Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 226 of 425
Found at i:68638242 original size:40 final size:40
Alignment explanation
Indices: 68638197--68638381 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 40
68638187 CTCGCACAAG
* *
68638197 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
68638237 GCCTTCGGGACTTATCCCGGATATAGTCACTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
68638277 GCCTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
68638317 GCCTTCGGATCTTAGTCCGAATATAGTCACTTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAAT
*
68638358 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
68638382 TATTCGAATA
Statistics
Matches: 122, Mismatches: 22, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 94 0.77
41 28 0.23
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:68644027 original size:20 final size:20
Alignment explanation
Indices: 68643997--68644041 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
68643987 CTGTTTTATT
68643997 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
68644016 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
68644036 ATGGGC
1 ATGGGC
68644042 AAGACCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:68644171 original size:28 final size:28
Alignment explanation
Indices: 68644070--68644183 Score: 81
Period size: 28 Copynumber: 3.9 Consensus size: 28
68644060 ACTTGTAATA
* * *
68644070 GGGCTACGGCCCAGACTGATACTGATAT
1 GGGCTAAGGCCCAGATTAATACTGATAT
* *
68644098 GGGCT-AGGCCCAGTATGCTCTGATATTG-TAAT
1 GGGCTAAGGCCCAG-A---T-TAATACTGAT-AT
*
68644130 AGGGCTATGGCCCAGATTAATACTGATAT
1 -GGGCTAAGGCCCAGATTAATACTGATAT
*
68644159 GGGCTAAGGCCCAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAATACTGAT
68644184 TTCTGAATAG
Statistics
Matches: 69, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
27 17 0.25
28 19 0.28
29 8 0.12
30 2 0.03
31 1 0.01
32 9 0.13
33 6 0.09
34 7 0.10
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAATACTGATAT
Found at i:68644204 original size:62 final size:61
Alignment explanation
Indices: 68644062--68644206 Score: 179
Period size: 61 Copynumber: 2.4 Consensus size: 61
68644052 ATATCTCGAC
* * *
68644062 TTGTAATAGGGCTACGGCCCAGACTGATACTGATATGGGCTAGGCCCAGTATGCTCTGATA
1 TTGTAATAGGGCTACGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGATA
* *
68644123 TTGTAATAGGGCTATGGCCCAGATTAATACTGATATGGGCTAAGGCCCAGT-TAACACTGAT-
1 TTGTAATAGGGCTACGGCCCAGACTAATACTGATATGGGCT-AGGCCCAGTAT-ACACTGATA
*
68644184 TTCTGAATAGGGCTTA-GGCCCAG
1 TTGT-AATAGGGC-TACGGCCCAG
68644207 TAAAGCTTGA
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
61 42 0.57
62 30 0.41
63 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (61 bp):
TTGTAATAGGGCTACGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGATA
Found at i:68646569 original size:13 final size:14
Alignment explanation
Indices: 68646551--68646579 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
68646541 TTATAAATAT
68646551 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
68646564 TTATAATGGTTTAA
1 TTATAATGGTTTAA
68646578 TT
1 TT
68646580 TGTCATTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:68647025 original size:21 final size:21
Alignment explanation
Indices: 68646999--68647080 Score: 94
Period size: 21 Copynumber: 3.9 Consensus size: 21
68646989 TAGCGGATGC
68646999 AGCAGCGAGGGAGGCAGAGGT
1 AGCAGCGAGGGAGGCAGAGGT
* *
68647020 AGCAGCGAGGGAGGCAGCGGC
1 AGCAGCGAGGGAGGCAGAGGT
* * *
68647041 AACAGCGAGGGGGGTAGAGGT
1 AGCAGCGAGGGAGGCAGAGGT
*
68647062 AGTAGCGATGGGA-GCAGAG
1 AGCAGCGA-GGGAGGCAGAG
68647081 CAGAGCAAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
21 46 0.94
22 3 0.06
ACGTcount: A:0.28, C:0.15, G:0.51, T:0.06
Consensus pattern (21 bp):
AGCAGCGAGGGAGGCAGAGGT
Found at i:68647579 original size:43 final size:43
Alignment explanation
Indices: 68647404--68647564 Score: 175
Period size: 43 Copynumber: 3.7 Consensus size: 43
68647394 TCTGTAAAAA
* * *
68647404 TTAGCAGCGTTTGTAGAAAAAGTGCCGCTAAAGGTCATGACTT
1 TTAGCGGCGTTTGTAGTAAAAGCGCCGCTAAAGGTCATGACTT
* * *
68647447 TTAGCGGCGTTTCTAGTGAAAGCACCGCTAAAGGTCATGA-TCT
1 TTAGCGGCGTTTGTAGTAAAAGCGCCGCTAAAGGTCATGACT-T
* * * *
68647490 TTAGTGGCGTTTTTTGTAAAAGCGCC-ATGAAAGGTCATGACTT
1 TTAGCGGCGTTTGTAGTAAAAGCGCCGCT-AAAGGTCATGACTT
*
68647533 TTAGCGGCGTTTGT-GGATAAAGCGCCGCTAAA
1 TTAGCGGCGTTTGTAGTA-AAAGCGCCGCTAAA
68647565 AGTCGTGATC
Statistics
Matches: 97, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 4 0.04
43 91 0.94
44 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (43 bp):
TTAGCGGCGTTTGTAGTAAAAGCGCCGCTAAAGGTCATGACTT
Found at i:68668183 original size:27 final size:27
Alignment explanation
Indices: 68668139--68668191 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
68668129 AAACCTTTAG
*
68668139 ATTTTAGTTTAACAAAGAAGAAACTAAT
1 ATTTAAGTTTAACAAAGAAG-AACTAAT
*
68668167 ATTTAAGTTTAA-GAAGAAGAACTAA
1 ATTTAAGTTTAACAAAGAAGAACTAA
68668192 AGAGTATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.26
27 6 0.26
28 11 0.48
ACGTcount: A:0.51, C:0.06, G:0.13, T:0.30
Consensus pattern (27 bp):
ATTTAAGTTTAACAAAGAAGAACTAAT
Found at i:68668247 original size:2 final size:2
Alignment explanation
Indices: 68668240--68668267 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
68668230 CCGTTTTACC
68668240 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68668268 TCCTAGTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68681090 original size:37 final size:37
Alignment explanation
Indices: 68681038--68681202 Score: 276
Period size: 37 Copynumber: 4.4 Consensus size: 37
68681028 TTATTACGAA
* *
68681038 GTCTTACCCGAACATAATATCCACATGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACATGTAGTCATCGG
68681075 GTCTTACCCGGACATAATCTCCACATGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACATGTAGTCATCGG
*
68681112 GTCTTACCCGGACATAATCTCCACATGTAATCATCGG
1 GTCTTACCCGGACATAATCTCCACATGTAGTCATCGG
*
68681149 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACATGTAGTCATCGG
*
68681186 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
68681203 TTTCCAAGTT
Statistics
Matches: 121, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
37 116 0.96
38 5 0.04
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACATGTAGTCATCGG
Found at i:68681304 original size:48 final size:48
Alignment explanation
Indices: 68681242--68681393 Score: 223
Period size: 48 Copynumber: 3.2 Consensus size: 48
68681232 TATTACAACA
* *
68681242 TTCACATTAGCCATTCGGCTTTACCACATATATATAACACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* ** * *
68681290 TTCACATTAGCCATTCGGCTTTACCACATACACATATCTTATATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
68681338 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
68681386 TTCACATT
1 TTCACATT
68681394 CATCACATCG
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 90 1.00
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:68684145 original size:13 final size:13
Alignment explanation
Indices: 68684129--68684161 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
68684119 TTTGATTAAA
*
68684129 TTAGTTAATTAGT
1 TTAGATAATTAGT
68684142 TTAGATAATTAGT
1 TTAGATAATTAGT
68684155 TTA-ATAA
1 TTAGATAA
68684162 ACAAACTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:68689534 original size:6 final size:6
Alignment explanation
Indices: 68689515--68689555 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
68689505 TCCTCTTATT
* *
68689515 TTTTTA TTTCTA TTTTTA TTTTTA TTTTTA TGTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
68689556 CGTTATAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:68692531 original size:71 final size:71
Alignment explanation
Indices: 68692447--68692610 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
68692437 CGATTTGTCT
68692447 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
68692512 CTTTCA
66 CTTTCA
* *
68692518 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
68692583 CTTTCA
66 CTTTCA
68692589 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
68692611 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:68692648 original size:71 final size:70
Alignment explanation
Indices: 68692447--68692644 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
68692437 CGATTTGTCT
* * * * *
68692447 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
68692512 CTTTCA
65 CTTTCA
* * * *
68692518 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
68692583 CTTTCA
65 CTTTCA
* *
68692589 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
68692645 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:68699573 original size:66 final size:68
Alignment explanation
Indices: 68699495--68699681 Score: 272
Period size: 71 Copynumber: 2.7 Consensus size: 68
68699485 TAGTACCACT
*
68699495 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAAT
68699557 CACG
65 CACG
*
68699561 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGA
68699626 ATCACG
63 ATCACG
68699632 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
68699682 GATACATCTC
Statistics
Matches: 113, Mismatches: 2, Indels: 7
0.93 0.02 0.06
Matches are distributed among these distances:
66 13 0.12
67 6 0.05
68 1 0.01
69 1 0.01
71 92 0.81
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATC
ACG
Found at i:68699606 original size:71 final size:71
Alignment explanation
Indices: 68699518--68699681 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
68699508 CGATTTGTCT
68699518 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
68699583 CTTTCA
66 CTTTCA
*
68699589 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
68699654 CTTTCA
66 CTTTCA
68699660 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
68699682 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:68699719 original size:71 final size:70
Alignment explanation
Indices: 68699518--68699715 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
68699508 CGATTTGTCT
* * * *
68699518 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
68699583 CTTTCA
65 CTTTCA
* * * *
68699589 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
68699654 CTTTCA
65 CTTTCA
* *
68699660 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
68699716 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 95 0.80
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:68700671 original size:13 final size:13
Alignment explanation
Indices: 68700655--68700687 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
68700645 TTTGATTAAA
*
68700655 TTAGTTAATTAGT
1 TTAGATAATTAGT
68700668 TTAGATAATTAGT
1 TTAGATAATTAGT
68700681 TTA-ATAA
1 TTAGATAA
68700688 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:68716562 original size:30 final size:30
Alignment explanation
Indices: 68716526--68716598 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
68716516 ATAAATGAGG
68716526 CCACACGGGCGTGCGACATGGCCATGTATA
1 CCACACGGGCGTGCGACATGGCCATGTATA
* *
68716556 CCACACGGGCGTGCGACATGGCCGTGTATG
1 CCACACGGGCGTGCGACATGGCCATGTATA
*
68716586 CCATACGGGCGTG
1 CCACACGGGCGTG
68716599 TCCCAGGCCG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.19, C:0.30, G:0.34, T:0.16
Consensus pattern (30 bp):
CCACACGGGCGTGCGACATGGCCATGTATA
Found at i:68717220 original size:12 final size:13
Alignment explanation
Indices: 68717186--68717264 Score: 69
Period size: 12 Copynumber: 6.2 Consensus size: 13
68717176 TTATGTTGTA
*
68717186 ATTATTATT-ATT
1 ATTATTATTCTTT
*
68717198 ATTACTATTCTTT
1 ATTATTATTCTTT
68717211 ATTATT-TTC-TT
1 ATTATTATTCTTT
68717222 ATTATTATTCTTGT
1 ATTATTATTCTT-T
*
68717236 CATTATTAGTCTTT
1 -ATTATTATTCTTT
68717250 -TTAGTTATT-TTT
1 ATTA-TTATTCTTT
68717262 ATT
1 ATT
68717265 CTATTGGTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
11 8 0.15
12 20 0.36
13 14 0.25
14 2 0.04
15 11 0.20
ACGTcount: A:0.23, C:0.08, G:0.04, T:0.66
Consensus pattern (13 bp):
ATTATTATTCTTT
Found at i:68718831 original size:6 final size:6
Alignment explanation
Indices: 68718820--68718923 Score: 118
Period size: 6 Copynumber: 17.3 Consensus size: 6
68718810 ATTGAGTCCA
* * * * * *
68718820 TTTATC TTTATC TTTATC TTTATC TTTATC TTTATT TTTATT TCTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * * *
68718868 TCTATT TCTATT TTTATT TTTATT TTTATT TTTATT TTTATG TTTATG
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
68718916 TTTATT TT
1 TTTATT TT
68718924 GTTTTCCTAT
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 93 1.00
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:68719146 original size:19 final size:21
Alignment explanation
Indices: 68719122--68719163 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
68719112 ATCTCCCTAC
68719122 ATTATGA-TAT-TTTGTTTGT
1 ATTATGATTATATTTGTTTGT
68719141 ATTATGATTTATATTTGTTTGT
1 ATTATGA-TTATATTTGTTTGT
68719163 A
1 A
68719164 CATTGATGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
21 3 0.15
22 10 0.50
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (21 bp):
ATTATGATTATATTTGTTTGT
Found at i:68721099 original size:30 final size:30
Alignment explanation
Indices: 68721065--68721124 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
68721055 CTATATTTGA
*
68721065 GATGTTTTTCTACTACAATATGAACTAAAC
1 GATGTTTTTCTACTAAAATATGAACTAAAC
68721095 GATGTTTTTCTACTAAAATATGAACTAAAC
1 GATGTTTTTCTACTAAAATATGAACTAAAC
68721125 TCCCTAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (30 bp):
GATGTTTTTCTACTAAAATATGAACTAAAC
Found at i:68725894 original size:15 final size:15
Alignment explanation
Indices: 68725874--68725903 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
68725864 TTAAATTACT
68725874 TATTCAAAAGTTGAA
1 TATTCAAAAGTTGAA
68725889 TATTCAAAAGTTGAA
1 TATTCAAAAGTTGAA
68725904 GTACTTTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (15 bp):
TATTCAAAAGTTGAA
Found at i:68726849 original size:16 final size:17
Alignment explanation
Indices: 68726816--68726856 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
68726806 AATAGTTATT
68726816 TAATTTAATATTTATAA
1 TAATTTAATATTTATAA
68726833 TAATTT-AT-TTTATTAA
1 TAATTTAATATTTA-TAA
*
68726849 TAACTTAA
1 TAATTTAA
68726857 AAAAATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 4 0.19
16 10 0.48
17 7 0.33
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
TAATTTAATATTTATAA
Found at i:68740632 original size:98 final size:98
Alignment explanation
Indices: 68740515--68740695 Score: 238
Period size: 98 Copynumber: 1.8 Consensus size: 98
68740505 GGATGTTACA
* * * * * **
68740515 TATGGTCTTACACACCATAATTCCTCACGTTTAATGTCGTGG-CGAACTACCTTGTGTTCATTGT
1 TATGGTCTAACACACCATAATTCCCCACGTTTAATGTCATGGAAG-ACAACCCCGTGTTCATTGT
68740579 CCTGCCAGACTACCATTTGTTGCCATAGTCGAAC
65 CCTGCCAGACTACCATTTGTTGCCATAGTCGAAC
* * *
68740613 TATGGTCTAACACATCATAATTCCCCATGTTTAATGTCATGGAAGACAACCCCGTGTTTATTGTC
1 TATGGTCTAACACACCATAATTCCCCACGTTTAATGTCATGGAAGACAACCCCGTGTTCATTGTC
**
68740678 CTGGTAGACTACCATTTG
66 CTGCCAGACTACCATTTG
68740696 GTTCTATGTC
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
98 69 0.99
99 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (98 bp):
TATGGTCTAACACACCATAATTCCCCACGTTTAATGTCATGGAAGACAACCCCGTGTTCATTGTC
CTGCCAGACTACCATTTGTTGCCATAGTCGAAC
Found at i:68740677 original size:27 final size:27
Alignment explanation
Indices: 68740635--68740686 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
68740625 CATCATAATT
68740635 CCCCATGTTTAATGTCATGGAAGACAA
1 CCCCATGTTTAATGTCATGGAAGACAA
* * * *
68740662 CCCCGTGTTTATTGTCCTGGTAGAC
1 CCCCATGTTTAATGTCATGGAAGAC
68740687 TACCATTTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (27 bp):
CCCCATGTTTAATGTCATGGAAGACAA
Found at i:68740715 original size:98 final size:97
Alignment explanation
Indices: 68740514--68740740 Score: 232
Period size: 98 Copynumber: 2.4 Consensus size: 97
68740504 GGGATGTTAC
* * * * * * **
68740514 ATATGGTCTTACACACCATAATTCCTCACGTTTAATGTCGTGGCGAACTACCTTGTGTTCATTGT
1 ATATGGTCTTACACATCATAATTCCCCATGTTTAATGTCATGGAGAACAACCCCGTGTTCATTGT
68740579 CCTGCCAGACTACCATTTGTTGCCATAGTCGA
66 CCTGCCAGACTACCATTTGTTGCCATAGTCGA
* *
68740611 ACTATGGTCTAACACATCATAATTCCCCATGTTTAATGTCATGGA-AGACAACCCCGTGTTTATT
1 A-TATGGTCTTACACATCATAATTCCCCATGTTTAATGTCATGGAGA-ACAACCCCGTGTTCATT
** *
68740675 GTCCTGGTAGACTACCATTTGGTT-CTAT-GTCTGA
64 GTCCTGCCAGACTACCATTT-GTTGCCATAGTC-GA
* *
68740709 GATATGGTGTTACACAT--T-ATTCCCAATGTTTA
1 -ATATGGTCTTACACATCATAATTCCCCATGTTTA
68740741 GCATCCTAAA
Statistics
Matches: 109, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
95 13 0.12
96 1 0.01
97 5 0.05
98 86 0.79
99 4 0.04
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (97 bp):
ATATGGTCTTACACATCATAATTCCCCATGTTTAATGTCATGGAGAACAACCCCGTGTTCATTGT
CCTGCCAGACTACCATTTGTTGCCATAGTCGA
Found at i:68745136 original size:13 final size:13
Alignment explanation
Indices: 68745118--68745144 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
68745108 TTAATGAAGA
68745118 TTTTCTTTATTCT
1 TTTTCTTTATTCT
68745131 TTTTCTTTATTCT
1 TTTTCTTTATTCT
68745144 T
1 T
68745145 CATACTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTCTTTATTCT
Found at i:68758038 original size:50 final size:50
Alignment explanation
Indices: 68757963--68758063 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
68757953 TTTATTTATC
68757963 AAGTTACATATTATTCACATAATCATTTTCATAATTGCCATTACATTTCT
1 AAGTTACATATTATTCACATAATCATTTTCATAATTGCCATTACATTTCT
68758013 AAGTTACATATTATTCACATAATCATTTTCATAATTGCCATTACATTTCT
1 AAGTTACATATTATTCACATAATCATTTTCATAATTGCCATTACATTTCT
68758063 A
1 A
68758064 CTCTCGTTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.35, C:0.18, G:0.04, T:0.44
Consensus pattern (50 bp):
AAGTTACATATTATTCACATAATCATTTTCATAATTGCCATTACATTTCT
Found at i:68764091 original size:21 final size:21
Alignment explanation
Indices: 68764067--68764123 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
68764057 TATGGTCCAA
*
68764067 GGGACACTCCCGTGTGACCCT
1 GGGACACACCCGTGTGACCCT
*
68764088 GGGACACACTCGTGTGACCCT
1 GGGACACACCCGTGTGACCCT
68764109 GGGACA-AGCCCGTGT
1 GGGACACA-CCCGTGT
68764124 TGGAGGCCGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 1 0.03
21 31 0.97
ACGTcount: A:0.18, C:0.33, G:0.32, T:0.18
Consensus pattern (21 bp):
GGGACACACCCGTGTGACCCT
Found at i:68769761 original size:49 final size:49
Alignment explanation
Indices: 68769702--68769824 Score: 149
Period size: 49 Copynumber: 2.5 Consensus size: 49
68769692 GTTGATGTCG
*
68769702 TGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAG-GCCGATGCCA
1 TGTCCCAGACAGGTCTTACACTAACTCTCATATATCG-GTGCCGATGCCA
** * ** *
68769751 TGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTTGATGGCA
1 TGTCCCAGACAGGTCTTACACTAACTCTCATATATCGGTGCCGATGCCA
* *
68769800 TATCCCAGACAAGTCTTACACTAAC
1 TGTCCCAGACAGGTCTTACACTAAC
68769825 ACACAACAAC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
48 1 0.02
49 61 0.98
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (49 bp):
TGTCCCAGACAGGTCTTACACTAACTCTCATATATCGGTGCCGATGCCA
Found at i:68769816 original size:98 final size:97
Alignment explanation
Indices: 68769644--68769824 Score: 238
Period size: 98 Copynumber: 1.9 Consensus size: 97
68769634 GGGGTAAGAT
* * * *
68769644 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATTAAAGTTGATGTCGTGTCCCA
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTTGATGGCATATCCCA
*
68769709 GACAGGTCTTACACTAACTTTCATATATCGAG
66 GACAAGTCTTACACTAACTTTCATATATCGAG
* ** ***
68769741 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATCTATCGGTGTTGATGGCATATCC
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAGCA-C-ATCAAAGTTGATGGCATATCC
68769805 CAGACAAGTCTTACACTAAC
64 CAGACAAGTCTTACACTAAC
68769825 ACACAACAAC
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
96 17 0.24
97 21 0.30
98 33 0.46
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (97 bp):
GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTTGATGGCATATCCCA
GACAAGTCTTACACTAACTTTCATATATCGAG
Found at i:68773748 original size:40 final size:40
Alignment explanation
Indices: 68773689--68773895 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
68773679 CAATTGAATG
* * * *
68773689 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * *
68773729 ATATCCGGGTTAAGACCCGAAGGCA-TTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
68773768 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
68773808 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
68773848 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
68773888 ATATCCGG
1 ATATCCGG
68773896 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 34 0.24
40 108 0.76
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:68773868 original size:80 final size:77
Alignment explanation
Indices: 68773690--68773895 Score: 241
Period size: 79 Copynumber: 2.6 Consensus size: 77
68773680 AATTGAATGA
* * ** * * *
68773690 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAT
*
68773755 TGTGCTAGTGAC
66 TGTGCAAGTGAC
* * *
68773767 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
*
68773832 ATTTGTGCAAGTCGTTC
64 A-TTGTGCAAGT-G-AC
* *
68773849 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
68773896 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
77 1 0.01
79 53 0.49
80 52 0.48
81 1 0.01
82 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (77 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAT
TGTGCAAGTGAC
Found at i:68781780 original size:40 final size:40
Alignment explanation
Indices: 68781707--68781914 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
68781697 CAATTGAATG
* * ** *
68781707 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * * **
68781747 ATATCAGGGTTAAGACCCGAAGGCCATT-GTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTAATT
* **
68781787 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
68781827 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
68781867 CTATCCGGGCTAAGACCCGGAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
68781907 ATATCCGG
1 ATATCCGG
68781915 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
39 4 0.03
40 130 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
Found at i:68781850 original size:80 final size:80
Alignment explanation
Indices: 68781709--68781914 Score: 218
Period size: 80 Copynumber: 2.6 Consensus size: 80
68781699 ATTGAATGAT
* * ** * * * *
68781709 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCAGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
68781773 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
68781789 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
68781854 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* * *
68781869 ATCCGGGCTAAGACCCGGAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
68781915 TTGTATTCCG
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
79 2 0.02
80 101 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:68788787 original size:49 final size:48
Alignment explanation
Indices: 68788636--68788806 Score: 157
Period size: 49 Copynumber: 3.5 Consensus size: 48
68788626 GATGCCGACA
* *
68788636 CCATGTCCCAGACATGGTCTTACACTGGCTAGCA-C-ATTAAAGTCGATG
1 CCATGTCCCAGACA-GGTCTTACACTGGCTATCATCTATT-AGGTCGATG
* * * * * * * *
68788684 TCATGTCCCAAACAGGTCTTATACTGACTTTCATATATCAAGGCCGATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTATCATCTAT-TAGGTCGATG
* * *
68788733 CCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATTGGTGTTGATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATTAG-GTCGATG
* *
68788782 GCATGTCCCAGACAAGTCTTACACT
1 CCATGTCCCAGACAGGTCTTACACT
68788807 AACACACAAC
Statistics
Matches: 97, Mismatches: 22, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
47 15 0.15
48 13 0.13
49 69 0.71
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (48 bp):
CCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATTAGGTCGATG
Found at i:68788834 original size:93 final size:95
Alignment explanation
Indices: 68788629--68788846 Score: 237
Period size: 98 Copynumber: 2.3 Consensus size: 95
68788619 GGGGTAAGAT
* *
68788629 GCCGACACCATGTCCCAGACATGGTCTTACACTGGCTAGCACATTAAAGTCGATGTCATGTCCCA
1 GCCGACGCCATGTCCCAGACA-GGTCTTACACTGGCTAGCACATTAAAGTCGATGGCATGTCCCA
* * * * *
68788694 AACAGGTCTTATACTGACTTTCATATATCAAG
65 AACAAGTCTTACACTAAC-TACACATATCAAG
* ** *** *
68788726 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATTGGTGTTGATGGCATGTCCC
1 GCCGACGCCATGTCCCAGACAGGTCTTACACTGGCTAGCA-C-ATTAAAGTCGATGGCATGTCCC
*
68788791 AGACAAGTCTTACACTAAC-ACACA-A-CAA-
64 AAACAAGTCTTACACTAACTACACATATCAAG
68788819 GCCGACGCCATGTCCCAGACAGGTCTTA
1 GCCGACGCCATGTCCCAGACAGGTCTTA
68788847 TACTAGCTTG
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
93 27 0.26
94 3 0.03
95 1 0.01
96 20 0.19
97 20 0.19
98 32 0.31
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (95 bp):
GCCGACGCCATGTCCCAGACAGGTCTTACACTGGCTAGCACATTAAAGTCGATGGCATGTCCCAA
ACAAGTCTTACACTAACTACACATATCAAG
Found at i:68791478 original size:2 final size:2
Alignment explanation
Indices: 68791471--68791506 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
68791461 ATGCTAGCTT
68791471 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
68791507 AGTGATTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:68794018 original size:20 final size:20
Alignment explanation
Indices: 68793989--68794033 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
68793979 AATTCATGTA
* *
68793989 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
68794009 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
68794029 TTCAT
1 TTCAT
68794034 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:68796225 original size:3 final size:3
Alignment explanation
Indices: 68796217--68796264 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
68796207 TATTGCTTAG
68796217 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
68796265 ATGAGAGTGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:68799391 original size:13 final size:13
Alignment explanation
Indices: 68799370--68799440 Score: 79
Period size: 13 Copynumber: 5.5 Consensus size: 13
68799360 AAATTTTTCC
68799370 AAAGCACTTCTCA
1 AAAGCACTTCTCA
*
68799383 AAAGTACTTCTCA
1 AAAGCACTTCTCA
* *
68799396 AAAGCACTTTTCC
1 AAAGCACTTCTCA
* * *
68799409 ACAGCACTTTTCC
1 AAAGCACTTCTCA
*
68799422 AAAGCACTTTTCA
1 AAAGCACTTCTCA
68799435 AAAGCA
1 AAAGCA
68799441 ATGAAGAACT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 51 1.00
ACGTcount: A:0.37, C:0.28, G:0.08, T:0.27
Consensus pattern (13 bp):
AAAGCACTTCTCA
Found at i:68799399 original size:26 final size:26
Alignment explanation
Indices: 68799370--68799440 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
68799360 AAATTTTTCC
* *
68799370 AAAGCACTTCTCAAAAGTACTTCTCA
1 AAAGCACTTTTCAAAAGCACTTCTCA
* * * *
68799396 AAAGCACTTTTCCACAGCACTTTTCC
1 AAAGCACTTTTCAAAAGCACTTCTCA
68799422 AAAGCACTTTTCAAAAGCA
1 AAAGCACTTTTCAAAAGCA
68799441 ATGAAGAACT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.37, C:0.28, G:0.08, T:0.27
Consensus pattern (26 bp):
AAAGCACTTTTCAAAAGCACTTCTCA
Found at i:68799415 original size:39 final size:39
Alignment explanation
Indices: 68799364--68799440 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 39
68799354 ACACTTAAAT
*
68799364 TTTTCCAAAGCACTTCTCAAAAGTACTTCTCAAAAGCAC
1 TTTTCCAAAGCACTTCTCAAAAGCACTTCTCAAAAGCAC
* * * *
68799403 TTTTCCACAGCACTTTTCCAAAGCACTTTTCAAAAGCA
1 TTTTCCAAAGCACTTCTCAAAAGCACTTCTCAAAAGCA
68799441 ATGAAGAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.30
Consensus pattern (39 bp):
TTTTCCAAAGCACTTCTCAAAAGCACTTCTCAAAAGCAC
Found at i:68799558 original size:50 final size:50
Alignment explanation
Indices: 68799492--68799784 Score: 336
Period size: 50 Copynumber: 5.8 Consensus size: 50
68799482 TTAACTTTGA
* *
68799492 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAG
* * *
68799542 TCACGTGTGTATTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAG
* * * ** * * ** *
68799592 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGTTAACTT-TG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTTAAG
* *
68799642 ATCACGCGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAG
1 -TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAG
* * * * *
68799693 TCAAGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAG
* * *
68799743 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
68799785 GAGCTTCGGT
Statistics
Matches: 200, Mismatches: 40, Indels: 6
0.81 0.16 0.02
Matches are distributed among these distances:
50 163 0.81
51 37 0.19
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAG
Found at i:68799647 original size:101 final size:101
Alignment explanation
Indices: 68799542--68799723 Score: 294
Period size: 101 Copynumber: 1.8 Consensus size: 101
68799532 GATGGTTAAG
* * * * *
68799542 TCACGTGTGTATTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCA-TGTGTAGTA
1 TCACGCGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAGTC-AAGTGTGTAGTA
68799606 CTAAGTGCAGGCTACTATGCATACCCGTTAACTTTGA
65 CTAAGTGCAGGCTACTATGCATACCCGTTAACTTTGA
*
68799643 TCACGCGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCAAGTGTGTAGTAC
1 TCACGCGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAGTCAAGTGTGTAGTAC
68799708 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
68799724 CATGTACCAG
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
100 1 0.01
101 73 0.99
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (101 bp):
TCACGCGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAGTCAAGTGTGTAGTAC
TAAGTGCAGGCTACTATGCATACCCGTTAACTTTGA
Found at i:68799730 original size:151 final size:151
Alignment explanation
Indices: 68799455--68799781 Score: 573
Period size: 151 Copynumber: 2.2 Consensus size: 151
68799445 AGAACTGGCC
* * *
68799455 CTAAGTGCAGGCTACTATGCGTACCTGTTAACTTTGATCACGTGTGTAGTACTAAGTGTAGGCTA
1 CTAAGTGCAGGCTACTATGCGTACCCGTTAACTTTGATCACGCGTGTAGTACTAAGTGCAGGCTA
* * *
68799520 CTACGTGTATCAGATGGTTAAGTCACGTGTGTATTACTAAGTGCAGGCTACTACGTGTACCAGAT
66 CTACGTGTATCAGATGGTTAAGTCAAGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGAT
* *
68799585 TGTTAGGTCGCATGTGTAGTA
131 TGATAGGTCACATGTGTAGTA
*
68799606 CTAAGTGCAGGCTACTATGCATACCCGTTAACTTTGATCACGCGTGTAGTACTAAGTGCAGGCTA
1 CTAAGTGCAGGCTACTATGCGTACCCGTTAACTTTGATCACGCGTGTAGTACTAAGTGCAGGCTA
68799671 CTACGTGTATCAGATGGTTAAGTCAAGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGAT
66 CTACGTGTATCAGATGGTTAAGTCAAGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGAT
68799736 TGATAGGTCACATGTGTAGTA
131 TGATAGGTCACATGTGTAGTA
68799757 CTAAGTGCAGGCTACTATGCGTACC
1 CTAAGTGCAGGCTACTATGCGTACC
68799782 AGAGAGCTTC
Statistics
Matches: 166, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
151 166 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (151 bp):
CTAAGTGCAGGCTACTATGCGTACCCGTTAACTTTGATCACGCGTGTAGTACTAAGTGCAGGCTA
CTACGTGTATCAGATGGTTAAGTCAAGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGAT
TGATAGGTCACATGTGTAGTA
Found at i:68800005 original size:16 final size:16
Alignment explanation
Indices: 68799984--68800015 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
68799974 AGAATGGAGT
68799984 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
68800000 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
68800016 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:68811923 original size:21 final size:20
Alignment explanation
Indices: 68811890--68811928 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
68811880 TAGATATAGG
68811890 TTGAGTGAATTTGACATGTTT
1 TTGAGTGAATTTGA-ATGTTT
**
68811911 TTGAGTGTGTTTGAATGT
1 TTGAGTGAATTTGAATGT
68811929 AGTTTAGTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.21, C:0.03, G:0.28, T:0.49
Consensus pattern (20 bp):
TTGAGTGAATTTGAATGTTT
Found at i:68816306 original size:20 final size:20
Alignment explanation
Indices: 68816281--68816323 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
68816271 ATATAAGGAT
68816281 AAGGTATCGATACTTTGTGA
1 AAGGTATCGATACTTTGTGA
* * *
68816301 AAGGTATTGATATTTTGTTA
1 AAGGTATCGATACTTTGTGA
68816321 AAG
1 AAG
68816324 ATATTAATGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.40
Consensus pattern (20 bp):
AAGGTATCGATACTTTGTGA
Found at i:68816328 original size:20 final size:20
Alignment explanation
Indices: 68816289--68816328 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
68816279 ATAAGGTATC
*
68816289 GATACTTTGTGAAAGGTATT
1 GATACTTTGTGAAAGATATT
* *
68816309 GATATTTTGTTAAAGATATT
1 GATACTTTGTGAAAGATATT
68816329 AATGCTTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.20, T:0.45
Consensus pattern (20 bp):
GATACTTTGTGAAAGATATT
Found at i:68821115 original size:53 final size:54
Alignment explanation
Indices: 68821034--68821240 Score: 220
Period size: 53 Copynumber: 3.8 Consensus size: 54
68821024 TTTCCTCTTT
* * * * *
68821034 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* **
68821087 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATG-GGTCCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
** * * * * *
68821141 GTAACTCATAAATGCCATGTCTTGACATGGTTTTAAATGATTTCCTTTCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * *
68821196 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCT
68821241 CATCTTACCA
Statistics
Matches: 127, Mismatches: 23, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
52 3 0.02
53 42 0.33
54 38 0.30
55 41 0.32
56 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:68821170 original size:55 final size:54
Alignment explanation
Indices: 68821045--68821233 Score: 215
Period size: 55 Copynumber: 3.5 Consensus size: 54
68821035 AACTTACCAT
* * *
68821045 TGCCATGTCTTGACATGGTCTTACGTGGTATCC-TTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGG-ATCCTTTGCCTTATAGAACTCATCAA
* * *
68821098 TGCCATGCCTTGGCATGGTCTTACATGGGTCCTTTGCCTTATAGTAACTCATAAA
1 TGCCATGCCTTGACATGGTCTTACATGGATCCTTTGCCTTATAG-AACTCATCAA
* * * *
68821153 TGCCATGTCTTGACATGGTTTTAAAT-GATTTCCTTT-CCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGA--TCCTTTGCCTTATAGAACTCATCAA
*
68821207 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
68821234 ATATCCTCAT
Statistics
Matches: 113, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
52 3 0.03
53 34 0.30
54 32 0.28
55 38 0.34
56 6 0.05
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.37
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGGATCCTTTGCCTTATAGAACTCATCAA
Found at i:68821335 original size:47 final size:47
Alignment explanation
Indices: 68821220--68821341 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
68821210 CATGCCTTGG
* **
68821220 CATGGTCTTACATGATATCCTCATCTTACCAAACGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAACGCCATGTTCCAAA
**
68821267 CATGGTCTTACATGGTATCCTTGTCTTACCAAATTCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAACGCCATGTTCCAAA
68821314 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
68821342 GTGCCAATGC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAACGCCATGTTCCAAA
Found at i:68821530 original size:44 final size:44
Alignment explanation
Indices: 68821481--68821564 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
68821471 TCCTTAACCG
* *
68821481 TCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCCA
1 TCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCCA
* *
68821525 TCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
68821565 GAGATATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCCA
Found at i:68826385 original size:40 final size:40
Alignment explanation
Indices: 68826338--68826541 Score: 295
Period size: 40 Copynumber: 5.1 Consensus size: 40
68826328 CAGGATTTAA
* * *
68826338 CCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
68826378 CCAGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
68826418 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
68826458 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTATC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
68826498 CCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
68826538 CCGG
1 CCGG
68826542 TTATCATCCA
Statistics
Matches: 151, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:68836252 original size:40 final size:40
Alignment explanation
Indices: 68836190--68836407 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
68836180 AAGCCAAGTA
* * * *
68836190 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
68836229 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
68836269 CCTTCGGGACTTAGTCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
68836309 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
68836349 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
68836389 CCTTTGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
68836408 TTATCATCCA
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 13 0.08
40 148 0.92
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:68843101 original size:40 final size:40
Alignment explanation
Indices: 68843016--68843166 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
68843006 AATTGAATGA
* * *
68843016 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
68843056 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
68843097 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
68843136 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
68843167 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:68843180 original size:40 final size:40
Alignment explanation
Indices: 68843053--68843182 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
68843043 ATGCTGGAAA
* * * *
68843053 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
68843093 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
68843133 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
68843173 TTATATCCGG
1 TTATATCCGG
68843183 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:68847046 original size:40 final size:40
Alignment explanation
Indices: 68846987--68847194 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 40
68846977 CAATTGAATG
* * * *
68846987 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
68847027 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
68847067 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
68847107 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
68847147 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
68847187 ATATCCGG
1 ATATCCGG
68847195 TTGTATTCCG
Statistics
Matches: 143, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:68850311 original size:40 final size:40
Alignment explanation
Indices: 68850247--68850450 Score: 281
Period size: 40 Copynumber: 5.2 Consensus size: 40
68850237 CGGATGATAA
* *
68850247 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
*
68850287 CGAAGGCATTTGTGCGAGTTACTA-ATCCGGGCTAAGTTC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
68850326 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* *
68850366 CGAAGGCATTTATGCGAGCTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * * *
68850406 CGAAGGCGTTTGAGCGAG-TAGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCC
68850445 CGAAGG
1 CGAAGG
68850451 TACTTGGTTT
Statistics
Matches: 151, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 53 0.35
40 98 0.65
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:68850382 original size:79 final size:80
Alignment explanation
Indices: 68850247--68850450 Score: 281
Period size: 79 Copynumber: 2.6 Consensus size: 80
68850237 CGGATGATAA
* * * *
68850247 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGCTACTA
*
68850311 -ATCCGGGCTAAGTTC
65 TATCCGGGCTAAGTCC
68850326 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGCTACTAT
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGCTACTAT
68850391 ATCCGGGCTAAGTCC
66 ATCCGGGCTAAGTCC
* * * *
68850406 CGAAGGCGTTTGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
68850451 TACTTGGTTT
Statistics
Matches: 113, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
79 74 0.65
80 39 0.35
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGCTACTAT
ATCCGGGCTAAGTCC
Found at i:68853625 original size:54 final size:55
Alignment explanation
Indices: 68853482--68853635 Score: 179
Period size: 55 Copynumber: 2.8 Consensus size: 55
68853472 ACGTATCATG
* * * **
68853482 AACTCACCAACGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGT
1 AACTCATCAATGCCATGCTTTGGCATGGTCTTACATGATATCC-TTGCCTTATAGT
* * * *
68853537 AACTCATCAATGCAATG-TCTTGACATGGTTTTACATGATTTCCTTGCCTTATAG-
1 AACTCATCAATGCCATGCT-TTGGCATGGTCTTACATGATATCCTTGCCTTATAGT
*
68853591 AACTTATCAATGCCATGCTTTGGCATGGTCTTACATGATATCCTT
1 AACTCATCAATGCCATGCTTTGGCATGGTCTTACATGATATCCTT
68853636 ATCTTACCAA
Statistics
Matches: 82, Mismatches: 14, Indels: 7
0.80 0.14 0.07
Matches are distributed among these distances:
54 38 0.46
55 42 0.51
56 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (55 bp):
AACTCATCAATGCCATGCTTTGGCATGGTCTTACATGATATCCTTGCCTTATAGT
Found at i:68853667 original size:47 final size:47
Alignment explanation
Indices: 68853614--68853735 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
68853604 CATGCTTTGG
* * *
68853614 CATGGTCTTACATGATATCCTTATCTTACCAAATACCGTGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATACCATGGTCCAAA
* * *
68853661 CATGGTCTTACATGGTATCCTTGTCATACCAAATGCCATGGTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATACCATGGTCCAAA
68853708 CATGGTCTTACATGGTATCCTTATCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
68853736 GTGCCAATGC
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATACCATGGTCCAAA
Found at i:68853924 original size:44 final size:44
Alignment explanation
Indices: 68853875--68853958 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
68853865 TCCTTAACCG
* *
68853875 TCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCCT
1 TCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCCT
* *
68853919 TCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
68853959 GAAATATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCCT
Found at i:68857967 original size:30 final size:30
Alignment explanation
Indices: 68857931--68857992 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
68857921 TTTGGACATG
*
68857931 ATCTCTAATGAAATGAAGTCTCATTTCAAT
1 ATCTCTAATGAAATGAAGTCTAATTTCAAT
*
68857961 ATCTCTAATGAAATGATGTCTAATTTCAAT
1 ATCTCTAATGAAATGAAGTCTAATTTCAAT
68857991 AT
1 AT
68857993 TCTTGGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.39
Consensus pattern (30 bp):
ATCTCTAATGAAATGAAGTCTAATTTCAAT
Found at i:68858313 original size:32 final size:32
Alignment explanation
Indices: 68858276--68858340 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
68858266 TTAGTATTTC
68858276 TTTAGTTAAAGTTAACAAAATGAGAATTTTTA
1 TTTAGTTAAAGTTAACAAAATGAGAATTTTTA
68858308 TTTAGTTAAAGTTAACAAAATGAGAATTTTTA
1 TTTAGTTAAAGTTAACAAAATGAGAATTTTTA
68858340 T
1 T
68858341 GTGTTTCATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.42
Consensus pattern (32 bp):
TTTAGTTAAAGTTAACAAAATGAGAATTTTTA
Found at i:68867801 original size:40 final size:38
Alignment explanation
Indices: 68867757--68867899 Score: 160
Period size: 39 Copynumber: 3.6 Consensus size: 38
68867747 GTTCAAAACA
* ** * *
68867757 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGG-TATCATAACTCGCACAATTG
* *
68867797 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGG-TATCATAACTCGCACAATTG
*
68867837 CCTTCGGGCTTAGCCCGAGTATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCG-GTATCATAACTCGCACAATTG
68867876 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGG-TATCA
68867900 CTCGAACATT
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 48 0.53
40 41 0.46
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.23
Consensus pattern (38 bp):
CCTTCGGGCTTAGCCCGGTATCATAACTCGCACAATTG
Found at i:68867871 original size:39 final size:39
Alignment explanation
Indices: 68867787--68867900 Score: 167
Period size: 39 Copynumber: 2.9 Consensus size: 39
68867777 TATGGTAACC
* *
68867787 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
68867827 CGCACAATTGCCTTCGGGCTTAGCCC-GAGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGA-TATCACAACT
68867866 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
68867901 TCGAACATTC
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
38 2 0.03
39 46 0.69
40 19 0.28
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:68870563 original size:27 final size:26
Alignment explanation
Indices: 68870528--68870639 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
68870518 AGCATGGCTG
* *
68870528 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
68870554 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
68870582 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
68870609 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
68870636 CCAG
1 CCAG
68870640 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:68870620 original size:54 final size:54
Alignment explanation
Indices: 68870528--68870639 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
68870518 AGCATGGCTG
* *
68870528 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
68870582 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
68870636 CCAG
1 CCAG
68870640 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:68878282 original size:27 final size:26
Alignment explanation
Indices: 68878247--68878358 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
68878237 AGCATGGCTG
* *
68878247 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
68878273 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
68878301 CCAGAACAGAAATATGTGGCAGAACCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
68878328 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
68878355 CCAG
1 CCAG
68878359 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.69
28 17 0.23
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:68878338 original size:54 final size:54
Alignment explanation
Indices: 68878247--68878358 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
68878237 AGCATGGCTG
* **
68878247 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAACCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
68878301 CCAGAACAGAAATATGTGGCAGAACCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAACCACCAGATACAGATAATCGTGGCAGAGCCA
68878355 CCAG
1 CCAG
68878359 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAACCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:68884999 original size:28 final size:29
Alignment explanation
Indices: 68884934--68884999 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 29
68884924 CAAAAATTAT
68884934 ATAATTATTA-TAAAATAATTATTTTAGAC
1 ATAATT-TTATTAAAATAATTATTTTAGAC
* *
68884963 TTAA-ATTATTAAAATAATTAATTTTA-A-
1 ATAATTTTATTAAAATAATT-ATTTTAGAC
68884990 ATAATTTTAT
1 ATAATTTTAT
68885000 AATAAATTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
27 6 0.20
28 15 0.50
29 9 0.30
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (29 bp):
ATAATTTTATTAAAATAATTATTTTAGAC
Found at i:68899293 original size:40 final size:40
Alignment explanation
Indices: 68899233--68899436 Score: 250
Period size: 40 Copynumber: 5.1 Consensus size: 40
68899223 CAGAATTTAA
* ** *
68899233 CCGGATATAACCACAAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
* *** * *
68899273 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
68899313 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
68899353 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** *
68899393 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACGAATGCCTTCGGGTCTTAGC
68899433 CCGG
1 CCGG
68899437 GTATCATTCA
Statistics
Matches: 144, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 141 0.98
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:68905394 original size:34 final size:33
Alignment explanation
Indices: 68905345--68905408 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
68905335 TGTATCAGTA
* *
68905345 ACAGTTCAGTTTCAGT-TAGGGCCTTAGCCCATT
1 ACAGTTCAGTATCAGTGT-GGGCCATAGCCCATT
68905378 ACAGTATCAGTATCAGTGTGGGCCATAGCCC
1 ACAGT-TCAGTATCAGTGTGGGCCATAGCCC
68905409 CTTTTTATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 5 0.19
34 21 0.78
35 1 0.04
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (33 bp):
ACAGTTCAGTATCAGTGTGGGCCATAGCCCATT
Found at i:68905814 original size:18 final size:17
Alignment explanation
Indices: 68905788--68905821 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
68905778 CATAATGCGT
68905788 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
68905806 GCCCCTGTGGCCCACA
1 GCCCATGTGGCCCACA
68905822 TAGCCCAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.47, G:0.26, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:68908133 original size:46 final size:46
Alignment explanation
Indices: 68908083--68908258 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
68908073 ATGGTTGGCA
68908083 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
68908129 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
68908176 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
68908222 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68908259 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:68908238 original size:93 final size:93
Alignment explanation
Indices: 68908079--68908250 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
68908069 TAGGATGGTT
* *
68908079 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
68908144 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
68908172 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
68908237 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
68908251 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:68911208 original size:15 final size:15
Alignment explanation
Indices: 68911188--68911256 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
68911178 GTATCTTGGG
68911188 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
68911203 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
68911218 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
68911233 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
68911248 TTTCTTTAT
1 TTTCTTTAT
68911257 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:68911257 original size:30 final size:30
Alignment explanation
Indices: 68911179--68911266 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
68911169 CATAGTATCG
* * * *
68911179 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
68911209 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
68911239 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
68911267 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:68917114 original size:42 final size:42
Alignment explanation
Indices: 68917003--68917115 Score: 127
Period size: 43 Copynumber: 2.7 Consensus size: 42
68916993 TATTACACCA
* ** *
68917003 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCACATCG
* * * ** *
68917045 TTGCCAATAGCCCAGCTATAATCTTACACGAAATCTCACATTG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCACATCG
68917088 ATGCCATATCCCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
68917116 ATATCCTCGG
Statistics
Matches: 55, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
42 23 0.42
43 32 0.58
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCACATCG
Found at i:68920386 original size:21 final size:21
Alignment explanation
Indices: 68920332--68920375 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
68920322 AACCAGTCAG
*
68920332 ACATTAAAATTTCTAAATCAA
1 ACATTAAAATTTCTAAACCAA
68920353 ACATTAAAATTTCTAAACCAA
1 ACATTAAAATTTCTAAACCAA
68920374 AC
1 AC
68920376 CTTCACATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (21 bp):
ACATTAAAATTTCTAAACCAA
Found at i:68929956 original size:20 final size:21
Alignment explanation
Indices: 68929915--68929970 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
68929905 GCTAATAGAT
*
68929915 GCACCATAGTGCAAATACAGAG
1 GCACCAAAGTGC-AATACAGAG
*
68929937 GTACCAAAGTGCAA-ACAGAG
1 GCACCAAAGTGCAATACAGAG
68929957 GCACCAAAGTGCAA
1 GCACCAAAGTGCAA
68929971 CAAAGGCATC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 19 0.61
21 2 0.06
22 10 0.32
ACGTcount: A:0.43, C:0.23, G:0.23, T:0.11
Consensus pattern (21 bp):
GCACCAAAGTGCAATACAGAG
Found at i:68929977 original size:19 final size:19
Alignment explanation
Indices: 68929939--68929989 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
68929929 ATACAGAGGT
*
68929939 ACCAAAGTGCAAACAGAGGC
1 ACCAAAGTGC-AACAAAGGC
68929959 ACCAAAGTGCAACAAAGGC
1 ACCAAAGTGCAACAAAGGC
* *
68929978 ATCGAAGTGCAA
1 ACCAAAGTGCAA
68929990 ACCCGTACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.45, C:0.24, G:0.24, T:0.08
Consensus pattern (19 bp):
ACCAAAGTGCAACAAAGGC
Found at i:68933935 original size:19 final size:20
Alignment explanation
Indices: 68933893--68933936 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
68933883 CCTCTTGGGT
**
68933893 ATTTATTTTTAATTTGTTAG
1 ATTTATTTTTAATTCATTAG
68933913 -TTTATTTTT-ATTCATTAG
1 ATTTATTTTTAATTCATTAG
68933931 ATTTAT
1 ATTTAT
68933937 ATTTGCTAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.25, C:0.02, G:0.07, T:0.66
Consensus pattern (20 bp):
ATTTATTTTTAATTCATTAG
Found at i:68940539 original size:26 final size:25
Alignment explanation
Indices: 68940491--68940542 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
68940481 TAGCTCATAA
68940491 ATTTCACATTTCACAAATTAGTCCCT
1 ATTTCACATTTCACAAA-TAGTCCCT
68940517 ATTTCACATTTTCATCAAA-AGTCCCT
1 ATTTCACA-TTTCA-CAAATAGTCCCT
68940543 TAACAAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 15 0.62
27 5 0.21
28 4 0.17
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (25 bp):
ATTTCACATTTCACAAATAGTCCCT
Found at i:68944937 original size:78 final size:80
Alignment explanation
Indices: 68944841--68944991 Score: 193
Period size: 78 Copynumber: 1.9 Consensus size: 80
68944831 GGTTATAGCG
* * * *
68944841 ACTCGCAGGAATGCCTTCGGGA-CTTAACCCAGG-TTTAGTAACTT-GCACAATGCCTTCGGG-C
1 ACTCGCACGAATGCCTTC-GGATCCTAACCC-GGATATAGTAACTTAGCACAAAGCCTTCGGGAC
68944902 TTAGCCCGGATTTATTA
64 TTAGCCCGGATTTATTA
** *
68944919 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
68944984 AGCCCGGA
66 AGCCCGGA
68944992 CATCATTCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
77 5 0.08
78 31 0.50
79 15 0.24
80 11 0.18
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:68944991 original size:40 final size:39
Alignment explanation
Indices: 68944810--68944991 Score: 156
Period size: 40 Copynumber: 4.6 Consensus size: 39
68944800 GACTCGCTCA
** ** * *
68944810 AATGCCTTCGGGACGAAGCCCGG-TTATAGCGACTCGCAGG
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTTGCA-C
*
68944850 AATGCCTTCGGGACTTAACCCAGG-TTTAGTAACTTGCAC
1 AATGCCTTCGGGACTTAGCCC-GGATTTAGTAACTTGCAC
* *
68944889 AATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCAC
* * * *
68944927 GAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTT-GCAC
*
68944968 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
68944992 CATCATTCGA
Statistics
Matches: 116, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
37 2 0.02
38 22 0.19
39 21 0.18
40 60 0.52
41 11 0.09
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCAC
Found at i:68952906 original size:40 final size:39
Alignment explanation
Indices: 68952809--68952944 Score: 100
Period size: 40 Copynumber: 3.5 Consensus size: 39
68952799 GAATCACGTA
* * * * *
68952809 CCTTCGGAATTTAA-CCGGATATAACGACTCGCTCAAATG
1 CCTTCGGGACTTAACCCGGTTATAGCGACTCGC-AAAATG
* *
68952848 CCTTCGGGAC-GAAGCCCGGTTATAGCGACTCGCAGGAATG
1 CCTTCGGGACTTAA-CCCGGTTATAGCGACTCGCA-AAATG
** * *
68952888 CCTTCGGGACTTAACCCGGGTT-TAGTAACTTGCACAATG
1 CCTTCGGGACTTAACCC-GGTTATAGCGACTCGCAAAATG
*
68952927 CCTTCGGG-CTTAGCCCGG
1 CCTTCGGGACTTAACCCGG
68952945 ATTTATTAAC
Statistics
Matches: 79, Mismatches: 13, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
37 2 0.03
38 9 0.11
39 20 0.25
40 42 0.53
41 6 0.08
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGTTATAGCGACTCGCAAAATG
Found at i:68956808 original size:17 final size:17
Alignment explanation
Indices: 68956786--68956846 Score: 113
Period size: 17 Copynumber: 3.6 Consensus size: 17
68956776 AAACTTGAGT
*
68956786 TCTAATAGATGAAGCTG
1 TCTAATAGCTGAAGCTG
68956803 TCTAATAGCTGAAGCTG
1 TCTAATAGCTGAAGCTG
68956820 TCTAATAGCTGAAGCTG
1 TCTAATAGCTGAAGCTG
68956837 TCTAATAGCT
1 TCTAATAGCT
68956847 ATAAAACCTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 43 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (17 bp):
TCTAATAGCTGAAGCTG
Found at i:68957381 original size:22 final size:22
Alignment explanation
Indices: 68957327--68957381 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
68957317 TTAAATTGAG
*
68957327 AAATGCGAAAAGTTAGTGGTTA
1 AAATGCGAAATGTTAGTGGTTA
68957349 AAATGCGAAATGTTAGTGGTTA
1 AAATGCGAAATGTTAGTGGTTA
68957371 AAATGCGAAAT
1 AAATGCGAAAT
68957382 AAAAGAACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.42, C:0.05, G:0.25, T:0.27
Consensus pattern (22 bp):
AAATGCGAAATGTTAGTGGTTA
Found at i:68962027 original size:21 final size:20
Alignment explanation
Indices: 68961999--68962037 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
68961989 ACGTGCATTT
68961999 TGAAGTTTCTTGATAGATTA
1 TGAAGTTTCTTGATAGATTA
*
68962019 TGAATGTTTGTTGATAGAT
1 TGAA-GTTTCTTGATAGAT
68962038 ATACAAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.03, G:0.23, T:0.46
Consensus pattern (20 bp):
TGAAGTTTCTTGATAGATTA
Found at i:68966211 original size:48 final size:48
Alignment explanation
Indices: 68966155--68966389 Score: 330
Period size: 48 Copynumber: 4.9 Consensus size: 48
68966145 GTCTTACATG
* * *
68966155 ACATATCATCGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCAT
1 ACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCAC
* *
68966203 ACATATCATCGCCGATGCCATGTCCTAGACATGGTCGTACACAGGCAC
1 ACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCAC
* * *
68966251 ATATATCATCGCCGATGCCATGTACCAGACATGGTCTTACACAAGCAC
1 ACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCAC
*
68966299 ATATATCATCGCCGATGCCATGTCCCAGACATGGTCTTAC-CTAGGCAC
1 ACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACAC-AGGCAC
* *
68966347 ACATTTCAGAT-GTCGATGCCATGTCCCAGACATGGTCTTACAC
1 ACATATC--ATCGCCGATGCCATGTCCCAGACATGGTCTTACAC
68966390 GGAATCTCAT
Statistics
Matches: 168, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
47 1 0.01
48 135 0.80
49 29 0.17
50 3 0.02
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.24
Consensus pattern (48 bp):
ACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCAC
Found at i:68966855 original size:29 final size:29
Alignment explanation
Indices: 68966800--68966857 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
68966790 CAAAAATCAT
* *
68966800 ACTTTTACAAATTTACATTTTTACCCCTA
1 ACTTTCACAAATTTACATATTTACCCCTA
*
68966829 ACTTTCACATATTTACA-ATTTAGCCCCTA
1 ACTTTCACAAATTTACATATTTA-CCCCTA
68966858 GGCTCGTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.31, C:0.26, G:0.02, T:0.41
Consensus pattern (29 bp):
ACTTTCACAAATTTACATATTTACCCCTA
Found at i:68975579 original size:27 final size:28
Alignment explanation
Indices: 68975529--68975588 Score: 104
Period size: 27 Copynumber: 2.1 Consensus size: 28
68975519 ACCCAAATTG
68975529 GTACTTAAGGTTTTTTTTTTCCTAGATTA
1 GTACTTAAGG-TTTTTTTTTCCTAGATTA
68975558 GTACTTAAGG-TTTTTTTTCCTAGATTA
1 GTACTTAAGGTTTTTTTTTCCTAGATTA
68975585 GTAC
1 GTAC
68975589 CCGAACGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 21 0.68
29 10 0.32
ACGTcount: A:0.22, C:0.12, G:0.15, T:0.52
Consensus pattern (28 bp):
GTACTTAAGGTTTTTTTTTCCTAGATTA
Found at i:68975599 original size:27 final size:27
Alignment explanation
Indices: 68975541--68975599 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
68975531 ACTTAAGGTT
** *
68975541 TTTTTTTTCCTAGATTAGTACTTAAGG
1 TTTTTTTTCCTAGATTAGTACCGAACG
68975568 TTTTTTTTCCTAGATTAGTACCCGAACG
1 TTTTTTTTCCTAGATTAGTA-CCGAACG
68975596 TTTT
1 TTTT
68975600 CTCCATTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 20 0.71
28 8 0.29
ACGTcount: A:0.20, C:0.15, G:0.14, T:0.51
Consensus pattern (27 bp):
TTTTTTTTCCTAGATTAGTACCGAACG
Found at i:68978349 original size:30 final size:29
Alignment explanation
Indices: 68978314--68978370 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
68978304 TTATGGATTG
*
68978314 ATGGGTTTTGTTTATTATGTTAACTTTTTT
1 ATGGGTTTTGTTTATGATGTTAA-TTTTTT
*
68978344 ATGGGTTTTGTTTGTGATGTTAATTTT
1 ATGGGTTTTGTTTATGATGTTAATTTT
68978371 CTGGATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.16, C:0.02, G:0.21, T:0.61
Consensus pattern (29 bp):
ATGGGTTTTGTTTATGATGTTAATTTTTT
Found at i:68979847 original size:28 final size:28
Alignment explanation
Indices: 68979816--68979875 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
68979806 GAAGTCTGCT
*
68979816 AGGACTATCTAAATTTGAGAAGTCCGTA
1 AGGACTATCTAAATGTGAGAAGTCCGTA
* * *
68979844 AGGACTATCTAAATGTGGGAAGTTCGTC
1 AGGACTATCTAAATGTGAGAAGTCCGTA
68979872 AGGA
1 AGGA
68979876 TTGTTTAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (28 bp):
AGGACTATCTAAATGTGAGAAGTCCGTA
Found at i:68981545 original size:17 final size:18
Alignment explanation
Indices: 68981523--68981557 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
68981513 GGAATATTGG
*
68981523 GAAAAAGAA-GGAAATAA
1 GAAAAAAAATGGAAATAA
68981540 GAAAAAAAATGGAAATAA
1 GAAAAAAAATGGAAATAA
68981558 TTTTTAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (18 bp):
GAAAAAAAATGGAAATAA
Found at i:68998106 original size:20 final size:20
Alignment explanation
Indices: 68998046--68998106 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
68998036 ATAAATATGG
*
68998046 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
68998066 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
68998086 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
68998106 T
1 T
68998107 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:68998183 original size:24 final size:24
Alignment explanation
Indices: 68998156--68998298 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
68998146 GAGGAAGTGA
68998156 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
68998180 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
68998204 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
68998227 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
68998251 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
68998275 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
68998299 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 22 0.20
24 76 0.70
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:68998249 original size:47 final size:47
Alignment explanation
Indices: 68998156--68998298 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 47
68998146 GAGGAAGTGA
68998156 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
* *
68998204 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
68998251 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
68998299 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
47 42 0.49
48 34 0.40
49 10 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:68998272 original size:71 final size:72
Alignment explanation
Indices: 68998156--68998299 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
68998146 GAGGAAGTGA
*
68998156 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
68998219 CCAGTTAT
65 CCAGTTAT
* ** * *
68998227 AAAAGGGCTTATGCCCTAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
68998292 CAGTTAT
66 CAGTTAT
68998299 A
1 A
68998300 TGATAAAGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 53 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:68998525 original size:31 final size:31
Alignment explanation
Indices: 68998490--68998553 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
68998480 CGTTTACAGT
68998490 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
68998521 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
68998552 AA
1 AA
68998554 CATGGAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:68999572 original size:44 final size:44
Alignment explanation
Indices: 68999507--68999592 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
68999497 TTGATATCTC
*
68999507 AAAGTCTATGGTTATACCATGGCAATTAAGGA-AGAATTGACGAA
1 AAAGTCCATGGTTATACCATGGCAATTAAGGAGA-AATTGACGAA
* *
68999551 AAAGTCCAT-GTTCATAGCATGGCATTTAAGGAGAAATTGACG
1 AAAGTCCATGGTT-ATACCATGGCAATTAAGGAGAAATTGACG
68999593 GTTAAGGATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 3 0.08
44 33 0.89
45 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (44 bp):
AAAGTCCATGGTTATACCATGGCAATTAAGGAGAAATTGACGAA
Found at i:69003547 original size:47 final size:47
Alignment explanation
Indices: 69003485--69003606 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
69003475 GCATTGGCAC
69003485 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
69003532 TTAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
69003579 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
69003607 CCAAGGCATG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:69003643 original size:54 final size:54
Alignment explanation
Indices: 69003579--69003781 Score: 194
Period size: 54 Copynumber: 3.8 Consensus size: 54
69003569 TGGCATTTGG
* * * * *
69003579 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTAATAAGTTCTA
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTA
* * * ** *
69003633 TAAAGTAAGGAAATCATACAAGACCATGTCAAGACATGGCATTGATGAGTTACTA
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTA
* * * * *
69003688 TAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGAATTGGTGAGTTC-A
1 TAAGG-TAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTA
* * * *
69003741 TAAGGCAAGGATACCACGTAAGACCTTGTCAAGACATGGCA
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCA
69003782 ATGGTAAGTT
Statistics
Matches: 119, Mismatches: 27, Indels: 7
0.78 0.18 0.05
Matches are distributed among these distances:
52 4 0.03
53 30 0.25
54 43 0.36
55 38 0.32
56 4 0.03
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.22
Consensus pattern (54 bp):
TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTA
Found at i:69003779 original size:53 final size:53
Alignment explanation
Indices: 69003652--69003793 Score: 162
Period size: 53 Copynumber: 2.6 Consensus size: 53
69003642 GAAATCATAC
* * * *
69003652 AAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATGT
1 AAGACCATGTCAAGACATGGAATTGGTGAGTT-C-ATAAGGCAAAGGTACCACGT
* *
69003707 AAGACCATGCCAAGGCATGGAATTGGTGAGTTCATAAGGC-AAGGATACCACGT
1 AAGACCATGTCAAGACATGGAATTGGTGAGTTCATAAGGCAAAGG-TACCACGT
* *
69003760 AAGACCTTGTCAAGACATGGCAA-TGGTAAGTTCA
1 AAGACCATGTCAAGACATGG-AATTGGTGAGTTCA
69003794 AAAAGGAAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
52 4 0.05
53 40 0.53
54 3 0.04
55 28 0.37
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGACCATGTCAAGACATGGAATTGGTGAGTTCATAAGGCAAAGGTACCACGT
Found at i:69003811 original size:108 final size:109
Alignment explanation
Indices: 69003593--69003816 Score: 254
Period size: 108 Copynumber: 2.1 Consensus size: 109
69003583 ATAAGGATAT
* * * *
69003593 CATGTAAGACCATGCCAAGGCATGGCATTAATAAGTTCTATAAAGTAAGGAAATCATACAAGACC
1 CATGTAAGACCATGCCAAGGCATGGAATTAATAAGTTCTATAAAGCAAGGAAACCACACAAGACC
* * * * *
69003658 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
66 ATGTCAAGACATGGCAATGATAAGTTACAAAAAGGAAAAGGTCC
** * * * **
69003702 CATGTAAGACCATGCCAAGGCATGGAATTGGTGAGTTC-ATAAGGCAAGGATACCACGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGAATTAATAAGTTCTATAAAGCAAGGAAACCACACAAGACC
* *
69003766 TTGTCAAGACATGGCAATGGTAAGTT-CAAAAAGGAAAAGGTTCC
66 ATGTCAAGACATGGCAATGATAAGTTACAAAAAGGAAAAGG-TCC
*
69003810 CAAGTAA
1 CATGTAA
69003817 TCCAATGAGT
Statistics
Matches: 95, Mismatches: 19, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
107 11 0.12
108 50 0.53
109 34 0.36
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGAATTAATAAGTTCTATAAAGCAAGGAAACCACACAAGACC
ATGTCAAGACATGGCAATGATAAGTTACAAAAAGGAAAAGGTCC
Found at i:69014364 original size:133 final size:133
Alignment explanation
Indices: 69014196--69014462 Score: 534
Period size: 133 Copynumber: 2.0 Consensus size: 133
69014186 GTATCTACAC
69014196 GCTTGCATCAATGCCGTCTTTCAAATTCAAACATAAAAATAATAATTAAAAGTTAGTTATACTGC
1 GCTTGCATCAATGCCGTCTTTCAAATTCAAACATAAAAATAATAATTAAAAGTTAGTTATACTGC
69014261 AGATCGGTCCCATTTGTTGCTTATCGAAGAGCAGAATTTACAGTCTAGTTTCATTGAAGCTAACT
66 AGATCGGTCCCATTTGTTGCTTATCGAAGAGCAGAATTTACAGTCTAGTTTCATTGAAGCTAACT
69014326 TTG
131 TTG
69014329 GCTTGCATCAATGCCGTCTTTCAAATTCAAACATAAAAATAATAATTAAAAGTTAGTTATACTGC
1 GCTTGCATCAATGCCGTCTTTCAAATTCAAACATAAAAATAATAATTAAAAGTTAGTTATACTGC
69014394 AGATCGGTCCCATTTGTTGCTTATCGAAGAGCAGAATTTACAGTCTAGTTTCATTGAAGCTAACT
66 AGATCGGTCCCATTTGTTGCTTATCGAAGAGCAGAATTTACAGTCTAGTTTCATTGAAGCTAACT
69014459 TTG
131 TTG
69014462 G
1 G
69014463 GTTTCCACGG
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
133 134 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (133 bp):
GCTTGCATCAATGCCGTCTTTCAAATTCAAACATAAAAATAATAATTAAAAGTTAGTTATACTGC
AGATCGGTCCCATTTGTTGCTTATCGAAGAGCAGAATTTACAGTCTAGTTTCATTGAAGCTAACT
TTG
Found at i:69020634 original size:12 final size:12
Alignment explanation
Indices: 69020614--69020644 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
69020604 ACTACACTCA
*
69020614 TTTTCTTTTTTC
1 TTTTTTTTTTTC
69020626 TTTTTTTTTTTC
1 TTTTTTTTTTTC
69020638 TTTTTTT
1 TTTTTTT
69020645 CTGAATTAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:69023393 original size:30 final size:30
Alignment explanation
Indices: 69023338--69023497 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
69023328 ATAGTGAATC
69023338 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
69023367 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
69023397 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
69023426 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
69023454 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
69023484 CACACACTTAGTGC
1 CGCACACTTAGTGC
69023498 CAATCTTGTC
Statistics
Matches: 119, Mismatches: 6, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 46 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:69023430 original size:59 final size:57
Alignment explanation
Indices: 69023338--69023468 Score: 219
Period size: 59 Copynumber: 2.3 Consensus size: 57
69023328 ATAGTGAATC
*
69023338 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
69023397 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
69023454 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
69023469 GTACAATTTT
Statistics
Matches: 70, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
56 2 0.03
57 18 0.26
59 50 0.71
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:69035536 original size:28 final size:27
Alignment explanation
Indices: 69035473--69035542 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
69035463 ATAGTGAGTC
69035473 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
69035500 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
69035528 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
69035543 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:69042596 original size:28 final size:27
Alignment explanation
Indices: 69042533--69042602 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
69042523 ATAGTGAGTC
69042533 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
69042560 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
69042588 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
69042603 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:69047221 original size:11 final size:11
Alignment explanation
Indices: 69047205--69047235 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
69047195 TTAATGTATA
69047205 ATAATAATAAT
1 ATAATAATAAT
*
69047216 ATAATAGTAAT
1 ATAATAATAAT
69047227 ATAATAATA
1 ATAATAATA
69047236 TTTTAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:69050996 original size:50 final size:49
Alignment explanation
Indices: 69050868--69051059 Score: 215
Period size: 50 Copynumber: 3.9 Consensus size: 49
69050858 TATGTAGCAA
* * * *
69050868 AACTATCTGGTACGCATAGTAGCCTGCACTTAGTACTATACATGCGACC
1 AACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
* *
69050917 AATTAT-TCGGTACACATAGTAGCCTGCACTTTGTACTACACACGTGACC
1 AACTATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
* * * *
69050966 TAACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTTATCA
1 -AACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CC
* * **
69051017 AAGTTATCGGGTATGCATAGTAGCCTGCACTTAGTACTACACA
1 AA-CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
69051060 TGCGACCTGG
Statistics
Matches: 120, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
48 1 0.01
49 41 0.34
50 42 0.35
51 36 0.30
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (49 bp):
AACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
Done.