Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 206 of 333
Found at i:67316784 original size:6 final size:6
Alignment explanation
Indices: 67316766--67316859 Score: 68
Period size: 6 Copynumber: 15.3 Consensus size: 6
67316756 AAGAAACATT
* *
67316766 ATCAGA A-CTAGA ATCAGA ATCATA ATCAGA ACCAGA ATCAGGTA A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * * *
67316815 ATCAAA ATCAGA ATCAGT ACCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
67316860 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 11, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
5 5 0.07
6 54 0.78
7 7 0.10
8 3 0.04
ACGTcount: A:0.50, C:0.18, G:0.15, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:67316784 original size:24 final size:24
Alignment explanation
Indices: 67316750--67316806 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
67316740 TAACCCATTA
* *
67316750 TAGAATAAGAAACATTATCAGAAC
1 TAGAATCAGAAACATAATCAGAAC
*
67316774 TAGAATCAGAATCATAATCAGAAC
1 TAGAATCAGAAACATAATCAGAAC
*
67316798 CAGAATCAG
1 TAGAATCAG
67316807 GTAACAGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.19
Consensus pattern (24 bp):
TAGAATCAGAAACATAATCAGAAC
Found at i:67316859 original size:31 final size:31
Alignment explanation
Indices: 67316780--67316859 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
67316770 GAACTAGAAT
* * *
67316780 CAGAATCATAATCAGAACCAGAATCAGGTAA
1 CAGAATCAAAATCAGAATCAGAACCAGGTAA
*
67316811 CAGAATCAAAATCAGAATCAGTACCAGGTAA
1 CAGAATCAAAATCAGAATCAGAACCAGGTAA
67316842 CAGAATCAAAATCAGAAT
1 CAGAATCAAAATCAGAAT
67316860 GTGAATGCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.50, C:0.19, G:0.15, T:0.16
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGAACCAGGTAA
Found at i:67317020 original size:27 final size:26
Alignment explanation
Indices: 67316979--67317071 Score: 123
Period size: 27 Copynumber: 3.5 Consensus size: 26
67316969 AGCATGGCTG
* *
67316979 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
67317005 CCAGATACAAATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
67317032 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
67317059 CCAGAAACAGATA
1 CCAG-AACAGATA
67317072 AAGTGGTAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
26 11 0.19
27 40 0.68
28 8 0.14
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:67317077 original size:27 final size:27
Alignment explanation
Indices: 67316979--67317086 Score: 78
Period size: 27 Copynumber: 4.0 Consensus size: 27
67316969 AGCATGGCTG
* * * *
67316979 CCAGAACAGATAT-TGTGACAGAGTCA
1 CCAGAACAGATATAAGTGGCAAAGCCA
* * *
67317005 CCAGATACAAATAT-TGTGGCAGAGCCA
1 CCAGA-ACAGATATAAGTGGCAAAGCCA
** *
67317032 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATAAGTGGCAAAGCCA
*
67317059 CCAGAAACAGATA-AAGTGGTAAAGCCA
1 CCAG-AACAGATATAAGTGGCAAAGCCA
67317086 C
1 C
67317087 TTAACAGAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 12 0.17
27 50 0.71
28 8 0.11
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATATAAGTGGCAAAGCCA
Found at i:67317085 original size:54 final size:53
Alignment explanation
Indices: 67316979--67317086 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 53
67316969 AGCATGGCTG
* * ** *
67316979 CCAGAACAGATATTGTGACAGAGTCACCAGATACAAATATTGTGGCAGAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAAATAAAGTGGCAAAGCCA
* * * *
67317032 CCAGAACAGATATTTGTGGCATAGCCACCAGAAACAGATAAAGTGGTAAAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCACCAGAAACAAATAAAGTGGCAAAGCCA
67317086 C
1 C
67317087 TTAACAGAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 12 0.27
54 33 0.73
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.18
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGAAACAAATAAAGTGGCAAAGCCA
Found at i:67317686 original size:27 final size:27
Alignment explanation
Indices: 67317624--67317686 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
67317614 CAGTCACTTG
*
67317624 CCCACAA-GGGCAAAACAGTCATTTAA
1 CCCACAAGGGGCAAAACAGTAATTTAA
* * *
67317650 CACC-CTAGGGGCAAAATAGTAATTTTA
1 C-CCACAAGGGGCAAAACAGTAATTTAA
67317677 CCCACAAGGG
1 CCCACAAGGG
67317687 TATCTCAGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
26 5 0.17
27 24 0.83
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.17
Consensus pattern (27 bp):
CCCACAAGGGGCAAAACAGTAATTTAA
Found at i:67317914 original size:27 final size:27
Alignment explanation
Indices: 67317668--67317906 Score: 331
Period size: 27 Copynumber: 8.9 Consensus size: 27
67317658 GGGCAAAATA
* * * *
67317668 GTAATTTTACCC-ACAAGGGTATCTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
67317694 GTAATTCTACCCT-CAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
67317720 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
67317747 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
67317774 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
67317801 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * * *
67317828 GTAATTCTATCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
67317855 GT-ATTTTGACCCTACAAGGGTATTTCG
1 GTAATTCT-ACCCTACAGGGGTATTTCG
*
67317882 ATAATTCTACCCTACAGGGGTATTT
1 GTAATTCTACCCTACAGGGGTATTT
67317907 TAATAATTTT
Statistics
Matches: 190, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
26 38 0.20
27 148 0.78
28 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:67317929 original size:27 final size:27
Alignment explanation
Indices: 67317899--67318067 Score: 130
Period size: 27 Copynumber: 6.3 Consensus size: 27
67317889 TACCCTACAG
* * *
67317899 GGGTATTTTAATAATTTTGTAAATCGA
1 GGGTATTTCAGTAATTTTGCAAATCGA
*** * * *
67317926 GGGTAAAAC-GATAATTCTGTAAATCGG
1 GGGTATTTCAG-TAATTTTGCAAATCGA
* * *
67317953 GGGTACTTT-GGTAATTTTACAAGTCGA
1 GGGTA-TTTCAGTAATTTTGCAAATCGA
* *
67317980 GGGTATTTCAGTAATTTTACAAATTGA
1 GGGTATTTCAGTAATTTTGCAAATCGA
*
67318007 GGGTATTTCAGTAATTTTGCAAA-CTAA
1 GGGTATTTCAGTAATTTTGCAAATC-GA
* *
67318034 GGGTATTTCAGTAATTTTACAAATTG-
1 GGGTATTTCAGTAATTTTGCAAATCGA
67318060 GGGTATTT
1 GGGTATTT
67318068 GGGTGATTTA
Statistics
Matches: 112, Mismatches: 24, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
26 11 0.10
27 100 0.89
28 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTGCAAATCGA
Found at i:67318093 original size:27 final size:27
Alignment explanation
Indices: 67318060--67318183 Score: 133
Period size: 27 Copynumber: 4.6 Consensus size: 27
67318050 TTACAAATTG
* *
67318060 GGGTATTTGGGTGATTTAATAAACCAA
1 GGGTATTTTGGTAATTTAATAAACCAA
* * * *
67318087 GGGTATTCTAGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTAATAAACCAA
* **
67318114 AGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTAATAAACCAA
* * *
67318141 GGGTATTTTGGTAATTT-ACAAATCAG
1 GGGTATTTTGGTAATTTAATAAACCAA
67318167 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
67318184 GGTAAACTAA
Statistics
Matches: 81, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
26 22 0.27
27 59 0.73
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTAATAAACCAA
Found at i:67318189 original size:53 final size:53
Alignment explanation
Indices: 67317952--67318190 Score: 230
Period size: 54 Copynumber: 4.5 Consensus size: 53
67317942 CTGTAAATCG
* ** ** * *
67317952 GGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATT
1 GGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTACAAATA
** * * *
67318005 GAGGGTATTTCAGTAATTTTGCAAACTAAGGGTATTTCAGTAATTTTACAAATT
1 G-GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTACAAATA
* * ** *
67318059 GGGGTATTTGGGTGATTTAATAAACCAAGGGTA-TTCTAGTAATTTTACAAACCA
1 GGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTC-AGTAATTTTACAAA-TA
** **
67318113 AAGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAA-TTTACAAATCA
1 GGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTACAAAT-A
*
67318166 GGGGTATTTTGGTAATTTGGTAAAC
1 GGGGTATTTTGGTAATTTTGTAAAC
67318191 TAAAGTATTC
Statistics
Matches: 152, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
52 3 0.02
53 71 0.47
54 76 0.50
55 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (53 bp):
GGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTACAAATA
Found at i:67318190 original size:107 final size:107
Alignment explanation
Indices: 67317979--67318183 Score: 261
Period size: 107 Copynumber: 1.9 Consensus size: 107
67317969 TTACAAGTCG
*** * *
67317979 AGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTGCAAACTAAGGGTATTTCA
1 AGGGTATTTCAGTAATTTTACAAACCAAAGGTATTTCAGTAATTTTGCAAACCAAGGGTATTTCA
* *
67318044 GTAATTTTACAAATTGGGGTATTTGGGTGATTTAATAAACCA
66 GTAATTTTACAAATAGGGGTATTTGGGTAATTTAATAAACCA
** * *
67318086 AGGGTA-TTCTAGTAATTTTACAAACCAAAGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTT
1 AGGGTATTTC-AGTAATTTTACAAACCAAAGGTATTTCAGTAATTTTGCAAACCAAGGGTATTTC
* *
67318150 GGTAA-TTTACAAATCAGGGGTATTTTGGTAATTT
65 AGTAATTTTACAAAT-AGGGGTATTTGGGTAATTT
67318184 GGTAAACTAA
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
106 12 0.14
107 71 0.86
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (107 bp):
AGGGTATTTCAGTAATTTTACAAACCAAAGGTATTTCAGTAATTTTGCAAACCAAGGGTATTTCA
GTAATTTTACAAATAGGGGTATTTGGGTAATTTAATAAACCA
Found at i:67318198 original size:26 final size:25
Alignment explanation
Indices: 67318107--67318199 Score: 78
Period size: 26 Copynumber: 3.5 Consensus size: 25
67318097 GTAATTTTAC
67318107 AAACCAAAGGTATTTTGGTAATTTTGT
1 AAACCAAA-GTATTTTGGTAA-TTTGT
* **
67318134 AAACCAAGGGTATTTTGGTAATTTAC
1 AAACCAA-AGTATTTTGGTAATTTGT
* **
67318160 AAATCAGGGGTATTTTGGTAATTTGGT
1 AAACCA-AAGTATTTTGGTAATTT-GT
*
67318187 AAACTAAAGTATT
1 AAACCAAAGTATT
67318200 CTAAACAGGG
Statistics
Matches: 52, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
26 29 0.56
27 23 0.44
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (25 bp):
AAACCAAAGTATTTTGGTAATTTGT
Found at i:67321243 original size:3 final size:3
Alignment explanation
Indices: 67321231--67321421 Score: 124
Period size: 3 Copynumber: 63.7 Consensus size: 3
67321221 ATAAAACATG
*
67321231 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
67321278 AGA ATA TTA ATA TTA GTA ATA ATA TTA ATG ATA ATA GTA ATA GAAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * *
67321324 ATA A-A A-A AAA ATA GTG ATA GTA ATA A-A AGTA A-A AGTA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA A-TA ATA ATA
* * * *
67321367 ATA ATA ATG GTA ATA ATAA ATA GTA ATA ATA ACA ATA ATA CA-A ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA -ATA ATA
67321413 ATAA ATA AT
1 AT-A ATA AT
67321422 CTAAAGTTGG
Statistics
Matches: 143, Mismatches: 34, Indels: 22
0.72 0.17 0.11
Matches are distributed among these distances:
2 11 0.08
3 119 0.83
4 13 0.09
ACGTcount: A:0.61, C:0.01, G:0.08, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:67321579 original size:3 final size:3
Alignment explanation
Indices: 67321571--67321942 Score: 150
Period size: 3 Copynumber: 123.7 Consensus size: 3
67321561 AAGTAAATAC
* * * *
67321571 AAT AAT AAT AAT AAT AAT AGT AAT AAT -AC AAT AGT AAT AAT AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * ** * *
67321618 AAA AAT AGT AAT AAT AAT -TT ATT AAAT GGT AAA AAT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
* ** * * * * *
67321663 AAC AAT AAT TTT AA- AAA AAT GAT AAT AGT AAT AA- AAT AA- GAT TAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
67321708 AAT AAT AAT ATT AAT AAA AAT AAG AAT AAA AAG GAT AGT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * ** *
67321756 AAT AAT AGT AGT AAT AGT AA- AAGG AAT AAT AAT AGC AAT AAT AAG
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT
** ** * * *
67321801 AGC GTT AAT GAT AGT AAT AAT -AT AAAT AAT AAT -AT ATAT GTAT GAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT A-AT -AAT -AAT
67321848 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
* * * * * * *
67321893 AGT ACT ATT TAT AATT AAT AGT AAT AAT AAAT GAT AGAA AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT -AAT AAT A-AT AAT AAT AAT
67321941 AA
1 AA
67321943 AAACAATTAA
Statistics
Matches: 266, Mismatches: 85, Indels: 36
0.69 0.22 0.09
Matches are distributed among these distances:
2 15 0.06
3 229 0.86
4 22 0.08
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:67321624 original size:29 final size:29
Alignment explanation
Indices: 67321566--67321624 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
67321556 CGTATAAGTA
* **
67321566 AATACAATAATAATAATAATAATAGTAAT
1 AATACAATAATAATAATAATAACAAAAAT
*
67321595 AATACAATAGTAATAATAATAACAAAAAT
1 AATACAATAATAATAATAATAACAAAAAT
67321624 A
1 A
67321625 GTAATAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.27
Consensus pattern (29 bp):
AATACAATAATAATAATAATAACAAAAAT
Found at i:67332770 original size:30 final size:30
Alignment explanation
Indices: 67332734--67332798 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
67332724 ACTTATTTTA
67332734 TTGTTAATTTTGCTATTATTTTAAAGACAT
1 TTGTTAATTTTGCTATTATTTTAAAGACAT
* * *
67332764 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGCTATTATTTTAAAGACAT
67332794 TTGTT
1 TTGTT
67332799 TGTTAAGTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGCTATTATTTTAAAGACAT
Found at i:67336461 original size:13 final size:16
Alignment explanation
Indices: 67336428--67336473 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 16
67336418 AAATGGACTC
67336428 TTTGGACTTATTTATT
1 TTTGGACTTATTTATT
67336444 TTTGGA-TT-TTTATT
1 TTTGGACTTATTTATT
* *
67336458 TTGGGTC-TATTTATT
1 TTTGGACTTATTTATT
67336473 T
1 T
67336474 ACAAATGAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 11 0.42
15 9 0.35
16 6 0.23
ACGTcount: A:0.15, C:0.04, G:0.15, T:0.65
Consensus pattern (16 bp):
TTTGGACTTATTTATT
Found at i:67337616 original size:23 final size:22
Alignment explanation
Indices: 67337590--67337634 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
67337580 ATTAACCTTA
67337590 AATTACATGTATTT-AGATCAGTG
1 AATTACATG-ATTTGA-ATCAGTG
*
67337613 AATTAGATGATTTGAATCAGTG
1 AATTACATGATTTGAATCAGTG
67337635 GATTTGAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.38
Consensus pattern (22 bp):
AATTACATGATTTGAATCAGTG
Found at i:67351395 original size:45 final size:45
Alignment explanation
Indices: 67351307--67351399 Score: 114
Period size: 45 Copynumber: 2.1 Consensus size: 45
67351297 CAGTGTGGTA
* * * *
67351307 GGCCATGTGCGAGGCCGTCTGTGACACACGGTCTAGGCCATTTTG
1 GGCCATGTGCGAGGCCGTCTGGGACACACGGGCAAGGACATTTTG
* * * *
67351352 GGCCATGTGCTAGGCCGTGTGGGCCACACGGGCAAGGATATTTTG
1 GGCCATGTGCGAGGCCGTCTGGGACACACGGGCAAGGACATTTTG
67351397 GGC
1 GGC
67351400 GTATGGGCCC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.16, C:0.25, G:0.37, T:0.23
Consensus pattern (45 bp):
GGCCATGTGCGAGGCCGTCTGGGACACACGGGCAAGGACATTTTG
Found at i:67352269 original size:19 final size:20
Alignment explanation
Indices: 67352228--67352269 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
67352218 GATGGAACGA
67352228 TTTTTATGAAAACAACTATT
1 TTTTTATGAAAACAACTATT
* *
67352248 TTTTTCTGAAATCAACTATT
1 TTTTTATGAAAACAACTATT
67352268 TT
1 TT
67352270 ATAGAAAATA
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:0.33, C:0.12, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTTTATGAAAACAACTATT
Found at i:67359323 original size:20 final size:19
Alignment explanation
Indices: 67359287--67359340 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
67359277 TTATCAAATA
*
67359287 AAAAATATATAATTATATTTT
1 AAAAATA-A-AATTATATCTT
67359308 AAAAATAAAATATATATCTT
1 AAAAATAAAAT-TATATCTT
*
67359328 -AAAATTAAATTAT
1 AAAAATAAAATTAT
67359341 GTTATTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 3 0.10
19 12 0.40
20 8 0.27
21 7 0.23
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAAATAAAATTATATCTT
Found at i:67376835 original size:6 final size:6
Alignment explanation
Indices: 67376817--67376872 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
67376807 CTTTGAGTAC
* **
67376817 TTTTA- TTTTAT TATTAT TACTAT TTTTAT TTTTAT TTTTAT TTTT-T
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
*
67376863 ATTTAT TTTT
1 TTTTAT TTTT
67376873 GAAGACTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
5 9 0.21
6 34 0.79
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:67377130 original size:16 final size:16
Alignment explanation
Indices: 67377082--67377122 Score: 73
Period size: 16 Copynumber: 2.5 Consensus size: 16
67377072 TTTCTTATGA
67377082 TATTATGCTTCTATTGT
1 TATTAT-CTTCTATTGT
67377099 TATTATCTTCTATTGT
1 TATTATCTTCTATTGT
67377115 TATTATCT
1 TATTATCT
67377123 ATCTTTGTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 18 0.75
17 6 0.25
ACGTcount: A:0.20, C:0.12, G:0.07, T:0.61
Consensus pattern (16 bp):
TATTATCTTCTATTGT
Found at i:67378751 original size:30 final size:30
Alignment explanation
Indices: 67378716--67378785 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
67378706 TAAGCATTTT
* **
67378716 CACACGGGTAAACCACATGCCCGTGTGTGA
1 CACACGGGCAAACCACACACCCGTGTGTGA
* ** *
67378746 CACACGAGCAGGCCACGCACCCGTGTGTGA
1 CACACGGGCAAACCACACACCCGTGTGTGA
67378776 CACACGGGCA
1 CACACGGGCA
67378786 GGCCACGCGC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.34, G:0.29, T:0.11
Consensus pattern (30 bp):
CACACGGGCAAACCACACACCCGTGTGTGA
Found at i:67378787 original size:30 final size:30
Alignment explanation
Indices: 67378735--67378803 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
67378725 AAACCACATG
67378735 CCCGTGTGTGACACACGAGCAGGCCACGCA
1 CCCGTGTGTGACACACGAGCAGGCCACGCA
* *
67378765 CCCGTGTGTGACACACGGGCAGGCCACGCG
1 CCCGTGTGTGACACACGAGCAGGCCACGCA
*
67378795 CCCATGTGT
1 CCCGTGTGT
67378804 CATGGCCGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.19, C:0.36, G:0.32, T:0.13
Consensus pattern (30 bp):
CCCGTGTGTGACACACGAGCAGGCCACGCA
Found at i:67381991 original size:29 final size:29
Alignment explanation
Indices: 67381946--67382061 Score: 112
Period size: 29 Copynumber: 4.0 Consensus size: 29
67381936 TACTTGTATC
* *
67381946 TGGCCCATTATGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
67381974 TGGCCCCTTTAGGCCCAAATCACCTGT-ATA
1 TGG-CCCATTAGGCCCAAATCACAT-TCATA
* * *
67382004 TGGCCCATTAGTCCCAAATCAGATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
67382033 TGGGCCATTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
67382061 T
1 T
67382062 TCATGCTCAC
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
28 15 0.21
29 43 0.61
30 12 0.17
31 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:67388514 original size:19 final size:19
Alignment explanation
Indices: 67388490--67388527 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
67388480 TAGATAAAAC
67388490 TTCTAAGTCACAATGAGCG
1 TTCTAAGTCACAATGAGCG
*
67388509 TTCTAAGTCATAATGAGCG
1 TTCTAAGTCACAATGAGCG
67388528 CACAAGGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (19 bp):
TTCTAAGTCACAATGAGCG
Found at i:67394020 original size:12 final size:12
Alignment explanation
Indices: 67394005--67394037 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
67393995 GACGTCACAC
67394005 GGCCGTGTGGTA
1 GGCCGTGTGGTA
*
67394017 GGCCGTATGGTA
1 GGCCGTGTGGTA
67394029 GGCCGTGTG
1 GGCCGTGTG
67394038 CGATGACATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.09, C:0.18, G:0.48, T:0.24
Consensus pattern (12 bp):
GGCCGTGTGGTA
Found at i:67395613 original size:13 final size:13
Alignment explanation
Indices: 67395595--67395619 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67395585 TTGTCATGTT
67395595 ATTTAGTTAATTA
1 ATTTAGTTAATTA
67395608 ATTTAGTTAATT
1 ATTTAGTTAATT
67395620 TTAGTTTTAA
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:0.08, T:0.56
Consensus pattern (13 bp):
ATTTAGTTAATTA
Found at i:67397108 original size:21 final size:21
Alignment explanation
Indices: 67397081--67397144 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
67397071 TAAAAAACAT
67397081 ACACCCATGTGAGGGGGAGAC
1 ACACCCATGTGAGGGGGAGAC
** ** *
67397102 ATGCCCATGTGA-GGAAACAC
1 ACACCCATGTGAGGGGGAGAC
67397122 ACACCCATGTGAGGGGGAGAC
1 ACACCCATGTGAGGGGGAGAC
67397143 AC
1 AC
67397145 GCTAGTGTGA
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.31, C:0.25, G:0.33, T:0.11
Consensus pattern (21 bp):
ACACCCATGTGAGGGGGAGAC
Found at i:67397175 original size:41 final size:41
Alignment explanation
Indices: 67397075--67397163 Score: 135
Period size: 41 Copynumber: 2.2 Consensus size: 41
67397065 TTCAGATAAA
* *
67397075 AAACATACACCCATGTGAGGGGGAGACATGCCCATGTGAGG
1 AAACACACACCCATGTGAGGGGGAGACACGCCCATGTGAGG
*
67397116 AAACACACACCCATGTGAGGGGGAGACACG-CTAGTGTGAGG
1 AAACACACACCCATGTGAGGGGGAGACACGCCCA-TGTGAGG
67397157 AAACACA
1 AAACACA
67397164 TGTCCCTGTG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 2 0.05
41 42 0.95
ACGTcount: A:0.35, C:0.22, G:0.30, T:0.12
Consensus pattern (41 bp):
AAACACACACCCATGTGAGGGGGAGACACGCCCATGTGAGG
Found at i:67397637 original size:43 final size:43
Alignment explanation
Indices: 67397585--67397697 Score: 163
Period size: 43 Copynumber: 2.6 Consensus size: 43
67397575 GAACCGCTCA
* * * *
67397585 TGTGTGGGCACACGCCCTTGTGGTCACCTGTGTGAACCATCCG
1 TGTGCGGGCACACGCCCGTGTGGTCACCTATGTGAACCACCCG
* *
67397628 TGTGCGGGCACATGCCCGTGTGGTCACTTATGTGAACCACCCG
1 TGTGCGGGCACACGCCCGTGTGGTCACCTATGTGAACCACCCG
*
67397671 TGTGCGAGCACACGCCCGTGTGGTCAC
1 TGTGCGGGCACACGCCCGTGTGGTCAC
67397698 AAAACCACCT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (43 bp):
TGTGCGGGCACACGCCCGTGTGGTCACCTATGTGAACCACCCG
Found at i:67398457 original size:20 final size:20
Alignment explanation
Indices: 67398428--67398472 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
67398418 CTATTTTTCA
*
67398428 ATAAATATACATACAAAATT
1 ATAAAAATACATACAAAATT
*
67398448 ATAAAAATACATATAAAATT
1 ATAAAAATACATACAAAATT
67398468 ATAAA
1 ATAAA
67398473 TAAATGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (20 bp):
ATAAAAATACATACAAAATT
Found at i:67401566 original size:18 final size:18
Alignment explanation
Indices: 67401543--67401577 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
67401533 CAATATGAGA
67401543 AATAATATAAAATAAAAT
1 AATAATATAAAATAAAAT
* *
67401561 AATAATTTTAAATAAAA
1 AATAATATAAAATAAAA
67401578 AGTTATTCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AATAATATAAAATAAAAT
Found at i:67403236 original size:11 final size:11
Alignment explanation
Indices: 67403214--67403256 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
67403204 AGGTTATGTT
67403214 TTTCTGTTTTTC
1 TTTCT-TTTTTC
67403226 TTTCTTTTTTC
1 TTTCTTTTTTC
*
67403237 TTT-TTCATTTC
1 TTTCTT-TTTTC
67403248 TTTCTTTTT
1 TTTCTTTTT
67403257 ACTCTTTTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 2 0.07
11 18 0.67
12 7 0.26
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:67403241 original size:18 final size:19
Alignment explanation
Indices: 67403212--67403250 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
67403202 TTAGGTTATG
67403212 TTTTTCTGTTTTTC-TTTCT
1 TTTTTC-GTTTTTCATTTCT
67403231 TTTTTC-TTTTTCATTTCT
1 TTTTTCGTTTTTCATTTCT
67403249 TT
1 TT
67403251 CTTTTTACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 7 0.37
19 6 0.32
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (19 bp):
TTTTTCGTTTTTCATTTCT
Found at i:67403250 original size:22 final size:23
Alignment explanation
Indices: 67403222--67403265 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
67403212 TTTTTCTGTT
*
67403222 TTTCTTTCTTTTTTCT-TTTTCA
1 TTTCTTTCTTTTTACTCTTTTCA
67403244 TTTCTTTCTTTTTACTCTTTTC
1 TTTCTTTCTTTTTACTCTTTTC
67403266 CTTCTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTCTTTCTTTTTACTCTTTTCA
Found at i:67403270 original size:22 final size:22
Alignment explanation
Indices: 67403223--67403272 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
67403213 TTTTCTGTTT
* *
67403223 TTCTTTCTTTTTTCTTTTTCAT
1 TTCTTTCTTTTTACTTTTTCAC
67403245 TTCTTTCTTTTTACTCTTTTC-C
1 TTCTTTCTTTTTACT-TTTTCAC
67403267 TTCTTT
1 TTCTTT
67403273 ATTGTCCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (22 bp):
TTCTTTCTTTTTACTTTTTCAC
Found at i:67410262 original size:26 final size:26
Alignment explanation
Indices: 67410233--67410340 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
67410223 TGATACAAAT
67410233 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
67410259 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
67410285 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
67410311 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
67410337 TGAT
1 TGAT
67410341 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:67413365 original size:26 final size:26
Alignment explanation
Indices: 67413334--67413385 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
67413324 CACATTATCT
67413334 CCTTCCATCCCATTACACCATCTGGG
1 CCTTCCATCCCATTACACCATCTGGG
67413360 CCTTCCATCCCATTACACCATCTGGG
1 CCTTCCATCCCATTACACCATCTGGG
67413386 GTTAAAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.42, G:0.12, T:0.27
Consensus pattern (26 bp):
CCTTCCATCCCATTACACCATCTGGG
Found at i:67417979 original size:10 final size:9
Alignment explanation
Indices: 67417965--67418204 Score: 82
Period size: 10 Copynumber: 25.4 Consensus size: 9
67417955 AAAATAACTT
67417965 TAAAAATTA
1 TAAAAATTA
* *
67417974 TTAAAAGTA
1 TAAAAATTA
67417983 -AAAAA-TA
1 TAAAAATTA
*
67417990 TAAAGAAATA
1 TAAA-AATTA
67418000 T-AAAATTA
1 TAAAAATTA
67418008 TTAAAAATTA
1 -TAAAAATTA
67418018 TAAAAAACTTA
1 T-AAAAA-TTA
*
67418029 TAAATA-T-
1 TAAAAATTA
67418036 TAAAAATTA
1 TAAAAATTA
67418045 TAAAAATACTTA
1 T-AAAA-A-TTA
*
67418057 TAAAAAATTC
1 T-AAAAATTA
*
67418067 TAATTAATTA
1 TAA-AAATTA
*
67418077 TAAAAATAA
1 TAAAAATTA
*
67418086 CAAAAA-TA
1 TAAAAATTA
*
67418094 -AAACATATA
1 TAAAAAT-TA
67418103 TAAAATATT-
1 TAAAA-ATTA
* *
67418112 TAAAACCTTT
1 TAAAA-ATTA
*
67418122 TATAAACTTA
1 TA-AAAATTA
* *
67418132 AAAAAATCA
1 TAAAAATTA
67418141 TAAAAACTTA
1 TAAAAA-TTA
* *
67418151 TAAATACTA
1 TAAAAATTA
* *
67418160 AAATAAATTTC
1 TAA-AAA-TTA
*
67418171 TAAAAAAGTA
1 T-AAAAATTA
67418181 TAATAAATTA
1 TAA-AAATTA
67418191 TAAAAACTTA
1 TAAAAA-TTA
67418201 TAAA
1 TAAA
67418205 GTTTCCTAAA
Statistics
Matches: 173, Mismatches: 33, Indels: 49
0.68 0.13 0.19
Matches are distributed among these distances:
7 11 0.06
8 14 0.08
9 53 0.31
10 69 0.40
11 15 0.09
12 11 0.06
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:67418004 original size:18 final size:18
Alignment explanation
Indices: 67417965--67418052 Score: 53
Period size: 18 Copynumber: 5.0 Consensus size: 18
67417955 AAAATAACTT
*
67417965 TAAAAATTATT-AAAAGTA
1 TAAAAA-TATTAAAAAATA
67417983 -AAAAATA-TAAAGAAATA
1 TAAAAATATTAAA-AAATA
* *
67418000 TAAAATTATTAAAAATTA
1 TAAAAATATTAAAAAATA
*
67418018 TAAAAA-ACTT-ATAAATA
1 TAAAAATA-TTAAAAAATA
*
67418035 TTAAAA-ATTATAAAAATA
1 TAAAAATATTA-AAAAATA
67418053 CTTATAAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
15 1 0.02
16 6 0.11
17 21 0.38
18 23 0.42
19 4 0.07
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (18 bp):
TAAAAATATTAAAAAATA
Found at i:67418050 original size:28 final size:29
Alignment explanation
Indices: 67417981--67418060 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 29
67417971 TTATTAAAAG
* *
67417981 TAAAAAATATAAAGAAA--TATAAAATTAT
1 TAAAAATTATAAAAAAACTTAT-AAATTAT
67418009 TAAAAATTAT-AAAAAACTTATAAA-TAT
1 TAAAAATTATAAAAAAACTTATAAATTAT
*
67418036 TAAAAATTATAAAAATACTTATAAA
1 TAAAAATTATAAAAAAACTTATAAA
67418061 AAATTCTAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
27 18 0.39
28 25 0.54
29 3 0.07
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (29 bp):
TAAAAATTATAAAAAAACTTATAAATTAT
Found at i:67418072 original size:28 final size:27
Alignment explanation
Indices: 67417966--67418062 Score: 101
Period size: 27 Copynumber: 3.6 Consensus size: 27
67417956 AAATAACTTT
* * *
67417966 AAAAA-TTATTAAAAGTAAAAAATATA
1 AAAAACTTATAAAAATTAAAAATTATA
67417992 AAGAAA--TATAAAATTATTAAAAATTATA
1 AA-AAACTTATAAAA--ATTAAAAATTATA
*
67418020 AAAAACTTATAAATATTAAAAATTATA
1 AAAAACTTATAAAAATTAAAAATTATA
67418047 AAAATACTTATAAAAA
1 AAAA-ACTTATAAAAA
67418063 ATTCTAATTA
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
26 8 0.13
27 23 0.38
28 23 0.38
29 6 0.10
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (27 bp):
AAAAACTTATAAAAATTAAAAATTATA
Found at i:67418756 original size:7 final size:8
Alignment explanation
Indices: 67418714--67418798 Score: 57
Period size: 8 Copynumber: 10.0 Consensus size: 8
67418704 TTAAATGATT
67418714 TTTTATAA
1 TTTTATAA
67418722 TTTCTAT--
1 TTT-TATAA
* *
67418729 TTTTTTAG
1 TTTTATAA
67418737 TTTTATAA
1 TTTTATAA
67418745 TTTTATAA
1 TTTTATAA
*
67418753 TTTATTTAGA
1 TTT-TATA-A
67418763 TTTTATAA
1 TTTTATAA
*
67418771 TTTTTTATAT
1 --TTTTATAA
67418781 TATTTATAA
1 T-TTTATAA
67418790 TTTTTATAA
1 -TTTTATAA
67418799 AATTTAATCA
Statistics
Matches: 61, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
6 2 0.03
7 3 0.05
8 22 0.36
9 22 0.36
10 12 0.20
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (8 bp):
TTTTATAA
Found at i:67418783 original size:26 final size:25
Alignment explanation
Indices: 67418714--67418786 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 25
67418704 TTAAATGATT
67418714 TTTTATAATTTCTAT-T-TT-TTTAG
1 TTTTATAATTT-TATATATTATTTAG
67418737 TTTTATAATTTTATA-ATTTATTTAG
1 TTTTATAATTTTATATA-TTATTTAG
*
67418762 ATTTTATAATTTTTTATATTATTTA
1 -TTTTATAATTTTATATATTATTTA
67418787 TAATTTTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
22 3 0.07
23 11 0.26
24 2 0.05
25 5 0.12
26 21 0.49
27 1 0.02
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (25 bp):
TTTTATAATTTTATATATTATTTAG
Found at i:67418786 original size:9 final size:9
Alignment explanation
Indices: 67418713--67418798 Score: 62
Period size: 9 Copynumber: 10.0 Consensus size: 9
67418703 TTTAAATGAT
67418713 TTTTTATAA
1 TTTTTATAA
*
67418722 TTTCTAT--
1 TTTTTATAA
67418729 TTTTT-T-A
1 TTTTTATAA
*
67418736 GTTTTATAA
1 TTTTTATAA
67418745 -TTTTATAA
1 TTTTTATAA
67418753 TTTATT-TAGA
1 TTT-TTATA-A
67418763 -TTTTATAA
1 TTTTTATAA
67418771 TTTTT-TATA
1 TTTTTATA-A
67418780 TTATTTATAA
1 TT-TTTATAA
67418790 TTTTTATAA
1 TTTTTATAA
67418799 AATTTAATCA
Statistics
Matches: 63, Mismatches: 3, Indels: 22
0.72 0.03 0.25
Matches are distributed among these distances:
6 1 0.02
7 8 0.13
8 14 0.22
9 29 0.46
10 9 0.14
11 2 0.03
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.66
Consensus pattern (9 bp):
TTTTTATAA
Found at i:67418788 original size:19 final size:17
Alignment explanation
Indices: 67418737--67418825 Score: 72
Period size: 19 Copynumber: 4.8 Consensus size: 17
67418727 ATTTTTTTAG
67418737 TTTTATAATTTTATAATT
1 TTTTAT-ATTTTATAATT
*
67418755 TATTTAGATTTTATAATT
1 T-TTTATATTTTATAATT
67418773 TTTTATATTATTTATAATT
1 TTTTATA-T-TTTATAATT
* *
67418792 TTTATAAAATTTAATCATATT
1 TTT-T-ATATTTTAT-A-ATT
67418813 TTTTAT-TTTTATA
1 TTTTATATTTTATA
67418826 TTCTTTAAGG
Statistics
Matches: 58, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
17 6 0.10
18 19 0.33
19 21 0.36
20 4 0.07
21 8 0.14
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (17 bp):
TTTTATATTTTATAATT
Found at i:67426755 original size:22 final size:22
Alignment explanation
Indices: 67426723--67426764 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
67426713 TATACAAGCA
*
67426723 ATATTACTTGAATAGTTATGAG
1 ATATTACTTGAATAATTATGAG
*
67426745 ATATTAGTTGAATAATTATG
1 ATATTACTTGAATAATTATG
67426765 TCTCTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (22 bp):
ATATTACTTGAATAATTATGAG
Found at i:67433704 original size:5 final size:5
Alignment explanation
Indices: 67433688--67433735 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
67433678 ATAGAAGATA
* *
67433688 TTATT TTCTT TTATT TTTTT TTATTAT TTATTT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTA-T-T TTA-TT TTATT TTATT TTATT
67433736 AATTTAGGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
5 26 0.70
6 5 0.14
7 6 0.16
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:67433713 original size:23 final size:23
Alignment explanation
Indices: 67433686--67433741 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
67433676 AAATAGAAGA
*
67433686 TATTATTT-TCTTTTATTTTTTTT
1 TATTATTTAT-TTTTATTTTATTT
67433709 TATTATTTATTTTTATTTTATTT
1 TATTATTTATTTTTATTTTATTT
67433732 TATTAATTTA
1 TATT-ATTTA
67433742 GGATTAAGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 24 0.80
24 6 0.20
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (23 bp):
TATTATTTATTTTTATTTTATTT
Found at i:67433721 original size:15 final size:15
Alignment explanation
Indices: 67433691--67433731 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
67433681 GAAGATATTA
*
67433691 TTTTCTTTTATTT-T
1 TTTTATTTTATTTAT
*
67433705 TTTT-TATTATTTAT
1 TTTTATTTTATTTAT
67433719 TTTTATTTTATTT
1 TTTTATTTTATTT
67433732 TATTAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 7 0.30
14 9 0.39
15 7 0.30
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTATTTTATTTAT
Found at i:67433727 original size:18 final size:17
Alignment explanation
Indices: 67433697--67433730 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
67433687 ATTATTTTCT
67433697 TTTATTTTTTTTTATTA
1 TTTATTTTTTTTTATTA
67433714 TTTATTTTTATTTTATT
1 TTTATTTTT-TTTTATT
67433731 TTATTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTATTTTTTTTTATTA
Found at i:67436605 original size:18 final size:17
Alignment explanation
Indices: 67436581--67436620 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
67436571 CTGGCCCATA
67436581 GCCCACACACCTGTGTG
1 GCCCACACACCTGTGTG
* *
67436598 GTCCCACACGCTTGTGTG
1 G-CCCACACACCTGTGTG
67436616 GCCCA
1 GCCCA
67436621 TATGTCCCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (17 bp):
GCCCACACACCTGTGTG
Found at i:67437322 original size:26 final size:26
Alignment explanation
Indices: 67437293--67437402 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
67437283 TGATACAAAT
67437293 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
67437319 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
67437345 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
67437371 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
67437397 TGATAA
1 TGATAA
67437403 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:67443904 original size:15 final size:16
Alignment explanation
Indices: 67443886--67443919 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
67443876 AGATTAAATT
67443886 AATTAA-CTAAATGCA
1 AATTAATCTAAATGCA
*
67443901 AATTAATTTAAATGCA
1 AATTAATCTAAATGCA
67443917 AAT
1 AAT
67443920 GAGATGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (16 bp):
AATTAATCTAAATGCA
Found at i:67451949 original size:41 final size:41
Alignment explanation
Indices: 67451904--67451986 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
67451894 ACATAGTCCC
67451904 TTGGATTAGCTTTCATCAAAGCCATACTTTCATTACCTTTT
1 TTGGATTAGCTTTCATCAAAGCCATACTTTCATTACCTTTT
67451945 TTGGATTAGCTTTCATCAAAGCCATACTTTCATTACCTTTT
1 TTGGATTAGCTTTCATCAAAGCCATACTTTCATTACCTTTT
67451986 T
1 T
67451987 CATCTTCCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.45
Consensus pattern (41 bp):
TTGGATTAGCTTTCATCAAAGCCATACTTTCATTACCTTTT
Found at i:67457754 original size:34 final size:35
Alignment explanation
Indices: 67457711--67457780 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
67457701 TGGCAATGAC
*
67457711 ACCAAAAAG-TTGTAACAAGTAGGTTTGTGCTATT
1 ACCAAAAAGTTTGTAACAAGTAGGTTTGTGCAATT
**
67457745 ACCAAAAAGTTTGTAACGCGTAGGTTTGTGCAATT
1 ACCAAAAAGTTTGTAACAAGTAGGTTTGTGCAATT
67457780 A
1 A
67457781 TATACAGTCG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 9 0.28
35 23 0.72
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.31
Consensus pattern (35 bp):
ACCAAAAAGTTTGTAACAAGTAGGTTTGTGCAATT
Found at i:67463055 original size:28 final size:28
Alignment explanation
Indices: 67463016--67463072 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
67463006 TCTTGGTAAG
67463016 TTTTAAGGTTTTTATTGATAGATAATAT
1 TTTTAAGGTTTTTATTGATAGATAATAT
67463044 TTTTAAGGTTTTTATTGATAGATAATAT
1 TTTTAAGGTTTTTATTGATAGATAATAT
67463072 T
1 T
67463073 ACGTTAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (28 bp):
TTTTAAGGTTTTTATTGATAGATAATAT
Found at i:67464413 original size:36 final size:36
Alignment explanation
Indices: 67464323--67464599 Score: 295
Period size: 36 Copynumber: 7.7 Consensus size: 36
67464313 TTACTAAGGG
* * * * * *
67464323 ATCACATACT-AATCACATAAGGGTTAGCATATTTA
1 ATCACATACTAAATTACATGAAGGTTCGCATACTAA
* * * * * *
67464358 ATCACATTCTCAATAACATGATGGTTCACATGCTAA
1 ATCACATACTAAATTACATGAAGGTTCGCATACTAA
* * *
67464394 ATCATACACTAAATTACATGAAGGTTTGCATACTAA
1 ATCACATACTAAATTACATGAAGGTTCGCATACTAA
* * *
67464430 ATCACATATTGAATTACATAAAGGTTCGCATACTAA
1 ATCACATACTAAATTACATGAAGGTTCGCATACTAA
* *
67464466 ATCACATATTAAATTACATGAGGGTTCGCATACTAA
1 ATCACATACTAAATTACATGAAGGTTCGCATACTAA
* * * *
67464502 ATCATATACTAAATTACATGAGGGTTTGCATAGTAA
1 ATCACATACTAAATTACATGAAGGTTCGCATACTAA
*
67464538 ATCACATACTAAATTACATGAAGGTTCGCTTACTAA
1 ATCACATACTAAATTACATGAAGGTTCGCATACTAA
** *
67464574 ATCATTTACTAAATTACATGAGGGTT
1 ATCACATACTAAATTACATGAAGGTT
67464600 TACATATTGG
Statistics
Matches: 202, Mismatches: 39, Indels: 1
0.83 0.16 0.00
Matches are distributed among these distances:
35 9 0.04
36 193 0.96
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.32
Consensus pattern (36 bp):
ATCACATACTAAATTACATGAAGGTTCGCATACTAA
Found at i:67464528 original size:108 final size:107
Alignment explanation
Indices: 67464323--67464605 Score: 352
Period size: 108 Copynumber: 2.6 Consensus size: 107
67464313 TTACTAAGGG
* * * * * * * *
67464323 ATCACATACTAATCACATAAGGGTTAGCATATTTAATCACAT-TCTCAATAACATGATGGTTCAC
1 ATCACATACTAATTACATAAAGGTTCGCATACTAAATCACATAT-TAAATTACATGAGGGTTCAC
*
67464387 ATGCTAAATCATACACTAAATTACATGAAGGTTTGCATACTAA
65 ATACTAAATCATACACTAAATTACATGAAGGTTTGCATACTAA
* *
67464430 ATCACATATTGAATTACATAAAGGTTCGCATACTAAATCACATATTAAATTACATGAGGGTTCGC
1 ATCACATACT-AATTACATAAAGGTTCGCATACTAAATCACATATTAAATTACATGAGGGTTCAC
* * *
67464495 ATACTAAATCATATACTAAATTACATGAGGGTTTGCATAGTAA
65 ATACTAAATCATACACTAAATTACATGAAGGTTTGCATACTAA
* * ** * *
67464538 ATCACATACTAAATTACATGAAGGTTCGCTTACTAAATCATTTACTAAATTACATGAGGGTTTAC
1 ATCACATACT-AATTACATAAAGGTTCGCATACTAAATCACATATTAAATTACATGAGGGTTCAC
67464603 ATA
65 ATA
67464606 TTGGCTACAA
Statistics
Matches: 151, Mismatches: 23, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
107 9 0.06
108 141 0.93
109 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (107 bp):
ATCACATACTAATTACATAAAGGTTCGCATACTAAATCACATATTAAATTACATGAGGGTTCACA
TACTAAATCATACACTAAATTACATGAAGGTTTGCATACTAA
Found at i:67465526 original size:14 final size:14
Alignment explanation
Indices: 67465507--67465537 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
67465497 TTAGCTTGCC
*
67465507 TAATACTTAGCTAT
1 TAATACTTAACTAT
67465521 TAATACTTAACTAT
1 TAATACTTAACTAT
67465535 TAA
1 TAA
67465538 GCCTAGTAGT
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:0.42, C:0.13, G:0.03, T:0.42
Consensus pattern (14 bp):
TAATACTTAACTAT
Found at i:67466023 original size:7 final size:7
Alignment explanation
Indices: 67466011--67466052 Score: 61
Period size: 7 Copynumber: 6.1 Consensus size: 7
67466001 ATATATAATC
67466011 TTTTATA
1 TTTTATA
67466018 TTTTATA
1 TTTTATA
67466025 TTTTAT-
1 TTTTATA
67466031 TTTTATAA
1 TTTTAT-A
67466039 TTTT-TA
1 TTTTATA
67466045 TTTTATA
1 TTTTATA
67466052 T
1 T
67466053 AATTGATTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 11 0.34
7 17 0.53
8 4 0.12
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTATA
Found at i:67466025 original size:21 final size:21
Alignment explanation
Indices: 67466000--67466042 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
67465990 TATATATATA
67466000 TATATATAATCTTTTAT-ATTT
1 TATATATAAT-TTTTATAATTT
* *
67466021 TATATTTTATTTTTATAATTT
1 TATATATAATTTTTATAATTT
67466042 T
1 T
67466043 TATTTTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TATATATAATTTTTATAATTT
Found at i:67466034 original size:20 final size:20
Alignment explanation
Indices: 67466011--67466050 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
67466001 ATATATAATC
67466011 TTTTAT-ATTTTATATTTTAT
1 TTTTATAATTTT-TATTTTAT
67466031 TTTTATAATTTTTATTTTAT
1 TTTTATAATTTTTATTTTAT
67466051 ATAATTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTATAATTTTTATTTTAT
Found at i:67466046 original size:27 final size:27
Alignment explanation
Indices: 67466011--67466164 Score: 77
Period size: 27 Copynumber: 5.6 Consensus size: 27
67466001 ATATATAATC
67466011 TTTTATATTTTATATTTTATTTTTATAA
1 TTTT-TATTTTATATTTTATTTTTATAA
* **
67466039 TTTTTATTTTATATAATTGATTGATTTATTT
1 TTTTTATTTTATAT--TTTATT--TTTATAA
* *
67466070 TTATTTATTTTA-ATTTAATAATTTAATAA
1 TT-TTTATTTTATATTT--TATTTTTATAA
** *
67466099 -TTTTATATTTATATAATATTTATATAA
1 TTTTTAT-TTTATATTTTATTTTTATAA
* *
67466126 GTTTTTA--ATATATTTTA-TATTATAA
1 -TTTTTATTTTATATTTTATTTTTATAA
*
67466151 TTTTT-TTTAATATT
1 TTTTTATTTTATATT
67466165 CTTTAATTTA
Statistics
Matches: 93, Mismatches: 20, Indels: 29
0.65 0.14 0.20
Matches are distributed among these distances:
24 5 0.05
25 11 0.12
26 7 0.08
27 23 0.25
28 9 0.10
29 18 0.19
31 11 0.12
32 9 0.10
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTTTATTTTATATTTTATTTTTATAA
Found at i:67466104 original size:37 final size:39
Alignment explanation
Indices: 67466024--67466120 Score: 94
Period size: 37 Copynumber: 2.6 Consensus size: 39
67466014 TATATTTTAT
* * *
67466024 ATTTTATTTTTA-TAATTTTTATTTTATATAATTGATTG
1 ATTTTATTTTTATTAATTTTTAATTTATATAATTGAATA
* *
67466062 A-TTTATTTTTATTTA-TTTTAATTTA-ATAATTTAATA
1 ATTTTATTTTTATTAATTTTTAATTTATATAATTGAATA
* *
67466098 ATTTTATATTTATATAATATTTA
1 ATTTTATTTTTAT-TAATTTTTA
67466121 TATAAGTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
36 9 0.19
37 29 0.62
38 5 0.11
39 4 0.09
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (39 bp):
ATTTTATTTTTATTAATTTTTAATTTATATAATTGAATA
Found at i:67466152 original size:60 final size:58
Alignment explanation
Indices: 67465978--67466200 Score: 163
Period size: 60 Copynumber: 3.7 Consensus size: 58
67465968 TTTTTACATG
* * * *
67465978 TTTTTATTTCTATATATATATATATATATAATCTTT-TATATTTTATATTTTATTTTTATAA
1 TTTTTATTT-TATATA-ATAT-T-TATATAATTTTTATATATTTTATATTATAATTTAATAA
* * *
67466039 TTTTTATTTTATATAATTGATTGAT-TTATTTTTATTTATTTTA-ATTTAATAATTTAATAA
1 TTTTTATTTTATATAA-T-ATTTATATAATTTTTATATATTTTATA-TT-ATAATTTAATAA
67466099 -TTTTATATTTATATAATATTTATATAAGTTTTTAATATATTTTATATTATAATTTTTTTTAAT-
1 TTTTTAT-TTTATATAATATTTATATAA-TTTTT-ATATATTTTATATTATAA-----TTTAATA
67466162 A
58 A
* *
67466163 TTCTTTAATTTA-ATAATATATA-ATAATTTTTATATATT
1 TT-TTTATTTTATATAATATTTATATAATTTTTATATATT
67466201 ATTTTTGAAT
Statistics
Matches: 133, Mismatches: 12, Indels: 34
0.74 0.07 0.19
Matches are distributed among these distances:
58 12 0.09
59 22 0.17
60 35 0.26
61 29 0.22
62 6 0.05
63 4 0.03
64 10 0.08
65 11 0.08
66 4 0.03
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (58 bp):
TTTTTATTTTATATAATATTTATATAATTTTTATATATTTTATATTATAATTTAATAA
Found at i:67466169 original size:27 final size:25
Alignment explanation
Indices: 67466127--67466176 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 25
67466117 TTTATATAAG
67466127 TTTTTAATATATTTTATATTATAATTT
1 TTTTTAATATATTTTA-ATT-TAATTT
67466154 TTTTTAATAT-TCTTTAATTTAAT
1 TTTTTAATATAT-TTTAATTTAAT
67466177 AATATATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 4 0.18
26 4 0.18
27 14 0.64
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (25 bp):
TTTTTAATATATTTTAATTTAATTT
Found at i:67468090 original size:3 final size:3
Alignment explanation
Indices: 67468082--67468115 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
67468072 AATGTAGAAA
67468082 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
67468116 TTACGTTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:67490436 original size:37 final size:37
Alignment explanation
Indices: 67490375--67490604 Score: 293
Period size: 37 Copynumber: 6.0 Consensus size: 37
67490365 TACGTATGAT
*
67490375 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
* *
67490410 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
* * *
67490447 CACTTATCACTTTGTTTCTTGATCAGATAAGTGCAAC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
67490484 CACTTATCACTTTGTCTCTTGATCAGATAAGTGCAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
67490521 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC
*
67490564 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 ---CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
67490604 C
1 C
67490605 GAAGCTATCA
Statistics
Matches: 174, Mismatches: 10, Indels: 20
0.85 0.05 0.10
Matches are distributed among these distances:
35 9 0.05
36 4 0.02
37 119 0.68
39 2 0.01
40 4 0.02
42 1 0.01
43 3 0.02
44 2 0.01
46 30 0.17
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:67490574 original size:46 final size:46
Alignment explanation
Indices: 67490521--67490789 Score: 322
Period size: 46 Copynumber: 5.6 Consensus size: 46
67490511 TAAGTGCAGC
* * **
67490521 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
67490567 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
67490613 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
67490665 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * ** *
67490711 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
67490763 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
67490790 AGTACTCAAA
Statistics
Matches: 198, Mismatches: 13, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
46 111 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:67490640 original size:52 final size:52
Alignment explanation
Indices: 67490564--67490783 Score: 308
Period size: 52 Copynumber: 4.3 Consensus size: 52
67490554 TAGCTAAAGC
* *
67490564 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
67490617 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
67490669 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
67490715 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
67490767 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
67490784 ATCAGAAGTA
Statistics
Matches: 150, Mismatches: 10, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
46 41 0.27
47 2 0.01
48 1 0.01
50 1 0.01
51 3 0.02
52 84 0.56
53 18 0.12
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:67490686 original size:98 final size:98
Alignment explanation
Indices: 67490521--67490789 Score: 439
Period size: 98 Copynumber: 2.7 Consensus size: 98
67490511 TAAGTGCAGC
* * * *
67490521 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTATCACT
67490586 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* **
67490620 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTATCACTT
*
67490685 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
67490718 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTATCACTT
67490783 GATCAGA
66 GATCAGA
67490790 AGTACTCAAA
Statistics
Matches: 157, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
98 148 0.94
99 9 0.06
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTATCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:67506099 original size:48 final size:48
Alignment explanation
Indices: 67506042--67506265 Score: 185
Period size: 48 Copynumber: 4.7 Consensus size: 48
67506032 CATATTATGA
*
67506042 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAAGACGAT
1 GAGCTAGTGTAAGACC-TGTCTGGGACATGGCATCGACATTAAGACGAT
* * * ** *
67506091 -AGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGA-TAT
1 GAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACATTAAGACGAT
* *
67506136 GCAAGCTAGTGTAAGACCTGTCTAGGACATGGCATCGGC-TT--GAC-AT
1 G--AGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACATTAAGACGAT
* * * * * *
67506182 GTGTTAGTGTAAGACCTGTTTGGGACATGGCATCGACACTGATAC-AT
1 GAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACATTAAGACGAT
* * *
67506229 GAGAGCCAGAGTAAAACCTGTCTGGGACATGGCATCG
1 --GAGCTAGTGTAAGACCTGTCTGGGACATGGCATCG
67506266 GCTCGATATA
Statistics
Matches: 142, Mismatches: 23, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
44 31 0.22
45 3 0.02
46 16 0.11
47 16 0.11
48 39 0.27
49 37 0.26
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACATTAAGACGAT
Found at i:67506288 original size:141 final size:140
Alignment explanation
Indices: 67506047--67506361 Score: 370
Period size: 141 Copynumber: 2.2 Consensus size: 140
67506037 TATGAGAGCC
* * * * * * *
67506047 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTAAGACGATAGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACCATGTTTGGGACATGGCATCGACATGAACACGAGAGCCAGAGTAAAACATGTCTG
*
67506112 GGACATGCATCGGCCTCGAGATATGCAAGCTAGTGTAAGACCTGTCTA-GGACATGGCATCGGCT
66 GGACATGCATCGGCCTCGAGATATGCAAGCTAGTGTAAGACCTGT-TAGGGACATGGCATCGACT
67506176 TGACATGTGT-T
130 T-ACATGTGTGT
* *
67506187 AGTGTAAGACC-TGTTTGGGACATGGCATCGACACTGATACATGAGAGCCAGAGTAAAACCTGTC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGACA-TGA-ACACGAGAGCCAGAGTAAAACATGTC
* * *
67506251 TGGGACATGGCATCGG-CTCGATATATGGAAG-TCAGTGTAAGACTTGTTAGGGACATGGCATCG
64 TGGGACAT-GCATCGGCCTCGAGATATGCAAGCT-AGTGTAAGACCTGTTAGGGACATGGCATCG
*
67506314 ACTTAGATGTGTGAGCT
127 ACTTACATGTGT--G-T
* *
67506331 AGTGTAAGACCATGTTTGGAACATAGCATCG
1 AGTGTAAGACCATGTTTGGGACATGGCATCG
67506362 GCATCGTACC
Statistics
Matches: 149, Mismatches: 16, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
139 21 0.14
140 23 0.15
141 69 0.46
142 7 0.05
144 12 0.08
145 17 0.11
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (140 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGACATGAACACGAGAGCCAGAGTAAAACATGTCTG
GGACATGCATCGGCCTCGAGATATGCAAGCTAGTGTAAGACCTGTTAGGGACATGGCATCGACTT
ACATGTGTGT
Found at i:67506677 original size:19 final size:19
Alignment explanation
Indices: 67506653--67506698 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
67506643 GCCTATGAGA
* *
67506653 ATGATTTTGTGATGGCCTT
1 ATGATTATGTGATGACCTT
67506672 ATGATTATGTGATGACCTT
1 ATGATTATGTGATGACCTT
*
67506691 GTGATTAT
1 ATGATTAT
67506699 AGGTCTATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.22, C:0.09, G:0.24, T:0.46
Consensus pattern (19 bp):
ATGATTATGTGATGACCTT
Found at i:67511145 original size:44 final size:44
Alignment explanation
Indices: 67511084--67511168 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
67511074 CCTAAACCTA
* * *
67511084 ATGATCTGATTGTTTGATATACTGATCTAATTAGGATACTGATG
1 ATGATCTAATTGCTTGATATACTGATCTAATTAGAATACTGATG
67511128 ATGATCTAATTGCTTGATATACTGATCTAATTAGAATACTG
1 ATGATCTAATTGCTTGATATACTGATCTAATTAGAATACTG
67511169 GTATACGTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.40
Consensus pattern (44 bp):
ATGATCTAATTGCTTGATATACTGATCTAATTAGAATACTGATG
Found at i:67511155 original size:21 final size:21
Alignment explanation
Indices: 67511085--67511159 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
67511075 CTAAACCTAA
* *
67511085 TGATCTGATTGTTTGATATAC
1 TGATCTAATTGATTGATATAC
*
67511106 TGATCTAATTAGGATACTGAT-GA-
1 TGATCTAATT--GAT--TGATATAC
*
67511129 TGATCTAATTGCTTGATATAC
1 TGATCTAATTGATTGATATAC
67511150 TGATCTAATT
1 TGATCTAATT
67511160 AGAATACTGG
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
19 4 0.09
20 1 0.02
21 21 0.49
23 12 0.28
24 1 0.02
25 4 0.09
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (21 bp):
TGATCTAATTGATTGATATAC
Found at i:67512799 original size:21 final size:21
Alignment explanation
Indices: 67512775--67512830 Score: 94
Period size: 21 Copynumber: 2.6 Consensus size: 21
67512765 TGATATGACT
*
67512775 GACTAGACTAATAGTACATTG
1 GACTAGACCAATAGTACATTG
67512796 GACTAGACCAATAGTACATTG
1 GACTAGACCAATAGTACATTG
67512817 GACTAGACCCAATA
1 GACTAGA-CCAATA
67512831 AGAATAGATC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 27 0.82
22 6 0.18
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (21 bp):
GACTAGACCAATAGTACATTG
Found at i:67513794 original size:16 final size:18
Alignment explanation
Indices: 67513768--67513801 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
67513758 TGGAATTGAG
67513768 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
67513785 TTGA-AAAATTAATTTAA
1 TTGAGAAAATTAATTTAA
67513802 GATGTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:67515371 original size:29 final size:29
Alignment explanation
Indices: 67515335--67515401 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
67515325 TTGACAAATA
67515335 AAAAGGGATAGCTTCTG-CTATCGAATACG
1 AAAAGGGATAGCTTC-GACTATCGAATACG
* *
67515364 AAAAGGGATAGCTTCGACTATCGATTATG
1 AAAAGGGATAGCTTCGACTATCGAATACG
67515393 AAAAGGGAT
1 AAAAGGGAT
67515402 GGTGACGAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 1 0.03
29 34 0.97
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.24
Consensus pattern (29 bp):
AAAAGGGATAGCTTCGACTATCGAATACG
Found at i:67515513 original size:60 final size:61
Alignment explanation
Indices: 67515335--67515640 Score: 210
Period size: 60 Copynumber: 5.1 Consensus size: 61
67515325 TTGACAAATA
* ** * *
67515335 AAAAGGGATAGCTTCTGCTATCGAA-TACGAAAAGGGATAGCTTC-GACTATC-GATTATG
1 AAAAGGGATGGCTTCAACTATCGAACTATGAAAAGGGATAGCTTCAGACTATCAAATTATG
* * * * * * *
67515393 AAAAGGGATGG-TGACGAAC-ATC-AACAATGAAAAGGAAT-G-TTGATGACCATCGAACTATG
1 AAAAGGGATGGCT-TC-AACTATCGAACTATGAAAAGGGATAGCTTCA-GACTATCAAATTATG
67515452 AAAAGGGATGGCTTCAACTATCGAACTATGAAAAGGGATAGCTTCAG-CTATCAAATTATG
1 AAAAGGGATGGCTTCAACTATCGAACTATGAAAAGGGATAGCTTCAGACTATCAAATTATG
* * * * * * *
67515512 AAAAGGGATGG-TGAT-GACCATCGAACAATGAAAAGGGAT-G-GTGACGACCATAAAATTATG
1 AAAAGGGATGGCT--TCAACTATCGAACTATGAAAAGGGATAGCTTCA-GACTATCAAATTATG
* * * * * * *
67515572 AAAAGGGATAGCTT-AGGCTGTCGAACTATGAAAAGGGATAACTTCAG-TTATCGAATAATG
1 AAAAGGGATGGCTTCA-ACTATCGAACTATGAAAAGGGATAGCTTCAGACTATCAAATTATG
67515632 AAAAGGGAT
1 AAAAGGGAT
67515641 AGGTCAACCA
Statistics
Matches: 190, Mismatches: 39, Indels: 36
0.72 0.15 0.14
Matches are distributed among these distances:
56 2 0.01
57 4 0.02
58 35 0.18
59 25 0.13
60 114 0.60
61 5 0.03
62 5 0.03
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (61 bp):
AAAAGGGATGGCTTCAACTATCGAACTATGAAAAGGGATAGCTTCAGACTATCAAATTATG
Found at i:67515536 original size:90 final size:90
Alignment explanation
Indices: 67515419--67515610 Score: 244
Period size: 90 Copynumber: 2.1 Consensus size: 90
67515409 AACATCAACA
* * * * * **
67515419 ATGAAAAGGAATGTTGATGACCATCGAACTATGAAAAGGGATGGCT-TCAACTATCGAACTATGA
1 ATGAAAAGGGATGGTGATGACCATCGAACAATGAAAAGGGATGG-TGACAACCATAAAACTATGA
*
67515483 AAAGGGATAGCTTCA-GCTATCAAATT
65 AAAGGGATAGCTT-AGGCTATCAAACT
* *
67515509 ATGAAAAGGGATGGTGATGACCATCGAACAATGAAAAGGGATGGTGACGACCATAAAATTATGAA
1 ATGAAAAGGGATGGTGATGACCATCGAACAATGAAAAGGGATGGTGACAACCATAAAACTATGAA
* *
67515574 AAGGGATAGCTTAGGCTGTCGAACT
66 AAGGGATAGCTTAGGCTATCAAACT
67515599 ATGAAAAGGGAT
1 ATGAAAAGGGAT
67515611 AACTTCAGTT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
89 2 0.02
90 86 0.98
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.22
Consensus pattern (90 bp):
ATGAAAAGGGATGGTGATGACCATCGAACAATGAAAAGGGATGGTGACAACCATAAAACTATGAA
AAGGGATAGCTTAGGCTATCAAACT
Found at i:67515611 original size:30 final size:30
Alignment explanation
Indices: 67515335--67515642 Score: 172
Period size: 30 Copynumber: 10.4 Consensus size: 30
67515325 TTGACAAATA
** *
67515335 AAAAGGGATAGCTTCTGCTATCGAA-TACG
1 AAAAGGGATAGCTTCAACTATCGAACTATG
* *
67515364 AAAAGGGATAGCTTCGACTATCG-ATTATG
1 AAAAGGGATAGCTTCAACTATCGAACTATG
* * *
67515393 AAAAGGGAT-GGTGACGAAC-ATC-AACAATG
1 AAAAGGGATAGCT-TC-AACTATCGAACTATG
* * *
67515422 AAAAGGAAT-G-TTGATGACCATCGAACTATG
1 AAAAGGGATAGCTTCA--ACTATCGAACTATG
*
67515452 AAAAGGGATGGCTTCAACTATCGAACTATG
1 AAAAGGGATAGCTTCAACTATCGAACTATG
* * *
67515482 AAAAGGGATAGCTTCAGCTATCAAATTATG
1 AAAAGGGATAGCTTCAACTATCGAACTATG
* * * *
67515512 AAAAGGGAT-GGTGAT-GACCATCGAACAATG
1 AAAAGGGATAGCT--TCAACTATCGAACTATG
* * * * ** *
67515542 AAAAGGGAT-GGTGACGACCATAAAATTATG
1 AAAAGGGATAGCT-TCAACTATCGAACTATG
* *
67515572 AAAAGGGATAGCTT-AGGCTGTCGAACTATG
1 AAAAGGGATAGCTTCA-ACTATCGAACTATG
* **
67515602 AAAAGGGATAACTTCAGTTATCGAA-TAATG
1 AAAAGGGATAGCTTCAACTATCGAACT-ATG
67515632 AAAAGGGATAG
1 AAAAGGGATAG
67515643 GTCAACCATC
Statistics
Matches: 217, Mismatches: 45, Indels: 33
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.00
28 6 0.03
29 56 0.26
30 146 0.67
31 5 0.02
32 3 0.01
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (30 bp):
AAAAGGGATAGCTTCAACTATCGAACTATG
Found at i:67519956 original size:40 final size:40
Alignment explanation
Indices: 67519912--67520016 Score: 183
Period size: 40 Copynumber: 2.6 Consensus size: 40
67519902 AGACTAAGAT
*
67519912 CCGAAGGCATTCGTTCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
67519952 CCGAAGGTATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
67519992 CCGAAGGCATTCGTGCTGGTTATTA
1 CCGAAGGCATTCGTGCGGGTTATTA
67520017 CATCCGAGCC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
Found at i:67520036 original size:40 final size:40
Alignment explanation
Indices: 67519871--67520036 Score: 129
Period size: 40 Copynumber: 4.2 Consensus size: 40
67519861 CGGACTAAGA
* ** * *
67519871 TCCGAAGGCATTTGTGCTAGTTACTATATCC-AGACTAAGA-
1 TCCGAAGGCATTCGTGCGGGTTATTATAACCGAG-CTAA-AT
* * * *
67519911 TCCGAAGGCATTCGTTCGGGTTATTATAACCGGGTTAAGT
1 TCCGAAGGCATTCGTGCGGGTTATTATAACCGAGCTAAAT
* * * * *
67519951 CCCGAAGGTATTCGTGCGGGTTATTATAACCGGGTTAAGT
1 TCCGAAGGCATTCGTGCGGGTTATTATAACCGAGCTAAAT
* * * * *
67519991 CCCGAAGGCATTCGTGCTGGTTATTACATCCGAGCCAAAT
1 TCCGAAGGCATTCGTGCGGGTTATTATAACCGAGCTAAAT
67520031 TCCGAA
1 TCCGAA
67520037 AGTAATTATG
Statistics
Matches: 103, Mismatches: 21, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
40 102 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (40 bp):
TCCGAAGGCATTCGTGCGGGTTATTATAACCGAGCTAAAT
Found at i:67521585 original size:40 final size:40
Alignment explanation
Indices: 67521509--67521766 Score: 380
Period size: 40 Copynumber: 6.5 Consensus size: 40
67521499 AACCCAAGTA
* * *
67521509 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
67521548 CCTTTGGTACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
67521588 CCTTCGGGACTTAGCTCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
67521628 CCTTCGGGACTTAGCCCGGATATAGTCAATAGTACAAATT
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
67521668 CCTTCGGGGCTTAGCCCGGATATAGTCACTAGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
67521707 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
67521747 CCTTC-GGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
67521767 GTCATCCGAA
Statistics
Matches: 200, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 63 0.31
40 134 0.67
41 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:67521733 original size:119 final size:120
Alignment explanation
Indices: 67521509--67521766 Score: 398
Period size: 119 Copynumber: 2.2 Consensus size: 120
67521499 AACCCAAGTA
* * * *
67521509 CCTTCGGGATTTAG-CCGGATATAGCAACTCGTACAAATGCCTTTGGTACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTAGTACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
67521573 TCAATAGCACAAATGCCTTCGGGACTTAGCTCGGATATAGTCAATAGCACAAATG
66 TCAATAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
67521628 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGTACAAATTCCTTCGGGGCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTAGTACAAATGCCTTCGGGACTTAGCCCGGATATA
* *
67521692 GTCACTAGCAC-AATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
65 GTCAATAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
67521747 CCTTC-GGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
67521767 GTCATCCGAA
Statistics
Matches: 128, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
118 15 0.12
119 60 0.47
120 50 0.39
121 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (120 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTAGTACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:67525445 original size:18 final size:18
Alignment explanation
Indices: 67525424--67525487 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
67525414 ATCCAAGTGT
67525424 TATTTTATTTTATTAAAG
1 TATTTTATTTTATTAAAG
* *
67525442 TATTTCAGTTTATTTCCAAGAG
1 TATTTTATTTTA-TT--AA-AG
*
67525464 TTATTTTATCTTATTAAAG
1 -TATTTTATTTTATTAAAG
67525483 TATTT
1 TATTT
67525488 CACTTTATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
18 15 0.42
19 4 0.11
20 2 0.06
21 2 0.06
22 4 0.11
23 9 0.25
ACGTcount: A:0.30, C:0.06, G:0.08, T:0.56
Consensus pattern (18 bp):
TATTTTATTTTATTAAAG
Found at i:67525510 original size:41 final size:41
Alignment explanation
Indices: 67525415--67525498 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
67525405 TCAATTTAGA
* * *
67525415 TCCAAGTGTTATTTTATTTTATTAAAGTATTTCAGTTTATT
1 TCCAAGAGTTATTTTATCTTATTAAAGTATTTCACTTTATT
67525456 TCCAAGAGTTATTTTATCTTATTAAAGTATTTCACTTTATT
1 TCCAAGAGTTATTTTATCTTATTAAAGTATTTCACTTTATT
67525497 TC
1 TC
67525499 TTATTTGTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.54
Consensus pattern (41 bp):
TCCAAGAGTTATTTTATCTTATTAAAGTATTTCACTTTATT
Found at i:67525688 original size:62 final size:62
Alignment explanation
Indices: 67525591--67525715 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
67525581 TCTAATCTCG
*
67525591 TTTCTCTTCCCATTCAATCGAATTGTTTACATGATTTATTCAATTGAGTTAAAGATTATGAA
1 TTTCTCTTCCCATTCAATCAAATTGTTTACATGATTTATTCAATTGAGTTAAAGATTATGAA
67525653 TTTCTCTTCCCATTCAATCAAATTGTTTACATGATTTATTCAATTGAGTTAAAGATTATGAA
1 TTTCTCTTCCCATTCAATCAAATTGTTTACATGATTTATTCAATTGAGTTAAAGATTATGAA
67525715 T
1 T
67525716 AACAGGAGTG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.44
Consensus pattern (62 bp):
TTTCTCTTCCCATTCAATCAAATTGTTTACATGATTTATTCAATTGAGTTAAAGATTATGAA
Found at i:67533468 original size:25 final size:24
Alignment explanation
Indices: 67533440--67533502 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 24
67533430 CCAGGTAAAA
67533440 TGCCACAAAGGCTCTTCAGATAAT
1 TGCCACAAAGGCTCTTCAGATAAT
*
67533464 CTGCCACAAAGGCTCTTCAGGTAAT
1 -TGCCACAAAGGCTCTTCAGATAAT
*
67533489 TCACCACAAAGGCT
1 T-GCCACAAAGGCT
67533503 TGGTTTAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 1 0.03
25 34 0.97
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (24 bp):
TGCCACAAAGGCTCTTCAGATAAT
Found at i:67534017 original size:43 final size:43
Alignment explanation
Indices: 67533919--67534019 Score: 177
Period size: 43 Copynumber: 2.4 Consensus size: 43
67533909 CAGACATATA
* *
67533919 TACACA-AATTTCACTAATAATCTTAACAGAATCAAACTTCTC
1 TACACATAATTTCCCAAATAATCTTAACAGAATCAAACTTCTC
67533961 TACACATAATTTCCCAAATAATCTTAACAGAATCAAACTTCTC
1 TACACATAATTTCCCAAATAATCTTAACAGAATCAAACTTCTC
67534004 TACACATAATTTCCCA
1 TACACATAATTTCCCA
67534020 TGCTTACCAT
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
42 6 0.11
43 50 0.89
ACGTcount: A:0.42, C:0.26, G:0.02, T:0.31
Consensus pattern (43 bp):
TACACATAATTTCCCAAATAATCTTAACAGAATCAAACTTCTC
Found at i:67537303 original size:40 final size:39
Alignment explanation
Indices: 67537266--67537443 Score: 171
Period size: 40 Copynumber: 4.5 Consensus size: 39
67537256 ATATCCGGAC
67537266 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
67537306 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
67537346 TAAGTCCCAAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * * * *
67537386 TATGTCCCGAAAGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
67537425 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
67537444 AACGAGGAGC
Statistics
Matches: 117, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 33 0.28
40 81 0.69
41 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:67537359 original size:80 final size:79
Alignment explanation
Indices: 67537275--67537443 Score: 196
Period size: 79 Copynumber: 2.1 Consensus size: 79
67537265 CTAAGATCCG
* *
67537275 AAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 AAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAAG-CATTGTGCGAGATACTAAA
* *
67537339 TCCGGGTTAAGTCCCA
64 ACCGGGCTAAGTCCCA
* * * * * * *
67537355 AAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAAGCATTGTGTGAGTTACTAAAAC
1 AAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAAGCATTGTGCGAGATACTAAAAC
* *
67537420 CGGGCTATGTCCCG
66 CGGGCTAAGTCCCA
67537434 AAGGCATTTG
1 AAGGCATTTG
67537444 AACGAGGAGC
Statistics
Matches: 74, Mismatches: 14, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
79 37 0.50
80 34 0.46
81 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAAGCATTGTGCGAGATACTAAAAC
CGGGCTAAGTCCCA
Found at i:67543913 original size:80 final size:79
Alignment explanation
Indices: 67543829--67544000 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
67543819 GGACTAAGAT
*
67543829 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
67543893 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
67543909 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
67543974 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
67543988 CCGAAGGCATTTG
1 CCGAAGGCATTTG
67544001 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:67543980 original size:39 final size:39
Alignment explanation
Indices: 67543776--67543998 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
67543766 TTGAATGCTG
* * * * *
67543776 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
67543816 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
67543855 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
67543896 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
67543936 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
67543975 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
67543999 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:67544018 original size:79 final size:80
Alignment explanation
Indices: 67543856--67544033 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
67543846 AGATACAAAT
* * * *
67543856 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
67543921 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
67543936 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
67544000 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
67544015 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
67544034 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:67547570 original size:15 final size:15
Alignment explanation
Indices: 67547546--67547579 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
67547536 AATTTTAATC
67547546 ATTTTTTTAAAT-TT
1 ATTTTTTTAAATATT
67547560 ATTTATTTTAAATATT
1 ATTT-TTTTAAATATT
67547576 ATTT
1 ATTT
67547580 GTTATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 8 0.44
16 6 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTTTTAAATATT
Found at i:67547658 original size:5 final size:5
Alignment explanation
Indices: 67547640--67547769 Score: 71
Period size: 5 Copynumber: 27.0 Consensus size: 5
67547630 TATTTTCAAG
* *
67547640 TATAT T-TA- TATAT TATAT TAT-T TATTAA TATAT TATTT TATAT T-T-T
1 TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT TATAT TATAT TATAT
* * * * *
67547686 TATAT TATTAT ATATAT TATAT TATCT TATGT TTTAA TATA- CAT-T ATATAT
1 TATAT TA-TAT -TATAT TATAT TATAT TATAT TATAT TATAT TATAT -TATAT
* * *
67547737 TATAT TATTT TATAT TTTAT CATA- TAT-T TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT
67547770 CTTATTACAT
Statistics
Matches: 94, Mismatches: 18, Indels: 26
0.68 0.13 0.19
Matches are distributed among these distances:
3 3 0.03
4 16 0.17
5 64 0.68
6 9 0.10
7 2 0.02
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:67547665 original size:32 final size:29
Alignment explanation
Indices: 67547616--67547746 Score: 100
Period size: 25 Copynumber: 4.5 Consensus size: 29
67547606 TATTTATTTG
*
67547616 TATATTAT-TTTTGTTATTTTCAAGTATATTTA
1 TATATTATATTAT-TTATTTT-AA-TATA-TTA
67547648 TATATTATATTATTTA--TTAATATATTA
1 TATATTATATTATTTATTTTAATATATTA
*
67547675 T-T-TTATATT-TTTATATT-AT-TA-TA
1 TATATTATATTATTTATTTTAATATATTA
67547698 TATATTATATTATCTTATGTTTTAATATACATTA
1 TATATTATATTAT-TTA--TTTTAATAT--ATTA
67547732 TATATTATATTATTT
1 TATATTATATTATTT
67547747 TATATTTTAT
Statistics
Matches: 83, Mismatches: 2, Indels: 27
0.74 0.02 0.24
Matches are distributed among these distances:
23 3 0.04
24 7 0.08
25 16 0.19
26 4 0.05
27 7 0.08
28 4 0.05
29 5 0.06
30 4 0.05
31 1 0.01
32 11 0.13
33 6 0.07
34 15 0.18
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (29 bp):
TATATTATATTATTTATTTTAATATATTA
Found at i:67547672 original size:52 final size:50
Alignment explanation
Indices: 67547605--67547715 Score: 127
Period size: 50 Copynumber: 2.2 Consensus size: 50
67547595 ATATAAAAAT
** *
67547605 TTATTTATTTGTATATTATTTTTGTTATTTTCAAGTA-TATT-TATATATTATA
1 TTATTTATTAATATATTA-TTTT-ATATTTT-AA-TATTATTATATATATTATA
*
67547657 TTATTTATTAATATATTATTTTATATTTTTATATTATTATATATATTATA
1 TTATTTATTAATATATTATTTTATATTTTAATATTATTATATATATTATA
67547707 TTATCTTAT
1 TTAT-TTAT
67547716 GTTTTAATAT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
48 2 0.04
49 5 0.10
50 21 0.40
51 8 0.15
52 16 0.31
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.64
Consensus pattern (50 bp):
TTATTTATTAATATATTATTTTATATTTTAATATTATTATATATATTATA
Found at i:67547673 original size:15 final size:16
Alignment explanation
Indices: 67547642--67547715 Score: 69
Period size: 17 Copynumber: 4.4 Consensus size: 16
67547632 TTTTCAAGTA
*
67547642 TATTTATATATTATAT
1 TATTTATATAATATAT
67547658 TATTTAT-TAATATAT
1 TATTTATATAATATAT
**
67547673 TATTTTATATTTTTATAT
1 TA-TTTATA-TAATATAT
*
67547691 TATTATATATATTATAT
1 TATT-TATATAATATAT
67547708 TATCTTAT
1 TAT-TTAT
67547716 GTTTTAATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
15 9 0.18
16 12 0.24
17 15 0.31
18 13 0.27
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTATATAATATAT
Found at i:67547676 original size:18 final size:18
Alignment explanation
Indices: 67547655--67547710 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
67547645 TTATATATTA
*
67547655 TATTATTTATTAATATAT
1 TATTATTTATTATTATAT
*
67547673 TATT-TTATATTTTTATAT
1 TATTATT-TATTATTATAT
*
67547691 TATTATATA-TATTATAT
1 TATTATTTATTATTATAT
67547708 TAT
1 TAT
67547711 CTTATGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
17 12 0.38
18 19 0.59
19 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TATTATTTATTATTATAT
Found at i:67547678 original size:43 final size:40
Alignment explanation
Indices: 67547629--67547746 Score: 114
Period size: 40 Copynumber: 2.8 Consensus size: 40
67547619 ATTATTTTTG
67547629 TTATTTTCAAGTATATTTATATATTATATTATTTATTAATATA
1 TTATTTT-AA-TATATTTATATATTATATTATTTA-TAATATA
* * *
67547672 TTATTTT-ATATTTTTATATTATTATA-TATATTATATTATC
1 TTATTTTAATATATTTATA-TATTATATTAT-TTATAATATA
*
67547712 TTATGTTTTAATATACATTATATATTATATTATTT
1 TTA--TTTTAATATA-TTTATATATTATATTATTT
67547747 TATATTTTAT
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
40 20 0.32
41 11 0.17
42 4 0.06
43 20 0.32
44 8 0.13
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.61
Consensus pattern (40 bp):
TTATTTTAATATATTTATATATTATATTATTTATAATATA
Found at i:67547920 original size:19 final size:19
Alignment explanation
Indices: 67547898--67547938 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
67547888 TTTTATATTT
*
67547898 TATATGTTATTTTATTA-TA
1 TATAT-TTATATTATTAGTA
67547917 TATATTTATATTATTAGTA
1 TATATTTATATTATTAGTA
67547936 TAT
1 TAT
67547939 TATTACACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
TATATTTATATTATTAGTA
Found at i:67547994 original size:22 final size:23
Alignment explanation
Indices: 67547968--67548018 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
67547958 TTATAAATTA
* *
67547968 TTATTAAGCAT-TA-TATTTATG
1 TTATTAAACATGTAGTATGTATG
67547989 TGTATTAAACATGTAGTATGTATG
1 T-TATTAAACATGTAGTATGTATG
67548013 TTATTA
1 TTATTA
67548019 TAAAATTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 9 0.36
23 7 0.28
24 8 0.32
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (23 bp):
TTATTAAACATGTAGTATGTATG
Found at i:67548334 original size:15 final size:15
Alignment explanation
Indices: 67548316--67548363 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
67548306 GTATTCTTGC
67548316 ATAAAATATTAATGT
1 ATAAAATATTAATGT
67548331 ATAAAGAT-TT-ATGATT
1 ATAAA-ATATTAATG--T
67548347 ATAAAATATTAATGT
1 ATAAAATATTAATGT
67548362 AT
1 AT
67548364 GTTGTGATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
14 3 0.11
15 12 0.43
16 10 0.36
17 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (15 bp):
ATAAAATATTAATGT
Found at i:67552918 original size:9 final size:9
Alignment explanation
Indices: 67552904--67552976 Score: 58
Period size: 9 Copynumber: 7.9 Consensus size: 9
67552894 TTGGTTCCTC
67552904 TTTTATTTA
1 TTTTATTTA
67552913 TTTTATTTA
1 TTTTATTTA
*
67552922 TTTTCTTTA
1 TTTTATTTA
*
67552931 TTCCT-TTTA
1 TT-TTATTTA
67552940 TTTTATTTTA
1 TTTTA-TTTA
*
67552950 CTTTATTGTA
1 TTTTATT-TA
* * *
67552960 GTTTAATTC
1 TTTTATTTA
67552969 TTTTATTT
1 TTTTATTT
67552977 GAATTCTTGA
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
8 1 0.02
9 34 0.67
10 16 0.31
ACGTcount: A:0.18, C:0.07, G:0.03, T:0.73
Consensus pattern (9 bp):
TTTTATTTA
Found at i:67558188 original size:42 final size:42
Alignment explanation
Indices: 67558110--67558189 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
67558100 GTGCAAGTTT
* * *
67558110 CACACGGCCAAGACATACGCCCGTGTCCTAGGCCGTGTAGCA
1 CACACGGCCAAGACACACGCCCATGTCCTAGCCCGTGTAGCA
* *
67558152 CACACGGCTAAGACACACGCTCATGTCTCT-GCCCGTGT
1 CACACGGCCAAGACACACGCCCATGTC-CTAGCCCGTGT
67558190 GCTCAATTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
42 30 0.94
43 2 0.06
ACGTcount: A:0.23, C:0.36, G:0.24, T:0.17
Consensus pattern (42 bp):
CACACGGCCAAGACACACGCCCATGTCCTAGCCCGTGTAGCA
Found at i:67559501 original size:15 final size:15
Alignment explanation
Indices: 67559483--67559515 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
67559473 TTTATAATAT
*
67559483 TCACATAAATGTAAA
1 TCACATAAATATAAA
67559498 TCACATAAATATAAA
1 TCACATAAATATAAA
67559513 TCA
1 TCA
67559516 TATTGCATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.27
Consensus pattern (15 bp):
TCACATAAATATAAA
Found at i:67562328 original size:38 final size:38
Alignment explanation
Indices: 67562277--67562352 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
67562267 GGTGTTACAA
67562277 AATACATTAAAAATTATCAAAAATTACTTTCTTTCCCT
1 AATACATTAAAAATTATCAAAAATTACTTTCTTTCCCT
67562315 AATACATTAAAAATTATCAAAAATTACTTTCTTTCCCT
1 AATACATTAAAAATTATCAAAAATTACTTTCTTTCCCT
67562353 TCAATTTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (38 bp):
AATACATTAAAAATTATCAAAAATTACTTTCTTTCCCT
Found at i:67562495 original size:22 final size:20
Alignment explanation
Indices: 67562462--67562501 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
67562452 CAATTTTTTT
*
67562462 AAAAAATTAAAATTTTTAGA
1 AAAAAATTAAAAGTTTTAGA
67562482 AAAAAATTTAAAAAGTTTTA
1 AAAAAA-TT-AAAAGTTTTA
67562502 TTATAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 2 0.12
22 9 0.53
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
AAAAAATTAAAAGTTTTAGA
Found at i:67562867 original size:33 final size:34
Alignment explanation
Indices: 67562830--67562896 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
67562820 AAATAAATTC
* *
67562830 AATTCTTTTT-ATATCAAGTAAATATAATTATTT
1 AATTCTTTTTCACATCAAATAAATATAATTATTT
*
67562863 AATTCTTTTTCACATTAAATAAATATAATTATTT
1 AATTCTTTTTCACATCAAATAAATATAATTATTT
67562897 TGTATACAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 10 0.33
34 20 0.67
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.51
Consensus pattern (34 bp):
AATTCTTTTTCACATCAAATAAATATAATTATTT
Found at i:67579920 original size:27 final size:27
Alignment explanation
Indices: 67579889--67580066 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
67579879 TAAATTGTAC
67579889 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
67579916 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
67579942 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
67579970 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
67579998 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
67580025 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
67580052 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
67580067 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:67580003 original size:82 final size:81
Alignment explanation
Indices: 67579890--67580045 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
67579880 AAATTGTACA
* *
67579890 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
67579954 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
67579971 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
67580036 TGCGAGTTGA
65 TGCGAATTGA
67580046 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:67580057 original size:82 final size:81
Alignment explanation
Indices: 67579886--67580066 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
67579876 GATTAAATTG
* *
67579886 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
67579951 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
67579967 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
67580031 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
67580049 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
67580067 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:67585608 original size:43 final size:43
Alignment explanation
Indices: 67585543--67585698 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
67585533 AGCTCATACA
* * * *
67585543 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* *
67585585 ATGCCACA-GTCCCAGACAGGGTCTTACACGTAATCGA-TTAAT-G
1 ATGCCA-ATGTCCCAGACATGGTCTTACACGTAATC-ACAT-ATCG
*
67585628 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT-CG
* *
67585671 ATGCCAATGTACCAAACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
67585699 TATAATCTCA
Statistics
Matches: 95, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
41 2 0.02
42 7 0.07
43 82 0.86
44 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
Done.