Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 71 of 313
Found at i:24096346 original size:35 final size:35
Alignment explanation
Indices: 24096295--24096365 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
24096285 ATCTTGATTA
* *
24096295 AAACCATCTTTTTGAAATCGGGCTTTGAAATTTTT
1 AAACCATCTGTCTGAAATCGGGCTTTGAAATTTTT
* *
24096330 AAACCATCTGTCTGAAATCGTGCTTTGGAATTTTT
1 AAACCATCTGTCTGAAATCGGGCTTTGAAATTTTT
24096365 A
1 A
24096366 CTTTTATTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (35 bp):
AAACCATCTGTCTGAAATCGGGCTTTGAAATTTTT
Found at i:24104149 original size:137 final size:137
Alignment explanation
Indices: 24103886--24104155 Score: 497
Period size: 137 Copynumber: 2.0 Consensus size: 137
24103876 CATAAATGCC
*
24103886 TATGTTTTAATTCAAGATATATCAATAAATATTATAGACTAATTGGAATTCATTCTAATAATGAT
1 TATGTTTTAATTCAAGATATATCAATAAATATTATAGACTAATTGGAATTCATTCTAACAATGAT
* * *
24103951 ATGATAAGATCGCATGAGAATAAAACAAAATTTAGGGATTTTTTCTGATATAAAAGACCCCCCAC
66 ATGAGAAGATCGCATGAGAACAAAACAAAATTCAGGGATTTTTTCTGATATAAAAGACCCCCCAC
24104016 ACTTGAG
131 ACTTGAG
24104023 TATGTTTTAATTCAAGATATATCAATAAATATTATAGACTAATTGGAATTCATTCTAACAATGAT
1 TATGTTTTAATTCAAGATATATCAATAAATATTATAGACTAATTGGAATTCATTCTAACAATGAT
24104088 ATGAGAAGATCGCATGAGAACAAAACAAAATTCAGGGA-TTTTTCTGATATAAAAGACCCCCCAC
66 ATGAGAAGATCGCATGAGAACAAAACAAAATTCAGGGATTTTTTCTGATATAAAAGACCCCCCAC
24104152 ACTT
131 ACTT
24104156 AAGATGTACA
Statistics
Matches: 129, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 30 0.23
137 99 0.77
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (137 bp):
TATGTTTTAATTCAAGATATATCAATAAATATTATAGACTAATTGGAATTCATTCTAACAATGAT
ATGAGAAGATCGCATGAGAACAAAACAAAATTCAGGGATTTTTTCTGATATAAAAGACCCCCCAC
ACTTGAG
Found at i:24110838 original size:36 final size:36
Alignment explanation
Indices: 24110797--24110869 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
24110787 TGGCACAGTT
* *
24110797 TTGAACATGCCTTTGAGTTTGTCTTGAAATAGTTTC
1 TTGAACATGCCCTTGAGTATGTCTTGAAATAGTTTC
24110833 TTGAACATGCCCTTGAGTATGTCTTGAAATAGTTTC
1 TTGAACATGCCCTTGAGTATGTCTTGAAATAGTTTC
24110869 T
1 T
24110870 AACGTGTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.42
Consensus pattern (36 bp):
TTGAACATGCCCTTGAGTATGTCTTGAAATAGTTTC
Found at i:24111832 original size:36 final size:36
Alignment explanation
Indices: 24111791--24111863 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
24111781 TGGCACAGTT
* *
24111791 TTGAACATGCCTTTGAGTTTGTCTTGAAATAGTTTC
1 TTGAACATGCCCTTGAGTATGTCTTGAAATAGTTTC
24111827 TTGAACATGCCCTTGAGTATGTCTTGAAATAGTTTC
1 TTGAACATGCCCTTGAGTATGTCTTGAAATAGTTTC
24111863 T
1 T
24111864 AACGTGTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.42
Consensus pattern (36 bp):
TTGAACATGCCCTTGAGTATGTCTTGAAATAGTTTC
Found at i:24111932 original size:994 final size:994
Alignment explanation
Indices: 24110005--24111992 Score: 3976
Period size: 994 Copynumber: 2.0 Consensus size: 994
24109995 TCGAATTCAC
24110005 AAAATTTAAGGATAAATCATCCATAAAATATGCTAAGAATGGGATAGAAATATGTATGAATTACG
1 AAAATTTAAGGATAAATCATCCATAAAATATGCTAAGAATGGGATAGAAATATGTATGAATTACG
24110070 GTTTATCAGTATGTCAAGAAAGGTATATGTTACGATGATCTGCAAGTATGAAAAGTAAGGGATAT
66 GTTTATCAGTATGTCAAGAAAGGTATATGTTACGATGATCTGCAAGTATGAAAAGTAAGGGATAT
24110135 CGCATATTCTTCTAAGTTTATTCTGAATCTGAATCACTATTATTTGAATTATGAGATTCTATAAT
131 CGCATATTCTTCTAAGTTTATTCTGAATCTGAATCACTATTATTTGAATTATGAGATTCTATAAT
24110200 AGCATGATATGGAGCTCATCTGGATGTTATACACTATGAATTATCAATAAGGGTATGTGTAAGGA
196 AGCATGATATGGAGCTCATCTGGATGTTATACACTATGAATTATCAATAAGGGTATGTGTAAGGA
24110265 ACTGGTTTAGGGTATGTCTGAATGTGAACCAATGGTATGAAAGTCTACGTAAGTATCTGCCATAT
261 ACTGGTTTAGGGTATGTCTGAATGTGAACCAATGGTATGAAAGTCTACGTAAGTATCTGCCATAT
24110330 ATATGTATTCACCCAAGATAATGTCAGTGAGTAGTTGTCTGAAATAAGAGAATGGGTTAAGGTGA
326 ATATGTATTCACCCAAGATAATGTCAGTGAGTAGTTGTCTGAAATAAGAGAATGGGTTAAGGTGA
24110395 GGAGTGTTGAAAGTAGTTTCTAAAGGTATGTTTTGTGAGATATGTATTATGGGATAAGAGATTCA
391 GGAGTGTTGAAAGTAGTTTCTAAAGGTATGTTTTGTGAGATATGTATTATGGGATAAGAGATTCA
24110460 TGAATTGATTGGAGACATTCCTTAGTTAACAAGATATGGAAGACTAAGTATGATAAGGGCCTGAT
456 TGAATTGATTGGAGACATTCCTTAGTTAACAAGATATGGAAGACTAAGTATGATAAGGGCCTGAT
24110525 ATTGGCATATAAAAGAATGATCACACGGTGTTGGTATCAGCCGAAGTAAATAGTGCAAACTATGG
521 ATTGGCATATAAAAGAATGATCACACGGTGTTGGTATCAGCCGAAGTAAATAGTGCAAACTATGG
24110590 TTGGCTCATAGAAGTTCATATAAGATTGCAAAGTATCCATAAAGGTGTGGTTACGATGATATTCA
586 TTGGCTCATAGAAGTTCATATAAGATTGCAAAGTATCCATAAAGGTGTGGTTACGATGATATTCA
24110655 CTAAGTACCATGTACTTACAAAGTTTGTTCTTTCTTTTCAGGTATGTTGAGAAGAAACTTCGCCT
651 CTAAGTACCATGTACTTACAAAGTTTGTTCTTTCTTTTCAGGTATGTTGAGAAGAAACTTCGCCT
24110720 GGAGGGACAACACCAGGAGTACTCCAATTTGGTGACAAAATCGGCTATTATGCATACAGTGGATA
716 GGAGGGACAACACCAGGAGTACTCCAATTTGGTGACAAAATCGGCTATTATGCATACAGTGGATA
24110785 TGTGGCACAGTTTTGAACATGCCTTTGAGTTTGTCTTGAAATAGTTTCTTGAACATGCCCTTGAG
781 TGTGGCACAGTTTTGAACATGCCTTTGAGTTTGTCTTGAAATAGTTTCTTGAACATGCCCTTGAG
24110850 TATGTCTTGAAATAGTTTCTAACGTGTAAAGATTTGTATCAATACTGGTGTAATATTCATTGCAT
846 TATGTCTTGAAATAGTTTCTAACGTGTAAAGATTTGTATCAATACTGGTGTAATATTCATTGCAT
24110915 ATTTTATTCTAAATTTTCAAATGTTAAGTTTTTCTTTTGGAATTTCAAATGACAGGCTTTAAGTT
911 ATTTTATTCTAAATTTTCAAATGTTAAGTTTTTCTTTTGGAATTTCAAATGACAGGCTTTAAGTT
24110980 AAATAAGAAAATGTAATAT
976 AAATAAGAAAATGTAATAT
24110999 AAAATTTAAGGATAAATCATCCATAAAATATGCTAAGAATGGGATAGAAATATGTATGAATTACG
1 AAAATTTAAGGATAAATCATCCATAAAATATGCTAAGAATGGGATAGAAATATGTATGAATTACG
24111064 GTTTATCAGTATGTCAAGAAAGGTATATGTTACGATGATCTGCAAGTATGAAAAGTAAGGGATAT
66 GTTTATCAGTATGTCAAGAAAGGTATATGTTACGATGATCTGCAAGTATGAAAAGTAAGGGATAT
24111129 CGCATATTCTTCTAAGTTTATTCTGAATCTGAATCACTATTATTTGAATTATGAGATTCTATAAT
131 CGCATATTCTTCTAAGTTTATTCTGAATCTGAATCACTATTATTTGAATTATGAGATTCTATAAT
24111194 AGCATGATATGGAGCTCATCTGGATGTTATACACTATGAATTATCAATAAGGGTATGTGTAAGGA
196 AGCATGATATGGAGCTCATCTGGATGTTATACACTATGAATTATCAATAAGGGTATGTGTAAGGA
24111259 ACTGGTTTAGGGTATGTCTGAATGTGAACCAATGGTATGAAAGTCTACGTAAGTATCTGCCATAT
261 ACTGGTTTAGGGTATGTCTGAATGTGAACCAATGGTATGAAAGTCTACGTAAGTATCTGCCATAT
24111324 ATATGTATTCACCCAAGATAATGTCAGTGAGTAGTTGTCTGAAATAAGAGAATGGGTTAAGGTGA
326 ATATGTATTCACCCAAGATAATGTCAGTGAGTAGTTGTCTGAAATAAGAGAATGGGTTAAGGTGA
24111389 GGAGTGTTGAAAGTAGTTTCTAAAGGTATGTTTTGTGAGATATGTATTATGGGATAAGAGATTCA
391 GGAGTGTTGAAAGTAGTTTCTAAAGGTATGTTTTGTGAGATATGTATTATGGGATAAGAGATTCA
24111454 TGAATTGATTGGAGACATTCCTTAGTTAACAAGATATGGAAGACTAAGTATGATAAGGGCCTGAT
456 TGAATTGATTGGAGACATTCCTTAGTTAACAAGATATGGAAGACTAAGTATGATAAGGGCCTGAT
24111519 ATTGGCATATAAAAGAATGATCACACGGTGTTGGTATCAGCCGAAGTAAATAGTGCAAACTATGG
521 ATTGGCATATAAAAGAATGATCACACGGTGTTGGTATCAGCCGAAGTAAATAGTGCAAACTATGG
24111584 TTGGCTCATAGAAGTTCATATAAGATTGCAAAGTATCCATAAAGGTGTGGTTACGATGATATTCA
586 TTGGCTCATAGAAGTTCATATAAGATTGCAAAGTATCCATAAAGGTGTGGTTACGATGATATTCA
24111649 CTAAGTACCATGTACTTACAAAGTTTGTTCTTTCTTTTCAGGTATGTTGAGAAGAAACTTCGCCT
651 CTAAGTACCATGTACTTACAAAGTTTGTTCTTTCTTTTCAGGTATGTTGAGAAGAAACTTCGCCT
24111714 GGAGGGACAACACCAGGAGTACTCCAATTTGGTGACAAAATCGGCTATTATGCATACAGTGGATA
716 GGAGGGACAACACCAGGAGTACTCCAATTTGGTGACAAAATCGGCTATTATGCATACAGTGGATA
24111779 TGTGGCACAGTTTTGAACATGCCTTTGAGTTTGTCTTGAAATAGTTTCTTGAACATGCCCTTGAG
781 TGTGGCACAGTTTTGAACATGCCTTTGAGTTTGTCTTGAAATAGTTTCTTGAACATGCCCTTGAG
24111844 TATGTCTTGAAATAGTTTCTAACGTGTAAAGATTTGTATCAATACTGGTGTAATATTCATTGCAT
846 TATGTCTTGAAATAGTTTCTAACGTGTAAAGATTTGTATCAATACTGGTGTAATATTCATTGCAT
24111909 ATTTTATTCTAAATTTTCAAATGTTAAGTTTTTCTTTTGGAATTTCAAATGACAGGCTTTAAGTT
911 ATTTTATTCTAAATTTTCAAATGTTAAGTTTTTCTTTTGGAATTTCAAATGACAGGCTTTAAGTT
24111974 AAATAAGAAAATGTAATAT
976 AAATAAGAAAATGTAATAT
24111993 GTTTTTGCTA
Statistics
Matches: 994, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
994 994 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (994 bp):
AAAATTTAAGGATAAATCATCCATAAAATATGCTAAGAATGGGATAGAAATATGTATGAATTACG
GTTTATCAGTATGTCAAGAAAGGTATATGTTACGATGATCTGCAAGTATGAAAAGTAAGGGATAT
CGCATATTCTTCTAAGTTTATTCTGAATCTGAATCACTATTATTTGAATTATGAGATTCTATAAT
AGCATGATATGGAGCTCATCTGGATGTTATACACTATGAATTATCAATAAGGGTATGTGTAAGGA
ACTGGTTTAGGGTATGTCTGAATGTGAACCAATGGTATGAAAGTCTACGTAAGTATCTGCCATAT
ATATGTATTCACCCAAGATAATGTCAGTGAGTAGTTGTCTGAAATAAGAGAATGGGTTAAGGTGA
GGAGTGTTGAAAGTAGTTTCTAAAGGTATGTTTTGTGAGATATGTATTATGGGATAAGAGATTCA
TGAATTGATTGGAGACATTCCTTAGTTAACAAGATATGGAAGACTAAGTATGATAAGGGCCTGAT
ATTGGCATATAAAAGAATGATCACACGGTGTTGGTATCAGCCGAAGTAAATAGTGCAAACTATGG
TTGGCTCATAGAAGTTCATATAAGATTGCAAAGTATCCATAAAGGTGTGGTTACGATGATATTCA
CTAAGTACCATGTACTTACAAAGTTTGTTCTTTCTTTTCAGGTATGTTGAGAAGAAACTTCGCCT
GGAGGGACAACACCAGGAGTACTCCAATTTGGTGACAAAATCGGCTATTATGCATACAGTGGATA
TGTGGCACAGTTTTGAACATGCCTTTGAGTTTGTCTTGAAATAGTTTCTTGAACATGCCCTTGAG
TATGTCTTGAAATAGTTTCTAACGTGTAAAGATTTGTATCAATACTGGTGTAATATTCATTGCAT
ATTTTATTCTAAATTTTCAAATGTTAAGTTTTTCTTTTGGAATTTCAAATGACAGGCTTTAAGTT
AAATAAGAAAATGTAATAT
Found at i:24114664 original size:19 final size:20
Alignment explanation
Indices: 24114640--24114686 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
24114630 TATTAATTTA
*
24114640 TTTTCCTTTTCCTTTTC-C-T
1 TTTTCCTTTT-ATTTTCTCTT
24114659 TTTTCCTTTTATTTTCTCTT
1 TTTTCCTTTTATTTTCTCTT
24114679 TTTTCCTT
1 TTTTCCTT
24114687 CTTTTTTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 5 0.20
19 11 0.44
20 9 0.36
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTCCTTTTATTTTCTCTT
Found at i:24118152 original size:36 final size:36
Alignment explanation
Indices: 24118105--24118176 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
24118095 AACACATTAG
* *
24118105 AACTATTTCAAGATAGACTCAAAGGCATGTTCAAGA
1 AACTATTTCAAGACAAACTCAAAGGCATGTTCAAGA
24118141 AACTATTTCAAGACAAACTCAAAGGCATGTTCAAGA
1 AACTATTTCAAGACAAACTCAAAGGCATGTTCAAGA
24118177 CTGTGCCACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (36 bp):
AACTATTTCAAGACAAACTCAAAGGCATGTTCAAGA
Found at i:24131687 original size:7 final size:7
Alignment explanation
Indices: 24131671--24131711 Score: 66
Period size: 7 Copynumber: 5.9 Consensus size: 7
24131661 AACCTTAAAA
24131671 TTTTATT
1 TTTTATT
24131678 TTTT-TAT
1 TTTTAT-T
24131685 TTTTATT
1 TTTTATT
24131692 TTTTATT
1 TTTTATT
24131699 TTTTATT
1 TTTTATT
24131706 TTTTAT
1 TTTTAT
24131712 AAATTCAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 1 0.03
7 30 0.94
8 1 0.03
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:24133309 original size:34 final size:34
Alignment explanation
Indices: 24133250--24133473 Score: 149
Period size: 34 Copynumber: 6.7 Consensus size: 34
24133240 AATAGAAATT
24133250 AATACGGTAGCAA-TAACATGCTTATAACGAG-TC
1 AATACGGTAGCAATTAACATGCTTATAA-GAGATC
* * *
24133283 AATTCGGTAGCAATTATCATGCTTATAATAGATC
1 AATACGGTAGCAATTAACATGCTTATAAGAGATC
* * * *
24133317 AATACGGTAGCAA-TAAAATGCTTAAAACAAATC
1 AATACGGTAGCAATTAACATGCTTATAAGAGATC
* * ** * *
24133350 GATA-GAGTAGCATTTGTCATGCTTATAATAGATT
1 AATACG-GTAGCAATTAACATGCTTATAAGAGATC
* *
24133384 AGTACGGT-G-AA-TAACATGCTTATAACA-AGTC
1 AATACGGTAGCAATTAACATGCTTATAAGAGA-TC
* * ** * * *
24133415 GATACAGTAGCGTTTATCATGTTTATAATAGATC
1 AATACGGTAGCAATTAACATGCTTATAAGAGATC
* *
24133449 AATACAGTAGCAATAAACATGCTTA
1 AATACGGTAGCAATTAACATGCTTA
24133474 GCATGTATTT
Statistics
Matches: 142, Mismatches: 39, Indels: 19
0.71 0.19 0.09
Matches are distributed among these distances:
30 1 0.01
31 19 0.13
32 3 0.02
33 39 0.27
34 78 0.55
35 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (34 bp):
AATACGGTAGCAATTAACATGCTTATAAGAGATC
Found at i:24133425 original size:65 final size:67
Alignment explanation
Indices: 24133247--24133473 Score: 287
Period size: 67 Copynumber: 3.4 Consensus size: 67
24133237 CTTAATAGAA
* * * * *
24133247 ATTAATACGGTAGCAATAACATGCTTATAACGAGTCAATTCGGTAGCAATTATCATGCTTATAAT
1 ATTAATACGGTAGCAATAACATGCTTATAACAAGTCGATACAGTAGCATTTATCATGCTTATAAT
24133312 AG
66 AG
* * * * * *
24133314 ATCAATACGGTAGCAATAAAATGCTTAAAACAAATCGATAGAGTAGCATTTGTCATGCTTATAAT
1 ATTAATACGGTAGCAATAACATGCTTATAACAAGTCGATACAGTAGCATTTATCATGCTTATAAT
24133379 AG
66 AG
* * *
24133381 ATTAGTACGGT-G-AATAACATGCTTATAACAAGTCGATACAGTAGCGTTTATCATGTTTATAAT
1 ATTAATACGGTAGCAATAACATGCTTATAACAAGTCGATACAGTAGCATTTATCATGCTTATAAT
24133444 AG
66 AG
* *
24133446 ATCAATACAGTAGCAATAAACATGCTTA
1 ATTAATACGGTAGCAAT-AACATGCTTA
24133474 GCATGTATTT
Statistics
Matches: 134, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
65 54 0.40
66 2 0.01
67 68 0.51
68 10 0.07
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (67 bp):
ATTAATACGGTAGCAATAACATGCTTATAACAAGTCGATACAGTAGCATTTATCATGCTTATAAT
AG
Found at i:24135331 original size:3 final size:3
Alignment explanation
Indices: 24135323--24135357 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
24135313 AGTATTCTCC
24135323 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT T
24135358 TATGTGTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:24139600 original size:21 final size:21
Alignment explanation
Indices: 24139574--24139619 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
24139564 AATTGATAAC
24139574 GCATGTGATTATTTTGTAGAT
1 GCATGTGATTATTTTGTAGAT
24139595 GCATGTGATTATTTTGTAGAT
1 GCATGTGATTATTTTGTAGAT
24139616 GCAT
1 GCAT
24139620 CTACCAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.46
Consensus pattern (21 bp):
GCATGTGATTATTTTGTAGAT
Found at i:24144206 original size:17 final size:17
Alignment explanation
Indices: 24144184--24144220 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
24144174 TATTCAATTC
24144184 AATGATAGTAAATCAAG
1 AATGATAGTAAATCAAG
24144201 AATGATAGTAAATCAAG
1 AATGATAGTAAATCAAG
24144218 AAT
1 AAT
24144221 AAACAACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.54, C:0.05, G:0.16, T:0.24
Consensus pattern (17 bp):
AATGATAGTAAATCAAG
Found at i:24145831 original size:30 final size:30
Alignment explanation
Indices: 24145795--24145857 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
24145785 CATAAAAGTG
24145795 TATAAATGATACTAAACATAACTTATACCT
1 TATAAATGATACTAAACATAACTTATACCT
*
24145825 TATAAATGATACTAAACATAATTTATACCT
1 TATAAATGATACTAAACATAACTTATACCT
24145855 TAT
1 TAT
24145858 GAAAGAGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.37
Consensus pattern (30 bp):
TATAAATGATACTAAACATAACTTATACCT
Found at i:24146522 original size:21 final size:19
Alignment explanation
Indices: 24146489--24146527 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
24146479 TGAAAAATAT
24146489 TAAATATTTTTTAAATAAA
1 TAAATATTTTTTAAATAAA
24146508 TAAATATCATTTTTAAATAA
1 TAAATAT--TTTTTAAATAA
24146528 TATTGTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
TAAATATTTTTTAAATAAA
Found at i:24154078 original size:50 final size:50
Alignment explanation
Indices: 24154003--24154171 Score: 250
Period size: 50 Copynumber: 3.4 Consensus size: 50
24153993 CCATGGCAAT
*
24154003 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGA
*
24154053 AAGTGATAAGT-AGTAGCTTCAGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGA-TAGCTTCAGCTACACTTATCTGATCAAGGACAAATGA
* * *
24154103 AAGTGATAAGTGATAGCTTCTGCTACACCTATCTGATCAGGGACAAATGA
1 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGA
* *
24154153 CAAGTGAAAAGTGGTAGCT
1 -AAGTGATAAGTGATAGCT
24154172 CCGGCTACCT
Statistics
Matches: 108, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
49 1 0.01
50 90 0.83
51 17 0.16
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGA
Found at i:24154193 original size:31 final size:31
Alignment explanation
Indices: 24154155--24154233 Score: 158
Period size: 31 Copynumber: 2.5 Consensus size: 31
24154145 ACAAATGACA
24154155 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
24154186 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
24154217 AGTGAAAAGTGGTAGCT
1 AGTGAAAAGTGGTAGCT
24154234 TAGTGAAAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:24154240 original size:18 final size:18
Alignment explanation
Indices: 24154217--24154252 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
24154207 CTACCTGATC
24154217 AGTGAAAAGTGGTAGCTT
1 AGTGAAAAGTGGTAGCTT
24154235 AGTGAAAAGTGGTAGCTT
1 AGTGAAAAGTGGTAGCTT
24154253 CAGCTACCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.33, T:0.28
Consensus pattern (18 bp):
AGTGAAAAGTGGTAGCTT
Found at i:24154259 original size:49 final size:49
Alignment explanation
Indices: 24154186--24154282 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
24154176 CTACCTGATC
* *
24154186 AGTGAAAAGTGGTAGCTCCGGCTACCTGATCAGTGAAAAGTGGTAGCTT
1 AGTGAAAAGTGGTAGCTCCAGCTACCTGATCAATGAAAAGTGGTAGCTT
* *
24154235 AGTGAAAAGTGGTAGCTTCAGCTACCTGATCAATGAAAATTGGTAGCT
1 AGTGAAAAGTGGTAGCTCCAGCTACCTGATCAATGAAAAGTGGTAGCT
24154283 CCGGCTACCT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (49 bp):
AGTGAAAAGTGGTAGCTCCAGCTACCTGATCAATGAAAAGTGGTAGCTT
Found at i:24154259 original size:80 final size:80
Alignment explanation
Indices: 24154155--24154313 Score: 273
Period size: 80 Copynumber: 2.0 Consensus size: 80
24154145 ACAAATGACA
* *
24154155 AGTGAAAAGTGGTAGCTCCGGCTACCTGATCAGTGAAAAGTGGTAGCTCCGGCTACCTGATCAGT
1 AGTGAAAAGTGGTAGCTCCAGCTACCTGATCAATGAAAAGTGGTAGCTCCGGCTACCTGATCAGT
*
24154220 GAAAAGTGGTAGCTT
66 GAAAAATGGTAGCTT
* *
24154235 AGTGAAAAGTGGTAGCTTCAGCTACCTGATCAATGAAAATTGGTAGCTCCGGCTACCTGATCAGT
1 AGTGAAAAGTGGTAGCTCCAGCTACCTGATCAATGAAAAGTGGTAGCTCCGGCTACCTGATCAGT
24154300 GAAAAATGGTAGCT
66 GAAAAATGGTAGCT
24154314 CCGACTACCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 74 1.00
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.25
Consensus pattern (80 bp):
AGTGAAAAGTGGTAGCTCCAGCTACCTGATCAATGAAAAGTGGTAGCTCCGGCTACCTGATCAGT
GAAAAATGGTAGCTT
Found at i:24154279 original size:31 final size:31
Alignment explanation
Indices: 24154235--24154352 Score: 164
Period size: 31 Copynumber: 3.8 Consensus size: 31
24154225 GTGGTAGCTT
*
24154235 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
24154266 AATGAAAATTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
24154297 AGTGAAAAATGGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
24154328 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
24154353 AAGTGACAAG
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:24154440 original size:47 final size:46
Alignment explanation
Indices: 24154370--24154493 Score: 167
Period size: 47 Copynumber: 2.7 Consensus size: 46
24154360 AAGTGATTTC
* * *
24154370 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* *
24154416 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* * *
24154463 CGTGTAAGACCATAGCTGGGCTATGGCATCA
1 CGTATAAGACCATATCTGGGATATGGCATCA
24154494 ATATGTGAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
46 28 0.41
47 41 0.59
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
Found at i:24154522 original size:42 final size:42
Alignment explanation
Indices: 24154421--24154576 Score: 181
Period size: 42 Copynumber: 3.6 Consensus size: 42
24154411 TGCTACTGTA
* *
24154421 TAAGACCATATCTGGGATATGGCATCAGTGAGATATGTG-AT-TCGTG
1 TAAGACCATAGCTGGGCTATGGCATC----A-ATATGTGAATAT-GTG
24154467 TAAGACCATAGCTGGGCTATGGCATCAATATGTGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCAATATGTGAATATGTG
* *
24154509 TAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGATGTG
1 TAAGACCATAGCTGGGCTATGGCATCAATATGTGAATATGTG
* **
24154551 TAAGACCATAGTTGAACTATGGCATC
1 TAAGACCATAGCTGGGCTATGGCATC
24154577 GAGAAAACGA
Statistics
Matches: 101, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
41 7 0.07
42 69 0.68
43 1 0.01
46 24 0.24
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (42 bp):
TAAGACCATAGCTGGGCTATGGCATCAATATGTGAATATGTG
Found at i:24156786 original size:47 final size:47
Alignment explanation
Indices: 24156717--24156811 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
24156707 AATGTTAGCA
24156717 TAACTAATAGAATCTGTTAGTAGCTATTCTGTTAATAACAGATTGTC
1 TAACTAATAGAATCTGTTAGTAGCTATTCTGTTAATAACAGATTGTC
*
24156764 TAACTAATAGAATCTGTTAGTAGTTATTCTGTTAATAACAGATTGTC
1 TAACTAATAGAATCTGTTAGTAGCTATTCTGTTAATAACAGATTGTC
24156811 T
1 T
24156812 GTTAGTCGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.40
Consensus pattern (47 bp):
TAACTAATAGAATCTGTTAGTAGCTATTCTGTTAATAACAGATTGTC
Found at i:24162494 original size:28 final size:30
Alignment explanation
Indices: 24162454--24162513 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
24162444 AGCTAAGTAT
* *
24162454 TTATTTATATTAT-AAATTTTAAAAAA-AA
1 TTATGTATATTATAAAATTATAAAAAATAA
*
24162482 TTATGTATTTTATAAAATTATAAAAAATAA
1 TTATGTATATTATAAAATTATAAAAAATAA
24162512 TT
1 TT
24162514 TATATGTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 11 0.41
29 12 0.44
30 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (30 bp):
TTATGTATATTATAAAATTATAAAAAATAA
Found at i:24162743 original size:16 final size:16
Alignment explanation
Indices: 24162722--24162755 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
24162712 ATTGGAAAGT
24162722 TTTTATAAATGTTATA
1 TTTTATAAATGTTATA
*
24162738 TTTTATAAATTTTATA
1 TTTTATAAATGTTATA
24162754 TT
1 TT
24162756 ATTTTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTTATAAATGTTATA
Found at i:24167418 original size:21 final size:21
Alignment explanation
Indices: 24167383--24167423 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
24167373 GCCACTACTA
**
24167383 TAGATCGAGTGTTAGCGGCGT
1 TAGATCGAGCATTAGCGGCGT
*
24167404 TAGATCGAGCATTAGTGGCG
1 TAGATCGAGCATTAGCGGCG
24167424 CTTTTTGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.15, G:0.37, T:0.27
Consensus pattern (21 bp):
TAGATCGAGCATTAGCGGCGT
Found at i:24167464 original size:40 final size:40
Alignment explanation
Indices: 24167404--24167516 Score: 131
Period size: 40 Copynumber: 2.8 Consensus size: 40
24167394 TTAGCGGCGT
* *
24167404 TAGATCGAGCATTAGTGGCGCTTTTTGAAAAATGCCGCTA
1 TAGATAGAGCATTAGCGGCGCTTTTTGAAAAATGCCGCTA
* *
24167444 TAGATAGAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTA
1 TAGATAGAGCATTAGCGGCGCTTTTTGAAAAATGCCGCTA
* * *
24167484 TA-AGTCA-ACCACTAGCGACGCTTTTTGAAAAAT
1 TAGA-T-AGAGCATTAGCGGCGCTTTTTGAAAAAT
24167517 ACCACAAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.02
40 60 0.97
41 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (40 bp):
TAGATAGAGCATTAGCGGCGCTTTTTGAAAAATGCCGCTA
Found at i:24167613 original size:40 final size:40
Alignment explanation
Indices: 24167569--24167703 Score: 182
Period size: 40 Copynumber: 3.4 Consensus size: 40
24167559 ATTAGCGACA
* * * * *
24167569 CTTTTTGAAAAACGCCGCTACAGATTGAGCATTAACGATG
1 CTTTTTGAAAAACGCCGCTATAGGTCGAGCATTAGCGGTG
* *
24167609 CTTTTTGAAAAACGTCGCTATAGGTCGAGCATTAGCGGCG
1 CTTTTTGAAAAACGCCGCTATAGGTCGAGCATTAGCGGTG
* *
24167649 CTTTTTG-AAAACGCCGCTATAGGTCAACCATTAGCGGTG
1 CTTTTTGAAAAACGCCGCTATAGGTCGAGCATTAGCGGTG
24167688 CTTTTTGAAAAACGCC
1 CTTTTTGAAAAACGCC
24167704 ACGAAAAATT
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
39 35 0.42
40 48 0.58
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (40 bp):
CTTTTTGAAAAACGCCGCTATAGGTCGAGCATTAGCGGTG
Found at i:24168192 original size:7 final size:7
Alignment explanation
Indices: 24168180--24168233 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
24168170 TATCATTTTA
24168180 GTTTAAG
1 GTTTAAG
24168187 GTTTAAG
1 GTTTAAG
*
24168194 GTTTATG
1 GTTTAAG
*
24168201 GTTTAGG
1 GTTTAAG
* **
24168208 GTATATT
1 GTTTAAG
*
24168215 GTTTAGG
1 GTTTAAG
24168222 GTTTAAG
1 GTTTAAG
24168229 GTTTA
1 GTTTA
24168234 TGAATTACTA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (7 bp):
GTTTAAG
Found at i:24168204 original size:21 final size:21
Alignment explanation
Indices: 24168180--24168307 Score: 112
Period size: 21 Copynumber: 6.0 Consensus size: 21
24168170 TATCATTTTA
*
24168180 GTTTAAGGTTTAAGGTTTATG
1 GTTTAAGGTTTATGGTTTATG
* * * *
24168201 GTTTAGGGTATATTGTTTAGG
1 GTTTAAGGTTTATGGTTTATG
** *
24168222 GTTTAAGGTTTATGAATTACTA
1 GTTTAAGGTTTATGGTTTA-TG
* *
24168244 TTTTAAGGTTTATGGATTATGG
1 GTTTAAGGTTTATGGTTTAT-G
* * *
24168266 GTTTAGGGATTATGATTTATG
1 GTTTAAGGTTTATGGTTTATG
*
24168287 GTTTATGGTTTATGGTTTATG
1 GTTTAAGGTTTATGGTTTATG
24168308 TAACGCCCCC
Statistics
Matches: 82, Mismatches: 23, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
21 50 0.61
22 32 0.39
ACGTcount: A:0.23, C:0.01, G:0.27, T:0.49
Consensus pattern (21 bp):
GTTTAAGGTTTATGGTTTATG
Found at i:24168263 original size:7 final size:7
Alignment explanation
Indices: 24168245--24168307 Score: 72
Period size: 7 Copynumber: 8.9 Consensus size: 7
24168235 GAATTACTAT
*
24168245 TTTAAGG
1 TTTATGG
24168252 TTTATGG
1 TTTATGG
*
24168259 ATTATGGG
1 TTTAT-GG
*
24168267 TTTAGGG
1 TTTATGG
* *
24168274 ATTATGA
1 TTTATGG
24168281 TTTATGG
1 TTTATGG
24168288 TTTATGG
1 TTTATGG
24168295 TTTATGG
1 TTTATGG
24168302 TTTATG
1 TTTATG
24168308 TAACGCCCCC
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
7 41 0.89
8 5 0.11
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.51
Consensus pattern (7 bp):
TTTATGG
Found at i:24168306 original size:14 final size:14
Alignment explanation
Indices: 24168180--24168307 Score: 94
Period size: 14 Copynumber: 9.0 Consensus size: 14
24168170 TATCATTTTA
* *
24168180 GTTTAAGGTTTAAG
1 GTTTATGGTTTATG
*
24168194 GTTTATGGTTTAGG
1 GTTTATGGTTTATG
* * *
24168208 GTATATTGTTTAGG
1 GTTTATGGTTTATG
*
24168222 GTTTAAGGTTTATG
1 GTTTATGGTTTATG
** ** *
24168236 AATTACTATTTTAAG
1 GTTTA-TGGTTTATG
*
24168251 GTTTATGGATTATGG
1 GTTTATGGTTTAT-G
* *
24168266 GTTTAGGGATTATG
1 GTTTATGGTTTATG
*
24168280 ATTTATGGTTTATG
1 GTTTATGGTTTATG
24168294 GTTTATGGTTTATG
1 GTTTATGGTTTATG
24168308 TAACGCCCCC
Statistics
Matches: 87, Mismatches: 25, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
14 66 0.76
15 21 0.24
ACGTcount: A:0.23, C:0.01, G:0.27, T:0.49
Consensus pattern (14 bp):
GTTTATGGTTTATG
Found at i:24169731 original size:93 final size:93
Alignment explanation
Indices: 24169624--24169794 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
24169614 GCCCCTAAGT
* *
24169624 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
24169689 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
24169717 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
24169782 CGAGTTCGGATGC
66 CGAGTTCGGATGC
24169795 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:24169791 original size:46 final size:46
Alignment explanation
Indices: 24169619--24169791 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
24169609 AACCCGCCCC
* * *
24169619 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
24169665 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
24169713 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
24169758 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
24169792 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:24170248 original size:30 final size:30
Alignment explanation
Indices: 24170214--24170273 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
24170204 ATTTAATACG
24170214 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
24170244 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
24170274 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:24171140 original size:29 final size:29
Alignment explanation
Indices: 24171098--24171158 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
24171088 TTAAGGGTTG
*
24171098 AGGTTTAAGGTTTA-GGTGTTAGGGGTTAA
1 AGGTTTAAGGTTTATGAT-TTAGGGGTTAA
* * *
24171127 AGGTTTATGTTTTATGATTTAGGGTTTAA
1 AGGTTTAAGGTTTATGATTTAGGGGTTAA
24171156 AGG
1 AGG
24171159 ATAGGGGATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.43
Consensus pattern (29 bp):
AGGTTTAAGGTTTATGATTTAGGGGTTAA
Found at i:24171575 original size:34 final size:35
Alignment explanation
Indices: 24171534--24171611 Score: 122
Period size: 34 Copynumber: 2.2 Consensus size: 35
24171524 ATTATAACAA
24171534 TTTTTTTTCAAATTTTCAAA-TTTTTTGTTTTTGT
1 TTTTTTTTCAAATTTTCAAATTTTTTTGTTTTTGT
* *
24171568 TTTTTTTTCATATTTTGAAATTTTTTTGTTTTTGT
1 TTTTTTTTCAAATTTTCAAATTTTTTTGTTTTTGT
24171603 TATTTTTTT
1 T-TTTTTTT
24171612 TGAGAAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
34 18 0.45
35 15 0.38
36 7 0.17
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.74
Consensus pattern (35 bp):
TTTTTTTTCAAATTTTCAAATTTTTTTGTTTTTGT
Found at i:24171609 original size:18 final size:18
Alignment explanation
Indices: 24171554--24171613 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
24171544 AATTTTCAAA
24171554 TTTTTTGTTTTTGTT-TT
1 TTTTTTGTTTTTGTTATT
** * *
24171571 TTTTTCATATTTTG-AAAT
1 TTTTTTGT-TTTTGTTATT
24171589 TTTTTTGTTTTTGTTATT
1 TTTTTTGTTTTTGTTATT
24171607 TTTTTTG
1 TTTTTTG
24171614 AGAAAATTCG
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
17 11 0.34
18 21 0.66
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.78
Consensus pattern (18 bp):
TTTTTTGTTTTTGTTATT
Found at i:24172478 original size:24 final size:24
Alignment explanation
Indices: 24172451--24172501 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
24172441 TTGATTATGA
24172451 AGTCTTCCTATTTCACAAATACGT
1 AGTCTTCCTATTTCACAAATACGT
*
24172475 AGTCTTCCTATTTCACAGATACGT
1 AGTCTTCCTATTTCACAAATACGT
24172499 AGT
1 AGT
24172502 TTTTCCTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (24 bp):
AGTCTTCCTATTTCACAAATACGT
Found at i:24177204 original size:19 final size:19
Alignment explanation
Indices: 24177180--24177218 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
24177170 TTTCCCCTAA
24177180 AAAATTTCCCCAAATACCT
1 AAAATTTCCCCAAATACCT
*
24177199 AAAATTTCCCCAAATCCCT
1 AAAATTTCCCCAAATACCT
24177218 A
1 A
24177219 GTTTTTTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.33, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAATTTCCCCAAATACCT
Found at i:24182551 original size:42 final size:42
Alignment explanation
Indices: 24182412--24182552 Score: 158
Period size: 42 Copynumber: 3.4 Consensus size: 42
24182402 GTCTTTAGTT
* **
24182412 GCGTTTTTGGAGAAAGCGTCGCTAAAGGTAATGTCTTTAGTA
1 GCGTTTTTGGAGAAAGCGCCGCTAAAGGTAATGTCTTTAACA
* * * * * *
24182454 GCATTTGTGGAGAAAGTGCCGTTAAAGGTCATGTCTTTAACG
1 GCGTTTTTGGAGAAAGCGCCGCTAAAGGTAATGTCTTTAACA
* * *
24182496 GCGTTTTTGGGGAAAGCGCCGCAAAAGGTTATGTTCTTTAACA
1 GCGTTTTTGGAGAAAGCGCCGCTAAAGGTAATG-TCTTTAACA
24182539 GCGTTTTTGG-GAAA
1 GCGTTTTTGGAGAAA
24182553 AGTATCGTTA
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 63 0.78
43 18 0.22
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (42 bp):
GCGTTTTTGGAGAAAGCGCCGCTAAAGGTAATGTCTTTAACA
Found at i:24182586 original size:43 final size:43
Alignment explanation
Indices: 24182472--24182586 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 43
24182462 GGAGAAAGTG
* *
24182472 CCGTTAAAGGTCATG-TCTTTAACGGCGTTTTTGGGGAAAGCG
1 CCGTTAAAGGTCATGTTCTTTAACGGCGTTTTTGGGAAAAGCA
** * * *
24182514 CCGCAAAAGGTTATGTTCTTTAACAGCGTTTTTGGGAAAAGTA
1 CCGTTAAAGGTCATGTTCTTTAACGGCGTTTTTGGGAAAAGCA
* *
24182557 TCGTTAAAGGTCATGTTCTTTAGCGGCGTT
1 CCGTTAAAGGTCATGTTCTTTAACGGCGTT
24182587 ATCTATAGTG
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 12 0.20
43 47 0.80
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (43 bp):
CCGTTAAAGGTCATGTTCTTTAACGGCGTTTTTGGGAAAAGCA
Found at i:24185798 original size:17 final size:17
Alignment explanation
Indices: 24185776--24185811 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
24185766 TTGTTAGCTA
*
24185776 ATATATGCTAAATGTTG
1 ATATATGCAAAATGTTG
*
24185793 ATATATTCAAAATGTTG
1 ATATATGCAAAATGTTG
24185810 AT
1 AT
24185812 TTATAATCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.42
Consensus pattern (17 bp):
ATATATGCAAAATGTTG
Found at i:24189926 original size:43 final size:42
Alignment explanation
Indices: 24189878--24189995 Score: 128
Period size: 43 Copynumber: 2.8 Consensus size: 42
24189868 AGCTCGTACA
* * *
24189878 ATGCCAATATCCCAAACGTGGTCTTACATGTAATCGAATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCAAATA-CG
* * * *
24189921 ATGCCACTGTCCCAAACAAGGTCTTAAATGAAATCAAATACG
1 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCAAATACG
* * * *
24189963 ATGCCGATGTCCTAGACATGGTCTTACACGTAA
1 ATGCCAATGTCCCAAACATGGTCTTACATGTAA
24189996 ACCATAAGTC
Statistics
Matches: 60, Mismatches: 15, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
42 27 0.45
43 33 0.55
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAAACATGGTCTTACATGTAATCAAATACG
Found at i:24191812 original size:34 final size:34
Alignment explanation
Indices: 24191769--24191838 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
24191759 TGAATAATCC
*
24191769 GTGCATACTGGAATGAAATAAGCCGGTTTAGTCA
1 GTGCATACTGGAATGAAATAAGCCGATTTAGTCA
24191803 GTGCATACTGGAATGAAATAAGCCGATTTAGTCA
1 GTGCATACTGGAATGAAATAAGCCGATTTAGTCA
24191837 GT
1 GT
24191839 CTATCAACCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (34 bp):
GTGCATACTGGAATGAAATAAGCCGATTTAGTCA
Found at i:24201185 original size:19 final size:20
Alignment explanation
Indices: 24201141--24201185 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
24201131 CAATTGGATG
24201141 AAGG-AAAAGAAAAGAAAGA
1 AAGGAAAAAGAAAAGAAAGA
*
24201160 AATGAAAAAG-AAAGAATA-A
1 AAGGAAAAAGAAAAGAA-AGA
24201179 AAGGAAA
1 AAGGAAA
24201186 GAAATGTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.04
Consensus pattern (20 bp):
AAGGAAAAAGAAAAGAAAGA
Found at i:24202920 original size:26 final size:26
Alignment explanation
Indices: 24202859--24202920 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
24202849 CCATATGTTT
* *
24202859 TTAAAATTTAAGGAAATAATAATAGA
1 TTAAAAATTCAGGAAATAATAATAGA
* *
24202885 CTAAAAATTCAGGAAATAATGATAGA
1 TTAAAAATTCAGGAAATAATAATAGA
24202911 TTAAAAATTC
1 TTAAAAATTC
24202921 TATTACACTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.55, C:0.05, G:0.11, T:0.29
Consensus pattern (26 bp):
TTAAAAATTCAGGAAATAATAATAGA
Found at i:24206271 original size:72 final size:72
Alignment explanation
Indices: 24206185--24206327 Score: 214
Period size: 72 Copynumber: 2.0 Consensus size: 72
24206175 GGGCTTGCAT
* ** *
24206185 TTTGCTGCTCGCAACTATACACCTTTGACAGGCTCGCTTTTTTGCTTACTGTCTTCAACAGGTGT
1 TTTGCTGCTCGCAACCATACACCTTTGACAGGCTCGCACTTTGGCTTACTGTCTTCAACAGGTGT
24206250 CTTCAAC
66 CTTCAAC
* ***
24206257 TTTGCTGCTTGCAACCATACACCTTTGACAGGCTCGCACTTTGGCTTACTGTCTTCAGTTGGTGT
1 TTTGCTGCTCGCAACCATACACCTTTGACAGGCTCGCACTTTGGCTTACTGTCTTCAACAGGTGT
24206322 CTTCAA
66 CTTCAA
24206328 TAGGCTCGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.17, C:0.27, G:0.18, T:0.37
Consensus pattern (72 bp):
TTTGCTGCTCGCAACCATACACCTTTGACAGGCTCGCACTTTGGCTTACTGTCTTCAACAGGTGT
CTTCAAC
Found at i:24207767 original size:14 final size:14
Alignment explanation
Indices: 24207748--24207795 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
24207738 TGAGTTGCAG
24207748 AGAAATAGAAAGAA
1 AGAAATAGAAAGAA
24207762 AGAAATCA-AAAGAA
1 AGAAAT-AGAAAGAA
* * *
24207776 ATAAAGAGAGAGAA
1 AGAAATAGAAAGAA
24207790 AGAAAT
1 AGAAAT
24207796 TGCAATGAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
13 1 0.04
14 25 0.93
15 1 0.04
ACGTcount: A:0.69, C:0.02, G:0.21, T:0.08
Consensus pattern (14 bp):
AGAAATAGAAAGAA
Found at i:24209427 original size:13 final size:13
Alignment explanation
Indices: 24209395--24209419 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24209385 ATTAAGGGAT
24209395 TAATTTTTTTAAA
1 TAATTTTTTTAAA
24209408 TAATTTTTTTAA
1 TAATTTTTTTAA
24209420 TTGATTTTCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TAATTTTTTTAAA
Found at i:24210519 original size:7 final size:7
Alignment explanation
Indices: 24210507--24210532 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
24210497 AGCTTGTCCT
24210507 TCATCTC
1 TCATCTC
24210514 TCATCTC
1 TCATCTC
24210521 TCATCTC
1 TCATCTC
24210528 TCATC
1 TCATC
24210533 CCTCTTCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.42, G:0.00, T:0.42
Consensus pattern (7 bp):
TCATCTC
Found at i:24210674 original size:18 final size:19
Alignment explanation
Indices: 24210653--24210690 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
24210643 TATTTCATGA
24210653 AAAATTA-AAAAAAAACAT
1 AAAATTACAAAAAAAACAT
24210671 AAAATTACTAAAAAAAACAT
1 AAAATTAC-AAAAAAAACAT
24210691 GTCGAGAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAATTACAAAAAAAACAT
Found at i:24215508 original size:37 final size:37
Alignment explanation
Indices: 24215447--24215518 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
24215437 AACTCCACTG
* *
24215447 GATTATGCCTTGTAAGTGAATCTAGTGGACCTCCCCA
1 GATTATGCCTTATAAGTGAATCTAGCGGACCTCCCCA
* ** *
24215484 GATTATGCCTTATAGGTGGTTCTAGCGTACCTCCC
1 GATTATGCCTTATAAGTGAATCTAGCGGACCTCCC
24215519 TAAATCATGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (37 bp):
GATTATGCCTTATAAGTGAATCTAGCGGACCTCCCCA
Found at i:24215590 original size:6 final size:6
Alignment explanation
Indices: 24215579--24215608 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
24215569 AATAAAAACC
24215579 ACCAAA ACCAAA ACCAAA ACCAAA ACCAAA
1 ACCAAA ACCAAA ACCAAA ACCAAA ACCAAA
24215609 TCAGACCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (6 bp):
ACCAAA
Found at i:24216708 original size:3 final size:3
Alignment explanation
Indices: 24216700--24216788 Score: 90
Period size: 3 Copynumber: 29.7 Consensus size: 3
24216690 TAATTTTAAA
* *
24216700 ATT ATT ATT ATT ATT ATT ACT ATT ATT ATTT ATT ATC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT
* * * * * *
24216746 ATT ACT ATT ACT ACT ATT -GT ATT TTT ACT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
24216789 ACTATTAAAC
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
2 1 0.01
3 66 0.94
4 3 0.04
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:24227503 original size:3 final size:3
Alignment explanation
Indices: 24227495--24227526 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
24227485 CTAAAGAAAA
*
24227495 AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
24227527 TAATAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:24229361 original size:143 final size:143
Alignment explanation
Indices: 24229101--24230129 Score: 1345
Period size: 143 Copynumber: 7.2 Consensus size: 143
24229091 TCTCCTTGAT
* * * *
24229101 GTTGCAGTGGAACAGTTTAAAGCTACGAATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGA
1 GTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTTCTGAAGTTGCAGTGGA
* * * *
24229166 GCAGGA-TGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAAATTGAAGATAGCGGAT
66 GCA-GATTGAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGGAT
* *
24229230 CTTATTTCCCTAAT
130 CTTATTTCCCTGAC
* * * *
24229244 ATTGCAGTGGAACAGATTGAAGCTTCAAATTATGGCGAATCTTATCTTTCTGAAGTTACAATGGA
1 GTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTTCTGAAGTTGCAGTGGA
* * * * * * *
24229309 GTAGATTAAAGCCACTAGCGTTATCTCCCTAAAGTTGCAGCAGAGCAGATTGAAAATTA-CGGAT
66 GCAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGA-TAGCGGAT
*
24229373 CTTATTTCCCTGAT
130 CTTATTTCCCTGAC
* *
24229387 GTTGCAGTGGAACAAATTGAGGCTACAAATTATGGCGAATCTTATCTTTCTGAAGTTGCAGTGGA
1 GTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTTCTGAAGTTGCAGTGGA
* * * ** * * * *
24229452 GTAGATTGAAGCCACCAGCCTTATCTCCTTGAAGTTGCAATGGAGTAGACTGAAGACATCGAATC
66 GCAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGGATC
24229517 TTATTTCCCTGAC
131 TTATTTCCCTGAC
* *
24229530 ATTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGAATCTTATC-TTCTTGAAGTTGCAGTGG
1 GTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTTC-TGAAGTTGCAGTGG
* * * * * * * * *
24229594 AGCAGATTGAAGCCGCCAACCTTATCTCCCTAAAGTTGTAACGGAGCAGACTGAAGACAACGAAT
65 AGCAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGGAT
* *
24229659 CTTATTTCCCTTAT
130 CTTATTTCCCTGAC
* *
24229673 GTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGACTCTTATCTTTCTAAAGTTGCAGTGGA
1 GTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTTCTGAAGTTGCAGTGGA
* * * ***
24229738 GCAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAGTAAATC
66 GCAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGGATC
24229803 TTATTTCCCTGAC
131 TTATTTCCCTGAC
* *
24229816 GTTGCAGTGGAACAAATTGAAGCTACAAATTATGGCGAATCTTATC-TTCTTAAAGTTGCAGTGG
1 GTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTTC-TGAAGTTGCAGTGG
*
24229880 AGCAGATTGAAGCCA-TCAGCCTTATCTCCCTGAAGTTGCAGCGAAGCAGACTGAAGATAGCGGA
65 AGCAGATTGAAGCCACT-AGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGGA
*
24229944 TCTTATTTCCTTGAC
129 TCTTATTTCCCTGAC
* *
24229959 GTTGTAGTGGAACAGATTGAGGCTACAAATTATGGCGAATCTTATC-TTCTTGAAGTTGCAGTGG
1 GTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTTC-TGAAGTTGCAGTGG
* * *
24230023 AACAGATTGAAGCCA-TCAGCCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGATAGCGGA
65 AGCAGATTGAAGCCACT-AGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGGA
* *
24230087 TCTTATTTCCCTAAA
129 TCTTATTTCCCTGAC
24230102 GTTGCAGT-GAAGCAGATTGAAGCTACAA
1 GTTGCAGTGGAA-CAGATTGAAGCTACAA
24230130 GTTACTGATA
Statistics
Matches: 789, Mismatches: 89, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
142 13 0.02
143 771 0.98
144 5 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (143 bp):
GTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTTCTGAAGTTGCAGTGGA
GCAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGGATC
TTATTTCCCTGAC
Found at i:24229889 original size:54 final size:48
Alignment explanation
Indices: 24229084--24230124 Score: 252
Period size: 54 Copynumber: 21.8 Consensus size: 48
24229074 TGAATCCACA
* * * * *
24229084 AATCTCATCTCCTTGATGTTGCAGTGGAACAGTTTAAAGCTACGAATTATGGCG
1 AATCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGAAGC--C--ATTA--GCG
* * **
24229138 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGGA-TGAAGCCACCAGC-
1 AATCTTATCTTCTTGAAGTTGCAGTGGAACA-GATTGAAGCCATTAGCG
* * * * * *
24229185 ---CTTATCTCCCTAAAGTTGCAGCGGAGCAAATTGAAG--A-TAGCG
1 AATCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
* * *
24229227 GATCTTAT-TTCCCT-AATATTGCAGTGGAACAGATTGAAGCTTCAAATTATGGCG
1 AATCTTATCTT-CTTGAA-GTTGCAGTGGAACAGATTGAAGC--C--ATTA--GCG
* * ** * *
24229281 AATCTTATCTT-TCTGAAGTTACAATGGAGTAGATTAAAGCCACTAGCG
1 AATCTTATCTTCT-TGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
* * * ** * *
24229329 ----TTATCTCCCTAAAGTTGCAGCAGAGCAGATTGAA--AATTA-CG
1 AATCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
* * * * *
24229370 GATCTTAT-TTCCCTGATGTTGCAGTGGAACAAATTGAGGCTACAAATTATGGCG
1 AATCTTATCTT-CTTGAAGTTGCAGTGGAACAGATTGAAGC--C--ATTA--GCG
** **
24229424 AATCTTATCTT-TCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGC-
1 AATCTTATCTTCT-TGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
* * ** * *
24229471 ---CTTATCTCCTTGAAGTTGCAATGGAGTAGACTGAAGACA-T--CG
1 AATCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
* *
24229513 AATCTTAT-TTCCCTGACA-TTGCAGTGGAACAGATTAAAGCTACAAATTATGGCG
1 AATCTTATCTT-CTTGA-AGTTGCAGTGGAACAGATTGAAGC--C--ATTA--GCG
* *
24229567 AATCTTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAGCC----GCC
1 AATCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
* * * * * ** * * *
24229611 AACCTTATCTCCCTAAAGTTGTAACGGAGCAGACTGAAGACA--A-CG
1 AATCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
*
24229656 AATCTTAT-TTCCCTT-ATGTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCG
1 AATCTTATCTT--CTTGAAGTTGCAGTGGAACAGATTGAAGC--C--ATTA--GCG
* * * *
24229710 ACTCTTATCTT-TCTAAAGTTGCAGTGGAGCAGATTGAAGCCACTAGC-
1 AATCTTATCTTCT-TGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
* * * * * * *
24229757 ---CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAGTA---
1 AATCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
* * *
24229799 AATCTTAT-TTCCCTGACGTTGCAGTGGAACAAATTGAAGCTACAAATTATGGCG
1 AATCTTATCTT-CTTGAAGTTGCAGTGGAACAGATTGAAGC--C--ATTA--GCG
* * *
24229853 AATCTTATCTTCTTAAAGTTGCAGTGGAGCAGATTGAAGCCATCAGC-
1 AATCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
* * * *
24229900 ---CTTATCTCCCTGAAGTTGCAG-CGAAGCAGACTGAAG--A-TAGCG
1 AATCTTATCTTCTTGAAGTTGCAGTGGAA-CAGATTGAAGCCATTAGCG
* * * *
24229942 GATCTTAT-TTCCTTGACGTTGTAGTGGAACAGATTGAGGCTACAAATTATGGCG
1 AATCTTATCTT-CTTGAAGTTGCAGTGGAACAGATTGAAGC--C--ATTA--GCG
*
24229996 AATCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGAAGCCATCAGC-
1 AATCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
* * *
24230043 ---CTTATCTCCCTGAAGTTGCAGT-GAAGCAGACTGAAG--A-TAGCG
1 AATCTTATCTTCTTGAAGTTGCAGTGGAA-CAGATTGAAGCCATTAGCG
* * *
24230085 GATCTTAT-TTCCCTAAAGTTGCAGT-GAAGCAGATTGAAGC
1 AATCTTATCTT-CTTGAAGTTGCAGTGGAA-CAGATTGAAGC
24230125 TACAAGTTAC
Statistics
Matches: 732, Mismatches: 145, Indels: 228
0.66 0.13 0.21
Matches are distributed among these distances:
41 12 0.02
42 6 0.01
43 6 0.01
44 220 0.30
45 184 0.25
46 6 0.01
47 3 0.00
48 13 0.02
49 5 0.01
50 17 0.02
51 7 0.01
52 12 0.02
53 2 0.00
54 224 0.31
55 15 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (48 bp):
AATCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
Found at i:24229902 original size:429 final size:428
Alignment explanation
Indices: 24229102--24230129 Score: 1497
Period size: 429 Copynumber: 2.4 Consensus size: 428
24229092 CTCCTTGATG
* * *
24229102 TTGCAGTGGAACAGTTTAAAGCTACGAATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAG
1 TTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGAATCTTATCTTCTTGAAGTTGCAGTGGAG
* *
24229167 CAGGA-TGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAAATTGAAGATAGCGGATC
66 CA-GATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGATAGCGGATC
* * *
24229231 TTATTTCCCTAATATTGCAGTGGAACAGATTGAAGCTTCAAATTATGGCGAATCTTATCTTTCTG
130 TTATTTCCCTAATGTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTTCTA
* * * *
24229296 AAGTTACAATGGAGTAGATTAAAGCCACTAGCGTTATCTCCCTAAAGTTGCAGCAGAGCAGATTG
195 AAGTTACAATGGAGCAGATTAAAGCCACTAGCCTTATCTCCCTAAAGTTGCAGCAGAGCAGACTA
* * * *
24229361 AAAATTACGGATCTTATTTCCCTGATGTTGCAGTGGAACAAATTGAGGCTACAAATTATGGCGAA
260 AAAAGTAC-AATCTTATTTCCCTGACGTTGCAGTGGAACAAATTGAAGCTACAAATTATGGCGAA
* * *
24229426 TCTTATCTTTCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCTTGAAGTTGCA
324 TCTTATCTTTCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCA
* * * *
24229491 ATGGAGTAGACTGAAGACATCGAATCTTATTTCCCTGACA
389 ACGAAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACA
24229531 TTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGAATCTTATCTTCTTGAAGTTGCAGTGGAG
1 TTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGAATCTTATCTTCTTGAAGTTGCAGTGGAG
* * * * * * *
24229596 CAGATTGAAGCCGCCAACCTTATCTCCCTAAAGTTGTAACGGAGCAGACTGAAGACAACGAATCT
66 CAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGATAGCGGATCT
* *
24229661 TATTTCCCTTATGTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGACTCTTATCTTTCTAA
131 TATTTCCCTAATGTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTTCTAA
* * * * **
24229726 AGTTGCAGTGGAGCAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
196 AGTTACAATGGAGCAGATTAAAGCCACTAGCCTTATCTCCCTAAAGTTGCAGCAGAGCAGACTAA
24229791 AGACAGTA-AATCTTATTTCCCTGACGTTGCAGTGGAACAAATTGAAGCTACAAATTATGGCGAA
261 A-A-AGTACAATCTTATTTCCCTGACGTTGCAGTGGAACAAATTGAAGCTACAAATTATGGCGAA
*
24229855 TCTTATC-TTCTTAAAGTTGCAGTGGAGCAGATTGAAGCCATCAGCCTTATCTCCCTGAAGTTGC
324 TCTTATCTTTC-TAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
* * * * *
24229919 AGCGAAGCAGACTGAAGATAGCGGATCTTATTTCCTTGACG
388 AACGAAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACA
* * * *
24229960 TTGTAGTGGAACAGATTGAGGCTACAAATTATGGCGAATCTTATCTTCTTGAAGTTGCAGTGGAA
1 TTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGAATCTTATCTTCTTGAAGTTGCAGTGGAG
* * * *
24230025 CAGATTGAAGCCATCAGCCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGATAGCGGATCT
66 CAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGATAGCGGATCT
*
24230090 TATTTCCCTAAAGTTGCAGT-GAAGCAGATTGAAGCTACAA
131 TATTTCCCTAATGTTGCAGTGGAA-CAGATTGAAGCTACAA
24230130 GTTACTGATA
Statistics
Matches: 533, Mismatches: 61, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
428 8 0.02
429 521 0.98
430 1 0.00
431 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (428 bp):
TTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGAATCTTATCTTCTTGAAGTTGCAGTGGAG
CAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGATAGCGGATCT
TATTTCCCTAATGTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTTCTAA
AGTTACAATGGAGCAGATTAAAGCCACTAGCCTTATCTCCCTAAAGTTGCAGCAGAGCAGACTAA
AAAGTACAATCTTATTTCCCTGACGTTGCAGTGGAACAAATTGAAGCTACAAATTATGGCGAATC
TTATCTTTCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAAC
GAAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACA
Found at i:24230554 original size:20 final size:20
Alignment explanation
Indices: 24230529--24230566 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24230519 CCAAATCCAA
24230529 AAAC-AAACCTAAACCCAACT
1 AAACAAAACCT-AACCCAACT
24230549 AAACAAAACCTAACCCAA
1 AAACAAAACCTAACCCAA
24230567 AACCTATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.58, C:0.34, G:0.00, T:0.08
Consensus pattern (20 bp):
AAACAAAACCTAACCCAACT
Found at i:24231605 original size:3 final size:3
Alignment explanation
Indices: 24231597--24231719 Score: 103
Period size: 3 Copynumber: 42.3 Consensus size: 3
24231587 TAATTTTAAC
* * * *
24231597 ATT ATT ATT ACT -TT ATT ATT AAT ACT ATT ATT ATT A-T ATT -TT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * ** *
24231642 GTT ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT ACA ACT
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
24231688 ATT -GT ATT ATT ACT ATT ATT ATT A-T ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
24231720 AACTGATTTA
Statistics
Matches: 95, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
2 8 0.08
3 84 0.88
4 3 0.03
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:24231646 original size:19 final size:20
Alignment explanation
Indices: 24231599--24231719 Score: 115
Period size: 19 Copynumber: 6.0 Consensus size: 20
24231589 ATTTTAACAT
*
24231599 TATTATTACTTTATTATTAATAC
1 TATTATTA--TTA-TATTATTAC
24231622 TATTATTATTATATT-TTAC
1 TATTATTATTATATTATTAC
* *
24231641 TGTTATTATT-TATTATTAT
1 TATTATTATTATATTATTAC
24231660 TATTATTA-T-TATTATTAC
1 TATTATTATTATATTATTAC
* *
24231678 TATTACAACTATTGTATTATTAC
1 TATT---ATTATTATATTATTAC
24231701 TATTATTATTATATTATTA
1 TATTATTATTATATTATTA
24231720 AACTGATTTA
Statistics
Matches: 84, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
18 17 0.20
19 22 0.26
20 17 0.20
21 6 0.07
22 1 0.01
23 21 0.25
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.60
Consensus pattern (20 bp):
TATTATTATTATATTATTAC
Found at i:24231805 original size:17 final size:17
Alignment explanation
Indices: 24231780--24231820 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
24231770 TACTATTATT
24231780 TTTTATAGATTGGTTTTA
1 TTTT-TAGATTGGTTTTA
24231798 TTTTTAGATTGGTTTTA
1 TTTTTAGATTGGTTTTA
24231815 TTTTTA
1 TTTTTA
24231821 CTTTTATCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.20, C:0.00, G:0.15, T:0.66
Consensus pattern (17 bp):
TTTTTAGATTGGTTTTA
Found at i:24238235 original size:12 final size:12
Alignment explanation
Indices: 24238218--24238249 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
24238208 TGTAATTGTC
24238218 CACACGGGTAGA
1 CACACGGGTAGA
24238230 CACACGGGTAGA
1 CACACGGGTAGA
24238242 CACACGGG
1 CACACGGG
24238250 CGTGTGTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.28, G:0.34, T:0.06
Consensus pattern (12 bp):
CACACGGGTAGA
Found at i:24245441 original size:21 final size:23
Alignment explanation
Indices: 24245416--24245468 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
24245406 GCCTGAGCCA
24245416 CTGCTG-T-TGTTGTTGAAAATG
1 CTGCTGATGTGTTGTTGAAAATG
*
24245437 CTGCTGATTGTGTTGTTGAAAGTG
1 CTGCTGA-TGTGTTGTTGAAAATG
24245461 CTGCTGAT
1 CTGCTGAT
24245469 TATGAACCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 6 0.21
23 2 0.07
24 20 0.71
ACGTcount: A:0.17, C:0.11, G:0.30, T:0.42
Consensus pattern (23 bp):
CTGCTGATGTGTTGTTGAAAATG
Found at i:24245455 original size:24 final size:24
Alignment explanation
Indices: 24245423--24245469 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
24245413 CCACTGCTGT
24245423 TGTTGTTGAAAATGCTGCTGATTG
1 TGTTGTTGAAAATGCTGCTGATTG
*
24245447 TGTTGTTGAAAGTGCTGCTGATT
1 TGTTGTTGAAAATGCTGCTGATT
24245470 ATGAACCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.19, C:0.09, G:0.30, T:0.43
Consensus pattern (24 bp):
TGTTGTTGAAAATGCTGCTGATTG
Found at i:24246308 original size:18 final size:18
Alignment explanation
Indices: 24246282--24246316 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
24246272 ATATATTAAT
24246282 CCAAGTACCCAACCCAAA
1 CCAAGTACCCAACCCAAA
*
24246300 CCAATTACCCAACCCAA
1 CCAAGTACCCAACCCAA
24246317 TTATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.46, G:0.03, T:0.09
Consensus pattern (18 bp):
CCAAGTACCCAACCCAAA
Found at i:24246355 original size:5 final size:6
Alignment explanation
Indices: 24246342--24246382 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
24246332 ATAATTTAAT
24246342 AAATAA AAATAA AAATCTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
24246383 ACATATAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 27 0.82
8 6 0.18
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:24246376 original size:21 final size:22
Alignment explanation
Indices: 24246319--24246376 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 22
24246309 CAACCCAATT
*
24246319 ATAAAAATTACAAATAATTTAATAA
1 ATAAAAA-TA-AAA-AATCTAATAA
24246344 ATAAAAAT-AAAAATCTAA-AA
1 ATAAAAATAAAAAATCTAATAA
24246364 ATAAAAATAAAAA
1 ATAAAAATAAAAA
24246377 TAAAAAACAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 10 0.32
21 10 0.32
22 3 0.10
24 1 0.03
25 7 0.23
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.24
Consensus pattern (22 bp):
ATAAAAATAAAAAATCTAATAA
Found at i:24246383 original size:20 final size:20
Alignment explanation
Indices: 24246342--24246383 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
24246332 ATAATTTAAT
**
24246342 AAATAAAAATAAAAATCTAA
1 AAATAAAAATAAAAATAAAA
24246362 AAATAAAAATAAAAATAAAA
1 AAATAAAAATAAAAATAAAA
24246382 AA
1 AA
24246384 CATATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (20 bp):
AAATAAAAATAAAAATAAAA
Found at i:24246423 original size:9 final size:9
Alignment explanation
Indices: 24246402--24246460 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
24246392 TTTATACAAA
*
24246402 TAATTTGGT
1 TAATTCGGT
*
24246411 TAATTCGGG
1 TAATTCGGT
*
24246420 TAATTCGGG
1 TAATTCGGT
24246429 TAATTCGGT
1 TAATTCGGT
*
24246438 TAATTCGAT
1 TAATTCGGT
24246447 TAATTCGGT
1 TAATTCGGT
24246456 TAATT
1 TAATT
24246461 TTATACTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:24247381 original size:18 final size:18
Alignment explanation
Indices: 24247338--24247391 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
24247328 ATAATAAAAT
*
24247338 ACTATTAAGATAAGTATTA
1 ACTATTAAAATAA-TATTA
* **
24247357 AAT-TTAATTTAATATTA
1 ACTATTAAAATAATATTA
24247374 ACTATTAAAATAATATTA
1 ACTATTAAAATAATATTA
24247392 TTTTTTGAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 7 0.25
18 19 0.68
19 2 0.07
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (18 bp):
ACTATTAAAATAATATTA
Found at i:24247387 original size:23 final size:22
Alignment explanation
Indices: 24247291--24247387 Score: 63
Period size: 23 Copynumber: 4.1 Consensus size: 22
24247281 ATAAATGTTA
*
24247291 AATTTAAT-CTAATATTAAAAT
1 AATTTAATATTAATATTAAAAT
*
24247312 AACCACTTTAATATTAATAATAAAAT
1 -A--A-TTTAATATTAATATTAAAAT
* * *
24247338 ACTATTAAGA-TAAGTATTAAATTT
1 AAT-TTAATATTAA-TATTAAA-AT
24247362 AATTTAATATTAACTATTAAAAT
1 AATTTAATATTAA-TATTAAAAT
24247385 AAT
1 AAT
24247388 ATTATTTTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
22 5 0.09
23 20 0.35
24 14 0.25
25 7 0.12
26 11 0.19
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (22 bp):
AATTTAATATTAATATTAAAAT
Found at i:24251551 original size:40 final size:41
Alignment explanation
Indices: 24251426--24251622 Score: 156
Period size: 40 Copynumber: 4.9 Consensus size: 41
24251416 GTGTCAAATC
* * * *
24251426 ATAGCTGAAGCTATTAT-AATCTCGCACACTAAGTACCTTT-T
1 ATAGCTGAAGCTATTCTCAATAT-ACACACTAAGT-GCTTTAT
* * * * **
24251467 ATAGCCGAAGCTA-TCTCACTCTTGCACACTAAGTGCCATAT
1 ATAGCTGAAGCTATTCTCAAT-ATACACACTAAGTGCTTTAT
* *
24251508 ATAGCTGAAGCTATTCT-GAT-TCACACATTAAGTGCTTTAT
1 ATAGCTGAAGCTATTCTCAATAT-ACACACTAAGTGCTTTAT
24251548 ATAGCTGAAGCTA-TCTCAATATACACACTAAGTGCTTTAT
1 ATAGCTGAAGCTATTCTCAATATACACACTAAGTGCTTTAT
** * **
24251588 ATAGCCAAAGCTA-TCTCGATACGCACACTAAGTGC
1 ATAGCTGAAGCTATTCTCAATATACACACTAAGTGC
24251623 CAAACATAAC
Statistics
Matches: 128, Mismatches: 21, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
39 4 0.03
40 80 0.62
41 40 0.31
42 4 0.03
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.30
Consensus pattern (41 bp):
ATAGCTGAAGCTATTCTCAATATACACACTAAGTGCTTTAT
Found at i:24251620 original size:80 final size:80
Alignment explanation
Indices: 24251448--24251622 Score: 201
Period size: 80 Copynumber: 2.2 Consensus size: 80
24251438 ATTATAATCT
* * * *
24251448 CGCACACTAAGTACCTTTTATAGCCGAAGCTATCTCACTCTTGCACACTAAGTGCCATATATAGC
1 CGCACACTAAGT-GCTTTTATAGCCGAAGCTATCTCAATCATACACACTAAGTGCCATATATAGC
** *
24251513 TGAAGCTATTCTGATT
65 CAAAGCTATTCTGATA
* * * **
24251529 CACACATTAAGTGCTTTATATAGCTGAAGCTATCTCAAT-ATACACACTAAGTGCTTTATATAGC
1 CGCACACTAAGTGCTTT-TATAGCCGAAGCTATCTCAATCATACACACTAAGTGCCATATATAGC
24251593 CAAAGCTA-TCTCGATA
65 CAAAGCTATTCT-GATA
24251609 CGCACACTAAGTGC
1 CGCACACTAAGTGC
24251623 CAAACATAAC
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
79 3 0.04
80 46 0.59
81 29 0.37
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (80 bp):
CGCACACTAAGTGCTTTTATAGCCGAAGCTATCTCAATCATACACACTAAGTGCCATATATAGCC
AAAGCTATTCTGATA
Found at i:24257162 original size:19 final size:19
Alignment explanation
Indices: 24257140--24257181 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
24257130 AAGTAAACTT
24257140 ATAGAAGCTTAGTAAGCTC
1 ATAGAAGCTTAGTAAGCTC
24257159 ATAGAAGCTTAGTAAGCTC
1 ATAGAAGCTTAGTAAGCTC
24257178 ATAG
1 ATAG
24257182 GCATAGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.26
Consensus pattern (19 bp):
ATAGAAGCTTAGTAAGCTC
Found at i:24260851 original size:21 final size:21
Alignment explanation
Indices: 24260825--24260867 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
24260815 GATCACTGAG
24260825 TAAGAGATCTTACTGATTTGA
1 TAAGAGATCTTACTGATTTGA
24260846 TAAGAGATCTTACTGATTTGA
1 TAAGAGATCTTACTGATTTGA
24260867 T
1 T
24260868 GCATCTCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (21 bp):
TAAGAGATCTTACTGATTTGA
Found at i:24264877 original size:13 final size:13
Alignment explanation
Indices: 24264825--24264888 Score: 83
Period size: 13 Copynumber: 4.9 Consensus size: 13
24264815 TGTTTGGCAA
24264825 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
24264838 TACTTTTAAAAAG
1 TGCTTTTGAAAAG
* *
24264851 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
24264864 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
24264877 TGCTTTTGAAAA
1 TGCTTTTGAAAA
24264889 TTTTAGATGT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:24266652 original size:72 final size:72
Alignment explanation
Indices: 24266529--24266708 Score: 270
Period size: 72 Copynumber: 2.5 Consensus size: 72
24266519 AACTTTTGCA
* * * * * *
24266529 CAAAGACCAAACATAAACAGCTATTAATAAAAGTAGATTACATATACATAAGTAGAACATAAATT
1 CAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATT
*
24266594 CAATATT
66 CAATATC
* *
24266601 CAAAAACCAAACATAAACAACCATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAGTT
1 CAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATT
24266666 CAATATC
66 CAATATC
*
24266673 CAAAAACCAAACATAAATAACTATTGATAAAACTAG
1 CAAAAACCAAACATAAACAACTATTGATAAAACTAG
24266709 TTTAGCATTT
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 97 1.00
ACGTcount: A:0.54, C:0.16, G:0.07, T:0.22
Consensus pattern (72 bp):
CAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATT
CAATATC
Found at i:24267156 original size:18 final size:18
Alignment explanation
Indices: 24267135--24267182 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
24267125 TCCACCAATT
*
24267135 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
24267153 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
*
24267171 TCAACATCATTT
1 TGAACATCATTT
24267183 CTCACATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:24270032 original size:52 final size:52
Alignment explanation
Indices: 24269931--24270034 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 52
24269921 CTGTAAGACA
*
24269931 TTTTCCATCTCCTCTTCATCCAGGTAAGCCTTTTTCTTCTTGCGTTCTTCAACT
1 TTTTCCATCTCCTCTTCATCCAGGTAAG-C-TCTTCTTCTTGCGTTCTTCAACT
* *
24269985 TTTTCCATCTCCTTCTTTATCCAGGTAAG-TCTTCTTCTTTCGTTCTTCAA
1 TTTTCCATCTCC-TCTTCATCCAGGTAAGCTCTTCTTCTTGCGTTCTTCAA
24270035 ATATCTTCCC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
52 19 0.41
54 12 0.26
55 15 0.33
ACGTcount: A:0.13, C:0.30, G:0.09, T:0.48
Consensus pattern (52 bp):
TTTTCCATCTCCTCTTCATCCAGGTAAGCTCTTCTTCTTGCGTTCTTCAACT
Found at i:24273087 original size:15 final size:15
Alignment explanation
Indices: 24273063--24273117 Score: 83
Period size: 15 Copynumber: 3.7 Consensus size: 15
24273053 ACTCCATTCC
* *
24273063 CTTTACTCATGGTAA
1 CTTTAGTCATAGTAA
*
24273078 CTTTAATCATAGTAA
1 CTTTAGTCATAGTAA
24273093 CTTTAGTCATAGTAA
1 CTTTAGTCATAGTAA
24273108 CTTTAGTCAT
1 CTTTAGTCAT
24273118 TGCTTGAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (15 bp):
CTTTAGTCATAGTAA
Found at i:24275001 original size:25 final size:25
Alignment explanation
Indices: 24274973--24275081 Score: 88
Period size: 25 Copynumber: 4.6 Consensus size: 25
24274963 AGGTGTATAC
*
24274973 ATAGTATTAAAAATATGTACATAAT
1 ATAGTATTAAAAATATATACATAAT
* *
24274998 ATAGCATTAAAAATATATACATAAG
1 ATAGTATTAAAAATATATACATAAT
* *
24275023 ATAATATGT--AAA-A-AT--GTAAT
1 ATAGTAT-TAAAAATATATACATAAT
* *
24275043 ATAGTATTAGAAATATATACATGAT
1 ATAGTATTAAAAATATATACATAAT
*
24275068 ATA-TATAAAAAATA
1 ATAGTATTAAAAATA
24275082 CAATATTAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
19 1 0.02
20 9 0.14
21 3 0.05
22 3 0.05
23 3 0.05
24 12 0.18
25 33 0.51
26 1 0.02
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (25 bp):
ATAGTATTAAAAATATATACATAAT
Found at i:24275064 original size:70 final size:69
Alignment explanation
Indices: 24274915--24275070 Score: 167
Period size: 70 Copynumber: 2.2 Consensus size: 69
24274905 ATGATATATG
* * *
24274915 AATATATACATATAT-GTATTAAAATATATACGTAATAATAGGAATAAAAGGTGTATACATAGTA
1 AATATATACATATATAGCATTAAAATATATACATAATAATAGG-ATAAAAGATGTATACATAGTA
24274979 TTAAA
65 TTAAA
* * *
24274984 AATATGTACATAATATAGCATTAAAAATATATACATAAGATAATATG-TAAAA-ATGTA-ATATA
1 AATATATACAT-ATATAGCATT-AAAATATATACAT-A-ATAATAGGATAAAAGATGTATACATA
*
24275046 GTATTAGA
62 GTATTAAA
24275054 AATATATACATGATATA
1 AATATATACAT-ATATA
24275071 TATAAAAAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
69 10 0.14
70 30 0.41
71 8 0.11
72 17 0.23
73 1 0.01
74 7 0.10
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.33
Consensus pattern (69 bp):
AATATATACATATATAGCATTAAAATATATACATAATAATAGGATAAAAGATGTATACATAGTAT
TAAA
Found at i:24275080 original size:43 final size:44
Alignment explanation
Indices: 24274994--24275080 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 44
24274984 AATATGTACA
*
24274994 TAATATAGCATTAAAAATATATACATAAGATAATATGTAAAAATG
1 TAATATAGCATTAAAAATATATACAT-AGATAATATGAAAAAATG
* *
24275039 TAATATAGTATTAGAAATATATACAT-GATATATAT-AAAAAAT
1 TAATATAGCATTAAAAATATATACATAGATA-ATATGAAAAAAT
24275081 ACAATATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 10 0.26
44 4 0.11
45 24 0.63
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.33
Consensus pattern (44 bp):
TAATATAGCATTAAAAATATATACATAGATAATATGAAAAAATG
Found at i:24276584 original size:30 final size:29
Alignment explanation
Indices: 24276543--24276688 Score: 143
Period size: 30 Copynumber: 4.9 Consensus size: 29
24276533 TGTAATTTTT
* *
24276543 AAAAA-TTTAGGGTCAAATTGTAATTTAA
1 AAAAAGTTTAGGGTCAAAATGAAATTTAA
* *
24276571 AAGAAAGTTTAGGGGTCGAAGTGAAATTTAA
1 AA-AAAGTTTA-GGGTCAAAATGAAATTTAA
* *
24276602 ATAAAGTTTAGGGGTCAAAATGAAATTTAG
1 AAAAAGTTTA-GGGTCAAAATGAAATTTAA
* * *
24276632 AAAAATTTTAGGTGTCAAAATGCAATTTAC
1 AAAAAGTTTAGG-GTCAAAATGAAATTTAA
*
24276662 AAAAAGTTTAAGGGTC-AAATGCAATTT
1 AAAAAGTTT-AGGGTCAAAATGAAATTT
24276689 TTTCATTTTT
Statistics
Matches: 101, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.02
29 16 0.16
30 63 0.62
31 20 0.20
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.31
Consensus pattern (29 bp):
AAAAAGTTTAGGGTCAAAATGAAATTTAA
Found at i:24277166 original size:78 final size:78
Alignment explanation
Indices: 24276879--24277353 Score: 465
Period size: 78 Copynumber: 6.0 Consensus size: 78
24276869 TTATTCTTTA
* * * * * * * *
24276879 TTGAAAAACAAAAAATTG-GAAATAGCTCGGGATGCGACCCGAAGTTCAACTCACCTCTCGGATT
1 TTGAAAAAC-AAAAATTGAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*
24276943 ATGAGTTGA--TCT
65 ATGAGTTGATTTTT
* * * *
24276955 TTGAAAAAGCAAAAAATTG-AAAATACCTCAGCGTGTGACCTGAGGCTTAACTCACCTCTCGCAA
1 TTGAAAAA-C-AAAAATTGAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
24277019 TATGAGTTGATTGTTTTTTTT
64 TATGAGTTGA------TTTTT
* * *
24277040 TTGAAAAACAAAAATTGAAAAATACTTCGGTATGTGACCCGAGGCTCAACTCACCTCTCACAATA
1 TTGAAAAACAAAAATTGAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
24277105 TGAGTTGATTTTT
66 TGAGTTGATTTTT
** * * * * * ** *
24277118 TTGAAAGGCAAAAATTGAAAAAAACTTCAGCATGTGATCCGAGCCTCAACTCGTCTCTCGTAATA
1 TTGAAAAACAAAAATTGAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
**
24277183 TGAGTT-AAGTTT
66 TGAGTTGATTTTT
* * * * * * * *
24277195 TTGAAAGACAGAAATTGAAAAATACCTCGGCATGTAACCCTAGCCTTAACTCACCTTTCGTAATA
1 TTGAAAAACAAAAATTGAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
24277260 TGAGTTGATTTTT
66 TGAGTTGATTTTT
* * ** *
24277273 TTGAAAAATAGAAATTGAAAAATACCTCGGTGTGTGACCCAAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAAAAATTGAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
24277338 TGAGTTGATTTTT
66 TGAGTTGATTTTT
24277351 TTG
1 TTG
24277354 TTTTGGAAAA
Statistics
Matches: 331, Mismatches: 57, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
76 8 0.02
77 116 0.35
78 140 0.42
83 8 0.02
84 49 0.15
85 10 0.03
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (78 bp):
TTGAAAAACAAAAATTGAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTT
Found at i:24277351 original size:155 final size:155
Alignment explanation
Indices: 24276879--24277351 Score: 452
Period size: 155 Copynumber: 3.0 Consensus size: 155
24276869 TTATTCTTTA
* * * ** * ** *
24276879 TTGAAAAACAAAAAATTG-GAAATAGCTCGGGATGCGACCCGAAG-TTCAACTCACCTCTCGGAT
1 TTGAAAAAC-AAAAATTGAAAAATACCTCGGCATGTAACCCG-AGCCTCAACTCACCTCTCACAA
* * *
24276942 TATGAGTTGA--TCTTTGAAAAAGCAAAAAATTG-AAAATACCTCAGCGTGTGACCTGAGGCTTA
64 TATGAGTTGATTTTTTTGAAAAA-C-AAAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCA
24277004 ACTCACCTCTCGCAATATGAGTTGATTGTTTTTTTT
127 ACTCACCTCTCGCAATATGAGTTGA-------TTTT
* * * *
24277040 TTGAAAAACAAAAATTGAAAAATACTTCGGTATGTGACCCGAGGCTCAACTCACCTCTCACAATA
1 TTGAAAAACAAAAATTGAAAAATACCTCGGCATGTAACCCGAGCCTCAACTCACCTCTCACAATA
** * * * * *
24277105 TGAGTTGATTTTTTTGAAAGGCAAAAATTGAAAAAAACTTCAGCATGTGATCCGAGCCTCAACTC
66 TGAGTTGATTTTTTTGAAAAACAAAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTC
** * * *
24277170 GTCTCTCGTAATATGAGTTAAGTTT
131 ACCTCTCGCAATATGAGTTGATTTT
* * * * * **
24277195 TTGAAAGACAGAAATTGAAAAATACCTCGGCATGTAACCCTAGCCTTAACTCACCTTTCGTAATA
1 TTGAAAAACAAAAATTGAAAAATACCTCGGCATGTAACCCGAGCCTCAACTCACCTCTCACAATA
* * * * *
24277260 TGAGTTGATTTTTTTGAAAAATAGAAATTGAAAAATACCTCGGTGTGTGACCCAAGGCTCAACTC
66 TGAGTTGATTTTTTTGAAAAACAAAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTC
24277325 ACCTCTCGCAATATGAGTTGATTTT
131 ACCTCTCGCAATATGAGTTGATTTT
24277350 TT
1 TT
24277352 TGTTTTGGAA
Statistics
Matches: 255, Mismatches: 52, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
155 132 0.52
160 10 0.04
161 60 0.24
162 45 0.18
163 8 0.03
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (155 bp):
TTGAAAAACAAAAATTGAAAAATACCTCGGCATGTAACCCGAGCCTCAACTCACCTCTCACAATA
TGAGTTGATTTTTTTGAAAAACAAAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTC
ACCTCTCGCAATATGAGTTGATTTT
Found at i:24285802 original size:22 final size:22
Alignment explanation
Indices: 24285771--24285815 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
24285761 ATGCAATGAA
*
24285771 TGAATGAATGACAAATGAATGT
1 TGAATAAATGACAAATGAATGT
*
24285793 TGAATAAATGACGAATGAATGT
1 TGAATAAATGACAAATGAATGT
24285815 T
1 T
24285816 AGTCGTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.29
Consensus pattern (22 bp):
TGAATAAATGACAAATGAATGT
Found at i:24289746 original size:25 final size:25
Alignment explanation
Indices: 24289718--24289903 Score: 88
Period size: 25 Copynumber: 8.1 Consensus size: 25
24289708 AGGTGTATAC
*
24289718 ATAGTATTAAAAATATGTACATAAT
1 ATAGTATTAAAAATATATACATAAT
* *
24289743 ATAGCATTAAAAATATATACATAAG
1 ATAGTATTAAAAATATATACATAAT
* *
24289768 ATAATATGT--AAA-A-AT--GTAAT
1 ATAGTAT-TAAAAATATATACATAAT
* *
24289788 ATAGTATTAGAAATATATACATTAT
1 ATAGTATTAAAAATATATACATAAT
24289813 ATA-TA-T-AAAA-A-ATAC--AAT
1 ATAGTATTAAAAATATATACATAAT
* * *
24289831 AT--TA-AAAAGATATACATACGTAAT
1 ATAGTATTAAA-A-ATATATACATAAT
*
24289855 ATA-TA--AAAAATGTATACATAAT
1 ATAGTATTAAAAATATATACATAAT
* *
24289877 ATAGTATT-AAAATATTTACATAGT
1 ATAGTATTAAAAATATATACATAAT
24289901 ATA
1 ATA
24289904 TACATATTAG
Statistics
Matches: 124, Mismatches: 19, Indels: 37
0.69 0.11 0.21
Matches are distributed among these distances:
17 2 0.02
18 6 0.05
19 2 0.02
20 14 0.11
21 5 0.04
22 23 0.19
23 7 0.06
24 29 0.23
25 35 0.28
26 1 0.01
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (25 bp):
ATAGTATTAAAAATATATACATAAT
Found at i:24289809 original size:70 final size:69
Alignment explanation
Indices: 24289660--24289815 Score: 167
Period size: 70 Copynumber: 2.2 Consensus size: 69
24289650 ATGATATCTG
* * *
24289660 AATATATACATATAT-GTATTAAAATATATACGTAATAATAGGAATAAAAGGTGTATACATAGTA
1 AATATATACATATATAGCATTAAAATATATACATAATAATAGG-ATAAAAGATGTATACATAGTA
24289724 TTAAA
65 TTAAA
* * *
24289729 AATATGTACATAATATAGCATTAAAAATATATACATAAGATAATATG-TAAAA-ATGTA-ATATA
1 AATATATACAT-ATATAGCATT-AAAATATATACAT-A-ATAATAGGATAAAAGATGTATACATA
*
24289791 GTATTAGA
62 GTATTAAA
24289799 AATATATACATTATATA
1 AATATATACA-TATATA
24289816 TATAAAAAAT
Statistics
Matches: 73, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
69 10 0.14
70 29 0.40
71 9 0.12
72 17 0.23
73 1 0.01
74 7 0.10
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.34
Consensus pattern (69 bp):
AATATATACATATATAGCATTAAAATATATACATAATAATAGGATAAAAGATGTATACATAGTAT
TAAA
Found at i:24289993 original size:23 final size:24
Alignment explanation
Indices: 24289967--24290011 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
24289957 TATATATATT
24289967 AAAAATAAATACAT-AATAAAATC
1 AAAAATAAATACATAAATAAAATC
* **
24289990 AAAAGTATGTACATAAATAAAA
1 AAAAATAAATACATAAATAAAA
24290012 ATAACATAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (24 bp):
AAAAATAAATACATAAATAAAATC
Found at i:24290259 original size:24 final size:24
Alignment explanation
Indices: 24290232--24290286 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
24290222 TTAAAAATAT
* *
24290232 ATATATACATGATATA-TATATGAA
1 ATATATACATAATATAGT-TATAAA
**
24290256 ATATGCACATAATATAGTTATAAA
1 ATATATACATAATATAGTTATAAA
24290280 ATATATA
1 ATATATA
24290287 TATATTAAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.36
Consensus pattern (24 bp):
ATATATACATAATATAGTTATAAA
Found at i:24290633 original size:37 final size:37
Alignment explanation
Indices: 24290587--24290666 Score: 106
Period size: 37 Copynumber: 2.2 Consensus size: 37
24290577 AACCAACCCC
** *
24290587 AACCCACTAACTTAATAATCCAAGCCCAACATAAACT
1 AACCCACTAACTTAATAATCCAAAACCAACACAAACT
* * *
24290624 AACCTACTAACTTAATATTTCAAAACCAACACAAACT
1 AACCCACTAACTTAATAATCCAAAACCAACACAAACT
24290661 AACCCA
1 AACCCA
24290667 TCTCACTAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.20
Consensus pattern (37 bp):
AACCCACTAACTTAATAATCCAAAACCAACACAAACT
Found at i:24290848 original size:37 final size:37
Alignment explanation
Indices: 24290771--24290890 Score: 100
Period size: 37 Copynumber: 3.2 Consensus size: 37
24290761 CCTCCCTCTC
* * * * * **
24290771 ACCCACTAACTTAATAATCCAAGCCCAACATAGACCA
1 ACCCACTAACTTAATATTTCAAACCCAACACAAATTA
24290808 ACCCACTAACTTAATATTTCAAACCCAACACAAATTA
1 ACCCACTAACTTAATATTTCAAACCCAACACAAATTA
* *
24290845 ACCCATCTCACTAACTTAACATTTC--ACCAAACACAAATTA
1 A--C--C-CACTAACTTAATATTTCAAACCCAACACAAATTA
24290885 ACCCAC
1 ACCCAC
24290891 AACAAACAAG
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
35 3 0.04
36 1 0.01
37 31 0.45
38 1 0.01
39 1 0.01
40 15 0.22
41 1 0.01
42 16 0.23
ACGTcount: A:0.43, C:0.34, G:0.02, T:0.21
Consensus pattern (37 bp):
ACCCACTAACTTAATATTTCAAACCCAACACAAATTA
Found at i:24290889 original size:40 final size:41
Alignment explanation
Indices: 24290811--24290889 Score: 124
Period size: 40 Copynumber: 1.9 Consensus size: 41
24290801 TAGACCAACC
* *
24290811 CACTAACTTAATATTTCAAACCCAACACAAATTAACCCATCT
1 CACTAACTTAACATTTC-AACCAAACACAAATTAACCCATCT
24290853 CACTAACTTAACATTTC-ACCAAACACAAATTAACCCA
1 CACTAACTTAACATTTCAACCAAACACAAATTAACCCA
24290890 CAACAAACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 19 0.54
42 16 0.46
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (41 bp):
CACTAACTTAACATTTCAACCAAACACAAATTAACCCATCT
Found at i:24290896 original size:183 final size:183
Alignment explanation
Indices: 24290588--24290952 Score: 640
Period size: 183 Copynumber: 2.0 Consensus size: 183
24290578 ACCAACCCCA
* *
24290588 ACCCACTAACTTAATAATCCAAGCCCAACATAAACTAACCTACTAACTTAATATTTCAAAACCAA
1 ACCCACTAACTTAATAATCCAAGCCCAACATAAACCAACCCACTAACTTAATATTTCAAAACCAA
*
24290653 CACAAACTAACCCATCTCACTAACTTAACATTTCACTAAACACAAATTAACCCACAACAAACAAG
66 CACAAACTAACCCATCTCACTAACTTAACATTTCACCAAACACAAATTAACCCACAACAAACAAG
* *
24290718 TTCCAGCAGCAAAAAAAGAAAATCCAAACTTCAAGCCATCGATCCTCCCTCTC
131 TTCCAGCAGCAAAAAAAGAAAATCCAAAATTCAAGCCACCGATCCTCCCTCTC
* *
24290771 ACCCACTAACTTAATAATCCAAGCCCAACATAGACCAACCCACTAACTTAATATTTCAAACCCAA
1 ACCCACTAACTTAATAATCCAAGCCCAACATAAACCAACCCACTAACTTAATATTTCAAAACCAA
*
24290836 CACAAATTAACCCATCTCACTAACTTAACATTTCACCAAACACAAATTAACCCACAACAAACAAG
66 CACAAACTAACCCATCTCACTAACTTAACATTTCACCAAACACAAATTAACCCACAACAAACAAG
**
24290901 TTCCAGCAGCAAAAAAAGAAAATCCAAAATTCAAGCTGCCGATCCTCCCTCT
131 TTCCAGCAGCAAAAAAAGAAAATCCAAAATTCAAGCCACCGATCCTCCCTCT
24290953 TTTTTGACCA
Statistics
Matches: 172, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
183 172 1.00
ACGTcount: A:0.44, C:0.32, G:0.04, T:0.20
Consensus pattern (183 bp):
ACCCACTAACTTAATAATCCAAGCCCAACATAAACCAACCCACTAACTTAATATTTCAAAACCAA
CACAAACTAACCCATCTCACTAACTTAACATTTCACCAAACACAAATTAACCCACAACAAACAAG
TTCCAGCAGCAAAAAAAGAAAATCCAAAATTCAAGCCACCGATCCTCCCTCTC
Found at i:24291506 original size:30 final size:30
Alignment explanation
Indices: 24291456--24291596 Score: 96
Period size: 30 Copynumber: 4.7 Consensus size: 30
24291446 TTTTTAAAAA
* *
24291456 TTTAG-GGTCAAATTGTAATTTAAAGAAAG
1 TTTAGAGGTCAAAATGAAATTTAAAGAAAG
** * *
24291485 TTTAGAGGTTGAAGTGAAATTTAAATAAAG
1 TTTAGAGGTCAAAATGAAATTTAAAGAAAG
* *
24291515 TTTAGGGGTCAAAATGAAATTT-AGGAAAGG
1 TTTAGAGGTCAAAATGAAATTTAAAGAAA-G
* *
24291545 TTTAG-GTGTCAGAAT-ACAATTT-ACGAAAAG
1 TTTAGAG-GTCAAAATGA-AATTTAAAG-AAAG
*
24291575 TTTA-AGGGTCAAAATGCAATTT
1 TTTAGA-GGTCAAAATGAAATTT
24291597 TTTTATTTTT
Statistics
Matches: 89, Mismatches: 15, Indels: 15
0.75 0.13 0.13
Matches are distributed among these distances:
29 11 0.12
30 74 0.83
31 4 0.04
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.32
Consensus pattern (30 bp):
TTTAGAGGTCAAAATGAAATTTAAAGAAAG
Found at i:24292263 original size:27 final size:27
Alignment explanation
Indices: 24292233--24292305 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
24292223 TGTCTTGAAT
24292233 TTGTTAGATATTGATTATGTTTCAAGC
1 TTGTTAGATATTGATTATGTTTCAAGC
*
24292260 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTCAAGC
*
24292292 TTGTTGGATATTGA
1 TTGTTAGATATTGA
24292306 AATGATTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 14 0.36
32 25 0.64
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTCAAGC
Found at i:24292285 original size:32 final size:32
Alignment explanation
Indices: 24292246--24292306 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
24292236 TTAGATATTG
24292246 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
* *
24292278 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTCAAGCTTGTTAGATATTGAA
24292307 ATGATTGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.49
Consensus pattern (32 bp):
ATTATGTTTCAAGCTTGTTAGATATTGAATTT
Found at i:24293025 original size:34 final size:34
Alignment explanation
Indices: 24292982--24293050 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
24292972 AAATGCTCAA
24292982 GAAAGTTTCGTTGATGAACAAATTAAATTTGTGG
1 GAAAGTTTCGTTGATGAACAAATTAAATTTGTGG
24293016 GAAAGTTTCGTTGATGAACAAATTAAATTTGTGG
1 GAAAGTTTCGTTGATGAACAAATTAAATTTGTGG
24293050 G
1 G
24293051 TGAACAACTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.35
Consensus pattern (34 bp):
GAAAGTTTCGTTGATGAACAAATTAAATTTGTGG
Found at i:24293359 original size:22 final size:22
Alignment explanation
Indices: 24293291--24293379 Score: 92
Period size: 22 Copynumber: 4.0 Consensus size: 22
24293281 GATACTTTTA
24293291 ATGTGGTGTAATATTAGTTATGC
1 ATGTGGTGTAATATTAGTTAT-C
** *
24293314 ACT-TGG-ACAATATTGTTGTTATC
1 A-TGTGGTGTAATA-T-TAGTTATC
24293337 ATGTGGTGTAATATTAGTTATC
1 ATGTGGTGTAATATTAGTTATC
*
24293359 ATATGGTGTAATATTAGTTAT
1 ATGTGGTGTAATATTAGTTAT
24293380 GCACTTGGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
22 32 0.59
23 11 0.20
24 11 0.20
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (22 bp):
ATGTGGTGTAATATTAGTTATC
Found at i:24293439 original size:68 final size:68
Alignment explanation
Indices: 24293294--24293442 Score: 210
Period size: 68 Copynumber: 2.2 Consensus size: 68
24293284 ACTTTTAATG
* * *
24293294 TGGTGTAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATATTAGTTATC
1 TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTATC
24293359 ATA
66 ATA
* * *
24293362 TGGTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTTATCATGTGGTGTAATACTAATTATG
1 TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTAT-
* *
24293427 TATT
65 CATA
24293431 TGG-ATAATATTA
1 TGGTATAATATTA
24293443 TTAATTTCTA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
68 68 0.93
69 5 0.07
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (68 bp):
TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTATC
ATA
Found at i:24293868 original size:14 final size:14
Alignment explanation
Indices: 24293831--24293861 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24293821 CCAGAAAAGT
24293831 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
24293845 AAATCATTTTCCGG
1 AAATCATTTTCCAG
24293859 AAA
1 AAA
24293862 ATATTTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:24294378 original size:11 final size:12
Alignment explanation
Indices: 24294354--24294409 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
24294344 ATCAATTTCA
24294354 ATTAAATAAATT
1 ATTAAATAAATT
24294366 ATTAAAT-AATT
1 ATTAAATAAATT
* *
24294377 ATAAAATTTAAAGT
1 ATTAAA--TAAATT
*
24294391 ATTAAAAAAATT
1 ATTAAATAAATT
*
24294403 ATAAAAT
1 ATTAAAT
24294410 TTAGTTCAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
11 9 0.26
12 16 0.47
13 1 0.03
14 8 0.24
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (12 bp):
ATTAAATAAATT
Found at i:24294409 original size:26 final size:25
Alignment explanation
Indices: 24294360--24294412 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
24294350 TTCAATTAAA
* *
24294360 TAAATTATTAAATAATTATAAAATT
1 TAAAGTATTAAAAAATTATAAAATT
24294385 TAAAGTATTAAAAAAATTATAAAATT
1 TAAAGTATT-AAAAAATTATAAAATT
24294411 TA
1 TA
24294413 GTTCAATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
TAAAGTATTAAAAAATTATAAAATT
Found at i:24295514 original size:30 final size:30
Alignment explanation
Indices: 24295478--24295540 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
24295468 ACTTAATAAG
24295478 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
24295508 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
24295538 CAA
1 CAA
24295541 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:24295966 original size:10 final size:9
Alignment explanation
Indices: 24295951--24296101 Score: 57
Period size: 9 Copynumber: 16.8 Consensus size: 9
24295941 AGATTATTAT
24295951 TATAAATATA
1 TATAAA-ATA
24295961 TATAAAATA
1 TATAAAATA
**
24295970 T-TAATTTA
1 TATAAAATA
24295978 TA-AAAATA
1 TATAAAATA
*
24295986 GA-AAAATA
1 TATAAAATA
*
24295994 TATACAAT-
1 TATAAAATA
*
24296002 TA-AAAAAA
1 TATAAAATA
24296010 TATAAAA-A
1 TATAAAATA
*
24296018 GCGTATAATAT-
1 ---TATAAAATA
*
24296029 TTTGAAAAATA
1 TAT-A-AAATA
*
24296040 TATAAAAATC
1 TAT-AAAATA
**
24296050 TATAATCTA
1 TATAAAATA
*
24296059 TATAAAATTT
1 TATAAAA-TA
24296069 TATAAAAT-
1 TATAAAATA
24296077 TATAAAATA
1 TATAAAATA
* *
24296086 AATAAAAAA
1 TATAAAATA
24296095 TATAAAA
1 TATAAAA
24296102 GAACTAAAAA
Statistics
Matches: 104, Mismatches: 24, Indels: 27
0.67 0.15 0.17
Matches are distributed among these distances:
7 3 0.03
8 33 0.32
9 35 0.34
10 24 0.23
11 9 0.09
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (9 bp):
TATAAAATA
Found at i:24296065 original size:29 final size:29
Alignment explanation
Indices: 24296002--24296101 Score: 82
Period size: 30 Copynumber: 3.5 Consensus size: 29
24295992 TATATACAAT
* * *
24296002 TAAAAAAATATAAAAAGCGTATAATAT-TT
1 TAAAAATATATAAAAATC-TATAATATATA
*
24296031 TGAAAAATATATAAAAATCTATAATCTATA
1 T-AAAAATATATAAAAATCTATAATATATA
* * * *
24296061 TAAAATTTTAT-AAAAT-TATAAAATAAA
1 TAAAAATATATAAAAATCTATAATATATA
24296088 TAAAAA-ATATAAAA
1 TAAAAATATATAAAA
24296102 GAACTAAAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
26 3 0.05
27 16 0.28
28 5 0.09
29 16 0.28
30 17 0.30
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (29 bp):
TAAAAATATATAAAAATCTATAATATATA
Found at i:24296093 original size:18 final size:18
Alignment explanation
Indices: 24296072--24296111 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
24296062 AAAATTTTAT
* *
24296072 AAAATTATAAAATAAATA
1 AAAAATATAAAAGAAATA
*
24296090 AAAAATATAAAAGAACTA
1 AAAAATATAAAAGAAATA
24296108 AAAA
1 AAAA
24296112 GCACATCAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (18 bp):
AAAAATATAAAAGAAATA
Found at i:24296251 original size:23 final size:23
Alignment explanation
Indices: 24296197--24296252 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
24296187 TCTTAATGTG
**
24296197 ATTTTTTATATTTTTATTAATTTA
1 ATTTTTT-TATTTTTATTAAAATA
*
24296221 ATTATTTTATTTTT-TTAAAATA
1 ATTTTTTTATTTTTATTAAAATA
24296243 TATTTTTTTA
1 -ATTTTTTTA
24296253 ATTTCAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 6 0.22
23 15 0.56
24 6 0.22
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
ATTTTTTTATTTTTATTAAAATA
Found at i:24299422 original size:28 final size:27
Alignment explanation
Indices: 24299391--24299464 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 27
24299381 AATTTATATA
24299391 TTTATAATTTTAAAAATTAAATTAAATT
1 TTTATAATTTTAAAAATT-AATTAAATT
* ** **
24299419 TTTAATATTTTTAAATGTTAATTTTATT
1 TTT-ATAATTTTAAAAATTAATTAAATT
24299447 TTTATTAA-TTTAAAAATT
1 TTTA-TAATTTTAAAAATT
24299465 TTCCATTTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
27 9 0.25
28 15 0.42
29 12 0.33
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (27 bp):
TTTATAATTTTAAAAATTAATTAAATT
Found at i:24299463 original size:29 final size:27
Alignment explanation
Indices: 24299380--24299465 Score: 66
Period size: 28 Copynumber: 3.0 Consensus size: 27
24299370 ATAATTTTAA
*
24299380 TAATTTATATATTTATAATTTTAAAAATT
1 TAATTT-TATTTTTATAA-TTTAAAAATT
* ** **
24299409 AAATTAAATTTTTA-ATATTTTTAAATGT
1 TAATTTTATTTTTATA-ATTTAAAAAT-T
24299437 TAATTTTATTTTTATTAATTTAAAAATT
1 TAATTTTATTTTTA-TAATTTAAAAATT
24299465 T
1 T
24299466 TCCATTTTAG
Statistics
Matches: 42, Mismatches: 11, Indels: 9
0.68 0.18 0.15
Matches are distributed among these distances:
27 8 0.19
28 21 0.50
29 12 0.29
30 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (27 bp):
TAATTTTATTTTTATAATTTAAAAATT
Found at i:24305983 original size:25 final size:25
Alignment explanation
Indices: 24305797--24305983 Score: 85
Period size: 25 Copynumber: 7.5 Consensus size: 25
24305787 CCCATATGAA
* **
24305797 CATATAATCGGGAAGCTCTTCTGAGC
1 CATATAA-CGGGAAGCTCATGAGAGC
* * * *
24305823 TATGTAATGGGAAGCTCATGTGAGC
1 CATATAACGGGAAGCTCATGAGAGC
** * * *
24305848 TGTATGACGGGAAGCTCTTGCGAGC
1 CATATAACGGGAAGCTCATGAGAGC
* * * *
24305873 TA-ATTATCAGAAAGCTCAT-ACGAGC
1 CATA-TAACGGGAAGCTCATGA-GAGC
* ** *
24305898 CATA-AATGTAAAGCTCAAGAGAGC
1 CATATAACGGGAAGCTCATGAGAGC
* *
24305922 CAT-TAATCGAGAAGCTTATGAGAGC
1 CATATAA-CGGGAAGCTCATGAGAGC
* **
24305947 CAAATATTGGGAAGCTCATGAGAGC
1 CATATAACGGGAAGCTCATGAGAGC
24305972 CATATAACGGGA
1 CATATAACGGGA
24305984 TGTTTATAAG
Statistics
Matches: 117, Mismatches: 37, Indels: 15
0.69 0.22 0.09
Matches are distributed among these distances:
24 19 0.16
25 90 0.77
26 8 0.07
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.23
Consensus pattern (25 bp):
CATATAACGGGAAGCTCATGAGAGC
Found at i:24305995 original size:25 final size:25
Alignment explanation
Indices: 24305975--24306033 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
24305965 TGAGAGCCAT
*
24305975 ATAACGGGATGTTTATAAGAGCTAA
1 ATAACGGGATGCTTATAAGAGCTAA
**
24306000 ATAATAGGATGCTTATAAGAGCTAA
1 ATAACGGGATGCTTATAAGAGCTAA
24306025 ATAACGGGA
1 ATAACGGGA
24306034 CGCTCTTGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.25
Consensus pattern (25 bp):
ATAACGGGATGCTTATAAGAGCTAA
Found at i:24305996 original size:50 final size:50
Alignment explanation
Indices: 24305908--24306002 Score: 120
Period size: 50 Copynumber: 1.9 Consensus size: 50
24305898 CATAAATGTA
*
24305908 AAGCTCAAGAGAGCCATTAATCGAGAAGCTTATGAGAGCCAAATATTGGG
1 AAGCTCAAGAGAGCCATTAATCGAGAAGCTTATAAGAGCCAAATATTGGG
* * * * *
24305958 AAGCTCATGAGAGCCATATAA-CGGGATGTTTATAAGAGCTAAATA
1 AAGCTCAAGAGAGCCAT-TAATCGAGAAGCTTATAAGAGCCAAATA
24306003 ATAGGATGCT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 35 0.92
51 3 0.08
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (50 bp):
AAGCTCAAGAGAGCCATTAATCGAGAAGCTTATAAGAGCCAAATATTGGG
Found at i:24310796 original size:11 final size:11
Alignment explanation
Indices: 24310775--24310803 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
24310765 AGCATCTAGC
24310775 TATTTTT-TTT
1 TATTTTTGTTT
24310785 TATTTTTGTTT
1 TATTTTTGTTT
24310796 TATTTTTG
1 TATTTTTG
24310804 AGTTAATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (11 bp):
TATTTTTGTTT
Found at i:24311648 original size:39 final size:39
Alignment explanation
Indices: 24311599--24311679 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
24311589 ACTATGAAAA
24311599 ATGGGTTCTTGTATTGTTTGGAGGGTAGGAGACCAAATG
1 ATGGGTTCTTGTATTGTTTGGAGGGTAGGAGACCAAATG
*
24311638 ATGGGTTCTTGTATTGTTTGGAGGGTTGGAGACCAAATG
1 ATGGGTTCTTGTATTGTTTGGAGGGTAGGAGACCAAATG
24311677 ATG
1 ATG
24311680 TAAGCATAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.22, C:0.07, G:0.36, T:0.35
Consensus pattern (39 bp):
ATGGGTTCTTGTATTGTTTGGAGGGTAGGAGACCAAATG
Found at i:24315210 original size:42 final size:41
Alignment explanation
Indices: 24315133--24315217 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 41
24315123 AAAAAACACT
*
24315133 TTTGGTGAGAAGCTAAAATTTTCGCCTTATCAAAAAAGTAC
1 TTTGGTGAGAAGCTAAAATTTTCACCTTATCAAAAAAGTAC
*
24315174 TTTGGTGAGAAGCTAAAATTTTCATCTTATCAAAAAAGTAC
1 TTTGGTGAGAAGCTAAAATTTTCACCTTATCAAAAAAGTAC
24315215 TTT
1 TTT
24315218 TGGGCCAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.35
Consensus pattern (41 bp):
TTTGGTGAGAAGCTAAAATTTTCACCTTATCAAAAAAGTAC
Done.