Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 13 of 141
Found at i:3831589 original size:49 final size:49
Alignment explanation
Indices: 3831532--3831629 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
3831522 AAGGTTTGTT
3831532 TGATACGAGTCACAAAGGCCCAACCCAAGCTCAAGAAGGTGATGGGCTC
1 TGATACGAGTCACAAAGGCCCAACCCAAGCTCAAGAAGGTGATGGGCTC
* *
3831581 TGATACGAGTCACAAAGGCTCAACCCAAGCTTAAGAAGGTGATGGGCTC
1 TGATACGAGTCACAAAGGCCCAACCCAAGCTCAAGAAGGTGATGGGCTC
3831630 AAATCAAGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.33, C:0.24, G:0.27, T:0.16
Consensus pattern (49 bp):
TGATACGAGTCACAAAGGCCCAACCCAAGCTCAAGAAGGTGATGGGCTC
Found at i:3834850 original size:70 final size:70
Alignment explanation
Indices: 3834767--3834905 Score: 260
Period size: 70 Copynumber: 2.0 Consensus size: 70
3834757 AGATCTCATC
* *
3834767 GTTTAAGTTGTTCTCCTATTGGCAGCACCCATTCGAACCCAAAAATTCCCAATTCCTAGGGTTTG
1 GTTTAAGTTGTTCTCCTATTGACAGCACCCATTCGAACCCAAAAATCCCCAATTCCTAGGGTTTG
3834832 GCCGT
66 GCCGT
3834837 GTTTAAGTTGTTCTCCTATTGACAGCACCCATTCGAACCCAAAAATCCCCAATTCCTAGGGTTTG
1 GTTTAAGTTGTTCTCCTATTGACAGCACCCATTCGAACCCAAAAATCCCCAATTCCTAGGGTTTG
3834902 GCCG
66 GCCG
3834906 ATTGGATTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (70 bp):
GTTTAAGTTGTTCTCCTATTGACAGCACCCATTCGAACCCAAAAATCCCCAATTCCTAGGGTTTG
GCCGT
Found at i:3835237 original size:57 final size:57
Alignment explanation
Indices: 3835149--3835258 Score: 202
Period size: 57 Copynumber: 1.9 Consensus size: 57
3835139 GCTTTTGTAG
*
3835149 GAGTTTCTCGTGACTTGGCAACTCGATCTTGGTCCGTGCGCATTCCTCTATCATTTA
1 GAGTTTCTCGTGACTTGGCAACTCAATCTTGGTCCGTGCGCATTCCTCTATCATTTA
*
3835206 GAGTTTCTCGTGACTTGGCAACTCAATCTTGGTTCGTGCGCATTCCTCTATCA
1 GAGTTTCTCGTGACTTGGCAACTCAATCTTGGTCCGTGCGCATTCCTCTATCA
3835259 CCGGCTCTTC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.16, C:0.26, G:0.21, T:0.36
Consensus pattern (57 bp):
GAGTTTCTCGTGACTTGGCAACTCAATCTTGGTCCGTGCGCATTCCTCTATCATTTA
Found at i:3835578 original size:22 final size:22
Alignment explanation
Indices: 3835546--3835609 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
3835536 TTGGTATTTA
3835546 GGAA-TTGGTACGAAATGGTAT
1 GGAATTTGGTACGAAATGGTAT
*
3835567 GGAATTTGGTACAAAATGGTAT
1 GGAATTTGGTACGAAATGGTAT
* *
3835589 GGTATTTGGTACGAATTGGTA
1 GGAATTTGGTACGAAATGGTA
3835610 ATGGTTCAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
21 4 0.11
22 34 0.89
ACGTcount: A:0.31, C:0.05, G:0.31, T:0.33
Consensus pattern (22 bp):
GGAATTTGGTACGAAATGGTAT
Found at i:3835899 original size:22 final size:22
Alignment explanation
Indices: 3835871--3835928 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
3835861 TTTAGGAATC
3835871 GGTACGAAATGGTATGGAAGTT
1 GGTACGAAATGGTATGGAAGTT
* *
3835893 GGTACGAAATGGTATGGTATTT
1 GGTACGAAATGGTATGGAAGTT
*
3835915 GGTACGAATTGGTA
1 GGTACGAAATGGTA
3835929 ATGGTTCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.29, C:0.05, G:0.34, T:0.31
Consensus pattern (22 bp):
GGTACGAAATGGTATGGAAGTT
Found at i:3836476 original size:230 final size:230
Alignment explanation
Indices: 3836073--3836531 Score: 855
Period size: 230 Copynumber: 2.0 Consensus size: 230
3836063 AAAGGTGAAC
3836073 GCCACACTCGGGTTTAGGGAGTGATAAATTCGAAAGAAAGACTCGGAAAGACGCCACTAGAAGCT
1 GCCACACTCGGGTTTAGGGAGTGATAAATTCGAAAGAAAGACTCGGAAAGACGCCACTAGAAGCT
3836138 AGATAAGTCTTACGGGTCTCAAACAAAATTTGAGAGAAAATGCCTCACAAATTTGGCAGCAATTC
66 AGATAAGTCTTACGGGTCTCAAACAAAATTTGAGAGAAAATGCCTCACAAATTTGGCAGCAATTC
*
3836203 GTTGCTTAAAATGTCAAAAGTCCTTTACAAAGTAAAATTTCAGCTATTTATAAACAACACCTAAG
131 GTTGCTTAAAATCTCAAAAGTCCTTTACAAAGTAAAATTTCAGCTATTTATAAACAACACCTAAG
3836268 CTAGCCGAATGGTCACTTACATTCCTTAAAAATTT
196 CTAGCCGAATGGTCACTTACATTCCTTAAAAATTT
*
3836303 GCCACACTCGGGTTTAGGGAGTGATAAGTTCGAAAGAAAGACTCGGAAAGACGCCACTAGAAGCT
1 GCCACACTCGGGTTTAGGGAGTGATAAATTCGAAAGAAAGACTCGGAAAGACGCCACTAGAAGCT
* * * *
3836368 AGATAAGTCTTGCGGGTCTCGAACGAAATTTGGGAGAAAATGCCTCACAAATTTGGCAGCAATTC
66 AGATAAGTCTTACGGGTCTCAAACAAAATTTGAGAGAAAATGCCTCACAAATTTGGCAGCAATTC
*
3836433 GTTGCTTAAAATCTCAAAAGTCCTTTACAAAGTAAATTTTCAGCTATTTATAAACAACACCTAAG
131 GTTGCTTAAAATCTCAAAAGTCCTTTACAAAGTAAAATTTCAGCTATTTATAAACAACACCTAAG
3836498 CTAGCCGAATGGTCACTTACATTCCTTAAAAATT
196 CTAGCCGAATGGTCACTTACATTCCTTAAAAATT
3836532 AAGCAAATGA
Statistics
Matches: 222, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
230 222 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (230 bp):
GCCACACTCGGGTTTAGGGAGTGATAAATTCGAAAGAAAGACTCGGAAAGACGCCACTAGAAGCT
AGATAAGTCTTACGGGTCTCAAACAAAATTTGAGAGAAAATGCCTCACAAATTTGGCAGCAATTC
GTTGCTTAAAATCTCAAAAGTCCTTTACAAAGTAAAATTTCAGCTATTTATAAACAACACCTAAG
CTAGCCGAATGGTCACTTACATTCCTTAAAAATTT
Found at i:3836959 original size:215 final size:215
Alignment explanation
Indices: 3836586--3837014 Score: 795
Period size: 215 Copynumber: 2.0 Consensus size: 215
3836576 ATGGAGCTCC
*
3836586 ATTAGACACCTTCTAGATGACGCATTGGACTTGGAAAAACTTGGATGATGCATGGATAGCTAGGT
1 ATTAGACACCTTCTAGATGAAGCATTGGACTTGGAAAAACTTGGATGATGCATGGATAGCTAGGT
** * * *
3836651 TTGGCCAATGGGCATAAATTAGCTCATTTGTGTTGCAACTTTTGGCTGAAAAGTGACCAGCAATT
66 TCAGCCAATGGGCATAAATTACCTCATTTATGTTGCAACTTTTGGCTGAAAAGTGACCAACAATT
*
3836716 AAGAGGATAATGAGCAGCCAATTCAAGTGTGAAAGCTCAACATTGAAGAGTCATGGAGTGTGAAC
131 AAGAGGATAATGAGCAGCCAACTCAAGTGTGAAAGCTCAACATTGAAGAGTCATGGAGTGTGAAC
3836781 ACATGGAACCGAAAAGCCAT
196 ACATGGAACCGAAAAGCCAT
3836801 ATTAGACACCTTCTAGATGAAGCATTGGACTTGGAAAAACTTGGATGATGCATGGATAGCTAGGT
1 ATTAGACACCTTCTAGATGAAGCATTGGACTTGGAAAAACTTGGATGATGCATGGATAGCTAGGT
3836866 TCAGCCAATGGGCATAAATTACCTCATTTATGTTGCAACTTTTGGCTGAAAAGTGACCAACAATT
66 TCAGCCAATGGGCATAAATTACCTCATTTATGTTGCAACTTTTGGCTGAAAAGTGACCAACAATT
3836931 AAGAGGATAATGAGCAGCCAACTCAAGTGTGAAAGCTCAACATTGAAGAGTCATGGAGTGTGAAC
131 AAGAGGATAATGAGCAGCCAACTCAAGTGTGAAAGCTCAACATTGAAGAGTCATGGAGTGTGAAC
3836996 ACATGGAACCGAAAAGCCA
196 ACATGGAACCGAAAAGCCA
3837015 AGATGCATCC
Statistics
Matches: 207, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
215 207 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (215 bp):
ATTAGACACCTTCTAGATGAAGCATTGGACTTGGAAAAACTTGGATGATGCATGGATAGCTAGGT
TCAGCCAATGGGCATAAATTACCTCATTTATGTTGCAACTTTTGGCTGAAAAGTGACCAACAATT
AAGAGGATAATGAGCAGCCAACTCAAGTGTGAAAGCTCAACATTGAAGAGTCATGGAGTGTGAAC
ACATGGAACCGAAAAGCCAT
Found at i:3837165 original size:67 final size:67
Alignment explanation
Indices: 3837086--3837214 Score: 258
Period size: 67 Copynumber: 1.9 Consensus size: 67
3837076 CCCTTCGCCG
3837086 AATAGTCACCTAGGAATGTTGAATTCAGCTCACCAATTTGATGCATGTATCTCCAGGTGCAAGGC
1 AATAGTCACCTAGGAATGTTGAATTCAGCTCACCAATTTGATGCATGTATCTCCAGGTGCAAGGC
3837151 TA
66 TA
3837153 AATAGTCACCTAGGAATGTTGAATTCAGCTCACCAATTTGATGCATGTATCTCCAGGTGCAA
1 AATAGTCACCTAGGAATGTTGAATTCAGCTCACCAATTTGATGCATGTATCTCCAGGTGCAA
3837215 TGTATCTAAC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (67 bp):
AATAGTCACCTAGGAATGTTGAATTCAGCTCACCAATTTGATGCATGTATCTCCAGGTGCAAGGC
TA
Found at i:3837648 original size:160 final size:160
Alignment explanation
Indices: 3837384--3837702 Score: 611
Period size: 160 Copynumber: 2.0 Consensus size: 160
3837374 TTCGGTCAAC
*
3837384 TATATCACTAAAATCAGCTCATTAAATTCGGCAGCATTAAAGCAACTTTAAATCATGTAATAAAA
1 TATATCACTAAAATCAGCTCATTAAATTCAGCAGCATTAAAGCAACTTTAAATCATGTAATAAAA
*
3837449 CTTGACATATTAAAAACATGCAACAAACATATTAATAAGCTGTAATAAACTAATTAAATCTACTT
66 CTTGACATATTAAAAACATGCAACAAACATAATAATAAGCTGTAATAAACTAATTAAATCTACTT
3837514 AAATAAATATTCAGCTATTAAATTAATGTT
131 AAATAAATATTCAGCTATTAAATTAATGTT
3837544 TATATCACTAAAATCAGCTCATTAAATTCAGCAGCATTAAAGCAACTTTAAATCATGTAATAAAA
1 TATATCACTAAAATCAGCTCATTAAATTCAGCAGCATTAAAGCAACTTTAAATCATGTAATAAAA
*
3837609 CTTGACATATTAAAAACATGCAATAAACATAATAATAAGCTGTAATAAACTAATTAAATCTACTT
66 CTTGACATATTAAAAACATGCAACAAACATAATAATAAGCTGTAATAAACTAATTAAATCTACTT
3837674 AAATAAATATTCAGCTATTAAATTAATGT
131 AAATAAATATTCAGCTATTAAATTAATGT
3837703 CTAGTTGATA
Statistics
Matches: 156, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
160 156 1.00
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (160 bp):
TATATCACTAAAATCAGCTCATTAAATTCAGCAGCATTAAAGCAACTTTAAATCATGTAATAAAA
CTTGACATATTAAAAACATGCAACAAACATAATAATAAGCTGTAATAAACTAATTAAATCTACTT
AAATAAATATTCAGCTATTAAATTAATGTT
Found at i:3837791 original size:30 final size:30
Alignment explanation
Indices: 3837733--3837791 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
3837723 TTGAAAATGT
* *
3837733 TTGAGCTGAAGTTGAGCTAATTCGAGCTCA
1 TTGAGCTGAAATGGAGCTAATTCGAGCTCA
*
3837763 TTGAGCTGAAATGGAAGTTAATTC-AGCTC
1 TTGAGCTGAAATGG-AGCTAATTCGAGCTC
3837792 GTATTAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (30 bp):
TTGAGCTGAAATGGAGCTAATTCGAGCTCA
Found at i:3840781 original size:14 final size:14
Alignment explanation
Indices: 3840751--3840780 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
3840741 CAATTTTTCA
3840751 TTCACTTTTTCTTT
1 TTCACTTTTTCTTT
3840765 TTCATCTTTTTCTTT
1 TTCA-CTTTTTCTTT
3840780 T
1 T
3840781 CTCGCTCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (14 bp):
TTCACTTTTTCTTT
Found at i:3840823 original size:19 final size:20
Alignment explanation
Indices: 3840799--3840843 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
3840789 CTTTTCATTC
*
3840799 TCTTTTTTTGAATTTTC-TT
1 TCTTTTTTTCAATTTTCTTT
*
3840818 TCTTTTTTTCATTTTTCTTT
1 TCTTTTTTTCAATTTTCTTT
3840838 TCTTTT
1 TCTTTT
3840844 GTATTTTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.07, C:0.13, G:0.02, T:0.78
Consensus pattern (20 bp):
TCTTTTTTTCAATTTTCTTT
Found at i:3844395 original size:28 final size:28
Alignment explanation
Indices: 3844332--3844429 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
3844322 ATATTAAGTC
*
3844332 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
3844359 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
3844387 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
3844416 CGCACACTTAGTGC
1 CGCACACTTAGTGC
3844430 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:3846579 original size:21 final size:22
Alignment explanation
Indices: 3846553--3846594 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
3846543 AGACCGTATA
*
3846553 CAATTTT-TTTCTTTTTTTTTT
1 CAATTTTCTTTCATTTTTTTTT
*
3846574 CAATTTTCTTTGATTTTTTTT
1 CAATTTTCTTTCATTTTTTTT
3846595 ATTTTTTTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (22 bp):
CAATTTTCTTTCATTTTTTTTT
Found at i:3846590 original size:19 final size:19
Alignment explanation
Indices: 3846559--3846611 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
3846549 TATACAATTT
*
3846559 TTTTCTTT-TTTTTTTCAA
1 TTTTCTTTGATTTTTTCAA
**
3846577 TTTTCTTTGATTTTTTTTA
1 TTTTCTTTGATTTTTTCAA
3846596 TTTT-TTTCGATTTTTT
1 TTTTCTTT-GATTTTTT
3846612 TAAAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 11 0.37
19 19 0.63
ACGTcount: A:0.09, C:0.08, G:0.04, T:0.79
Consensus pattern (19 bp):
TTTTCTTTGATTTTTTCAA
Found at i:3855108 original size:22 final size:22
Alignment explanation
Indices: 3855076--3855139 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
3855066 TTGGTATTTA
3855076 GGAA-TTGGTACGAAATGGTAT
1 GGAATTTGGTACGAAATGGTAT
*
3855097 GGAATTTGGTACAAAATGGTAT
1 GGAATTTGGTACGAAATGGTAT
* *
3855119 GGTATTTGGTACGAATTGGTA
1 GGAATTTGGTACGAAATGGTA
3855140 ATGGTTCAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
21 4 0.11
22 34 0.89
ACGTcount: A:0.31, C:0.05, G:0.31, T:0.33
Consensus pattern (22 bp):
GGAATTTGGTACGAAATGGTAT
Found at i:3855456 original size:41 final size:41
Alignment explanation
Indices: 3855410--3855490 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
3855400 TTTGGCAGCA
3855410 ATTCGTTGCTTAAAATCTCAAAAGTCCTTTACAAAGTAAAT
1 ATTCGTTGCTTAAAATCTCAAAAGTCCTTTACAAAGTAAAT
*
3855451 ATTCGTTGCTTAAAATGTCAAAAGTCCTTTACAAAGTAAA
1 ATTCGTTGCTTAAAATCTCAAAAGTCCTTTACAAAGTAAA
3855491 ATTTCAGCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (41 bp):
ATTCGTTGCTTAAAATCTCAAAAGTCCTTTACAAAGTAAAT
Found at i:3858105 original size:202 final size:202
Alignment explanation
Indices: 3857859--3858261 Score: 763
Period size: 202 Copynumber: 2.0 Consensus size: 202
3857849 AAGGCTTGAT
*
3857859 TAATTTCTCTTGAAAGCTCCAAAAACGGCTGGAAGTGGAAGAGTTGCTGCTGAATTTTAAAGGGC
1 TAATTTCCCTTGAAAGCTCCAAAAACGGCTGGAAGTGGAAGAGTTGCTGCTGAATTTTAAAGGGC
*
3857924 ATAAAATGCTCTTTAAAAACTCCTTTTAATGATCTTTAAGCTCTTTTTTTTAACAGCCCCTTTAA
66 ATAAAATGCTCTTTAAAAACTCCTTTTAATGATCTTTAAGCTC-CTTTTTTAACAGCCCCTTTAA
3857989 TTGTAACTCAAAAGAACTTGAACAGCCACTT-ATTAAATGTGTAACAGCCTTGAATTGTAACCAC
130 TTGTAACTCAAAAGAACTTGAACAGCCACTTAATTAAATGTGTAACAGCCTTGAATTGTAACCAC
3858053 TATAAGCA
195 TATAAGCA
*
3858061 TAATTTCCCTTGAAAGCTCCAACAACGGCTGGAAGTGGAAGAGTTGCTGCTGAATTTTAAAGGGC
1 TAATTTCCCTTGAAAGCTCCAAAAACGGCTGGAAGTGGAAGAGTTGCTGCTGAATTTTAAAGGGC
3858126 ATAAAATGCTCTTTAAAAACTCCTTTTAATGATCTTTAAGCTCCTTTTTTAACAGCCCCTTTAAT
66 ATAAAATGCTCTTTAAAAACTCCTTTTAATGATCTTTAAGCTCCTTTTTTAACAGCCCCTTTAAT
3858191 TGTAACTCAAAAGAACTTGAACAGCCACTTAATTAAATGTGTAACAGCCTTGAATTGTAACCACT
131 TGTAACTCAAAAGAACTTGAACAGCCACTTAATTAAATGTGTAACAGCCTTGAATTGTAACCACT
3858256 ATAAGC
196 ATAAGC
3858262 TAAAAAGTCA
Statistics
Matches: 197, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
201 51 0.26
202 146 0.74
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.32
Consensus pattern (202 bp):
TAATTTCCCTTGAAAGCTCCAAAAACGGCTGGAAGTGGAAGAGTTGCTGCTGAATTTTAAAGGGC
ATAAAATGCTCTTTAAAAACTCCTTTTAATGATCTTTAAGCTCCTTTTTTAACAGCCCCTTTAAT
TGTAACTCAAAAGAACTTGAACAGCCACTTAATTAAATGTGTAACAGCCTTGAATTGTAACCACT
ATAAGCA
Found at i:3872285 original size:20 final size:20
Alignment explanation
Indices: 3872262--3872310 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
3872252 CAATGTTTAT
3872262 ACAGAGGCACCGAA-GTGCAA
1 ACAGAGGCA-CGAATGTGCAA
*
3872282 ACAGAAGCACGAATGTGCAA
1 ACAGAGGCACGAATGTGCAA
*
3872302 TCAGAGGCA
1 ACAGAGGCA
3872311 TTAAAGTGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.41, C:0.22, G:0.29, T:0.08
Consensus pattern (20 bp):
ACAGAGGCACGAATGTGCAA
Found at i:3893793 original size:50 final size:49
Alignment explanation
Indices: 3893733--3893865 Score: 169
Period size: 50 Copynumber: 2.7 Consensus size: 49
3893723 ATACCAAAGA
** *
3893733 CATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGATGTCC-ATG
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGATG-CCAACG
** * *
3893782 TCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACG
1 -CATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGATGCCAACG
3893832 CAATGTCCCAGACATGGTCTTACATGGGACCTCT
1 C-ATGTCCCAGACATGGTCTTACATGGGACCTCT
3893866 TTACCCAAAT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
49 3 0.04
50 69 0.96
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (49 bp):
CATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGATGCCAACG
Found at i:3898270 original size:43 final size:44
Alignment explanation
Indices: 3898174--3898273 Score: 159
Period size: 44 Copynumber: 2.3 Consensus size: 44
3898164 TTTTAAAAAT
* *
3898174 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCGCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGAGACGCTTTTTCGCAC
3898218 AAACGCCGCTAAAGACCATGACCTTTAGAGACGC-TTTTCGCGA-
1 AAACGCCGCTAAAGACCATGACCTTTAGAGACGCTTTTTCGC-AC
3898261 AAACGCCGCTAAA
1 AAACGCCGCTAAA
3898274 AACATATCAT
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
43 20 0.38
44 33 0.62
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (44 bp):
AAACGCCGCTAAAGACCATGACCTTTAGAGACGCTTTTTCGCAC
Found at i:3899620 original size:15 final size:17
Alignment explanation
Indices: 3899602--3899639 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
3899592 GGATAAGGAA
3899602 AAAAATTAT-AAAT-AT
1 AAAAATTATAAAATAAT
*
3899617 AAAAATTCTAAAATAAT
1 AAAAATTATAAAATAAT
3899634 AAAAAT
1 AAAAAT
3899640 AAATAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 4 0.20
17 8 0.40
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAATTATAAAATAAT
Found at i:3903755 original size:14 final size:15
Alignment explanation
Indices: 3903716--3903756 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
3903706 ACCCGACCCC
3903716 TAAATCCCTAAAC-CT
1 TAAATCCCT-AACTCT
3903731 TAAATCCCTAACTCT
1 TAAATCCCTAACTCT
3903746 TAAA-CCCTAAC
1 TAAATCCCTAAC
3903757 ATCTAACCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.39, C:0.34, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAATCCCTAACTCT
Found at i:3904115 original size:15 final size:15
Alignment explanation
Indices: 3904080--3904165 Score: 52
Period size: 15 Copynumber: 5.8 Consensus size: 15
3904070 CCCTAACTTT
**
3904080 TAACCCCTAACACGTC
1 TAACCCCTAA-ACCCC
3904096 TAACCCCTAAACCCC
1 TAACCCCTAAACCCC
*
3904111 TAACCCTCT-AACCCT
1 TAACCC-CTAAACCCC
* * *
3904126 TAAACCTTAAATCCC
1 TAACCCCTAAACCCC
* *
3904141 -AACCCTTAAA-CCA
1 TAACCCCTAAACCCC
*
3904154 TAATCCCTAAAC
1 TAACCCCTAAAC
3904166 TCATACTCCC
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
13 2 0.04
14 18 0.33
15 23 0.42
16 12 0.22
ACGTcount: A:0.36, C:0.42, G:0.01, T:0.21
Consensus pattern (15 bp):
TAACCCCTAAACCCC
Found at i:3904120 original size:23 final size:24
Alignment explanation
Indices: 3904081--3904131 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
3904071 CCTAACTTTT
*
3904081 AACCCCTAACACGTCTAACCCCTA
1 AACCCCTAACACCTCTAACCCCTA
*
3904105 AACCCCTAAC-CCTCTAACCCTTA
1 AACCCCTAACACCTCTAACCCCTA
3904128 AACC
1 AACC
3904132 TTAAATCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.33, C:0.47, G:0.02, T:0.18
Consensus pattern (24 bp):
AACCCCTAACACCTCTAACCCCTA
Found at i:3904146 original size:21 final size:20
Alignment explanation
Indices: 3904120--3904160 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
3904110 CTAACCCTCT
*
3904120 AACCCTTAAACCTTAAATCCC
1 AACCCTTAAACCAT-AATCCC
3904141 AACCCTTAAACCATAATCCC
1 AACCCTTAAACCATAATCCC
3904161 TAAACTCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (20 bp):
AACCCTTAAACCATAATCCC
Found at i:3904170 original size:15 final size:15
Alignment explanation
Indices: 3904147--3904195 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 15
3904137 TCCCAACCCT
3904147 TAAAC-CATAATCCC
1 TAAACTCATAATCCC
*
3904161 TAAACTCATACTCCC
1 TAAACTCATAATCCC
* *
3904176 TAAACT-AAAAACCC
1 TAAACTCATAATCCC
3904190 TAAACT
1 TAAACT
3904196 ATAGTGATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 16 0.53
15 14 0.47
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (15 bp):
TAAACTCATAATCCC
Found at i:3904523 original size:41 final size:41
Alignment explanation
Indices: 3904466--3904578 Score: 190
Period size: 41 Copynumber: 2.8 Consensus size: 41
3904456 GAAAATGTTT
*
3904466 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGATAAGAGCA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACAAGAGCA
*
3904507 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACAAGAGCA
* *
3904548 TTAGCAGCGTTTCTTCAAAAACGCCGCTAAA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAA
3904579 TCCCCAAAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (41 bp):
TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACAAGAGCA
Found at i:3904666 original size:39 final size:39
Alignment explanation
Indices: 3904617--3904746 Score: 113
Period size: 40 Copynumber: 3.3 Consensus size: 39
3904607 TTAGGTTTAG
*
3904617 TTTTTTGCGGCGCTTTTTGGAAAACGCCGCTAATTGTTA
1 TTTTTAGCGGCGCTTTTTGGAAAACGCCGCTAATTGTTA
** ** *
3904656 TTTTTAGCGGCG-TTTTCAGAAAAGCGCCGCTAATACTCGA
1 TTTTTAGCGGCGCTTTTTGGAAAA-CGCCGCTAATTGT-TA
* * *
3904696 TCTTTAGCGGCGCTTTTTAGG-TAGCGCCGCTAA-TGATTGA
1 TTTTTAGCGGCGCTTTTT-GGAAAACGCCGCTAATTG-TT-A
3904736 TTTTTAGCGGC
1 TTTTTAGCGGC
3904747 ATTTTTTATC
Statistics
Matches: 70, Mismatches: 15, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
38 9 0.13
39 22 0.31
40 33 0.47
41 5 0.07
42 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (39 bp):
TTTTTAGCGGCGCTTTTTGGAAAACGCCGCTAATTGTTA
Found at i:3904753 original size:40 final size:40
Alignment explanation
Indices: 3904678--3904754 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
3904668 TTTTCAGAAA
*
3904678 AGCGCCGCTAATACTCGATCTTTAGCGGCGCTTTTTAGGT
1 AGCGCCGCTAATACTCGATCTTTAGCGGCACTTTTTAGGT
* * *
3904718 AGCGCCGCTAATGA-TTGATTTTTAGCGGCATTTTTTA
1 AGCGCCGCTAAT-ACTCGATCTTTAGCGGCACTTTTTA
3904755 TCCAAACGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 31 0.97
41 1 0.03
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.36
Consensus pattern (40 bp):
AGCGCCGCTAATACTCGATCTTTAGCGGCACTTTTTAGGT
Found at i:3910618 original size:86 final size:85
Alignment explanation
Indices: 3910521--3910680 Score: 227
Period size: 86 Copynumber: 1.9 Consensus size: 85
3910511 ATATGTTATC
*
3910521 TCGTGTAAGACCAC-GTCTGGGA-CGTTGGCATCGAT-TTGAGATTTACATGTAAGACCATGTCT
1 TCGTGTAAGACC-CTGTCTGGGACCG-TGGCATCGATATT-AGA-TTACATGTAAGACCACGTCT
*
3910583 GGGACATTGGCATCATATATGATT
62 AGGACATTGGCATCATATATGATT
*
3910607 TCGTGTAAGACCCTGTCTGGGACCGTGGCATCGATATTTGATTACATGTAAGACCACGTCTAGGA
1 TCGTGTAAGACCCTGTCTGGGACCGTGGCATCGATATTAGATTACATGTAAGACCACGTCTAGGA
*
3910672 CGTTGGCAT
66 CATTGGCAT
3910681 TGTATACGCT
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
85 31 0.46
86 32 0.48
87 4 0.06
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (85 bp):
TCGTGTAAGACCCTGTCTGGGACCGTGGCATCGATATTAGATTACATGTAAGACCACGTCTAGGA
CATTGGCATCATATATGATT
Found at i:3910679 original size:43 final size:43
Alignment explanation
Indices: 3910524--3910680 Score: 187
Period size: 43 Copynumber: 3.7 Consensus size: 43
3910514 TGTTATCTCG
*
3910524 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT-TGA-TTACA
* * * * *
3910568 TGTAAGACCATGTCTGGGACATTGGCATC-ATATATGATTTCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
3910610 TGTAAGACC-CTGTCTGGGACCG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGA-CGTTGGCATCGATATTTGATTACA
*
3910653 TGTAAGACCACGTCTAGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
3910681 TGTATACGCT
Statistics
Matches: 95, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
42 29 0.31
43 37 0.39
44 29 0.31
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:3912286 original size:41 final size:42
Alignment explanation
Indices: 3912224--3912350 Score: 143
Period size: 43 Copynumber: 3.0 Consensus size: 42
3912214 TAACCGTTAC
3912224 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
* * * *
3912266 ACGG-GGAATCAGCACATAGCAACC-CCTT-TCACGGTTAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTAT-A--ATCAATGAT
* *
3912308 ACGGTGGAATCAGCACTTAGCAGCCACCTTTATATTCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACC-TTATAATCAATGAT
3912351 GCGGATTCAC
Statistics
Matches: 69, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
39 1 0.01
40 5 0.07
41 19 0.28
42 14 0.20
43 24 0.35
44 2 0.03
45 3 0.04
46 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (42 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
Found at i:3912321 original size:43 final size:41
Alignment explanation
Indices: 3912224--3912339 Score: 137
Period size: 41 Copynumber: 2.8 Consensus size: 41
3912214 TAACCGTTAC
*
3912224 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTT-TAATCAAGGAT
* * *
3912266 ACGG-GGAATCAGCACATAGCAACC-CCTTTCACGGTTAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTT-A--ATCAAGGAT
*
3912308 ACGGTGGAATCAGCACTTAGCAGCCACCTTTA
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTA
3912340 TATTCAATGA
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
39 1 0.02
40 5 0.08
41 19 0.30
42 14 0.22
43 19 0.30
44 5 0.08
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.22
Consensus pattern (41 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTTAATCAAGGAT
Found at i:3912454 original size:51 final size:49
Alignment explanation
Indices: 3912362--3912547 Score: 178
Period size: 51 Copynumber: 3.7 Consensus size: 49
3912352 CGGATTCACA
* *
3912362 TAGTAGCATGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA--ACTATCCGATACACG
* * * *
3912413 TAGTAGCCTGCACATAGTACTACAAACGTGATCGAAGCTATCC-AGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCAA-CTATCCGA-TACACG
* * * * * *
3912464 TAGTGGCCTGCACATAGTACTACACATGCGACCTA-TCATTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAACT-A-TCCGATACACG
*
3912514 TAGTAGCCTACACATAGTACTACACACGTGACCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA
3912548 TCACTTTCAC
Statistics
Matches: 108, Mismatches: 21, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 39 0.36
51 65 0.60
52 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (49 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCAACTATCCGATACACG
Found at i:3912536 original size:101 final size:102
Alignment explanation
Indices: 3912360--3912544 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
3912350 TGCGGATTCA
* *
3912360 CATAGTAGCATGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCATGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTACA
3912425 CATAGTACTACAAACGTGATCGAAGCTATCCAGTACG
66 CATAGTACTACAAACGTGATCGAAGCTATCCAGTACG
* * * *
3912462 CATAGTGGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTAC
1 CATAGTAGCATGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTAC
*
3912525 ACATAGTACTACACACGTGA
65 ACATAGTACTACAAACGTGA
3912545 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 38 0.51
102 33 0.44
103 4 0.05
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (102 bp):
CATAGTAGCATGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTACA
CATAGTACTACAAACGTGATCGAAGCTATCCAGTACG
Found at i:3916582 original size:72 final size:72
Alignment explanation
Indices: 3916493--3916674 Score: 364
Period size: 72 Copynumber: 2.5 Consensus size: 72
3916483 TCTTCTGCTT
3916493 TCATTTTTGTTACAAGAATTGTCTCTTTCAATAAAATAGATTTCAGATAACTTACACTAAAAAGA
1 TCATTTTTGTTACAAGAATTGTCTCTTTCAATAAAATAGATTTCAGATAACTTACACTAAAAAGA
3916558 ATCAAAA
66 ATCAAAA
3916565 TCATTTTTGTTACAAGAATTGTCTCTTTCAATAAAATAGATTTCAGATAACTTACACTAAAAAGA
1 TCATTTTTGTTACAAGAATTGTCTCTTTCAATAAAATAGATTTCAGATAACTTACACTAAAAAGA
3916630 ATCAAAA
66 ATCAAAA
3916637 TCATTTTTGTTACAAGAATTGTCTCTTTCAATAAAATA
1 TCATTTTTGTTACAAGAATTGTCTCTTTCAATAAAATA
3916675 TATGAACAAA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 110 1.00
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (72 bp):
TCATTTTTGTTACAAGAATTGTCTCTTTCAATAAAATAGATTTCAGATAACTTACACTAAAAAGA
ATCAAAA
Found at i:3918699 original size:13 final size:13
Alignment explanation
Indices: 3918681--3918705 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3918671 TTTACTGGAA
3918681 TCTTATTTCTTTC
1 TCTTATTTCTTTC
3918694 TCTTATTTCTTT
1 TCTTATTTCTTT
3918706 TTCATTTTTG
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:0.08, C:0.20, G:0.00, T:0.72
Consensus pattern (13 bp):
TCTTATTTCTTTC
Found at i:3921754 original size:26 final size:26
Alignment explanation
Indices: 3921723--3921776 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
3921713 GAAGTTGGGA
3921723 TTGGTTTAGTATTTCAGTTCATTGGC
1 TTGGTTTAGTATTTCAGTTCATTGGC
3921749 TTGGTTTAGTATTTCAGTTCATTGGC
1 TTGGTTTAGTATTTCAGTTCATTGGC
3921775 TT
1 TT
3921777 TCTTAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.15, C:0.11, G:0.22, T:0.52
Consensus pattern (26 bp):
TTGGTTTAGTATTTCAGTTCATTGGC
Found at i:3922679 original size:23 final size:22
Alignment explanation
Indices: 3922653--3922695 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
3922643 ATCACTATTA
3922653 TTAAATATATTTATTAATTTAGT
1 TTAAATATATTTATT-ATTTAGT
*
3922676 TTAAATATATTTCTTATTTA
1 TTAAATATATTTATTATTTA
3922696 TCATGACCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
TTAAATATATTTATTATTTAGT
Found at i:3929967 original size:15 final size:17
Alignment explanation
Indices: 3929931--3929967 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
3929921 TCCCCTCCCC
3929931 TTAAAAAGATCTACCTA
1 TTAAAAAGATCTACCTA
*
3929948 TTAAAAA-ATTTACC-A
1 TTAAAAAGATCTACCTA
3929963 TTAAA
1 TTAAA
3929968 CGATGACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 6 0.32
16 6 0.32
17 7 0.37
ACGTcount: A:0.51, C:0.14, G:0.03, T:0.32
Consensus pattern (17 bp):
TTAAAAAGATCTACCTA
Found at i:3930483 original size:17 final size:18
Alignment explanation
Indices: 3930461--3930495 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
3930451 CTAGTTGTTG
3930461 TTTTTAA-TAATTTTTAT
1 TTTTTAATTAATTTTTAT
3930478 TTTTTAATTAATTTTTAT
1 TTTTTAATTAATTTTTAT
3930496 AACTTCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTAATTAATTTTTAT
Found at i:3930492 original size:11 final size:10
Alignment explanation
Indices: 3930461--3930535 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
3930451 CTAGTTGTTG
3930461 TTTTTAATAA
1 TTTTTAATAA
3930471 TTTTT-AT--
1 TTTTTAATAA
3930478 TTTTTAATTAA
1 TTTTTAA-TAA
3930489 TTTTT-ATAA
1 TTTTTAATAA
*
3930498 CTTCTT-ATAA
1 -TTTTTAATAA
*
3930508 TTCTTAATAA
1 TTTTTAATAA
3930518 TTTTTAAATAA
1 TTTTT-AATAA
*
3930529 ATTTTAA
1 TTTTTAA
3930536 ATTATATAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 14
0.76 0.04 0.19
Matches are distributed among these distances:
7 5 0.09
8 1 0.02
9 11 0.20
10 24 0.44
11 14 0.25
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:3930546 original size:16 final size:18
Alignment explanation
Indices: 3930525--3930563 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
3930515 TAATTTTTAA
3930525 ATAAA-TTTTA-AATTAT
1 ATAAATTTTTATAATTAT
3930541 ATAAATTTTTATAATTAT
1 ATAAATTTTTATAATTAT
*
3930559 TTAAA
1 ATAAA
3930564 AAACCATGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 5 0.25
18 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATAAATTTTTATAATTAT
Found at i:3936245 original size:25 final size:26
Alignment explanation
Indices: 3936179--3936246 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 26
3936169 CCCAATATTA
3936179 CCCCAGTAAAATTTTGACGATTTTAC
1 CCCCAGTAAAATTTTGACGATTTTAC
*
3936205 CCCCAATAAAATTTTGACGATTTTA-
1 CCCCAGTAAAATTTTGACGATTTTAC
**
3936230 CCCTGGTAAAATTTTGA
1 CCCCAGTAAAATTTTGA
3936247 GAAAATTTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
25 14 0.37
26 24 0.63
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (26 bp):
CCCCAGTAAAATTTTGACGATTTTAC
Found at i:3936502 original size:9 final size:10
Alignment explanation
Indices: 3936472--3936509 Score: 55
Period size: 9 Copynumber: 4.1 Consensus size: 10
3936462 TGAATGTTTC
3936472 TCATTTCTAT
1 TCATTTCTAT
3936482 T--TTTCTAT
1 TCATTTCTAT
3936490 TCATTTC-AT
1 TCATTTCTAT
3936499 TCATTTCTAT
1 TCATTTCTAT
3936509 T
1 T
3936510 TAAACACGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
8 8 0.32
9 9 0.36
10 8 0.32
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.63
Consensus pattern (10 bp):
TCATTTCTAT
Found at i:3938472 original size:43 final size:43
Alignment explanation
Indices: 3938417--3938544 Score: 177
Period size: 43 Copynumber: 3.0 Consensus size: 43
3938407 TATCTTAGAA
3938417 AAAAAAGGAATTTAAAAAGTGGAGAAGATAATCTTGGGTTGTTG
1 AAAAAA-GAATTTAAAAAGTGGAGAAGATAATCTTGGGTTGTTG
* *
3938461 AAAAAATAATTTAAAAAAAT-GAGAAGATAATCTTGGGTTGTTG
1 AAAAAAGAATTT-AAAAAGTGGAGAAGATAATCTTGGGTTGTTG
* * * *
3938504 AAAAAAGAACTTAAAAAGAGGAGAAGATAAACATGGGTTGT
1 AAAAAAGAATTTAAAAAGTGGAGAAGATAATCTTGGGTTGT
3938545 CGGGTTTACC
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
42 5 0.07
43 57 0.77
44 12 0.16
ACGTcount: A:0.48, C:0.03, G:0.23, T:0.25
Consensus pattern (43 bp):
AAAAAAGAATTTAAAAAGTGGAGAAGATAATCTTGGGTTGTTG
Found at i:3951657 original size:92 final size:92
Alignment explanation
Indices: 3951500--3951682 Score: 341
Period size: 92 Copynumber: 2.0 Consensus size: 92
3951490 TCATTCAGGT
*
3951500 AGTACGAAAATGTATAATGATTTGAAACAGCTTTACTGGTGGCCTGGTATGAAACGAGACATCTC
1 AGTACGAAAATGTATAATGATTCGAAACAGCTTTACTGGTGGCCTGGTATGAAACGAGACATCTC
3951565 T-GACTTTGTTTCGAAATATTTAATCTG
66 TAG-CTTTGTTTCGAAATATTTAATCTG
3951592 AGTACGAAAATGTATAATGATTCGAAACAGCTTTACTGGTGGCCTGGTATGAAACGAGACATCTC
1 AGTACGAAAATGTATAATGATTCGAAACAGCTTTACTGGTGGCCTGGTATGAAACGAGACATCTC
3951657 TAGCTTTGTTTCGAAATATTTAATCT
66 TAGCTTTGTTTCGAAATATTTAATCT
3951683 ATCAGCAAGT
Statistics
Matches: 89, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
92 88 0.99
93 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (92 bp):
AGTACGAAAATGTATAATGATTCGAAACAGCTTTACTGGTGGCCTGGTATGAAACGAGACATCTC
TAGCTTTGTTTCGAAATATTTAATCTG
Found at i:3953297 original size:66 final size:66
Alignment explanation
Indices: 3953191--3953322 Score: 255
Period size: 66 Copynumber: 2.0 Consensus size: 66
3953181 TAGTAAGTAA
3953191 TAAAATAACATATAATAAAAGTACATGAAAAAAATAAAATAAGCCAGGCATTTGTTCATCCATAG
1 TAAAATAACATATAATAAAAGTACATGAAAAAAATAAAATAAGCCAGGCATTTGTTCATCCATAG
3953256 C
66 C
*
3953257 TAAAATAACATATAATAAAAGTACATGAAAAAAATAAAATAAGCCATGCATTTGTTCATCCATAG
1 TAAAATAACATATAATAAAAGTACATGAAAAAAATAAAATAAGCCAGGCATTTGTTCATCCATAG
3953322 C
66 C
3953323 GAAACATCAA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.52, C:0.14, G:0.10, T:0.25
Consensus pattern (66 bp):
TAAAATAACATATAATAAAAGTACATGAAAAAAATAAAATAAGCCAGGCATTTGTTCATCCATAG
C
Found at i:3954640 original size:21 final size:21
Alignment explanation
Indices: 3954616--3954660 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3954606 TTTTAATGCT
*
3954616 TGATTTATATA-GGTTTGGTCA
1 TGATATATATATGGTTTGG-CA
*
3954637 TGATATATATATGTTTTGGCA
1 TGATATATATATGGTTTGGCA
3954658 TGA
1 TGA
3954661 AGTAATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.27, C:0.04, G:0.22, T:0.47
Consensus pattern (21 bp):
TGATATATATATGGTTTGGCA
Found at i:3964901 original size:48 final size:47
Alignment explanation
Indices: 3964825--3965021 Score: 207
Period size: 48 Copynumber: 4.1 Consensus size: 47
3964815 AATAGATTTC
* *
3964825 TCGGTGGCCTGCACACAGTCCGTACCACCTTTGTGTAGTAACAGATTC
1 TCGGTGGCCTGCACACAGTCCGTACCACCCTTGTGTA-TAACAGATTA
* * * * *
3964873 TCGGTGGCCTGCACATAGTCTGTGCCACCCTTGTATCTTAACA-AGTTA
1 TCGGTGGCCTGCACACAGTCCGTACCACCCTTGTGT-ATAACAGA-TTA
* * * *
3964921 TTGGTGGCCTACACACAGTCCGTACCACCCTTGTGTCACAACAGAATA
1 TCGGTGGCCTGCACACAGTCCGTACCACCCTTGTGT-ATAACAGATTA
** * *
3964969 TCGGTGGCCTGCACACAGTCCGTGTCACCCTTGTGTCACAACAGAATA
1 TCGGTGGCCTGCACACAGTCCGTACCACCCTTGTGT-ATAACAGATTA
3965017 TCGGT
1 TCGGT
3965022 ACGCATAGTA
Statistics
Matches: 126, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
47 1 0.01
48 124 0.98
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.26
Consensus pattern (47 bp):
TCGGTGGCCTGCACACAGTCCGTACCACCCTTGTGTATAACAGATTA
Found at i:3964998 original size:96 final size:96
Alignment explanation
Indices: 3964827--3965002 Score: 264
Period size: 96 Copynumber: 1.8 Consensus size: 96
3964817 TAGATTTCTC
* * * * * *
3964827 GGTGGCCTGCACACAGTCCGTACCACCTTTGTGTAGTAACAGATTCTCGGTGGCCTGCACATAGT
1 GGTGGCCTACACACAGTCCGTACCACCCTTGTGTAGCAACAGAATATCGGTGGCCTGCACACAGT
*
3964892 CTGTGCCACCCTTGTATCTTAACAAGTTATT
66 CCGTGCCACCCTTGTATCTTAACAAGTTATT
3964923 GGTGGCCTACACACAGTCCGTACCACCCTTGTGTCA-CAACAGAATATCGGTGGCCTGCACACAG
1 GGTGGCCTACACACAGTCCGTACCACCCTTGTGT-AGCAACAGAATATCGGTGGCCTGCACACAG
*
3964987 TCCGTGTCACCCTTGT
65 TCCGTGCCACCCTTGT
3965003 GTCACAACAG
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
96 70 0.99
97 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (96 bp):
GGTGGCCTACACACAGTCCGTACCACCCTTGTGTAGCAACAGAATATCGGTGGCCTGCACACAGT
CCGTGCCACCCTTGTATCTTAACAAGTTATT
Found at i:3970696 original size:81 final size:81
Alignment explanation
Indices: 3970561--3970886 Score: 643
Period size: 81 Copynumber: 4.0 Consensus size: 81
3970551 TGTGCGCCTG
*
3970561 ATCAACCTCAGCTTCCGTAAAAATGAATAAGTCATCTGCAAAGAAAGGTGTGAAATGGGCAGACC
1 ATCAACCTCAGCTTCCGTAAACATGAATAAGTCATCTGCAAAGAAAGGTGTGAAATGGGCAGACC
3970626 ATCCTTACCCAGTACA
66 ATCCTTACCCAGTACA
3970642 ATCAACCTCAGCTTCCGTAAACATGAATAAGTCATCTGCAAAGAAAGGTGTGAAATGGGCAGACC
1 ATCAACCTCAGCTTCCGTAAACATGAATAAGTCATCTGCAAAGAAAGGTGTGAAATGGGCAGACC
3970707 ATCCTTACCCAGTACA
66 ATCCTTACCCAGTACA
3970723 ATCAACCTCAGCTTCCGTAAACATGAATAAGTCATCTGCAAAGAAAGGTGTGAAATGGGCAGACC
1 ATCAACCTCAGCTTCCGTAAACATGAATAAGTCATCTGCAAAGAAAGGTGTGAAATGGGCAGACC
3970788 ATCCTTACCCAGTACA
66 ATCCTTACCCAGTACA
3970804 ATCAACCTCAGCTTCCGTAAACATGAATAAGTCATCTGCAAAGAAAGGTGTGAAATGGGCAGACC
1 ATCAACCTCAGCTTCCGTAAACATGAATAAGTCATCTGCAAAGAAAGGTGTGAAATGGGCAGACC
3970869 ATCCTTACCCAGTACA
66 ATCCTTACCCAGTACA
3970885 AT
1 AT
3970887 AGGTTTCTAA
Statistics
Matches: 244, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 244 1.00
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.21
Consensus pattern (81 bp):
ATCAACCTCAGCTTCCGTAAACATGAATAAGTCATCTGCAAAGAAAGGTGTGAAATGGGCAGACC
ATCCTTACCCAGTACA
Found at i:3978028 original size:14 final size:14
Alignment explanation
Indices: 3977993--3978030 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
3977983 ACAAAAAAAA
3977993 TGAAAAAAAAATTC
1 TGAAAAAAAAATTC
*
3978007 -AAACAAAAAAATTC
1 TGAA-AAAAAAATTC
3978021 TGAAAAAAAA
1 TGAAAAAAAA
3978031 CAAAATCTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
13 2 0.10
14 16 0.80
15 2 0.10
ACGTcount: A:0.71, C:0.08, G:0.05, T:0.16
Consensus pattern (14 bp):
TGAAAAAAAAATTC
Found at i:3981545 original size:14 final size:14
Alignment explanation
Indices: 3981526--3981570 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
3981516 AACTCATCTT
*
3981526 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
3981540 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
3981553 AATTTAATTTAATG
1 AGTTTAATTTAATG
3981567 AGTT
1 AGTT
3981571 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:3982577 original size:29 final size:29
Alignment explanation
Indices: 3982544--3982603 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
3982534 ATAACCAAAC
*
3982544 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
3982573 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
3982602 CT
1 CT
3982604 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:3982596 original size:15 final size:15
Alignment explanation
Indices: 3982550--3982597 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
3982540 AAACCTACAA
*
3982550 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
3982565 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
3982579 AAACTTCATATCCAT
1 AAACTTCATATCCAT
3982594 AAAC
1 AAAC
3982598 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:3983502 original size:43 final size:43
Alignment explanation
Indices: 3983454--3983539 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
3983444 TGCTTGCTTT
*
3983454 TAATCTCCATATGTCCATTGCGTTCCTACAATAAATGTGAACA
1 TAATCTCCATATGTCCATTGCGTTCCTACAAGAAATGTGAACA
*
3983497 TAATCTCCATATGTCCATTGCGTTTCTACAAGAAATGTGAACA
1 TAATCTCCATATGTCCATTGCGTTCCTACAAGAAATGTGAACA
3983540 GAATTAATTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.33
Consensus pattern (43 bp):
TAATCTCCATATGTCCATTGCGTTCCTACAAGAAATGTGAACA
Found at i:3985798 original size:18 final size:19
Alignment explanation
Indices: 3985777--3985813 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
3985767 TTATACAAGT
*
3985777 TAAAAAAAATTC-AAAAAA
1 TAAAAAAAAATCGAAAAAA
3985795 TAAAAAAAAATCGAAAAAA
1 TAAAAAAAAATCGAAAAAA
3985814 AGTGATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.14
Consensus pattern (19 bp):
TAAAAAAAAATCGAAAAAA
Found at i:3990454 original size:21 final size:22
Alignment explanation
Indices: 3990428--3990471 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
3990418 AAACGAGCTC
3990428 GTTGAGCTAAGTTGAG-TTGAA
1 GTTGAGCTAAGTTGAGCTTGAA
* *
3990449 GTTGAGCTGATTTGAGCTTGAA
1 GTTGAGCTAAGTTGAGCTTGAA
3990471 G
1 G
3990472 GAGTATGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.25, C:0.07, G:0.34, T:0.34
Consensus pattern (22 bp):
GTTGAGCTAAGTTGAGCTTGAA
Found at i:3998061 original size:27 final size:27
Alignment explanation
Indices: 3998022--3998199 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
3998012 ACATTGAGCC
* * * *
3998022 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
3998049 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
**
3998076 CGCACACTTAGTGCTACATAGTCAGGCT
1 CGCACACTTAGTGCTACATAGTCA-AAT
** * *
3998104 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
3998131 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
* *
3998158 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
3998185 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
3998200 GTACAATTTA
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 99 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:3998161 original size:82 final size:81
Alignment explanation
Indices: 3998043--3998198 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
3998033 TGCTATATAA
* * * **
3998043 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGGCTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
3998108 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
3998125 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
3998189 CCCTTAGTGC
65 CACTTAGTGC
3998199 TGTACAATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:4003976 original size:14 final size:14
Alignment explanation
Indices: 4003957--4003990 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
4003947 TTCTTTTCAT
4003957 TCTTTTTATTTTTC
1 TCTTTTTATTTTTC
*
4003971 TCTTTTTCTTTTTC
1 TCTTTTTATTTTTC
4003985 TCTTTT
1 TCTTTT
4003991 AATAGATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (14 bp):
TCTTTTTATTTTTC
Found at i:4005490 original size:46 final size:44
Alignment explanation
Indices: 4005347--4005490 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 44
4005337 CCCGCCCATA
* *
4005347 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * * *
4005396 --TGAACTCGGACTCAACTCAAAGAGTTCAGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCAAATCC-T
4005439 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
4005486 AGTGA
1 AGTGA
4005491 CATATCACTT
Statistics
Matches: 75, Mismatches: 10, Indels: 23
0.69 0.09 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
45 1 0.01
46 31 0.41
47 26 0.35
48 5 0.07
49 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:4021656 original size:30 final size:31
Alignment explanation
Indices: 4021595--4021662 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
4021585 GGCTCATAGG
4021595 AGCCTTTTCATAAATCATATCACTAGGCCGA
1 AGCCTTTTCATAAATCATATCACTAGGCCGA
4021626 AGCCTTTTCATAAATCATATCACT-GGCCGA
1 AGCCTTTTCATAAATCATATCACTAGGCCGA
4021656 AGCCTTT
1 AGCCTTT
4021663 ACTGTAAGCG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 13 0.35
31 24 0.65
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.31
Consensus pattern (31 bp):
AGCCTTTTCATAAATCATATCACTAGGCCGA
Found at i:4021894 original size:24 final size:25
Alignment explanation
Indices: 4021867--4021944 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
4021857 GCCTAGCCTC
4021867 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*
4021891 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*** * *
4021916 TTTCGGTAAACTAGGGCATAG-CCT
1 TTTTAATAAACTGGGGCAAAGCCCT
4021940 TTTTA
1 TTTTA
4021945 GCACTTCCTC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
24 12 0.26
25 34 0.74
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:4021902 original size:25 final size:25
Alignment explanation
Indices: 4021874--4021943 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
4021864 CTCTTTTAAT
4021874 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
4021899 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
4021924 AACTAGGGCATAG-CCTTTTT
1 AACTGGGGCAAAGCCCTTTTT
4021944 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 6 0.15
25 34 0.85
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:4028144 original size:20 final size:20
Alignment explanation
Indices: 4028101--4028142 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
4028091 CAGTAAAATA
*
4028101 TTTTCTAGAATATTATTTAC
1 TTTTCTAGAATATGATTTAC
4028121 TTTTCTAGAA-ATGATTTA-
1 TTTTCTAGAATATGATTTAC
4028139 TTTT
1 TTTT
4028143 TTTGGTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 7 0.33
20 10 0.48
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTTCTAGAATATGATTTAC
Found at i:4041031 original size:56 final size:56
Alignment explanation
Indices: 4040971--4041146 Score: 244
Period size: 56 Copynumber: 3.1 Consensus size: 56
4040961 TCCCAGACAG
* *
4040971 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACAT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACATATTAAACAT
* * *
4041027 GGTCTTACTCGCACACATGTATCAGAATCACATATCGATGCTAACATATTGAACAT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACATATTAAACAT
* * * * ** *
4041083 AGCCTTACTCGCACACATATATCAGAATCACATATTGATACCAATGTATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACATATTAAACAT
4041139 GGTCTTAC
1 GGTCTTAC
4041147 GCATAATCAC
Statistics
Matches: 103, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 103 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACATATTAAACAT
Found at i:4050159 original size:46 final size:47
Alignment explanation
Indices: 4050054--4050182 Score: 147
Period size: 46 Copynumber: 2.7 Consensus size: 47
4050044 GCCATATTAT
* * *
4050054 GAGATCCAGTGTAAGACCATGTCTGGGACATGGCAT-TGACATTGAGAC
1 GAGAGCCAGTGTAAGA-CATGTCTGGGACAT-ACATCAGACATTGAGAC
* * * *
4050102 GAGAGCTAGTGTAAGACATATCTGGGACATCCATCAG-CCTTGAGAC
1 GAGAGCCAGTGTAAGACATGTCTGGGACATACATCAGACATTGAGAC
4050148 GTA-AGCCAGTGTAAGACATGTCTGGGACATACATC
1 G-AGAGCCAGTGTAAGACATGTCTGGGACATACATC
4050183 CGCTACGAGA
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
46 41 0.59
47 15 0.21
48 14 0.20
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (47 bp):
GAGAGCCAGTGTAAGACATGTCTGGGACATACATCAGACATTGAGAC
Found at i:4051275 original size:20 final size:21
Alignment explanation
Indices: 4051236--4051275 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4051226 GTCGAGTTGG
4051236 TCACACAGGCGTGTTGCCCTT
1 TCACACAGGCGTGTTGCCCTT
*
4051257 TCACACGGGCGTG-TGCCCT
1 TCACACAGGCGTGTTGCCCT
4051276 ATCTTAAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.35, G:0.28, T:0.25
Consensus pattern (21 bp):
TCACACAGGCGTGTTGCCCTT
Found at i:4052791 original size:50 final size:50
Alignment explanation
Indices: 4052727--4052826 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
4052717 GTATTTGTGT
4052727 CGAATTGAACTATTGCTTGTATATATATGTTCAAGTCGAATTTGTTTAAG
1 CGAATTGAACTATTGCTTGTATATATATGTTCAAGTCGAATTTGTTTAAG
4052777 CGAATTGAACTATTGCTTGTATATATATGTTCAAGTCGAATTTGTTTAAG
1 CGAATTGAACTATTGCTTGTATATATATGTTCAAGTCGAATTTGTTTAAG
4052827 TATGGAGAAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (50 bp):
CGAATTGAACTATTGCTTGTATATATATGTTCAAGTCGAATTTGTTTAAG
Found at i:4056216 original size:43 final size:44
Alignment explanation
Indices: 4056109--4056223 Score: 115
Period size: 44 Copynumber: 2.6 Consensus size: 44
4056099 TGTGATTTTG
* * * * *
4056109 TGTAAGACGACGTCTGGGACGTTGGCATCGATTTGTAATTTGCA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATGTAAGTTACA
*** * * * *
4056153 TGTAAGACCTTATTTAGGACAATGGCATCGATATGT-GGTTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATGTAAGTTACA
4056196 TGTAAGACCACGTCTGGGACATTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
4056224 TGTACGAGCT
Statistics
Matches: 53, Mismatches: 18, Indels: 1
0.74 0.25 0.01
Matches are distributed among these distances:
43 26 0.49
44 27 0.51
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATGTAAGTTACA
Found at i:4056705 original size:26 final size:26
Alignment explanation
Indices: 4056661--4056820 Score: 266
Period size: 26 Copynumber: 6.2 Consensus size: 26
4056651 TGCTACAAAT
*
4056661 TGATAATGGGTTAGCTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
4056687 TGATAATGGGCTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
4056713 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4056739 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4056765 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
**
4056791 TGATAATGATTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4056817 TGAT
1 TGAT
4056821 GGGCAGTTCA
Statistics
Matches: 127, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 127 1.00
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:4065358 original size:64 final size:63
Alignment explanation
Indices: 4065190--4065371 Score: 165
Period size: 64 Copynumber: 2.9 Consensus size: 63
4065180 AAATAATTTG
* * * * **
4065190 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTAATCTCGTA
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATAATCTCGTA
* * * * *
4065253 GCTCTC--GTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACATATATC-CT
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATA-ATCTC-
4065315 GTA
61 GTA
* *
4065318 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCTACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT
4065372 CATAATGTCT
Statistics
Matches: 94, Mismatches: 17, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
60 1 0.01
61 10 0.11
63 6 0.06
64 53 0.56
65 12 0.13
67 12 0.13
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (63 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATAATCTCGTA
Found at i:4073734 original size:51 final size:52
Alignment explanation
Indices: 4073610--4073742 Score: 173
Period size: 51 Copynumber: 2.6 Consensus size: 52
4073600 ATGTCACTAG
4073610 TGACT-CAAGTGTGGTACTATGTGAAGGCCACATTGTGAAGAAAGATAGCTT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACATTGTGAAGAAAGATAGCTT
* * * * *
4073661 TG-GTCACAAGTGTGGTACTATGTGAAGGTCACTTTGTGAAG-AAGGTATCTT
1 TGACT-ACAAGTGTGGTACTATGTGAAGGCCACATTGTGAAGAAAGATAGCTT
* *
4073712 TGACTACAAGGGTGGTACTATGTGCAGGCCA
1 TGACTACAAGTGTGGTACTATGTGAAGGCCA
4073743 TCGGGCATCT
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
50 1 0.01
51 35 0.50
52 34 0.49
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (52 bp):
TGACTACAAGTGTGGTACTATGTGAAGGCCACATTGTGAAGAAAGATAGCTT
Found at i:4074826 original size:56 final size:56
Alignment explanation
Indices: 4074740--4074971 Score: 446
Period size: 56 Copynumber: 4.1 Consensus size: 56
4074730 ACAAGGGATG
4074740 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
4074796 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
4074852 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
4074908 ATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
4074964 ATGGGCAA
1 ATGGGCAA
4074972 TAAACTAATA
Statistics
Matches: 174, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 174 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:4091628 original size:27 final size:27
Alignment explanation
Indices: 4091590--4091652 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
4091580 TTGAATTGTA
* *
4091590 TTAGATCAAGAACAAAGAAAATCGGAC
1 TTAGATCGAGAACAAAGAAAATCAGAC
4091617 TTAGATCGAGAACAAAGAAAATCAGAC
1 TTAGATCGAGAACAAAGAAAATCAGAC
4091644 TTAGATCGA
1 TTAGATCGA
4091653 AGGAAGTCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.17
Consensus pattern (27 bp):
TTAGATCGAGAACAAAGAAAATCAGAC
Found at i:4092032 original size:85 final size:88
Alignment explanation
Indices: 4091866--4092044 Score: 210
Period size: 86 Copynumber: 2.1 Consensus size: 88
4091856 GGAACGTTGT
* * *
4091866 CATCG-ATCTGAGATATCGTGTAAGACCATGTCTGGGACACAGGCCTCGGTTTGAGATTTACATG
1 CATCGTATCTGAGATATCGTGTAAGACCATGTCTGGGACACAGGCCTCGATCTGAGAATTACATG
4091930 TAAGACCATGTCTGGGACATCGA
66 TAAGACCATGTCTGGGACATCGA
* * * *
4091953 CATCGTATCTGAG-T-TCGTGTAAGACCCTGTCTGGGGCAGAGGCGTCGATACT-A-AATTACAT
1 CATCGTATCTGAGATATCGTGTAAGACCATGTCTGGGACACAGGCCTCGAT-CTGAGAATTACAT
*
4092014 GTAAGACCACAT-TC-GGGACATCGG
65 GTAAGA-C-CATGTCTGGGACATCGA
4092038 CATCGTA
1 CATCGTA
4092045 CCCATTTATG
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
85 29 0.36
86 34 0.43
87 10 0.12
88 7 0.09
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (88 bp):
CATCGTATCTGAGATATCGTGTAAGACCATGTCTGGGACACAGGCCTCGATCTGAGAATTACATG
TAAGACCATGTCTGGGACATCGA
Found at i:4094225 original size:15 final size:15
Alignment explanation
Indices: 4094205--4094234 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4094195 TAAGAGATTG
4094205 TTCTGAATCTGCTGA
1 TTCTGAATCTGCTGA
4094220 TTCTGAATCTGCTGA
1 TTCTGAATCTGCTGA
4094235 CCAAGAGAAT
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:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (15 bp):
TTCTGAATCTGCTGA
Found at i:4104889 original size:7 final size:7
Alignment explanation
Indices: 4104870--4104954 Score: 61
Period size: 7 Copynumber: 12.4 Consensus size: 7
4104860 TTTGAATCCC
4104870 AAACCCTT
1 AAACCC-T
4104878 AAACCCT
1 AAACCCT
4104885 AAA-CCT
1 AAACCCT
4104891 AAA-CCT
1 AAACCCT
*
4104897 AAACCTT
1 AAACCCT
4104904 AAACCCT
1 AAACCCT
**
4104911 AAACTTT
1 AAACCCT
*
4104918 AAACCTT
1 AAACCCT
**
4104925 AAACATT
1 AAACCCT
*
4104932 AAA-TCT
1 AAACCCT
4104938 GAAACCC-
1 -AAACCCT
4104945 AAACCCT
1 AAACCCT
4104952 AAA
1 AAA
4104955 TTTTAGGGTT
Statistics
Matches: 64, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
6 19 0.30
7 38 0.59
8 7 0.11
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (7 bp):
AAACCCT
Found at i:4104913 original size:14 final size:14
Alignment explanation
Indices: 4104874--4104934 Score: 81
Period size: 14 Copynumber: 4.5 Consensus size: 14
4104864 AATCCCAAAC
4104874 CCTTAAACCCTAAA
1 CCTTAAACCCTAAA
4104888 CC-TAAA-CCTAAA
1 CCTTAAACCCTAAA
4104900 CCTTAAACCCTAAA
1 CCTTAAACCCTAAA
* *
4104914 CTTTAAACCTTAAA
1 CCTTAAACCCTAAA
*
4104928 CATTAAA
1 CCTTAAA
4104935 TCTGAAACCC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
12 8 0.19
13 8 0.19
14 26 0.62
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.25
Consensus pattern (14 bp):
CCTTAAACCCTAAA
Found at i:4104994 original size:7 final size:7
Alignment explanation
Indices: 4104961--4105024 Score: 65
Period size: 7 Copynumber: 9.1 Consensus size: 7
4104951 TAAATTTTAG
*
4104961 GGTTCGA
1 GGTTCAA
*
4104968 GGTTCGA
1 GGTTCAA
*
4104975 GGTTCGA
1 GGTTCAA
4104982 GGTTCAA
1 GGTTCAA
4104989 GGTTCAA
1 GGTTCAA
* *
4104996 GATTTAA
1 GGTTCAA
*
4105003 GGTTTAA
1 GGTTCAA
*
4105010 GGTTTAA
1 GGTTCAA
4105017 GGTTCAA
1 GGTTCAA
4105024 G
1 G
4105025 ATAAAATAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 52 1.00
ACGTcount: A:0.25, C:0.09, G:0.33, T:0.33
Consensus pattern (7 bp):
GGTTCAA
Found at i:4109423 original size:63 final size:63
Alignment explanation
Indices: 4109324--4109453 Score: 206
Period size: 63 Copynumber: 2.1 Consensus size: 63
4109314 ATCACATGGA
* * * *
4109324 TATATTCTTATCACATCAGGAATGAGGGGCATCTTAATAGAGTTTGAAATACCAAATTTAAGT
1 TATATCCTTATCACATCAAGAATGAGGCGCATCTTAATAGAGCTTGAAATACCAAATTTAAGT
* *
4109387 TATATCCTTATCACATCAAGAATGAGGCGCATCTTAATTGAGCTTGAATTACCAAATTTAAGT
1 TATATCCTTATCACATCAAGAATGAGGCGCATCTTAATAGAGCTTGAAATACCAAATTTAAGT
4109450 TATA
1 TATA
4109454 AATTAGGTTG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (63 bp):
TATATCCTTATCACATCAAGAATGAGGCGCATCTTAATAGAGCTTGAAATACCAAATTTAAGT
Found at i:4112708 original size:42 final size:42
Alignment explanation
Indices: 4112657--4112810 Score: 168
Period size: 42 Copynumber: 3.6 Consensus size: 42
4112647 TAAGACTACG
4112657 TGTAAGACCATATCTAGGATATGGCATCAGTATGAGACTTCA
1 TGTAAGACCATATCTAGGATATGGCATCAGTATGAGACTTCA
* * *
4112699 TGTAAGACCATATCTAGGATATGACAT-TGATATGAGACTTCG
1 TGTAAGACCATATCTAGGATATGGCATCAG-TATGAGACTTCA
* * * * * * *
4112741 TATAAGGCCATAGCTGGGCTATTGGCATCGGTATGAGA-TCCCA
1 TGTAAGACCATATCTAGGATA-TGGCATCAGTATGAGACT-TCA
*
4112784 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTAGGATATGGCAT
4112811 TGGTATGGTA
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.01
42 60 0.65
43 30 0.33
44 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTAGGATATGGCATCAGTATGAGACTTCA
Found at i:4127330 original size:79 final size:81
Alignment explanation
Indices: 4127194--4127378 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
4127184 TTGAATGATG
*
4127194 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
4127258 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
4127273 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
4127335 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
4127353 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
4127379 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:4127392 original size:40 final size:40
Alignment explanation
Indices: 4127195--4127378 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
4127185 TGAATGATGT
* * * *
4127195 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
4127235 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
4127275 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
4127313 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
4127354 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
4127379 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:4127400 original size:79 final size:79
Alignment explanation
Indices: 4127247--4127411 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
4127237 GGACTAAGAT
* **
4127247 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
4127312 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
4127326 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
4127389 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
4127405 CCGAAGG
1 CCGAAGG
4127412 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:4131764 original size:59 final size:59
Alignment explanation
Indices: 4131693--4131809 Score: 225
Period size: 59 Copynumber: 2.0 Consensus size: 59
4131683 CCTATCCCGA
4131693 TTCTCAAGCCGGCTTGTCAACAACTACAATGAATGAAAAGAAAGGGGTAAGCATAAATT
1 TTCTCAAGCCGGCTTGTCAACAACTACAATGAATGAAAAGAAAGGGGTAAGCATAAATT
*
4131752 TTCTCAAGCCGGCTTGTCAACAACTACAATGAATGAAAAGAAGGGGGTAAGCATAAAT
1 TTCTCAAGCCGGCTTGTCAACAACTACAATGAATGAAAAGAAAGGGGTAAGCATAAAT
4131810 GCTTAGTAAG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.21
Consensus pattern (59 bp):
TTCTCAAGCCGGCTTGTCAACAACTACAATGAATGAAAAGAAAGGGGTAAGCATAAATT
Found at i:4132251 original size:179 final size:179
Alignment explanation
Indices: 4131951--4132293 Score: 686
Period size: 179 Copynumber: 1.9 Consensus size: 179
4131941 CAAGTTCTCA
4131951 ACCCGAGGATTTAAGCACATGCCTGTCAAATTTTATCATTCACCACACTTACCAATATGTCACCT
1 ACCCGAGGATTTAAGCACATGCCTGTCAAATTTTATCATTCACCACACTTACCAATATGTCACCT
4132016 TCGTTTTAGGCATTCTTCTCATTCACTTAAGATTCACCCATTGAACACGGATAGACAAACTCAAT
66 TCGTTTTAGGCATTCTTCTCATTCACTTAAGATTCACCCATTGAACACGGATAGACAAACTCAAT
4132081 AGCCTGCGAAACTTATGTGGCCAAGCTACCATGTAACCTGTCCATAAGT
131 AGCCTGCGAAACTTATGTGGCCAAGCTACCATGTAACCTGTCCATAAGT
4132130 ACCCGAGGATTTAAGCACATGCCTGTCAAATTTTATCATTCACCACACTTACCAATATGTCACCT
1 ACCCGAGGATTTAAGCACATGCCTGTCAAATTTTATCATTCACCACACTTACCAATATGTCACCT
4132195 TCGTTTTAGGCATTCTTCTCATTCACTTAAGATTCACCCATTGAACACGGATAGACAAACTCAAT
66 TCGTTTTAGGCATTCTTCTCATTCACTTAAGATTCACCCATTGAACACGGATAGACAAACTCAAT
4132260 AGCCTGCGAAACTTATGTGGCCAAGCTACCATGT
131 AGCCTGCGAAACTTATGTGGCCAAGCTACCATGT
4132294 TTCGCATCCA
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
179 164 1.00
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (179 bp):
ACCCGAGGATTTAAGCACATGCCTGTCAAATTTTATCATTCACCACACTTACCAATATGTCACCT
TCGTTTTAGGCATTCTTCTCATTCACTTAAGATTCACCCATTGAACACGGATAGACAAACTCAAT
AGCCTGCGAAACTTATGTGGCCAAGCTACCATGTAACCTGTCCATAAGT
Found at i:4145001 original size:42 final size:42
Alignment explanation
Indices: 4144948--4145051 Score: 147
Period size: 42 Copynumber: 2.5 Consensus size: 42
4144938 GAGGTTATTA
*
4144948 AGACTACGTGTAAGACCATATCTAGGATATGGCATC-AGTATG
1 AGACTTCGTGTAAGACCATATCTAGGATATGGCATCGA-TATG
* * *
4144990 AGACTTTGTGTAAGACCATATTTGGGATATGGCATCGATATG
1 AGACTTCGTGTAAGACCATATCTAGGATATGGCATCGATATG
*
4145032 AGACTTCGTATAAGACCATA
1 AGACTTCGTGTAAGACCATA
4145052 ACTGGGCTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 54 0.98
43 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (42 bp):
AGACTTCGTGTAAGACCATATCTAGGATATGGCATCGATATG
Found at i:4146008 original size:21 final size:21
Alignment explanation
Indices: 4145984--4146028 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
4145974 CATAGAAGGG
4145984 AAAAATGATCAGCAAGTCATT
1 AAAAATGATCAGCAAGTCATT
4146005 AAAAATGATCAGCAAGTCATT
1 AAAAATGATCAGCAAGTCATT
4146026 AAA
1 AAA
4146029 CATAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.22
Consensus pattern (21 bp):
AAAAATGATCAGCAAGTCATT
Found at i:4146714 original size:93 final size:93
Alignment explanation
Indices: 4146552--4146722 Score: 238
Period size: 93 Copynumber: 1.8 Consensus size: 93
4146542 GGATGGTTGA
* * *
4146552 GCATCCGAACTCGTCGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGG
4146617 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
4146645 GCATCCGAACTTGTTGAGTTGAGTCCGGGTTCATTTATGGATG-AGAACG-CCTGAGCTCGTTGA
1 GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCA-AACGTCC-GAACTCGTTGA
4146708 GGTGAGTCCGAGTTC
64 GGTGAGTCCGAGTTC
4146723 ACTTAGGGGC
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
92 3 0.04
93 65 0.96
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGG
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:4149745 original size:14 final size:15
Alignment explanation
Indices: 4149668--4149747 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
4149658 GTATCTTGGG
* *
4149668 TTTCTTTATCCTAGA
1 TTTCTTTATTCTGGA
*
4149683 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
4149698 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
4149713 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
4149728 TTTCTTTATT-TGGT
1 TTTCTTTATTCTGGA
4149742 TTTCTT
1 TTTCTT
4149748 GTTATCTTTG
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
14 11 0.21
15 40 0.77
16 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:4152177 original size:46 final size:46
Alignment explanation
Indices: 4152127--4152299 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
4152117 TGGTTGAGCA
*
4152127 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATG
* * *
4152173 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTGGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAAT--G
* * * * *
4152218 CATCCGAACTTGTTGAGTTGAGTTCGAGTTCATTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATG
* *
4152266 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
4152300 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 7 0.07
45 3 0.03
46 58 0.56
47 27 0.26
48 3 0.03
50 6 0.06
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATG
Found at i:4152283 original size:93 final size:93
Alignment explanation
Indices: 4152124--4152294 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
4152114 GGATGGTTGA
* *
4152124 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
4152189 TGAGTCCGAGTTCGTGAGATGTAACTGG
66 TGAGTCCGAGTTCGTGAGATGTAACTGG
* * * ** *
4152217 GCATCCGAACTTGTTGAGTTGAGTTCGAGTTCATTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
4152282 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
4152295 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTGG
Found at i:4166220 original size:6 final size:6
Alignment explanation
Indices: 4166202--4166352 Score: 105
Period size: 6 Copynumber: 24.3 Consensus size: 6
4166192 AAGAAACATT
*
4166202 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-A GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
4166251 ATCAGA ATTAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A
* * *
4166302 A-CAGA ATCAAA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAAA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATC-AGA ATCAGA
4166351 AT
1 AT
4166353 GTGAATGCAA
Statistics
Matches: 114, Mismatches: 16, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
5 9 0.08
6 83 0.73
7 17 0.15
8 5 0.04
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:4166253 original size:31 final size:31
Alignment explanation
Indices: 4166216--4166352 Score: 151
Period size: 31 Copynumber: 4.6 Consensus size: 31
4166206 GAACTAGAAT
* *
4166216 CAGAATCAGAATCAGAATCAGAATCAAGTGA
1 CAGAATCAGAATCAGAATCAGTATCAAGTAA
* *
4166247 CAGAATCAGAATTAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGTATCAAGTAA
*
4166278 CAGAATC---A--A-AATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGTATCAAGTAA
* *
4166303 CAGAATCAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGTATCAAGTAA
*
4166334 CAGAATCAAAAATCAGAAT
1 CAGAATC-AGAATCAGAAT
4166353 GTGAATGCAA
Statistics
Matches: 95, Mismatches: 4, Indels: 13
0.85 0.04 0.12
Matches are distributed among these distances:
25 23 0.24
26 1 0.01
28 2 0.02
30 1 0.01
31 57 0.60
32 11 0.12
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGTATCAAGTAA
Found at i:4166291 original size:56 final size:56
Alignment explanation
Indices: 4166222--4166352 Score: 199
Period size: 56 Copynumber: 2.3 Consensus size: 56
4166212 GAATCAGAAT
* * * *
4166222 CAGAATCAGAATCAGAATCAAGTGACAGAATCAGAATTAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAAGTAACAGAATCAAAATCAGAATCAGTATCAGGTAA
* *
4166278 CAGAATCAAAATCAGTATCAGGTAACAGAATCAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAAGTAACAGAATCAAAATCAGAATCAGTATCAGGTAA
4166334 CAGAATCAAAAATCAGAAT
1 CAGAATC-AAAATCAGAAT
4166353 GTGAATGCAA
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
56 57 0.85
57 10 0.15
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (56 bp):
CAGAATCAAAATCAGAATCAAGTAACAGAATCAAAATCAGAATCAGTATCAGGTAA
Found at i:4166323 original size:25 final size:25
Alignment explanation
Indices: 4166253--4166323 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
4166243 GTGACAGAAT
* *
4166253 CAGAATTAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGTATCAGGTAA
4166278 CAGAATCAAAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGTATCAGGTAA
*
4166303 CAGAATCAAAATCAGAATCAG
1 CAGAATCAAAATCAGTATCAG
4166324 TATCAGGTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (25 bp):
CAGAATCAAAATCAGTATCAGGTAA
Found at i:4166340 original size:25 final size:25
Alignment explanation
Indices: 4166211--4166341 Score: 110
Period size: 25 Copynumber: 5.0 Consensus size: 25
4166201 TATCAGAACT
*
4166211 AGAATCAGAATCA-G-AATCAGAATC
1 AGAATCAGTATCAGGTAA-CAGAATC
*
4166235 AGAATCAAGTGA-CA-G-AATCAGAATT
1 AGAATC-AGT-ATCAGGTAA-CAGAATC
4166260 AGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGTATCAGGTAACAGAATC
*
4166285 AAAATCAGTATCAGGTAACAGAATCAAAATC
1 AGAATCAGTATCAGGTAACAG------AATC
4166316 AGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGTATCAGGTAACAGAATC
4166341 A
1 A
4166342 AAAATCAGAA
Statistics
Matches: 91, Mismatches: 5, Indels: 21
0.78 0.04 0.18
Matches are distributed among these distances:
23 1 0.01
24 11 0.12
25 52 0.57
26 3 0.03
31 24 0.26
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (25 bp):
AGAATCAGTATCAGGTAACAGAATC
Found at i:4166552 original size:26 final size:27
Alignment explanation
Indices: 4166489--4166562 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
4166479 GCTCAGTTAT
* *
4166489 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
4166516 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
4166542 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
4166563 TTAACAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 20 0.47
27 23 0.53
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:4166755 original size:22 final size:22
Alignment explanation
Indices: 4166721--4166785 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
4166711 GCAATTACGT
*
4166721 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
4166743 TTGGCATAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
4166765 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
4166786 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:4167067 original size:16 final size:16
Alignment explanation
Indices: 4167048--4167087 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
4167038 CCCATGCAAC
4167048 ATGTCATGTATGCAGA
1 ATGTCATGTATGCAGA
4167064 ATGTCATGTATGCAGA
1 ATGTCATGTATGCAGA
4167080 ATGTCATG
1 ATGTCATG
4167088 CCCATATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (16 bp):
ATGTCATGTATGCAGA
Found at i:4167304 original size:27 final size:28
Alignment explanation
Indices: 4167251--4167744 Score: 648
Period size: 27 Copynumber: 18.3 Consensus size: 28
4167241 ACAAGGTATC
* *
4167251 TCGATAATTCCACCC-ATAGGGGTATTT
1 TCGATAATTCTACCCTACAGGGGTATTT
*
4167278 TAG-TAATTCTACCCTACAGGGGTA-TT
1 TCGATAATTCTACCCTACAGGGGTATTT
*
4167304 TCGATAATTCTACCCTATAGGGGTA-TT
1 TCGATAATTCTACCCTACAGGGGTATTT
*
4167331 GCGATAATTCTACCCTACAGGGGTA-TT
1 TCGATAATTCTACCCTACAGGGGTATTT
*
4167358 TCGGTAATTCTACCCTACAGGGGTA-TT
1 TCGATAATTCTACCCTACAGGGGTATTT
*
4167385 TCGATAATTCTACCCTATAGGGGTA-TT
1 TCGATAATTCTACCCTACAGGGGTATTT
*
4167412 GCGATAATTCTACCCTACAGGGGTA-TT
1 TCGATAATTCTACCCTACAGGGGTATTT
*
4167439 TCGGTAATTCTACCCTACAGGGGTA-TT
1 TCGATAATTCTACCCTACAGGGGTATTT
*
4167466 TCGATAATTCTACCCTATAGGGGTA-TT
1 TCGATAATTCTACCCTACAGGGGTATTT
*
4167493 GCGATAATTCTACCCTACAGGGGTA-TT
1 TCGATAATTCTACCCTACAGGGGTATTT
*
4167520 TCGGTAATTCTACCCTACAGGGGTA-TT
1 TCGATAATTCTACCCTACAGGGGTATTT
4167547 TCGATAATTCTACCCTACAGGGGTA-TT
1 TCGATAATTCTACCCTACAGGGGTATTT
* * *
4167574 GCGATAATTCTACTCTACAAGGGTA-TT
1 TCGATAATTCTACCCTACAGGGGTATTT
*
4167601 TCGGTAATTCTACCCTACAGGGGTA-TT
1 TCGATAATTCTACCCTACAGGGGTATTT
* * *
4167628 TCGGTAATTCTACCCTATAGGGGTATTG
1 TCGATAATTCTACCCTACAGGGGTATTT
4167656 T-GATAATTCTACCCTACAGGGGTA-TT
1 TCGATAATTCTACCCTACAGGGGTATTT
* *
4167682 TCGGTAATTTTACCCTACAGGGGTATTT
1 TCGATAATTCTACCCTACAGGGGTATTT
*
4167710 T-GGTAATTCTACCCTACAGGGGTA-TT
1 TCGATAATTCTACCCTACAGGGGTATTT
*
4167736 TCGGTAATT
1 TCGATAATT
4167745 TTGTAAATCG
Statistics
Matches: 424, Mismatches: 37, Indels: 12
0.90 0.08 0.03
Matches are distributed among these distances:
26 19 0.04
27 400 0.94
28 5 0.01
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (28 bp):
TCGATAATTCTACCCTACAGGGGTATTT
Found at i:4167746 original size:54 final size:54
Alignment explanation
Indices: 4167245--4167744 Score: 745
Period size: 54 Copynumber: 9.3 Consensus size: 54
4167235 TACTCCACAA
* * * * *
4167245 GGTATCTCGATAATTCCACCC-ATAGGGGTATTT-TAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA-TAATTCTACCCTACAGG
* * *
4167298 GGTATTTCGATAATTCTACCCTATAGGGGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
*
4167352 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
* * *
4167406 GGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
* * *
4167460 GGTATTTCGATAATTCTACCCTATAGGGGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
4167514 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
* * * * *
4167568 GGTATTGCGATAATTCTACTCTACAAGGGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
*
4167622 GGTATTTCGGTAATTCTACCCTATAGGGGTATTGT-GATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATT-TCGATAATTCTACCCTACAGG
* * *
4167676 GGTATTTCGGTAATTTTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
4167730 GGTATTTCGGTAATT
1 GGTATTTCGGTAATT
4167745 TTGTAAATCG
Statistics
Matches: 410, Mismatches: 33, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
53 20 0.05
54 388 0.95
55 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (54 bp):
GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
Found at i:4167759 original size:27 final size:26
Alignment explanation
Indices: 4167675--4168123 Score: 342
Period size: 27 Copynumber: 16.7 Consensus size: 26
4167665 TACCCTACAG
* ** *
4167675 GGGTATTTCGGTAATTTTACCCTACAG
1 GGGTATTTTGGTAATTTTA-CAAACAA
* ** *
4167702 GGGTATTTTGGTAATTCTACCCTACAG
1 GGGTATTTTGGTAATTTTA-CAAACAA
* ** *
4167729 GGGTATTTCGGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAA-CAA
**** *
4167756 GGGTAAAACGGTAATTCTGTA-AATCAA
1 GGGTATTTTGGTAATT-T-TACAAACAA
* * * *
4167783 TGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAA-ACAA
*** ** *
4167810 GGGTATTTCCATAATTTTACAGGTCGA
1 GGGTATTTTGGTAATTTTACA-AACAA
** * * *
4167837 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAA-CAA
*
4167864 GGGTATTTTGGTAATTTTACAAACTA
1 GGGTATTTTGGTAATTTTACAAACAA
* *
4167890 GAGGTATTTTGATAATTTTACAAACCAG
1 G-GGTATTTTGGTAATTTTACAAA-CAA
*
4167918 GGGTATTTTGGTAATTTTACAAACTA
1 GGGTATTTTGGTAATTTTACAAACAA
*
4167944 GTGGTATTTTGGTAATTTTATAAACAAA
1 G-GGTATTTTGGTAATTTTACAAAC-AA
*
4167972 GGGTATTTTAGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CAA
**
4167999 GGGTATTTTGGTAATTTTGTAAACAAA
1 GGGTATTTTGGTAATTTTACAAAC-AA
*
4168026 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AA
*
4168053 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CAA
* *
4168080 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAA-CAA
4168107 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
4168124 GGTAAACTAA
Statistics
Matches: 343, Mismatches: 65, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
25 2 0.01
26 8 0.02
27 323 0.94
28 9 0.03
29 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACAA
Found at i:4167771 original size:81 final size:81
Alignment explanation
Indices: 4167252--4167744 Score: 844
Period size: 81 Copynumber: 6.1 Consensus size: 81
4167242 CAAGGTATCT
* * **
4167252 CGATAATTCCACCC-ATAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA
1 CGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA
4167316 CCCTATAGGGGTATTG
66 CCCTATAGGGGTATTG
4167332 CGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA
1 CGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA
4167397 CCCTATAGGGGTATTG
66 CCCTATAGGGGTATTG
4167413 CGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA
1 CGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA
4167478 CCCTATAGGGGTATTG
66 CCCTATAGGGGTATTG
4167494 CGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA
1 CGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA
*
4167559 CCCTACAGGGGTATTG
66 CCCTATAGGGGTATTG
* * *
4167575 CGATAATTCTACTCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
1 CGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA
4167640 CCCTATAGGGGTATTG
66 CCCTATAGGGGTATTG
* * * *
4167656 TGATAATTCTACCCTACAGGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTTGGTAATTCTA
1 CGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA
* *
4167721 CCCTACAGGGGTATTT
66 CCCTATAGGGGTATTG
*
4167737 CGGTAATT
1 CGATAATT
4167745 TTGTAAATCG
Statistics
Matches: 394, Mismatches: 18, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
80 13 0.03
81 381 0.97
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (81 bp):
CGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA
CCCTATAGGGGTATTG
Found at i:4167874 original size:81 final size:80
Alignment explanation
Indices: 4167784--4168123 Score: 403
Period size: 81 Copynumber: 4.2 Consensus size: 80
4167774 GTAAATCAAT
* * * ** *** * *
4167784 GGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCCATAATTTTACAGGTCGAGGGTATTTCAGT
1 GGTATTTTGGTAATTTTACAA-ACTAGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTAGT
* *
4167849 AATTTCACAAATTAGG
65 AATTTTACAAACTAGG
* *
4167865 GGTATTTTGGTAATTTTACAAACTAGAGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAACTAG-GGTATTTTGATAATTTTACAAACCAAGGGTATTTTAGT
*
4167930 AATTTTACAAACTAGT
65 AATTTTACAAACTAGG
* * *
4167946 GGTATTTTGGTAATTTTATAAACAAAGGGTATTTT-AGTAATTTTACAAACCAAGGGTATTTTGG
1 GGTATTTTGGTAATTTTACAAAC-TAGGGTATTTTGA-TAATTTTACAAACCAAGGGTATTTTAG
** * *
4168010 TAATTTTGTAAACAAAG
64 TAATTTTACAAACTAGG
* *
4168027 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGT
1 GGTATTTTGGTAATTTTACAAACTA-GGGTATTTTGATAATTTTACAAACCAAGGGTATTTTAGT
*
4168092 AATTTTACAAACCAGG
65 AATTTTACAAACTAGG
4168108 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
4168124 GGTAAACTAA
Statistics
Matches: 222, Mismatches: 32, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
80 5 0.02
81 215 0.97
82 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (80 bp):
GGTATTTTGGTAATTTTACAAACTAGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTAGTA
ATTTTACAAACTAGG
Found at i:4168130 original size:27 final size:27
Alignment explanation
Indices: 4167837--4168123 Score: 367
Period size: 27 Copynumber: 10.6 Consensus size: 27
4167827 TACAGGTCGA
** * **
4167837 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
4167864 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
4167891 AGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
4167918 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * *
4167945 TGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
4167972 GGGTATTTTAGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
** * *
4167999 GGGTATTTTGGTAATTTTGTAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
4168026 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
4168053 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
4168080 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
4168107 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
4168124 GGTAAACTAA
Statistics
Matches: 227, Mismatches: 33, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 227 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:4168132 original size:81 final size:81
Alignment explanation
Indices: 4167836--4168123 Score: 405
Period size: 81 Copynumber: 3.6 Consensus size: 81
4167826 TTACAGGTCG
* * * *
4167836 AGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACTAGAGGTATTTTG
1 AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
*
4167901 ATAATTTTACAAACCA
66 GTAATTTTACAAACCA
* * * * * * *
4167917 GGGGTATTTTGGTAATTTTACAAACTAGTGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTA
1 AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
4167982 GTAATTTTACAAACCA
66 GTAATTTTACAAACCA
* ** * *
4167998 AGGGTATTTTGGTAATTTTGTAAACAAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
*
4168063 GTAATTTTATAAACCA
66 GTAATTTTACAAACCA
*
4168079 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTT
4168124 GGTAAACTAA
Statistics
Matches: 179, Mismatches: 28, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 179 1.00
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (81 bp):
AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
GTAATTTTACAAACCA
Found at i:4170089 original size:6 final size:6
Alignment explanation
Indices: 4170071--4170198 Score: 84
Period size: 6 Copynumber: 20.8 Consensus size: 6
4170061 AAGAAACATT
* *
4170071 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAAA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
4170120 ATCATA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* * *
4170171 A-CAGA ATCAAA ACCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
4170199 GTAATAGAAT
Statistics
Matches: 94, Mismatches: 17, Indels: 22
0.71 0.13 0.17
Matches are distributed among these distances:
5 6 0.06
6 76 0.81
7 9 0.10
8 3 0.03
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:4170120 original size:31 final size:31
Alignment explanation
Indices: 4170080--4170221 Score: 194
Period size: 31 Copynumber: 4.5 Consensus size: 31
4170070 TATCAGAACT
* * *
4170080 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* * *
4170111 AAAATCAGAATCATAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
4170142 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
4170173 AGAATCAAAACCAGAATCAGTATCAGGTAAT
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
4170204 AGAATAAAAAATCAGAAT
1 AGAAT-CAAAATCAGAAT
4170222 GTGAATGCAA
Statistics
Matches: 99, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 89 0.90
32 10 0.10
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.19
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:4170422 original size:26 final size:27
Alignment explanation
Indices: 4170358--4170431 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
4170348 GGTCAGTTAT
* * *
4170358 CAGATATTGTGACAGAGTCACCTGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
*
4170385 TAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
4170411 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
4170432 TTAACATAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 19 0.47
27 21 0.52
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:4170615 original size:22 final size:22
Alignment explanation
Indices: 4170590--4170654 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
4170580 GCAAATAAGT
*
4170590 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
4170612 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
4170634 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
4170655 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:4171138 original size:27 final size:27
Alignment explanation
Indices: 4171082--4171572 Score: 508
Period size: 27 Copynumber: 18.2 Consensus size: 27
4171072 GGGCAAAATG
* * * * *
4171082 GTAATTTTACCCCACA-AGGTATCTTG
1 GTAATTCTACCCTACAGGGGTATTTTC
* * *
4171108 GTAATTCCACCCTACATGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTTC
* *
4171135 GTAATTCTACCTTACAAGGGTA-TTTC
1 GTAATTCTACCCTACAGGGGTATTTTC
* *
4171161 GATAATTCCACCCTACAGGGGTA-TTGC
1 G-TAATTCTACCCTACAGGGGTATTTTC
4171188 GATAATTCTACCCTACAGGGGTA-TTTC
1 G-TAATTCTACCCTACAGGGGTATTTTC
*
4171215 GGTAATTCTACCCTACAGGGGTATTTTA
1 -GTAATTCTACCCTACAGGGGTATTTTC
*
4171243 GTAATTCTACACTACAGGGGTATTTT-
1 GTAATTCTACCCTACAGGGGTATTTTC
*
4171269 GATAATTCTACCCTACATGGGTA-TTTC
1 G-TAATTCTACCCTACAGGGGTATTTTC
* *
4171296 AGTAATTCTACCTTACAGGGGTATTTTG
1 -GTAATTCTACCCTACAGGGGTATTTTC
* *
4171324 GTAATTCTACCCTACAGGGGCA-TTGC
1 GTAATTCTACCCTACAGGGGTATTTTC
*
4171350 GGTAATTCTACCCTACAGGGGTA-TTGC
1 -GTAATTCTACCCTACAGGGGTATTTTC
*
4171377 GATAATTCTACCCTACAGGGGTA-TTGC
1 G-TAATTCTACCCTACAGGGGTATTTTC
*
4171404 GATAATTCTACCCTAGAGGGGTA-TTTC
1 G-TAATTCTACCCTACAGGGGTATTTTC
*
4171431 GATAATTCTACCCTACAAGGGTA-TTTC
1 G-TAATTCTACCCTACAGGGGTATTTTC
* *
4171458 GGTAATTCTACCCTACAGGAGTATTAT-
1 -GTAATTCTACCCTACAGGGGTATTTTC
4171485 GATAATTCTACCCTACAGGGGTA-TTTC
1 G-TAATTCTACCCTACAGGGGTATTTTC
*
4171512 GTTAATTCTACTCTACAGGGGTA-TTTC
1 G-TAATTCTACCCTACAGGGGTATTTTC
*
4171539 GGTTATTCTACCCTACAGGGGTA-TTTC
1 -GTAATTCTACCCTACAGGGGTATTTTC
4171566 GGTAATT
1 -GTAATT
4171573 TTGTAAATTG
Statistics
Matches: 408, Mismatches: 42, Indels: 29
0.85 0.09 0.06
Matches are distributed among these distances:
26 27 0.07
27 369 0.90
28 12 0.03
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTTC
Found at i:4171169 original size:54 final size:54
Alignment explanation
Indices: 4171109--4171572 Score: 612
Period size: 54 Copynumber: 8.6 Consensus size: 54
4171099 GGTATCTTGG
* * * * *
4171109 TAATTCCACCCTACATGGGTATTTTAGTAATTCTACCTTACAAGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGA
* * *
4171163 TAATTCCACCCTACAGGGGTATTGC-GATAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTCGA
* * *
4171217 TAATTCTACCCTACAGGGGTATTTTAGTAATTCTACACTACAGGGGTATTTTGA
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGA
* * * *
4171271 TAATTCTACCCTACATGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGA
* * * *
4171325 TAATTCTACCCTACAGGGGCATTGCGGTAATTCTACCCTACAGGGGTATTGCGA
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGA
* *
4171379 TAATTCTACCCTACAGGGGTATTGC-GATAATTCTACCCTAGAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTCGA
* * *
4171433 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTAT-GA
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATT-TCGA
* *
4171487 TAATTCTACCCTACAGGGGTATTTC-GTTAATTCTACTCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTCGA
* *
4171541 TTATTCTACCCTACAGGGGTATTTCGGTAATT
1 TAATTCTACCCTACAGGGGTATTTCAGTAATT
4171573 TTGTAAATTG
Statistics
Matches: 365, Mismatches: 37, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
53 4 0.01
54 357 0.98
55 4 0.01
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.34
Consensus pattern (54 bp):
TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGA
Found at i:4171201 original size:81 final size:81
Alignment explanation
Indices: 4171109--4171572 Score: 635
Period size: 81 Copynumber: 5.7 Consensus size: 81
4171099 GGTATCTTGG
* * ** * * *
4171109 TAATTCCACCCTACATGGGTATTTTAGTAATTCTACCTTACAAGGGTATTTCGATAATTCCACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCC
*
4171174 TACAGGGGTATTGCGA
66 TACAGGGGTATTTCGA
* *
4171190 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT-TAGTAATTCTACA
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA-TAATTCTACC
*
4171254 CTACAGGGGTATTTTGA
65 CTACAGGGGTATTTCGA
* * * * *
4171271 TAATTCTACCCTACATGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTTGGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCC
* * *
4171336 TACAGGGGCATTGCGG
66 TACAGGGGTATTTCGA
* * *
4171352 TAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTGCGATAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCC
*
4171417 TAGAGGGGTATTTCGA
66 TACAGGGGTATTTCGA
* *
4171433 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTAT-GATAATTCTACC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATT-TCGATAATTCTACC
*
4171497 CTACAGGGGTATTTCGT
65 CTACAGGGGTATTTCGA
* * *
4171514 TAATTCTACTCTACAGGGGTATTTCGGTTATTCTACCCTACAGGGGTATTTCGGTAATT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATT
4171573 TTGTAAATTG
Statistics
Matches: 334, Mismatches: 45, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
80 2 0.01
81 332 0.99
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.34
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCC
TACAGGGGTATTTCGA
Found at i:4171639 original size:27 final size:26
Alignment explanation
Indices: 4171593--4171949 Score: 338
Period size: 27 Copynumber: 13.3 Consensus size: 26
4171583 AAGGTAAACA
* * *
4171593 GTAATTCTATAAATCAAGGGTACTTTG
1 GTAATTTTACAAA-CAAGGGTATTTTG
* * **
4171620 GTAATTTTACAAGTCGAGGGTATTTCC
1 GTAATTTTACAA-ACAAGGGTATTTTG
** ** * *
4171647 AAAATTTTACAGGTCGAGGGTATTTTA
1 GTAATTTTACA-AACAAGGGTATTTTG
* *
4171674 GTAATTTCACAAATCAGGGGTATTTTG
1 GTAATTTTACAAA-CAAGGGTATTTTG
*
4171701 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAAC-AAGGGTATTTTG
* * *
4171728 ATAATTTTACAAACTAGGGGTATTTTA
1 GTAATTTTACAAAC-AAGGGTATTTTG
*
4171755 GTAATTTTACAAACCAATGGTATTTTG
1 GTAATTTTACAAA-CAAGGGTATTTTG
* *
4171782 GTAATTTTATAAACAAAGGGTATTTTA
1 GTAATTTTACAAAC-AAGGGTATTTTG
*
4171809 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAAC-AAGGGTATTTTG
**
4171836 GTAATTTTGTAAACCAAGGGTATTTTG
1 GTAATTTTACAAA-CAAGGGTATTTTG
*
4171863 GTAATTTTACAAACCAGGGTTATTTTG
1 GTAATTTTACAAACAAGGG-TATTTTG
* *
4171890 GTGATTTTATAAACCAAGGGTATTTTG
1 GTAATTTTACAAA-CAAGGGTATTTTG
4171917 GTAATTTTACAAACCAA-GGTATTTTG
1 GTAATTTTACAAA-CAAGGGTATTTTG
4171943 GTAATTT
1 GTAATTT
4171950 GGTAAACTAA
Statistics
Matches: 276, Mismatches: 45, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
26 23 0.08
27 246 0.89
28 7 0.03
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (26 bp):
GTAATTTTACAAACAAGGGTATTTTG
Found at i:4172173 original size:20 final size:20
Alignment explanation
Indices: 4172148--4172186 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4172138 TTAGGCCCAC
*
4172148 ATGGCCCCTTTCGGCCCATT
1 ATGGCCCCTTTCAGCCCATT
4172168 ATGGCCCCTTTCAGCCCAT
1 ATGGCCCCTTTCAGCCCAT
4172187 CGCGACCCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.41, G:0.18, T:0.28
Consensus pattern (20 bp):
ATGGCCCCTTTCAGCCCATT
Done.