTTCTTCTCCT-TTCTTTTTCTT-T-C
24184372 TTTCCTTTTCTTTCTTTCTTCTCCTTTCTTTTTCTTTC
1 -TT--TTTTCTTTCTTTCTTCTCCTTTCTTTTTCTTTC
24184410 TTTTTTCTTTCTTTCTT
1 TTTTTTCTTTCTTTCTT
24184427 TCTTCTCCTT
Statistics
Matches: 76, Mismatches: 6, Indels: 23
0.72 0.06 0.22
Matches are distributed among these distances:
35 15 0.20
36 12 0.16
37 8 0.11
38 9 0.12
39 16 0.21
40 16 0.21
ACGTcount: A:0.02, C:0.26, G:0.01, T:0.71
Consensus pattern (35 bp):
TTTTTTCTTTCTTTCTTCTCCTTTCTTTTTCTTTC
Found at i:24184421 original size:39 final size:39
Alignment explanation
Indices: 24184317--24184438 Score: 137
Period size: 39 Copynumber: 3.2 Consensus size: 39
24184307 TCTTTTTCCT
* * *
24184317 TCCTTTCATTTTCTTTCTCCTTTC-CT-TTTCTTTCTT-
1 TCCTTTCTTTTTCTTTCTCTTTTCTTTCTTTCTTTCTTC
*
24184353 TCCTGTT-TTTTTC-TTCTCCTTTCCTTTTCTTTCTTTCTTC
1 TCCT-TTCTTTTTCTTTCT-CTTTTC-TTTCTTTCTTTCTTC
*
24184393 TCCTTTCTTTTTCTTTCTTTTTTCTTTCTTTCTTTCTTC
1 TCCTTTCTTTTTCTTTCTCTTTTCTTTCTTTCTTTCTTC
24184432 TCCTTTC
1 TCCTTTC
24184439 CCTCTCCTTC
Statistics
Matches: 72, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
35 4 0.06
36 13 0.18
37 2 0.03
38 1 0.01
39 34 0.47
40 14 0.19
41 4 0.06
ACGTcount: A:0.01, C:0.30, G:0.01, T:0.69
Consensus pattern (39 bp):
TCCTTTCTTTTTCTTTCTCTTTTCTTTCTTTCTTTCTTC
Found at i:24186116 original size:74 final size:74
Alignment explanation
Indices: 24185978--24186116 Score: 190
Period size: 74 Copynumber: 1.9 Consensus size: 74
24185968 ATTATTTTAC
* * * * **
24185978 ATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTTTAAAA
1 ATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTATTTTTTAAATAAAGTAATAAAA
24186043 AAATGTTAT
66 AAATGTTAT
* *
24186052 ATTATTTTAGTACATTATATTTTAAATGTATTAATTTAGTGTATTTTTT-ATTGAAAGTAATAAA
1 ATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTATTTTTTAAAT-AAAGTAATAAA
24186116 A
65 A
24186117 TCTGAGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
73 2 0.04
74 54 0.96
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (74 bp):
ATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTATTTTTTAAATAAAGTAATAAAA
AAATGTTAT
Found at i:24186643 original size:453 final size:455
Alignment explanation
Indices: 24186105--24187038 Score: 1393
Period size: 453 Copynumber: 2.1 Consensus size: 455
24186095 TTTTTTATTG
* *
24186105 AAAGTAATAAAATCTGAGAAAAAAATACGAATAAACGGCCGAAATAAGAGTCTTTTTAAAATTTA
1 AAAGTAATAAAATCTGAGAAAAAAATACGAACAAACGACCGAAATAAGAGTCTTTTT-AAATTTA
* *
24186170 TTTAAAAAACACACTAAATTAATACATTTCAAACATAGTGTACTAAAATAATGTAAAATAATACA
65 TTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
* *
24186235 ATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATCCAGGAAAAAAATACGAACAAAGGGCCGA
130 AATAGAAAATAGTATATTTTTTAAAAGTAATAAAATCCAGGAAAAAAATACGAACAAAGGACCGA
* *
24186300 AAAAAG-GGTTTTTTACTAAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAACAT-AGT
195 AAAAAGAGTTTTTTTA--AAATTTATTTAAAAAA-ACACTAAATTAATACATTTCAAACATGAG-
*
24186363 GTACTAAAATAATGTAAAATAATAAAATTAGAAAAA-AA-ATATTTTTATTGAAAGTAATAAAAT
256 GTACTAAAATAATGTAAAATAATAAAA-TACAAAAATAATATATTTTTATTGAAAGTAATAAAAT
* * *
24186426 -TCGGGAAAAAATACGAACAAAGGGTCGAAAT-AAGGTTTTTTTAATTTATTT-AAAAA-ACAGT
320 CT-GGGAAAAAATACGAACAAAGGGCCGAAATAAAGATTTTTTTAATTTATTTAAAAAACACACT
*
24186487 AAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAGTAGAAAATAGTAT
384 AAATTAATACATTTAAAACATAATGTACTAAAATAATGTAAAATAATAAAAGTAGAAAATAGTAT
24186552 ATTTTTT
449 ATTTTTT
* * * *
24186559 AAAGTAATAAACTCTAGGGAAAAAAATACGAACAAATGACCGAAATAAGGGTCTTTTT-AATTTA
1 AAAGTAATAAAATCT-GAGAAAAAAATACGAACAAACGACCGAAATAAGAGTCTTTTTAAATTTA
*
24186623 TTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
65 TTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
* * ** *
24186688 AATAGAAAATAGTATATTTTTTTAAAGTAATAAACTCTGGGGAAAAAATACGAACAAAGGACCGA
130 AATAGAAAATAGTATATTTTTTAAAAGTAATAAAATCCAGGAAAAAAATACGAACAAAGGACCGA
* *
24186753 AATAAGAGTTTTTTTAAAATTTATTTAAAAAAACACTAAATTAATACATTTCAAATATGAGGTAC
195 AAAAAGAGTTTTTTTAAAATTTATTTAAAAAAACACTAAATTAATACATTTCAAACATGAGGTAC
24186818 TAAAATAATGTAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAATCTGGG
260 TAAAATAATGTAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAATCTGGG
24186883 AAAAAATACGAACAAAGGGCCGAAATAAAGATTTTTTTAATTTATTTAAAAAACACACTAAATTA
325 AAAAAATACGAACAAAGGGCCGAAATAAAGATTTTTTTAATTTATTTAAAAAACACACTAAATTA
* * *
24186948 ATACGTTTAAAATATAATGTACTAAAATAATGTAAAAT--T---A--A-AAAATATTATATTTTT
390 ATACATTTAAAACATAATGTACTAAAATAATGTAAAATAATAAAAGTAGAAAATAGTATATTTTT
24187005 T
455 T
24187006 AAAAGTAATAAAAT-TCGAG-AAAAAATACGAACA
1 -AAAGTAATAAAATCT-GAGAAAAAAATACGAACA
24187039 GAGGGCCAAA
Statistics
Matches: 439, Mismatches: 31, Indels: 28
0.88 0.06 0.06
Matches are distributed among these distances:
446 14 0.03
447 19 0.04
448 13 0.03
450 8 0.02
451 53 0.12
452 71 0.16
453 152 0.35
454 27 0.06
455 82 0.19
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (455 bp):
AAAGTAATAAAATCTGAGAAAAAAATACGAACAAACGACCGAAATAAGAGTCTTTTTAAATTTAT
TTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
ATAGAAAATAGTATATTTTTTAAAAGTAATAAAATCCAGGAAAAAAATACGAACAAAGGACCGAA
AAAAGAGTTTTTTTAAAATTTATTTAAAAAAACACTAAATTAATACATTTCAAACATGAGGTACT
AAAATAATGTAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAATCTGGGA
AAAAATACGAACAAAGGGCCGAAATAAAGATTTTTTTAATTTATTTAAAAAACACACTAAATTAA
TACATTTAAAACATAATGTACTAAAATAATGTAAAATAATAAAAGTAGAAAATAGTATATTTTTT
Found at i:24186685 original size:151 final size:153
Alignment explanation
Indices: 24186092--24187051 Score: 1238
Period size: 152 Copynumber: 6.4 Consensus size: 153
24186082 TTAATTTAGT
* * * *
24186092 GTAT-TTTTTATTGAAAGTAATAAAATCTGAGAAAAAAATACGAATAAACGGCCGAAATAAGAGT
1 GTATATTTTT-TTGAAAGTAATAAAATCTGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGT
* *
24186156 CTTTTTAAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAGTGTACTAAAATAA
65 -TTTTTTAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAA
*
24186221 TGTAAAATAATACAATTAGAAAATA
129 TGTAAAATAATAAAATTAGAAAATA
* ** *
24186246 GTATA-TTTTTTAAAAGTAATAAAATCCAGGAAAAAAATACGAACAAAGGGCCGAAAAAAGGGTT
1 GTATATTTTTTTGAAAGTAATAAAATCTGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTT
* *
24186310 TTTTACTAAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAACATAGTGTACTAAAATAA
66 TTTT--TAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAA
24186375 TGTAAAATAATAAAATTAGAAAA-A
129 TGTAAAATAATAAAATTAGAAAATA
** *
24186399 AAATATTTTTATTGAAAGTAATAAAAT-TCGGG-AAAAAATACGAACAAAGGGTCGAAATAA-GG
1 GTATATTTTT-TTGAAAGTAATAAAATCT-GGGAAAAAAATACGAACAAAGGGCCGAAATAAGGG
*
24186461 TTTTTTT-AATTTATTT-AAAAA-ACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAA
64 TTTTTTTAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAA
*
24186523 TGTAAAATAATAAAAGTAGAAAATA
129 TGTAAAATAATAAAATTAGAAAATA
* * *
24186548 GTATA-TTTTTT-AAAGTAATAAACTCTAGGGAAAAAAATACGAACAAATGACCGAAATAAGGGT
1 GTATATTTTTTTGAAAGTAATAAAATCT-GGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGT
* *
24186611 CTTTTT-AATTTATTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAAT
65 TTTTTTAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAAT
*
24186675 GTAAAATAATAAAAATAGAAAATA
130 GTAAAATAATAAAATTAGAAAATA
* * * *
24186699 GTATATTTTTTT-AAAGTAATAAACTCTGGGGAAAAAATACGAACAAAGGACCGAAATAAGAGTT
1 GTATATTTTTTTGAAAGTAATAAAATCTGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTT
* * *
24186763 TTTTTAAAATTTATTTAAAAAA-ACACTAAATTAATACATTTCAAATATGAGGTACTAAAATAAT
66 TTTTT-AAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAAT
*
24186827 GTAAAATAATAAAA-TACAAAAATA
130 GTAAAATAATAAAATTA-GAAAATA
* * *
24186851 ATATATTTTTATTGAAAGTAATAAAATCTGGG-AAAAAATACGAACAAAGGGCCGAAATAAAGAT
1 GTATATTTTT-TTGAAAGTAATAAAATCTGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGT
* * *
24186915 TTTTTT-AATTTATTTAAAAAACACACTAAATTAATACGTTTAAAATATAATGTACTAAAATAAT
65 TTTTTTAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAAT
24186979 GTAAAAT--T---A--A-AAAATA
130 GTAAAATAATAAAATTAGAAAATA
* * * * *
24186995 TTATA-TTTTTTAAAAGTAATAAAAT-T-CGAGAAAAAATACGAACAGAGGGCCAAAATA
1 GTATATTTTTTTGAAAGTAATAAAATCTGGGA-AAAAAATACGAACAAAGGGCCGAAATA
24187052 CGAACAATTA
Statistics
Matches: 732, Mismatches: 53, Indels: 54
0.87 0.06 0.06
Matches are distributed among these distances:
140 1 0.00
141 1 0.00
142 40 0.05
143 4 0.01
144 10 0.01
146 13 0.02
147 7 0.01
148 91 0.12
149 26 0.04
150 15 0.02
151 126 0.17
152 138 0.19
153 109 0.15
154 134 0.18
155 17 0.02
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (153 bp):
GTATATTTTTTTGAAAGTAATAAAATCTGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTT
TTTTTAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATG
TAAAATAATAAAATTAGAAAATA
Found at i:24187306 original size:5 final size:6
Alignment explanation
Indices: 24187288--24187312 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
24187278 CTGTTTTTAC
24187288 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
24187313 GGGTTAAATT
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:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:24188478 original size:2 final size:2
Alignment explanation
Indices: 24188473--24188513 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
24188463 AAGATTTAAA
24188473 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24188514 ATTACCATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24188621 original size:7 final size:7
Alignment explanation
Indices: 24188606--24188640 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
24188596 CTTACATTAA
*
24188606 ATATGTT
1 ATATATT
24188613 ATATATT
1 ATATATT
24188620 ATATATT
1 ATATATT
24188627 ATATATT
1 ATATATT
24188634 ATATATT
1 ATATATT
24188641 TTTAATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (7 bp):
ATATATT
Found at i:24193051 original size:22 final size:23
Alignment explanation
Indices: 24192998--24193053 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
24192988 CCCGTTTTAA
* * *
24192998 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
24193021 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
24193043 ATTAAAATTAA
1 ATTAAAATTAA
24193054 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:24193066 original size:16 final size:16
Alignment explanation
Indices: 24193029--24193068 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
24193019 TTAATAAAAT
* *
24193029 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
24193045 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
24193061 TAAAATTA
1 TAAAATTA
24193069 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:24193153 original size:9 final size:9
Alignment explanation
Indices: 24193141--24193168 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
24193131 TTTATCAAAT
24193141 TATTAATTG
1 TATTAATTG
24193150 TATTAATTG
1 TATTAATTG
24193159 TATTAATTG
1 TATTAATTG
24193168 T
1 T
24193169 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:24193179 original size:68 final size:66
Alignment explanation
Indices: 24193057--24193199 Score: 241
Period size: 68 Copynumber: 2.1 Consensus size: 66
24193047 AAATTAATTG
*
24193057 TTAGTAAAATTATCAAATTATTAATAGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
1 TTAGTAAAATTATCAAATTATTAATAGTTAATTGTATTAATTGTTGTAACAAAATCTAACATTTG
24193122 A
66 A
* *
24193123 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAATAG--TTAATTGTATTAATTGTTGTAACAAAATCTAACATT
24193188 TGA
64 TGA
24193191 TTAGTAAAA
1 TTAGTAAAA
24193200 CAAACTTGAT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
66 25 0.35
68 46 0.65
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (66 bp):
TTAGTAAAATTATCAAATTATTAATAGTTAATTGTATTAATTGTTGTAACAAAATCTAACATTTG
A
Found at i:24193305 original size:22 final size:24
Alignment explanation
Indices: 24193265--24193308 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
24193255 AAATAAACTT
24193265 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
24193289 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
24193309 AATATTTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:24202772 original size:15 final size:15
Alignment explanation
Indices: 24202752--24202797 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
24202742 AAATTTAAAA
24202752 TTTAATTTTTATATT
1 TTTAATTTTTATATT
* * *
24202767 TTTAATTTTAAGAGT
1 TTTAATTTTTATATT
24202782 TTT-ATTTTT-TATT
1 TTTAATTTTTATATT
24202795 TTT
1 TTT
24202798 CAGTTGTTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 5 0.20
14 5 0.20
15 15 0.60
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (15 bp):
TTTAATTTTTATATT
Found at i:24205463 original size:18 final size:18
Alignment explanation
Indices: 24205440--24205478 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
24205430 GTAATAAAAT
24205440 ATGCAT-AATAAAATTAAA
1 ATGCATAAAT-AAATTAAA
24205458 ATGCATAAATAAATTAAA
1 ATGCATAAATAAATTAAA
24205476 ATG
1 ATG
24205479 GAAGTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (18 bp):
ATGCATAAATAAATTAAA
Found at i:24205764 original size:17 final size:18
Alignment explanation
Indices: 24205742--24205781 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
24205732 GTGATATTTT
24205742 AATTAAATATTT-TTTAA
1 AATTAAATATTTATTTAA
*
24205759 AATTAAATTTTTATTTAA
1 AATTAAATATTTATTTAA
*
24205777 TATTA
1 AATTA
24205782 TATTTGCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AATTAAATATTTATTTAA
Found at i:24205781 original size:18 final size:17
Alignment explanation
Indices: 24205742--24205786 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
24205732 GTGATATTTT
*
24205742 AATTAAATATTTTTTAA
1 AATTAAATTTTTTTTAA
24205759 AATTAAATTTTTATTTAA
1 AATTAAATTTTT-TTTAA
* *
24205777 TATTATATTT
1 AATTAAATTT
24205787 GCAACTGTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
AATTAAATTTTTTTTAA
Found at i:24208484 original size:116 final size:116
Alignment explanation
Indices: 24208256--24208570 Score: 324
Period size: 116 Copynumber: 2.7 Consensus size: 116
24208246 CCAAACAAGA
* **** * *
24208256 GAAAGGTT-CTTTACTTTCCTCAAAATGTAATTTTTTTTACATGTCTAAAGTTTCCTTCATGTGG
1 GAAAGGTTAC-TTACTTTCCTCAAAATGCAATTTTTTAGGTATGTCCAAAGTTTCCTTCATGTGA
* *
24208320 TGTCAATTGAGTT-AGTGCTCAATCCTCTATGTTTTTTTGGTATGTCTAG-A-
65 TGTCAATTGAGTTAAG-GCTCAATCCTCTATGATTTATTGGTATGTCTAGAAT
*
24208370 GCAAATGGTTACTTACTTTCCTCAAAATGCAATATTTTTAGGTATGTCCAAAGTTTCCTTCATAT
1 G-AAA-GGTTACTTACTTTCCTCAAAATGCAAT-TTTTTAGGTATGTCCAAAGTTTCCTTCATGT
* * *
24208435 GATGCCAATTGAGTTAAGGCT-TATTCTGCTAT-ATTTATTGGTATGTCTAGAAT
63 GATGTCAATTGAGTTAAGGCTCAATCCT-CTATGATTTATTGGTATGTCTAGAAT
* * * * * *
24208488 GAAAGGTTATTTGCTTTCCTCTAAATGC---TTGTTGGGTATGTCCAAAGTTTACTTCATGTGAT
1 GAAAGGTTACTTACTTTCCTCAAAATGCAATTTTTTAGGTATGTCCAAAGTTTCCTTCATGTGAT
* *
24208550 GTAAATTAAGTTAAGGCTCAA
66 GTCAATTGAGTTAAGGCTCAA
24208571 CCTATCAAAT
Statistics
Matches: 168, Mismatches: 24, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
112 45 0.27
113 1 0.01
114 1 0.01
115 3 0.02
116 65 0.39
117 50 0.30
118 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (116 bp):
GAAAGGTTACTTACTTTCCTCAAAATGCAATTTTTTAGGTATGTCCAAAGTTTCCTTCATGTGAT
GTCAATTGAGTTAAGGCTCAATCCTCTATGATTTATTGGTATGTCTAGAAT
Found at i:24220930 original size:97 final size:98
Alignment explanation
Indices: 24220819--24221013 Score: 383
Period size: 97 Copynumber: 2.0 Consensus size: 98
24220809 TAATTTTTAA
24220819 AATTATTCTAATAAAGAGATATTTATCAAGAAAATAATAAAAAGAAAATATTTAATACATTGCGA
1 AATTATTCTAATAAAGAGATATTTATCAAGAAAATAATAAAAAGAAAATATTTAATACATTGCGA
24220884 GTTTTTAAGTTACATAAATAAAATTAGAGAGTT
66 GTTTTTAAGTTACATAAATAAAATTAGAGAGTT
24220917 AATTATTCT-ATAAAGAGATATTTATCAAGAAAATAATAAAAAGAAAATATTTAATACATTGCGA
1 AATTATTCTAATAAAGAGATATTTATCAAGAAAATAATAAAAAGAAAATATTTAATACATTGCGA
24220981 GTTTTTAAGTTACATAAATAAAATTAGAGAGTT
66 GTTTTTAAGTTACATAAATAAAATTAGAGAGTT
24221014 GATAAATATT
Statistics
Matches: 97, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
97 88 0.91
98 9 0.09
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (98 bp):
AATTATTCTAATAAAGAGATATTTATCAAGAAAATAATAAAAAGAAAATATTTAATACATTGCGA
GTTTTTAAGTTACATAAATAAAATTAGAGAGTT
Found at i:24222135 original size:6 final size:6
Alignment explanation
Indices: 24222124--24222154 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
24222114 ATTACTTTTG
*
24222124 ATTTAA ATTTAA ATTTAA ATTTAA TTTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A
24222155 ATTACAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTTAA
Found at i:24224442 original size:2 final size:2
Alignment explanation
Indices: 24224430--24224460 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
24224420 GTCTCCTTCC
*
24224430 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24224461 GTTGCATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:24227088 original size:17 final size:18
Alignment explanation
Indices: 24227043--24227088 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
24227033 TTGATTATAT
*
24227043 AAATATAA-AAAATTAAA
1 AAATATAATAATATTAAA
24227060 AAATATAATAATATTAAA
1 AAATATAATAATATTAAA
24227078 AAAT-TAATAAT
1 AAATATAATAAT
24227089 TATATTGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATATAATAATATTAAA
Found at i:24227092 original size:26 final size:26
Alignment explanation
Indices: 24227036--24227092 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
24227026 CTTTGTCTTG
24227036 ATTAT-ATAAATATAAAAAATTAAAA
1 ATTATAATAAATATAAAAAATTAAAA
* *
24227061 AATATAAT-AATATTAAAAAATTAATA
1 ATTATAATAAATA-TAAAAAATTAAAA
24227087 ATTATA
1 ATTATA
24227093 TTGATTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
ATTATAATAAATATAAAAAATTAAAA
Found at i:24232337 original size:30 final size:31
Alignment explanation
Indices: 24232285--24232342 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
24232275 AGTTACAAAG
*
24232285 TGGTCACTCAATTATTCAATTTTTTCTTGTT
1 TGGTCACTCAACTATTCAATTTTTTCTTGTT
*
24232316 TGGTCAC-CAACTATTCGATTTTTTCTT
1 TGGTCACTCAACTATTCAATTTTTTCTT
24232343 TTGTAGTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.19, C:0.19, G:0.10, T:0.52
Consensus pattern (31 bp):
TGGTCACTCAACTATTCAATTTTTTCTTGTT
Found at i:24233720 original size:25 final size:25
Alignment explanation
Indices: 24233665--24233720 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
24233655 ATTTAGAATG
*
24233665 ATCTTTACAAATTTAAATCAAAATA
1 ATCTTTACAAATTTAAACCAAAATA
24233690 AT-TTTA-AAATTGTATAACCAAAAT-
1 ATCTTTACAAATT-TA-AACCAAAATA
24233714 ATCTTTA
1 ATCTTTA
24233721 GTTTTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 5 0.19
24 8 0.30
25 14 0.52
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (25 bp):
ATCTTTACAAATTTAAACCAAAATA
Found at i:24234329 original size:28 final size:28
Alignment explanation
Indices: 24234274--24234351 Score: 95
Period size: 28 Copynumber: 2.7 Consensus size: 28
24234264 TATAAAAATG
24234274 TAATATAATAAAG-CTTTAATTTAACCAATT
1 TAATAT-ATAAAGACTTT--TTTAACCAATT
*
24234304 TAATATATAAAGACTTTTTTACCCAATT
1 TAATATATAAAGACTTTTTTAACCAATT
* *
24234332 TAGTATATAATGACTTTTTT
1 TAATATATAAAGACTTTTTT
24234352 TTAGTTGATT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 28 0.64
29 6 0.14
30 10 0.23
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (28 bp):
TAATATATAAAGACTTTTTTAACCAATT
Found at i:24244018 original size:20 final size:20
Alignment explanation
Indices: 24243993--24244036 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
24243983 AGGCTTAGGA
*
24243993 TTTAGGATTTGAGTTCAAGG
1 TTTAGGATTCGAGTTCAAGG
*
24244013 TTTAGGGTTCGAGTTCAAGG
1 TTTAGGATTCGAGTTCAAGG
24244033 TTTA
1 TTTA
24244037 TGGGTAAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.07, G:0.30, T:0.41
Consensus pattern (20 bp):
TTTAGGATTCGAGTTCAAGG
Found at i:24247162 original size:18 final size:18
Alignment explanation
Indices: 24247139--24247175 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
24247129 GCTGGGCAGT
* *
24247139 AGAAGAAGTAGAAGAGAA
1 AGAAGAAGAAAAAGAGAA
24247157 AGAAGAAGAAAAAGAGAA
1 AGAAGAAGAAAAAGAGAA
24247175 A
1 A
24247176 AAAAAATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.03
Consensus pattern (18 bp):
AGAAGAAGAAAAAGAGAA
Found at i:24251471 original size:10 final size:10
Alignment explanation
Indices: 24251456--24251480 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24251446 CAATAGAACC
24251456 AAAAAAAACA
1 AAAAAAAACA
24251466 AAAAAAAACA
1 AAAAAAAACA
24251476 AAAAA
1 AAAAA
24251481 CATATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:24258067 original size:88 final size:90
Alignment explanation
Indices: 24257913--24258087 Score: 255
Period size: 88 Copynumber: 2.0 Consensus size: 90
24257903 TATATCACTG
*
24257913 GTAAAAAGTTTTAAGGCATATAAAAGAGATGGAAAAATGAATGCAAAAGTAGATAGATCATAGAT
1 GTAAAAAGTTTAAAGGCA-ATAAAAGAGATGGAAAAATGAATGCAAAAGTAGATAGATCATAGAT
24257978 GAGTCTCTGGA-TTGATCTAGAAGCA
65 GAGTCTCTGGATTTGATCTAGAAGCA
* * * * ** *
24258003 GTAAAATGTTTAAAGGC-ATAAACGAGATGGAGATATGAATGTGAAAGTAGATAGATCATGGATG
1 GTAAAAAGTTTAAAGGCAATAAAAGAGATGGAAAAATGAATGCAAAAGTAGATAGATCATAGATG
24258067 AGTCTCTGGATTTGATCTAGA
66 AGTCTCTGGATTTGATCTAGA
24258088 TTCAAGAAAT
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
88 51 0.67
89 10 0.13
90 15 0.20
ACGTcount: A:0.41, C:0.07, G:0.25, T:0.26
Consensus pattern (90 bp):
GTAAAAAGTTTAAAGGCAATAAAAGAGATGGAAAAATGAATGCAAAAGTAGATAGATCATAGATG
AGTCTCTGGATTTGATCTAGAAGCA
Found at i:24262001 original size:21 final size:21
Alignment explanation
Indices: 24261976--24262016 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24261966 TTGAATTTTA
24261976 AAATTT-AAAAAATCAAAAATT
1 AAATTTCAAAAAAT-AAAAATT
*
24261997 AAATTTCTAAAAATAAAAAT
1 AAATTTCAAAAAATAAAAAT
24262017 ACATGATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (21 bp):
AAATTTCAAAAAATAAAAATT
Found at i:24262857 original size:37 final size:37
Alignment explanation
Indices: 24262816--24262889 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
24262806 TTCTTGAAAC
24262816 TTGTTTTTCAAGTTTAAAATATGTATTAAATGAATGG
1 TTGTTTTTCAAGTTTAAAATATGTATTAAATGAATGG
24262853 TTGTTTTTCAAGTTTAAAATATGTATTAAATGAATGG
1 TTGTTTTTCAAGTTTAAAATATGTATTAAATGAATGG
24262890 CTCAAATTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.46
Consensus pattern (37 bp):
TTGTTTTTCAAGTTTAAAATATGTATTAAATGAATGG
Found at i:24265837 original size:18 final size:18
Alignment explanation
Indices: 24265816--24265852 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
24265806 TGTTATATAC
24265816 GAGTACCAACTTATTTCG
1 GAGTACCAACTTATTTCG
*
24265834 GAGTACTAACTTATTTCG
1 GAGTACCAACTTATTTCG
24265852 G
1 G
24265853 CGTTCTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (18 bp):
GAGTACCAACTTATTTCG
Found at i:24273687 original size:2 final size:2
Alignment explanation
Indices: 24273680--24273704 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24273670 TGCATGAATT
24273680 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
24273705 TTGGCTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24284680 original size:18 final size:17
Alignment explanation
Indices: 24284652--24284695 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
24284642 ATAATTTATT
24284652 TTTAAAAATACAATTAA
1 TTTAAAAATACAATTAA
* *
24284669 TTTAATAAATACTATTAT
1 TTTAA-AAATACAATTAA
24284687 TTTGAAAAA
1 TTT-AAAAA
24284696 AATTATCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 5 0.22
18 16 0.70
19 2 0.09
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (17 bp):
TTTAAAAATACAATTAA
Found at i:24286772 original size:37 final size:38
Alignment explanation
Indices: 24286695--24286772 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 38
24286685 ACCTTACAAT
* *
24286695 CTCCCTTAAGATTTCTACCCAAAATCTTAAGATTGCAA
1 CTCCCTTAAGATTTCTACCCAAAACCTTAAGATTGAAA
*
24286733 CTCCCTTAAGGTTTCTACCC-AAACCTTAAGACTT-AAA
1 CTCCCTTAAGATTTCTACCCAAAACCTTAAGA-TTGAAA
24286770 CTC
1 CTC
24286773 TCTCAAAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 15 0.42
38 21 0.58
ACGTcount: A:0.32, C:0.29, G:0.08, T:0.31
Consensus pattern (38 bp):
CTCCCTTAAGATTTCTACCCAAAACCTTAAGATTGAAA
Found at i:24287178 original size:30 final size:30
Alignment explanation
Indices: 24287117--24287178 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
24287107 TGGTACTATT
* *
24287117 AACATTTAATGTCTGATTCAGTGATCGTTA
1 AACATTTAATGTCTGATTCAGTGACCATTA
24287147 AACATTTAATGTCTGATTCAGTGACCATTA
1 AACATTTAATGTCTGATTCAGTGACCATTA
24287177 AA
1 AA
24287179 GTTAGTTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (30 bp):
AACATTTAATGTCTGATTCAGTGACCATTA
Found at i:24299035 original size:102 final size:102
Alignment explanation
Indices: 24298859--24299370 Score: 1006
Period size: 102 Copynumber: 5.0 Consensus size: 102
24298849 AAACAATTTA
24298859 CAAACTTAATTGAGTCCAATTTGGCAAAGTTTAAATGTTTCTTGTCCTTGTTAACTCGAGATTTC
1 CAAACTTAATTGAGTCCAATTTGGCAAAGTTTAAATGTTTCTTGTCCTTGTTAACTCGAGATTTC
24298924 TAGCCCTAGCATGGTTAGGTATTAGAATTGCTTTTTC
66 TAGCCCTAGCATGGTTAGGTATTAGAATTGCTTTTTC
24298961 CAAACTTAATTGAGTCCAATTTGGCAAAGTTTAAATGTTTCTTGTCCTTGTTAACTCGAGATTTC
1 CAAACTTAATTGAGTCCAATTTGGCAAAGTTTAAATGTTTCTTGTCCTTGTTAACTCGAGATTTC
24299026 TAGCCCTAGCATGGTTAGGTATTAGAATTGCTTTTTC
66 TAGCCCTAGCATGGTTAGGTATTAGAATTGCTTTTTC
24299063 CAAACTTAATTGAGTCCAATTTGGCAAAGTTTAAATGTTTCTTGTCCTTGTTAACTCGAGATTTC
1 CAAACTTAATTGAGTCCAATTTGGCAAAGTTTAAATGTTTCTTGTCCTTGTTAACTCGAGATTTC
24299128 TAGCCCTAGCATGGTTAGGTATTAGAATTGCTTTTTC
66 TAGCCCTAGCATGGTTAGGTATTAGAATTGCTTTTTC
24299165 CAAACTTAATTGAGTCCAATTTGGCAAAGTTTAAATGTTTCTTGTCCTTGTTAACTCGAGATTTC
1 CAAACTTAATTGAGTCCAATTTGGCAAAGTTTAAATGTTTCTTGTCCTTGTTAACTCGAGATTTC
24299230 TAGCCCTAGCATGGTTAGGTATTAGAATTGCTTTTTC
66 TAGCCCTAGCATGGTTAGGTATTAGAATTGCTTTTTC
24299267 CAAACTTAATTGAGTCCAATTTGGCAAAGTTTAAATGTTTCTTGTCCTTGTTAACTCGAGATTTC
1 CAAACTTAATTGAGTCCAATTTGGCAAAGTTTAAATGTTTCTTGTCCTTGTTAACTCGAGATTTC
**
24299332 TAGCCCTAGCATGGTTAGGTATTAGAGGTGCTTTTTC
66 TAGCCCTAGCATGGTTAGGTATTAGAATTGCTTTTTC
24299369 CA
1 CA
24299371 TATGTGTGCG
Statistics
Matches: 408, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 408 1.00
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (102 bp):
CAAACTTAATTGAGTCCAATTTGGCAAAGTTTAAATGTTTCTTGTCCTTGTTAACTCGAGATTTC
TAGCCCTAGCATGGTTAGGTATTAGAATTGCTTTTTC
Found at i:24309985 original size:12 final size:12
Alignment explanation
Indices: 24309968--24309992 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24309958 TTACTAACAT
24309968 AAAAAAAAAAAG
1 AAAAAAAAAAAG
24309980 AAAAAAAAAAAG
1 AAAAAAAAAAAG
24309992 A
1 A
24309993 TCACTTCCTT
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:24310224 original size:118 final size:115
Alignment explanation
Indices: 24310037--24310378 Score: 556
Period size: 118 Copynumber: 3.0 Consensus size: 115
24310027 TTTTTATATT
24310037 TTTCTCTCAGCACTCTACAATTTTTA-TTTTTTTTACTTATTATTAATAATTATTATTTTAAAAA
1 TTTCTCTCAGCACTCTACAATTTTTATTTTTTTTTACTTATTATTAATAATTATTA-TTTAAAAA
*
24310101 ATTAAAATT-TTCTTTTTGGTGTTTCATAAGACTACTTTATAATAATAAAAAA
65 ATT-AAATTGTTCTTTTTGGTGTTTCATAAGACTACTTTCTAATAA-AAAAAA
*
24310153 TTTCTCTCAGCACTCTGCAATTTTTATTTTTATTTTACTTATTATTAATAATTATTATTTAAAAA
1 TTTCTCTCAGCACTCTACAATTTTTATTTTT-TTTTACTTATTATTAATAATTATTATTTAAAAA
24310218 ATTTAAATTGTTCTTTTTGGTGTTTCATAAGACTACTTTCTAAT-AAAAAAA
65 A-TTAAATTGTTCTTTTTGGTGTTTCATAAGACTACTTTCTAATAAAAAAAA
24310269 TATTCTCTCAGCACTCTACAA-----ATTTTTTTTTACTTATTATTAATAATTATTATTTAAAAA
1 T-TTCTCTCAGCACTCTACAATTTTTATTTTTTTTTACTTATTATTAATAATTATTATTTAAAAA
24310329 ATTAAATTGTTCTTTTTGGTGTTTCATAAGACTACTTTCTAATAAAAAAA
65 ATTAAATTGTTCTTTTTGGTGTTTCATAAGACTACTTTCTAATAAAAAAA
24310379 TAACAATTTA
Statistics
Matches: 217, Mismatches: 3, Indels: 17
0.92 0.01 0.07
Matches are distributed among these distances:
110 42 0.19
111 40 0.18
112 6 0.03
116 32 0.15
117 37 0.17
118 60 0.28
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (115 bp):
TTTCTCTCAGCACTCTACAATTTTTATTTTTTTTTACTTATTATTAATAATTATTATTTAAAAAA
TTAAATTGTTCTTTTTGGTGTTTCATAAGACTACTTTCTAATAAAAAAAA
Found at i:24310488 original size:178 final size:174
Alignment explanation
Indices: 24310271--24310588 Score: 591
Period size: 178 Copynumber: 1.8 Consensus size: 174
24310261 TAAAAAAATA
24310271 TTCTCTCAGCACTCTACAAATTTTTTTTTACTTATTATTAATAATTATTATTTAAAAAATTAAAT
1 TTCTCTCAGCACTCTACAAATTTTTTTTTACTTATTATTAATAATTATTATTTAAAAAATTAAAT
24310336 TGTTCTTTTTGGTGTTTCATAAGACTACTTTCTAATAAAAAAATAACAATTTATCTTAATTTATT
66 TGTTCTTTTTGGTGTTTCATAAGACTACTTTCTAATAAAAAAATAACAATTTATCTTAATTTATT
24310401 TTATTAGAAGTCACAAATTCACAACTCTACAAATTTTTATATTT
131 TTATTAGAAGTCACAAATTCACAACTCTACAAATTTTTATATTT
*
24310445 TTCTCTCAGCACTCTACAATTTTTATTTTTTTTACTTATTATTAATAATTATTATTTAAAAAATT
1 TTCTCTCAGCACTCTACAA---AT-TTTTTTTTACTTATTATTAATAATTATTATTTAAAAAATT
24310510 AAATTGTTCTTTTTGGTGTTTCATAAGACTACTTTCTAATAAAAAAATAACAATTTATCTTAATT
62 AAATTGTTCTTTTTGGTGTTTCATAAGACTACTTTCTAATAAAAAAATAACAATTTATCTTAATT
24310575 TATTTTATTAGAAG
127 TATTTTATTAGAAG
24310589 GACATTCTCA
Statistics
Matches: 139, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
174 19 0.14
177 1 0.01
178 119 0.86
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.48
Consensus pattern (174 bp):
TTCTCTCAGCACTCTACAAATTTTTTTTTACTTATTATTAATAATTATTATTTAAAAAATTAAAT
TGTTCTTTTTGGTGTTTCATAAGACTACTTTCTAATAAAAAAATAACAATTTATCTTAATTTATT
TTATTAGAAGTCACAAATTCACAACTCTACAAATTTTTATATTT
Found at i:24325097 original size:12 final size:12
Alignment explanation
Indices: 24325080--24325104 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24325070 AAAAATTAAT
24325080 TTTAATTATTCA
1 TTTAATTATTCA
24325092 TTTAATTATTCA
1 TTTAATTATTCA
24325104 T
1 T
24325105 CTTTTTTAAT
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:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTAATTATTCA
Found at i:24330584 original size:21 final size:22
Alignment explanation
Indices: 24330525--24330588 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
24330515 CAGAAGCAGT
* *
24330525 ATACAACACATAAAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
** *
24330547 A-ACGACACACGTGGTGCCT-A
1 ATACGACACATATAGTGCCTGA
24330567 ATACGACACATATAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
24330589 TCGGCAAAGC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 2 0.06
21 28 0.88
22 2 0.06
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (22 bp):
ATACGACACATATAGTGCCTGA
Found at i:24336442 original size:12 final size:12
Alignment explanation
Indices: 24336415--24336444 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
24336405 CATAAAATAT
*
24336415 TTTAACAATAAA
1 TTTAAAAATAAA
24336427 TTTAAAAATAAA
1 TTTAAAAATAAA
24336439 TTTAAA
1 TTTAAA
24336445 TATTTTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (12 bp):
TTTAAAAATAAA
Found at i:24338767 original size:137 final size:137
Alignment explanation
Indices: 24338605--24338879 Score: 514
Period size: 137 Copynumber: 2.0 Consensus size: 137
24338595 TGGCATTCTC
24338605 TACTCTCAATTAATTGTTGCTTGGTATGACTTTTAGACCTTTAGCAAAGTGCTTATATGAATATC
1 TACTCTCAATTAATTGTTGCTTGGTATGACTTTTAGACCTTTAGCAAAGTGCTTATATGAATATC
* * **
24338670 TTTGTGAGCATCTATTTTATCTTTCTACATTGTGGAAGTATTAGAAGAATTTTTTAGTTCTCTTC
66 CTTGAGAGCATCTATTTTATCTTTCTACATTGTGGAAGTATTAGAAGAATTTTACAGTTCTCTTC
24338735 TATTTTA
131 TATTTTA
24338742 TACTCTCAATTAATTGTTGCTTGGTATGACTTTTAGACCTTTAGCAAAGTGCTTATATGAATATC
1 TACTCTCAATTAATTGTTGCTTGGTATGACTTTTAGACCTTTAGCAAAGTGCTTATATGAATATC
24338807 CTTGAGAGCATCTATTTTATCTTTCTACATTGTGGAAGTATTAGAAGAATTTTACAGTTCTCTTC
66 CTTGAGAGCATCTATTTTATCTTTCTACATTGTGGAAGTATTAGAAGAATTTTACAGTTCTCTTC
24338872 TATTTTA
131 TATTTTA
24338879 T
1 T
24338880 GTGTGAAATT
Statistics
Matches: 134, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 134 1.00
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.45
Consensus pattern (137 bp):
TACTCTCAATTAATTGTTGCTTGGTATGACTTTTAGACCTTTAGCAAAGTGCTTATATGAATATC
CTTGAGAGCATCTATTTTATCTTTCTACATTGTGGAAGTATTAGAAGAATTTTACAGTTCTCTTC
TATTTTA
Found at i:24346171 original size:18 final size:18
Alignment explanation
Indices: 24346150--24346189 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
24346140 CGAAGTGTTG
* *
24346150 GAGGATGATGGTGATGAT
1 GAGGACGATGGCGATGAT
24346168 GAGGACGATGGCGATGAT
1 GAGGACGATGGCGATGAT
24346186 GAGG
1 GAGG
24346190 GTGGTGTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.05, G:0.47, T:0.20
Consensus pattern (18 bp):
GAGGACGATGGCGATGAT
Found at i:24353609 original size:32 final size:33
Alignment explanation
Indices: 24353568--24353635 Score: 120
Period size: 32 Copynumber: 2.1 Consensus size: 33
24353558 TTTAAATTTG
24353568 ATAAATCTACTTTTTTATAC-TTTTCTAATGTT
1 ATAAATCTACTTTTTTATACTTTTTCTAATGTT
*
24353600 ATAAATCTACTTTTTTATACTTTTTTTAATGTT
1 ATAAATCTACTTTTTTATACTTTTTCTAATGTT
24353633 ATA
1 ATA
24353636 TTAAACCTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 20 0.59
33 14 0.41
ACGTcount: A:0.29, C:0.10, G:0.03, T:0.57
Consensus pattern (33 bp):
ATAAATCTACTTTTTTATACTTTTTCTAATGTT
Found at i:24355454 original size:19 final size:20
Alignment explanation
Indices: 24355423--24355468 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
24355413 GACAAACTAT
*
24355423 ATATTATAATATATATTTTA
1 ATATTATAATATAGATTTTA
24355443 ATATTA-AATATAGATTTTA
1 ATATTATAATATAGATTTTA
*
24355462 ATGTTAT
1 ATATTAT
24355469 TTAAATGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (20 bp):
ATATTATAATATAGATTTTA
Found at i:24356111 original size:20 final size:20
Alignment explanation
Indices: 24356086--24356261 Score: 93
Period size: 20 Copynumber: 9.1 Consensus size: 20
24356076 ATTTAATTAT
24356086 AAAAATTAT-AAAAAGTCATA
1 AAAAATTATCAAAAA-TCATA
*
24356106 AAAAATTATCAAAAACCATA
1 AAAAATTATCAAAAATCATA
* *
24356126 TAAAATTAT-AAATAATCAGA
1 AAAAATTATCAAA-AATCATA
* *
24356146 TAAAATTATCAAAAATAAT-
1 AAAAATTATCAAAAATCATA
* *
24356165 AATAATTA-C-TAAAT-AT-
1 AAAAATTATCAAAAATCATA
* * * *
24356181 GAAATTTGAT-ATAAACTTATA
1 AAAAATT-ATCA-AAAATCATA
*
24356202 AAAAATT-TCAAAAACCATA
1 AAAAATTATCAAAAATCATA
* *
24356221 TAAAATTAT-AAATAATCAGA
1 AAAAATTATCAAA-AATCATA
* *
24356241 TAAAATTATCAAAAATAATA
1 AAAAATTATCAAAAATCATA
24356261 A
1 A
24356262 TAATTACTAA
Statistics
Matches: 118, Mismatches: 25, Indels: 26
0.70 0.15 0.15
Matches are distributed among these distances:
16 6 0.05
17 5 0.04
18 1 0.01
19 28 0.24
20 62 0.53
21 16 0.14
ACGTcount: A:0.61, C:0.07, G:0.03, T:0.29
Consensus pattern (20 bp):
AAAAATTATCAAAAATCATA
Found at i:24356219 original size:95 final size:96
Alignment explanation
Indices: 24356103--24356291 Score: 371
Period size: 95 Copynumber: 2.0 Consensus size: 96
24356093 ATAAAAAGTC
24356103 ATAAAAAATTATCAAAAACCATATAAAATTATAAATAATCAGATAAAATTATCAAAAATAATAAT
1 ATAAAAAATTATCAAAAACCATATAAAATTATAAATAATCAGATAAAATTATCAAAAATAATAAT
24356168 AATTACTAAATATGAAATTTGATATAAACTT
66 AATTACTAAATATGAAATTTGATATAAACTT
24356199 ATAAAAAATT-TCAAAAACCATATAAAATTATAAATAATCAGATAAAATTATCAAAAATAATAAT
1 ATAAAAAATTATCAAAAACCATATAAAATTATAAATAATCAGATAAAATTATCAAAAATAATAAT
24356263 AATTACTAAATATGAAATTTGATATAAAC
66 AATTACTAAATATGAAATTTGATATAAAC
24356292 CNNNNNNNNN
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
95 83 0.89
96 10 0.11
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (96 bp):
ATAAAAAATTATCAAAAACCATATAAAATTATAAATAATCAGATAAAATTATCAAAAATAATAAT
AATTACTAAATATGAAATTTGATATAAACTT
Found at i:24356369 original size:10 final size:10
Alignment explanation
Indices: 24356354--24356382 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
24356344 NNNNNNNNAA
24356354 ATTATAAAAT
1 ATTATAAAAT
24356364 ATTATAAAAT
1 ATTATAAAAT
24356374 ATTATAAAA
1 ATTATAAAA
24356383 GATATAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATTATAAAAT
Found at i:24356679 original size:19 final size:18
Alignment explanation
Indices: 24356655--24356692 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
24356645 GGTTGAATCG
24356655 ATTTTTTTAATATGTTTTT
1 ATTTTTTTAATAT-TTTTT
*
24356674 ATTTTTTTATTATTTTTT
1 ATTTTTTTAATATTTTTT
24356692 A
1 A
24356693 ACATTTTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (18 bp):
ATTTTTTTAATATTTTTT
Found at i:24371919 original size:1 final size:1
Alignment explanation
Indices: 24371913--24371999 Score: 57
Period size: 1 Copynumber: 87.0 Consensus size: 1
24371903 AATTCAATCC
* * * * * * * * **
24371913 AAAAAAAAAAAAAACAACAACAAAAACAAAAAAACAAAAAAAATAAAAAAAGAACAAAAACCAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
24371978 AACAAAAAAAGAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAA
24372000 TCTCTACCGG
Statistics
Matches: 62, Mismatches: 24, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.01
Consensus pattern (1 bp):
A
Found at i:24371943 original size:17 final size:17
Alignment explanation
Indices: 24371916--24371999 Score: 80
Period size: 17 Copynumber: 4.8 Consensus size: 17
24371906 TCAATCCAAA
*
24371916 AAAAAAAAAAACAACAAC
1 AAAAACAAAAA-AACAAC
*
24371934 AAAAACAAAAAAACAAA
1 AAAAACAAAAAAACAAC
* *
24371951 AAAAATAAAAAAAGAAC
1 AAAAACAAAAAAACAAC
*
24371968 AAAAACCAAAAACAA-AAA
1 AAAAA-CAAAAA-AACAAC
24371986 AAGAAACAAAAAAA
1 AA-AAACAAAAAAA
24372000 TCTCTACCGG
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
17 26 0.46
18 25 0.45
19 5 0.09
ACGTcount: A:0.85, C:0.12, G:0.02, T:0.01
Consensus pattern (17 bp):
AAAAACAAAAAAACAAC
Found at i:24371969 original size:34 final size:34
Alignment explanation
Indices: 24371912--24371996 Score: 109
Period size: 35 Copynumber: 2.4 Consensus size: 34
24371902 AAATTCAATC
24371912 CAAAAAAAAAAAAAACAACAACAAAAACAAAAAAA
1 CAAAAAAAAAAAAAACAACAACAAAAAC-AAAAAA
* * *
24371947 CAAAAAAAATAAAAA-AAGAACAAAAACCAAAAA
1 CAAAAAAAAAAAAAACAACAACAAAAACAAAAAA
24371980 CAAAAAAAGAAACAAAA
1 CAAAAAAA-AAA-AAAA
24371997 AAATCTCTAC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
33 13 0.30
34 13 0.30
35 18 0.41
ACGTcount: A:0.84, C:0.13, G:0.02, T:0.01
Consensus pattern (34 bp):
CAAAAAAAAAAAAAACAACAACAAAAACAAAAAA
Done.