Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 153 of 182
Found at i:47308810 original size:29 final size:29
Alignment explanation
Indices: 47308722--47308810 Score: 67
Period size: 29 Copynumber: 3.0 Consensus size: 29
47308712 CCATTTTTAA
*
47308722 TAACCCTG-ATTTTACCAAAAATTACCACTT
1 TAACCCTGAATTTT-CCAAAAATTA-CATTT
* * **
47308752 T-ACCCTCGAATCTT-CTAAAATCCCATTTT
1 TAACCCT-GAATTTTCCAAAAATTACA-TTT
*
47308781 TAACCCTGAATTTTCCCAAAATTACATTT
1 TAACCCTGAATTTTCCAAAAATTACATTT
47308810 T
1 T
47308811 GCCCTCGAGA
Statistics
Matches: 45, Mismatches: 9, Indels: 11
0.69 0.14 0.17
Matches are distributed among these distances:
28 2 0.04
29 24 0.53
30 15 0.33
31 4 0.09
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (29 bp):
TAACCCTGAATTTTCCAAAAATTACATTT
Found at i:47314678 original size:33 final size:33
Alignment explanation
Indices: 47314636--47314701 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
47314626 CCAAGATTGT
47314636 GACGAGTTCAAAGCTCTGCTGCAAACATTAATG
1 GACGAGTTCAAAGCTCTGCTGCAAACATTAATG
47314669 GACGAGTTCAAAGCTCTGCTGCAAACATTAATG
1 GACGAGTTCAAAGCTCTGCTGCAAACATTAATG
47314702 AACAATCAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (33 bp):
GACGAGTTCAAAGCTCTGCTGCAAACATTAATG
Found at i:47319571 original size:26 final size:27
Alignment explanation
Indices: 47319542--47319593 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
47319532 ATATGTATAT
* *
47319542 GAAATAAAAGAATAAAGAA-GAAGAAA
1 GAAACAAAAGAAAAAAGAAGGAAGAAA
47319568 GAAACAAAAGAAAAAAGAAGGAAGAA
1 GAAACAAAAGAAAAAAGAAGGAAGAA
47319594 CAGAGACCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.73, C:0.02, G:0.21, T:0.04
Consensus pattern (27 bp):
GAAACAAAAGAAAAAAGAAGGAAGAAA
Found at i:47327403 original size:23 final size:22
Alignment explanation
Indices: 47327360--47327403 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
47327350 TAATAAGTGA
* *
47327360 AATTGAAATTGAATGTGCTATG
1 AATTGAAATTGAAAGTCCTATG
47327382 AATTGTAAATTGAAAGTCCTAT
1 AATTG-AAATTGAAAGTCCTAT
47327404 TAACTAGTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (22 bp):
AATTGAAATTGAAAGTCCTATG
Found at i:47330738 original size:200 final size:199
Alignment explanation
Indices: 47330387--47331193 Score: 1148
Period size: 200 Copynumber: 4.0 Consensus size: 199
47330377 CAAAACGGTA
* * *
47330387 AGGCGGTAATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAACACGAGCAAATC
1 AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACACGAGCAAATC
*
47330452 TTCGAACCTAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCT
66 TTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCT
* * * * * *
47330517 AATGAGACATAGAGAAGTGGACCAAATTCGTCTTTCTGAGGAGATCCAGATAAGTGAATTAAAAC
131 GATGAGACACAGAGAAGTGGACCAAATTCATCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAAC
47330582 AACTG
196 AAC-G
* *
47330587 AGGTGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAATGCTCAACACGAGCAAATC
1 AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACACGAGCAAATC
* * * *
47330652 TTCGAACCCACCTTCCTGATGAGACACTGAGAAGCGGGTCGAAGTAATAAAATGGTTAGCTTCCT
66 TTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCT
* * * * *
47330717 GATGAGATACAGAGAAGTGGACCAGATTCATCTTCTTGAGGAGATCCAGAGAAGCGAATCAAAAT
131 GATGAGACACAGAGAAGTGGACCAAATTCATCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAAC
47330782 AAGCG
196 AA-CG
* * **
47330787 AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAATGCTTAATGCGAGCAAATC
1 AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACACGAGCAAATC
* * *
47330852 TTTGAACCCAGCTTCCTGATGAGACACTGAGAAGTAGGTCGAGGCAATAAAAAGGTTAGCTTCCT
66 TTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCT
* ** * *
47330917 GATGAGACACAGAGAAGTGTACCAAATTTGTCTTCCTGAGGAGATCCAGAAAAGCGAATTGAAAC
131 GATGAGACACAGAGAAGTGGACCAAATTCATCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAAC
47330982 AAACG
196 -AACG
* * * * *
47330987 AGGCGGTCATCTTCCTAATGAGACATAGAGAAGAATACCAAATCAACACTCAA-AGCGAGCAAAT
1 AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACA-CGAGCAAAT
* * * *
47331051 TTTCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAACGGTTAGCTTCC
65 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCC
* * * *
47331116 TGATGAGATACAGAGAAGTGGACCAAATTTATCTTCCTGAGGAGACCCAGAGAAGCAAATTAAAA
130 TGATGAGACACAGAGAAGTGGACCAAATTCATCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAA
47331181 CAAGCG
195 CAA-CG
47331187 AGGCGGT
1 AGGCGGT
47331194 TAACGCGAGC
Statistics
Matches: 539, Mismatches: 64, Indels: 8
0.88 0.10 0.01
Matches are distributed among these distances:
199 2 0.00
200 534 0.99
201 3 0.01
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (199 bp):
AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACACGAGCAAATC
TTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCT
GATGAGACACAGAGAAGTGGACCAAATTCATCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAAC
AACG
Found at i:47331327 original size:157 final size:157
Alignment explanation
Indices: 47331041--47331339 Score: 463
Period size: 157 Copynumber: 1.9 Consensus size: 157
47331031 AACACTCAAA
* * * * *
47331041 GCGAGCAAATTTTCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAACG
1 GCGAGCAAATCTTCGAACCCAGCTTCCTAATGAGACACTGAGAAGCAAGTCGAAACAATAAAAAG
* *
47331106 GTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTTATCTTCCTGAGGAGACCCAGAGAAG
66 GTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCATCTTCCTGAGGAGACCCAGAGAAG
47331171 CAAATTAAAACAAGCGAGGCGGTTAAC
131 CAAATTAAAACAAGCGAGGCGGTTAAC
* * *
47331198 GCGAGCAAATCTTCGAAGCCAGCTTCCTAATGAGATACTGAGAAGCAAGTCGAAGCAATAAAAAG
1 GCGAGCAAATCTTCGAACCCAGCTTCCTAATGAGACACTGAGAAGCAAGTCGAAACAATAAAAAG
* * * *
47331263 GTTAGCTTCTTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCTTGAGGAGATCCAGAGAAG
66 GTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCATCTTCCTGAGGAGACCCAGAGAAG
*
47331328 CGAATTAAAACA
131 CAAATTAAAACA
47331340 GATGATTACA
Statistics
Matches: 127, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
157 127 1.00
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.20
Consensus pattern (157 bp):
GCGAGCAAATCTTCGAACCCAGCTTCCTAATGAGACACTGAGAAGCAAGTCGAAACAATAAAAAG
GTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCATCTTCCTGAGGAGACCCAGAGAAG
CAAATTAAAACAAGCGAGGCGGTTAAC
Found at i:47331837 original size:18 final size:18
Alignment explanation
Indices: 47331810--47331844 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
47331800 TATAAATTAA
*
47331810 AAAGTTCAATTACAAAAG
1 AAAGTCCAATTACAAAAG
47331828 AAAGTCCAATTACAAAA
1 AAAGTCCAATTACAAAA
47331845 TATAGGCCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.14, G:0.09, T:0.20
Consensus pattern (18 bp):
AAAGTCCAATTACAAAAG
Found at i:47332586 original size:21 final size:22
Alignment explanation
Indices: 47332560--47332602 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
47332550 TAAATGTATA
*
47332560 TTAAATG-TATTAATTGATTTT
1 TTAAATGATATTAATTAATTTT
47332581 TTAAATGATATTAATTAATTTT
1 TTAAATGATATTAATTAATTTT
47332603 AAGAATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (22 bp):
TTAAATGATATTAATTAATTTT
Found at i:47333559 original size:59 final size:59
Alignment explanation
Indices: 47333485--47333817 Score: 371
Period size: 59 Copynumber: 5.6 Consensus size: 59
47333475 GAAATTATAT
* * *
47333485 TTTTGACCCCAAAACTTTTCAAAATTCCATTTTTAACC-CTGATTTCACCAAAAAATACCA
1 TTTT-ACCCCTAAACTTTCCAAAATTCCATTTTTAACCTC-GATTTCACCAAAAATTACCA
* * * *
47333545 TTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTGCACCCAAAATTACCA
1 TTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCA
** * * * * * *
47333604 TTTTACCCCCGAACCTTCTAAAATTCTAGTTTTAACCTCGATTTTATCAAAAATTACCA
1 TTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCA
* * * **
47333663 TTTTACCCTTAAACTTTCCAAAATTCCATTTTTAATCTCAATTTCACTGAAAATTACCA
1 TTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCA
* * * *
47333722 TATTACCCCTGAACTTTCCAAAATCCCATTCTTAACCTCGATTTCACCAAAAATTACCA
1 TTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCA
** * * * *
47333781 TTTTATACTTGAACTTTTCAAAATCCCATTTTTAACC
1 TTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACC
47333818 CTAAATTTTC
Statistics
Matches: 226, Mismatches: 46, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
59 221 0.98
60 5 0.02
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (59 bp):
TTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCA
Found at i:47333583 original size:30 final size:30
Alignment explanation
Indices: 47333483--47333697 Score: 87
Period size: 30 Copynumber: 7.3 Consensus size: 30
47333473 AAGAAATTAT
* * *
47333483 ATTTTTGACCCCAAAACTTTTCAAAATTCC
1 ATTTTTAACCCCTAAACTTTCCAAAATTCC
* *
47333513 ATTTTTAA-CCCT-GA-TTTCACCAAAAAATACC
1 ATTTTTAACCCCTAAACTTT--CC--AAAATTCC
47333544 A-TTTT-ACCCCTAAACTTTCCAAAATTCC
1 ATTTTTAACCCCTAAACTTTCCAAAATTCC
*
47333572 ATTTTTAACCCC--AA-TTGCACCCAAAATTACC
1 ATTTTTAACCCCTAAACTT---TCCAAAATT-CC
** * * *
47333603 A-TTTT-ACCCCCGAACCTTCTAAAATTCT
1 ATTTTTAACCCCTAAACTTTCCAAAATTCC
* * * ** *
47333631 AGTTTTAACCTC-GATTTTATCAAAAATTACC
1 ATTTTTAACCCCTAAACTT-TCCAAAATT-CC
*
47333662 A-TTTT-ACCCTTAAACTTTCCAAAATTCC
1 ATTTTTAACCCCTAAACTTTCCAAAATTCC
47333690 ATTTTTAA
1 ATTTTTAA
47333698 TCTCAATTTC
Statistics
Matches: 138, Mismatches: 24, Indels: 46
0.66 0.12 0.22
Matches are distributed among these distances:
27 5 0.04
28 16 0.12
29 43 0.31
30 54 0.39
31 16 0.12
32 4 0.03
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (30 bp):
ATTTTTAACCCCTAAACTTTCCAAAATTCC
Found at i:47333816 original size:177 final size:177
Alignment explanation
Indices: 47333496--47333817 Score: 414
Period size: 177 Copynumber: 1.8 Consensus size: 177
47333486 TTTGACCCCA
* * *
47333496 AAACTTTTCAAAATTCCATTTTTAACCCTGATTTCACCAAAAAATACCATTTTACCCCTAAACTT
1 AAACTTTCCAAAATTCCATTTTTAACCCTAATTTCACCAAAAAATACCATATTACCCCTAAACTT
* * * *
47333561 TCCAAAATTCCATTTTTAACCCCAATTGCACCCAAAATTACCATTTTACCCCCGAACCTTCTAAA
66 TCCAAAATCCCATTCTTAACCCCAATTGCACCAAAAATTACCATTTTACACCCGAACCTTCTAAA
* *
47333626 ATTCTAGTTTTAACCTCGATTTTATCAAAAATTACCATTTTACCCTT
131 ATCCCAGTTTTAACCTCGATTTTATCAAAAATTACCATTTTACCCTT
* ** * *
47333673 AAACTTTCCAAAATTCCATTTTTAA-TCTCAATTTCACTGAAAATTACCATATTACCCCTGAACT
1 AAACTTTCCAAAATTCCATTTTTAACCCT-AATTTCACCAAAAAATACCATATTACCCCTAAACT
* * * * ** *
47333737 TTCCAAAATCCCATTCTTAACCTCGATTTCACCAAAAATTACCATTTTATACTTGAA-CTTTTCA
65 TTCCAAAATCCCATTCTTAACCCCAATTGCACCAAAAATTACCATTTTACACCCGAACCTTCT-A
*
47333801 AAATCCCATTTTTAACC
129 AAATCCCAGTTTTAACC
47333818 CTAAATTTTC
Statistics
Matches: 121, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
176 6 0.05
177 115 0.95
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (177 bp):
AAACTTTCCAAAATTCCATTTTTAACCCTAATTTCACCAAAAAATACCATATTACCCCTAAACTT
TCCAAAATCCCATTCTTAACCCCAATTGCACCAAAAATTACCATTTTACACCCGAACCTTCTAAA
ATCCCAGTTTTAACCTCGATTTTATCAAAAATTACCATTTTACCCTT
Found at i:47344279 original size:23 final size:24
Alignment explanation
Indices: 47344235--47344281 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
47344225 TTTCTCTTAC
47344235 TCTCTTACTTTCTAAAATTTGTAT
1 TCTCTTACTTTCTAAAATTTGTAT
47344259 TCTCTTACTTTCT-AAATTTGTAT
1 TCTCTTACTTTCTAAAATTTGTAT
47344282 GTGGATCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.23, C:0.17, G:0.04, T:0.55
Consensus pattern (24 bp):
TCTCTTACTTTCTAAAATTTGTAT
Found at i:47348628 original size:18 final size:17
Alignment explanation
Indices: 47348605--47348693 Score: 54
Period size: 17 Copynumber: 5.1 Consensus size: 17
47348595 AGGCCCAATG
47348605 AATTTAGTTTTAAAATTA
1 AATTTA-TTTTAAAATTA
* *
47348623 AATTTATTTTGAATTTA
1 AATTTATTTTAAAATTA
* * *
47348640 AATTT-GTATACAATTTA
1 AATTTATTTTA-AAATTA
* * *
47348657 AATCTATTATAAATTTA
1 AATTTATTTTAAAATTA
**
47348674 AATTTAAAATTAAAATTA
1 AATTT-ATTTTAAAATTA
47348692 AA
1 AA
47348694 AGTCCAATTA
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
16 2 0.04
17 34 0.61
18 20 0.36
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (17 bp):
AATTTATTTTAAAATTA
Found at i:47348640 original size:17 final size:17
Alignment explanation
Indices: 47348605--47348679 Score: 71
Period size: 17 Copynumber: 4.4 Consensus size: 17
47348595 AGGCCCAATG
*
47348605 AATTTAGTTTTAAAATTA
1 AATTTA-TTTTAAATTTA
*
47348623 AATTTATTTTGAATTTA
1 AATTTATTTTAAATTTA
* *
47348640 AATTT-GTATACAATTTA
1 AATTTATTTTA-AATTTA
* *
47348657 AATCTATTATAAATTTA
1 AATTTATTTTAAATTTA
47348674 AATTTA
1 AATTTA
47348680 AAATTAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
16 2 0.04
17 35 0.74
18 10 0.21
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.51
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:47349466 original size:3 final size:3
Alignment explanation
Indices: 47349460--47349510 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
47349450 ATTTCTTTTA
* * *
47349460 AAT AAT AAT AAT AAT AAT AAT AAT AAC ACT AAT AAT ATT AAT AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
47349506 AAT AA
1 AAT AA
47349511 AAAAGGAAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:47350572 original size:29 final size:28
Alignment explanation
Indices: 47350526--47350801 Score: 135
Period size: 29 Copynumber: 9.6 Consensus size: 28
47350516 CCCTGGACTG
* *
47350526 TCCCAAAATTACCATTTTACACTCGAACT
1 TCCCAAAA-TCCCATTTTACACCCGAACT
*
47350555 TCCCAAAATCCCATTTTTA-ACCCCG-ATT
1 TCCCAAAATCCCA-TTTTACA-CCCGAACT
* *
47350583 TCACCAAAATTACCATTTTAC-CCTGAACT
1 TC-CCAAAA-TCCCATTTTACACCCGAACT
* * *
47350612 TTCCAAAATTCCATTTTTA-ACCCTG-ATT
1 TCCCAAAATCCCA-TTTTACACCC-GAACT
*
47350640 TCACCAAAATTACCC-TTTTACCCCCGAACT
1 TC-CCAAAA-T-CCCATTTTACACCCGAACT
* * *
47350670 TTCCAAAATCCCATTTTTA-ACCCTAATT
1 TCCCAAAATCCCA-TTTTACACCCGAACT
* *
47350698 TCACCAAATTACCATTTTAC-CCCGAACT
1 TC-CCAAAATCCCATTTTACACCCGAACT
* * *
47350726 TTCTAAAATCCCATTTTA-ACCTCG-ATT
1 TCCCAAAATCCCATTTTACACC-CGAACT
47350753 TCACCAAAAAATACCC-TTTTAC-CCCTGAACTT
1 TC-CC--AAAAT-CCCATTTTACACCC-GAAC-T
*
47350785 TCCTAAAATCCCATTTT
1 TCCCAAAATCCCATTTT
47350802 TGACCCCGAT
Statistics
Matches: 186, Mismatches: 32, Indels: 58
0.67 0.12 0.21
Matches are distributed among these distances:
27 25 0.13
28 54 0.29
29 73 0.39
30 24 0.13
31 7 0.04
32 3 0.02
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.34
Consensus pattern (28 bp):
TCCCAAAATCCCATTTTACACCCGAACT
Found at i:47350601 original size:58 final size:57
Alignment explanation
Indices: 47350528--47350836 Score: 417
Period size: 57 Copynumber: 5.4 Consensus size: 57
47350518 CTGGACTGTC
* *
47350528 CCAAAATTACCATTTTACACTCGAACTTCCCAAAATCCCATTTTTAACCCCGATTTCA
1 CCAAAATTACCATTTTAC-CCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* * *
47350586 CCAAAATTACCATTTTACCCTGAACTTTCCAAAATTCCATTTTTAACCCTGATTTCA
1 CCAAAATTACCATTTTACCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* **
47350643 CCAAAATTACCCTTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCTAATTTCA
1 CCAAAATTACCATTTTA-CCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* *
47350701 CC-AAATTACCATTTTACCCCGAACTTTCTAAAATCCCA-TTTTAACCTCGATTTCA
1 CCAAAATTACCATTTTACCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* * *
47350756 CCAAAAAATACCCTTTTACCCCTGAACTTTCCTAAAATCCCATTTTTGACCCCGATTTCA
1 CC-AAAATTACCATTTTACCCC-GAACTTTCC-AAAATCCCATTTTTAACCCCGATTTCA
47350816 CCAAAAATTA-CATTTTTACCC
1 CC-AAAATTACCA-TTTTACCC
47350837 TCGGAAGTCA
Statistics
Matches: 223, Mismatches: 21, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
55 16 0.07
56 21 0.09
57 79 0.35
58 65 0.29
59 10 0.04
60 32 0.14
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.33
Consensus pattern (57 bp):
CCAAAATTACCATTTTACCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
Found at i:47350764 original size:115 final size:114
Alignment explanation
Indices: 47350528--47350820 Score: 428
Period size: 115 Copynumber: 2.6 Consensus size: 114
47350518 CTGGACTGTC
* * * *
47350528 CCAAAATTACCATTTTACACTCGAACTTCCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAT
1 CCAAAATTACCCTTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC-AAAT
* *
47350593 TACCATTTTACCCTGAACTTTCCAAAATTCCATTTTTAACCCTGATTTCA
65 TACCATTTTACCCCGAACTTTCCAAAATCCCATTTTTAACCCTGATTTCA
**
47350643 CCAAAATTACCCTTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCTAATTTCACCAAATT
1 CCAAAATTACCCTTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAATT
*
47350708 ACCATTTTACCCCGAACTTTCTAAAATCCCA-TTTTAA-CCTCGATTTCA
66 ACCATTTTACCCCGAACTTTCCAAAATCCCATTTTTAACCCT-GATTTCA
* * *
47350756 CCAAAAAATACCCTTTTACCCCTGAACTTTCCTAAAATCCCATTTTTGACCCCGATTTCACCAAA
1 CC-AAAATTACCCTTTTACCCCCGAACTTTCC-AAAATCCCATTTTTAACCCCGATTTCACCAAA
47350821 AATTACATTT
Statistics
Matches: 161, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
112 3 0.02
113 15 0.09
114 60 0.37
115 83 0.52
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.33
Consensus pattern (114 bp):
CCAAAATTACCCTTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAATT
ACCATTTTACCCCGAACTTTCCAAAATCCCATTTTTAACCCTGATTTCA
Found at i:47360681 original size:19 final size:19
Alignment explanation
Indices: 47360657--47360697 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
47360647 TAACGAAAAT
47360657 AAATTTAGAAAAAAAA-TTA
1 AAATTTA-AAAAAAAATTTA
47360676 AAATTTAAAAAAAAATTTA
1 AAATTTAAAAAAAAATTTA
47360695 AAA
1 AAA
47360698 AGATGTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (19 bp):
AAATTTAAAAAAAAATTTA
Found at i:47363099 original size:21 final size:20
Alignment explanation
Indices: 47363057--47363099 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
47363047 TGATAGACAT
*
47363057 TTTGAAATAAAAAATATTCA
1 TTTGAAATAAAAAATATGCA
* *
47363077 TTTGTAATTAAAAATATAGCA
1 TTTGAAATAAAAAATAT-GCA
47363098 TT
1 TT
47363100 ATAATGAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.40
Consensus pattern (20 bp):
TTTGAAATAAAAAATATGCA
Found at i:47365864 original size:12 final size:14
Alignment explanation
Indices: 47365838--47365870 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
47365828 TAATACCATT
47365838 AAATATTTCTATTA
1 AAATATTTCTATTA
47365852 AAAT-TTTCT-TTA
1 AAATATTTCTATTA
47365864 AAATATT
1 AAATATT
47365871 CATTCAACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.39
13 7 0.39
14 4 0.22
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (14 bp):
AAATATTTCTATTA
Found at i:47371319 original size:6 final size:6
Alignment explanation
Indices: 47371308--47371342 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
47371298 CAAAAGGGAA
47371308 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGA
47371343 AGACAAGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.34, T:0.14
Consensus pattern (6 bp):
GAAGAT
Found at i:47377649 original size:35 final size:35
Alignment explanation
Indices: 47377603--47377671 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
47377593 TCAAAAGCGA
*
47377603 TAGTTAATATAAAGATCACAAGTTTCACCTGCACT
1 TAGTTAATATAAAGATCACAAATTTCACCTGCACT
47377638 TAGTTAATATAAAGATCACAAATTTCACCTGCAC
1 TAGTTAATATAAAGATCACAAATTTCACCTGCAC
47377672 CTAGATGTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (35 bp):
TAGTTAATATAAAGATCACAAATTTCACCTGCACT
Found at i:47378527 original size:85 final size:86
Alignment explanation
Indices: 47378366--47378531 Score: 280
Period size: 85 Copynumber: 1.9 Consensus size: 86
47378356 GCCGGGTTTT
*
47378366 TGATCAAGTTGCAATTATCCAAGTAAACAATTTGCAAGTTTCTCTTTTTCCCTAATTGGAGTTTC
1 TGATCAAGTTGCAATTATCCAAGTAAACAATTTGCAAGTTTCTCTTTTTCCCTAATTGGAGTTTA
* *
47378431 TATTGTTTAGATTTGGTTGAG
66 TATTATCTAGATTTGGTTGAG
**
47378452 TGATCAAGTTGCAATTATCCAAGTAAACAA-TTGCAAGTTTCTCTTTTTCCCTTTTTGGAGTTTA
1 TGATCAAGTTGCAATTATCCAAGTAAACAATTTGCAAGTTTCTCTTTTTCCCTAATTGGAGTTTA
47378516 TATTATCTAGATTTGG
66 TATTATCTAGATTTGG
47378532 ATGATAGGGG
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
85 45 0.60
86 30 0.40
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.43
Consensus pattern (86 bp):
TGATCAAGTTGCAATTATCCAAGTAAACAATTTGCAAGTTTCTCTTTTTCCCTAATTGGAGTTTA
TATTATCTAGATTTGGTTGAG
Found at i:47388782 original size:17 final size:17
Alignment explanation
Indices: 47388756--47388848 Score: 134
Period size: 17 Copynumber: 5.4 Consensus size: 17
47388746 AATCTATTTT
47388756 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
*
47388774 -TTAAGTTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
47388790 TTTAAATTTAATTTAAA
1 TTTAAATTTATTTTAAA
47388807 TTTAAATTTATTTATAAA
1 TTTAAATTTATTT-TAAA
*
47388825 TTTAAAATTATTTTAAA
1 TTTAAATTTATTTTAAA
47388842 TTTAAAT
1 TTTAAAT
47388849 GAATAAAAAC
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
16 1 0.01
17 50 0.75
18 16 0.24
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:47388793 original size:6 final size:6
Alignment explanation
Indices: 47388784--47388848 Score: 73
Period size: 6 Copynumber: 11.2 Consensus size: 6
47388774 TTAAGTTTAT
*
47388784 TTTAAA TTTAAA TTT-AA TTTAAA TTTAAA TTT-AT TTATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA
* *
47388831 ATT-AT TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA T
47388849 GAATAAAAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
5 11 0.22
6 35 0.71
7 3 0.06
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:47389852 original size:3 final size:3
Alignment explanation
Indices: 47389844--47389884 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
47389834 ATATTTATTA
47389844 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
47389885 AGGGAAGAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:47391121 original size:30 final size:30
Alignment explanation
Indices: 47391016--47391162 Score: 110
Period size: 30 Copynumber: 5.0 Consensus size: 30
47391006 TCATATTTTG
* * *
47391016 ACCCCTGAACTTCTCAAAAATTGCA-TTTCA
1 ACCCCTAAACTTCT-AAAAATTACATTTTAA
*
47391046 A-CCCTCAAACTTCTAAAAATTACATTTT-T
1 ACCCCT-AAACTTCTAAAAATTACATTTTAA
* *
47391075 A-CCATTAACTTTCT-AAAATTACATTTTAA
1 ACCCCTAAAC-TTCTAAAAATTACATTTTAA
* *
47391104 ACCCCCTAAACTTCT-AAAATTCCATTTTTA
1 A-CCCCTAAACTTCTAAAAATTACATTTTAA
* *
47391134 A-CCCAAAATTTCTAAAAATTACCATTTTA
1 ACCCCTAAACTTCTAAAAATTA-CATTTTA
47391163 CCCCTGGATG
Statistics
Matches: 95, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
28 26 0.27
29 28 0.29
30 35 0.37
31 6 0.06
ACGTcount: A:0.38, C:0.24, G:0.01, T:0.36
Consensus pattern (30 bp):
ACCCCTAAACTTCTAAAAATTACATTTTAA
Found at i:47391161 original size:29 final size:28
Alignment explanation
Indices: 47391026--47391219 Score: 99
Period size: 29 Copynumber: 6.6 Consensus size: 28
47391016 ACCCCTGAAC
* * * *
47391026 TTCTCAAAAATTGCATTTCAACCCTCAAAC
1 TTCT-AAAAATTACATTTTAACCC-AAAAT
* *
47391056 TTCTAAAAATTACATTTTTA-CCATTAACT
1 TTCTAAAAATTACATTTTAACCCA--AAAT
* *
47391085 TTCT-AAAATTACATTTTAAACCCCCTAAAC
1 TTCTAAAAATTACATTTT-AA--CCCAAAAT
*
47391115 TTCT-AAAATTCCATTTTTAACCCAAAAT
1 TTCTAAAAATTACA-TTTTAACCCAAAAT
* ***
47391143 TTCTAAAAATTACCATTTTACCCCTGGAT
1 TTCTAAAAATTA-CATTTTAACCCAAAAT
* * *
47391172 GTCCAAAAATT-CATTTTTGACCCAAAACT
1 TTCTAAAAATTACA-TTTTAACCCAAAA-T
*
47391201 TTCCAAAAATTACCATTTT
1 TTCTAAAAATTA-CATTTT
47391220 GCCCTTGAAT
Statistics
Matches: 125, Mismatches: 26, Indels: 26
0.71 0.15 0.15
Matches are distributed among these distances:
27 2 0.02
28 33 0.26
29 56 0.45
30 26 0.21
31 6 0.05
32 2 0.02
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.37
Consensus pattern (28 bp):
TTCTAAAAATTACATTTTAACCCAAAAT
Found at i:47391166 original size:58 final size:56
Alignment explanation
Indices: 47391026--47391219 Score: 150
Period size: 58 Copynumber: 3.3 Consensus size: 56
47391016 ACCCCTGAAC
* * *
47391026 TTCTCAAAAATT-GCATTTCAA-CCCTCAAACTTCTAAAAATTACATTTTTA-CCATTAACT
1 TTCT-AAAAATTACCATTTTAACCCCT-AAACTTCT-AAAATT-CATTTTTACCCA--AAAT
47391085 TTCT-AAAATTA-CATTTTAAACCCCCTAAACTTCTAAAATTCCATTTTTAACCCAAAAT
1 TTCTAAAAATTACCATTTT-AA-CCCCTAAACTTCTAAAATT-CATTTTT-ACCCAAAAT
** *
47391143 TTCTAAAAATTACCATTTT-ACCCCTGGA-TGTCCAAAAATTCATTTTTGACCCAAAACT
1 TTCTAAAAATTACCATTTTAACCCCTAAACT-T-CTAAAATTCATTTTT-ACCCAAAA-T
*
47391201 TTCCAAAAATTACCATTTT
1 TTCTAAAAATTACCATTTT
47391220 GCCCTTGAAT
Statistics
Matches: 116, Mismatches: 8, Indels: 23
0.79 0.05 0.16
Matches are distributed among these distances:
56 1 0.01
57 33 0.28
58 49 0.42
59 20 0.17
60 13 0.11
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.37
Consensus pattern (56 bp):
TTCTAAAAATTACCATTTTAACCCCTAAACTTCTAAAATTCATTTTTACCCAAAAT
Found at i:47391267 original size:29 final size:29
Alignment explanation
Indices: 47391173--47391311 Score: 99
Period size: 29 Copynumber: 4.8 Consensus size: 29
47391163 CCCCTGGATG
*
47391173 TCCAAAAATT-CATTTTTGACC-CAAAACTT
1 TCCAAAAATTCCATTTTTGACCTC-AAA-TA
* ** *
47391202 TCCAAAAATTACCA-TTTTGCCCTTGAATG
1 TCCAAAAATT-CCATTTTTGACCTCAAATA
* * *
47391231 TTCGAAAATTCCATTTTTGACCTTGAAATA
1 TCCAAAAATTCCATTTTTGACC-TCAAATA
* *
47391261 TCCAAAAATCACCA-TTTT-ATCCTCAAGTA
1 TCCAAAAAT-TCCATTTTTGA-CCTCAAATA
47391290 TCCAAAAATTCCATTTTTGACC
1 TCCAAAAATTCCATTTTTGACC
47391312 CCGAACCTTC
Statistics
Matches: 85, Mismatches: 16, Indels: 18
0.71 0.13 0.15
Matches are distributed among these distances:
28 6 0.07
29 47 0.55
30 27 0.32
31 5 0.06
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (29 bp):
TCCAAAAATTCCATTTTTGACCTCAAATA
Found at i:47391275 original size:59 final size:57
Alignment explanation
Indices: 47391119--47391337 Score: 217
Period size: 59 Copynumber: 3.8 Consensus size: 57
47391109 CTAAACTTCT
* * * * *
47391119 AAAATTCCATTTTTAACCCAAAATTTCTAAAAATTACCATTTTACCCCTGGATGTCCA
1 AAAATTCCATTTTTGACCCAAAATTTCCAAAAATCACCATTTTA-CCCTGAATGTTCA
* * *
47391177 AAAATT-CATTTTTGACCCAAAACTTTCCAAAAATTACCATTTTGCCCTTGAATGTTCG
1 AAAATTCCATTTTTGACCCAAAA-TTTCCAAAAATCACCATTTTACCC-TGAATGTTCA
** * * *
47391235 AAAATTCCATTTTTGACCTTGAAATATCCAAAAATCACCATTTTATCCTCAA-GTATCCA
1 AAAATTCCATTTTTGACC-CAAAATTTCCAAAAATCACCATTTTACCCTGAATGT-T-CA
* **
47391294 AAAATTCCATTTTTGACCCCGAACCTTCCAAAAATCACCATTTT
1 AAAATTCCATTTTTGA-CCCAAAATTTCCAAAAATCACCATTTT
47391338 GCCCCCAAGT
Statistics
Matches: 136, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
57 20 0.15
58 42 0.31
59 69 0.51
60 5 0.04
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (57 bp):
AAAATTCCATTTTTGACCCAAAATTTCCAAAAATCACCATTTTACCCTGAATGTTCA
Found at i:47391326 original size:30 final size:29
Alignment explanation
Indices: 47391119--47391337 Score: 89
Period size: 29 Copynumber: 7.4 Consensus size: 29
47391109 CTAAACTTCT
* ** * *
47391119 AAAATTCCATTTTTAACCCAAAATTTCTA
1 AAAATTCCATTTTTGACCCCGAAGTTCCA
*
47391148 AAAATTACCA-TTTT-ACCCCTGGA-TGTCCA
1 AAAATT-CCATTTTTGACCCC-GAAGT-TCCA
** *
47391177 AAAATT-CATTTTTGACCCAAAACTTTCCA
1 AAAATTCCATTTTTGACCCCGAA-GTTCCA
* *
47391206 AAAATTACCA-TTTTG-CCCTTGAATGTT-CG
1 AAAATT-CCATTTTTGACCC-CGAA-GTTCCA
** *
47391235 AAAATTCCATTTTTGACCTTGAAATATCCA
1 AAAATTCCATTTTTGACCCCGAAGT-TCCA
* *
47391265 AAAATCACCA-TTTT-ATCCTC-AAGTATCCA
1 AAAAT-TCCATTTTTGA-CCCCGAAGT-TCCA
*
47391294 AAAATTCCATTTTTGACCCCGAACCTTCCA
1 AAAATTCCATTTTTGACCCCGAA-GTTCCA
*
47391324 AAAATCACCATTTT
1 AAAAT-TCCATTTT
47391338 GCCCCCAAGT
Statistics
Matches: 147, Mismatches: 22, Indels: 40
0.70 0.11 0.19
Matches are distributed among these distances:
27 2 0.01
28 17 0.12
29 75 0.51
30 40 0.27
31 13 0.09
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (29 bp):
AAAATTCCATTTTTGACCCCGAAGTTCCA
Found at i:47391338 original size:30 final size:29
Alignment explanation
Indices: 47391259--47391345 Score: 81
Period size: 30 Copynumber: 3.0 Consensus size: 29
47391249 GACCTTGAAA
* *
47391259 TATCCAAAAATCACCATTTT-ATCCTCAAG
1 TATCCAAAAATCACCATTTTGA-CCCCAAC
*
47391288 TATCCAAAAAT-TCCATTTTTGACCCCGAACC
1 TATCCAAAAATCACCA-TTTTGACCCC-AA-C
*
47391319 T-TCCAAAAATCACCATTTTGCCCCCAA
1 TATCCAAAAATCACCATTTTGACCCCAA
47391346 GTGTCTAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
28 3 0.06
29 20 0.42
30 21 0.44
31 4 0.08
ACGTcount: A:0.34, C:0.32, G:0.05, T:0.29
Consensus pattern (29 bp):
TATCCAAAAATCACCATTTTGACCCCAAC
Found at i:47400556 original size:209 final size:208
Alignment explanation
Indices: 47400189--47401427 Score: 1558
Period size: 209 Copynumber: 6.0 Consensus size: 208
47400179 CGATTATCCA
* * *
47400189 AAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATTAATGAAACCAAG
1 AAACAAGTGATGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAACAAAG
* * * *
47400254 CTCAAAGTGAGTAAATCTTCGAACCCCATCTTTCTGATGAGATACTAAGAAGCAGGTCGAAGCAA
66 CTCAAAGTGAGCAAA-CTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
* * *
47400319 TAAAATGGTTAGCTTCCTGATAAGATACTGAGAAGTGGACCAAATTCGTCTTCCTAATGAGATAC
130 TAAAATGGTTAGCTTTCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATAC
47400384 AGAGAAGCGGATTG
195 AGAGAAGCGGATTG
* * * * *
47400398 AAACAAGCGATGCAGTCAGCTTCCTGATGAGATATTGAGAAGAAGACCAAATCAATGAAGCCAAG
1 AAACAAGTGATGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAACAAAG
* * * *
47400463 CTCAAAGTGAGCAAATCTTTGAACCCCGGCTTCCTGATGAGATATTGAGAAGCAGGACGAAGCAA
66 CTCAAAGTGAGCAAA-CTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
* *
47400528 TAAAATGGTTAGCTTTCTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCCTAATGAGATAC
130 TAAAATGGTTAGCTTTCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATAC
47400593 AGAGAAGCGGATTG
195 AGAGAAGCGGATTG
* * *
47400607 AAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAG
1 AAACAAGTGATGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAA-CAAA
* *
47400672 GCTCAAAGTGAGCAAATCTTTGAACCCCAGCTTCTTGATGAGATACTGAGAAGCAGGTCGAAGCA
65 GCTCAAAGTGAGCAAA-CTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
* * * *
47400737 ATAAAATGATTAGC-TTCTTGATGAGACACTGAGAAGTGGATCGAATTCGTCTTCCTGATGAGAT
129 ATAAAATGGTTAGCTTTC-TGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAT
*
47400801 ATAGAGAAGCGGATTG
193 ACAGAGAAGCGGATTG
* * *
47400817 AAACAAGCGATGCAGTCATCTTCCTAATAAGATACTGAGAAGAAGACCAAATCAATGAAACAAAG
1 AAACAAGTGATGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAACAAAG
* * * * *
47400882 CTCGATGTGAGTGAACCTTC-AAGCCCCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGAAGCA
66 CTCAAAGTGAG-CAAACTTCGAA-CCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
* *
47400946 ATAAAATGGTTAGCTTCCTGATAAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATA
129 ATAAAATGGTTAGCTTTCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATA
47401011 CAGAGAAGCGGATTG
194 CAGAGAAGCGGATTG
* * * *
47401026 AAACAAGTGATGCGGTCATCTTCTTCCTTATGAGATACTGAGAAGTAGACCAAATCAATGAAATA
1 AAACAAGTGATGCAGTCA---TCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAACA
* * * * *
47401091 AAGCTCAATGCGCGCGAAACTTCAAACCCCCGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAG
63 AAGCTCAAAGTGAGC-AAACTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAG
47401156 CAATAAAATGGTTA-----C-------ATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGA
127 CAATAAAATGGTTAGCTTTCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGA
* *
47401209 TATAGAGAAGTGGATTG
192 TACAGAGAAGCGGATTG
* * * * * * *
47401226 AAACAAGTGAGGCAGTCGTCTTCCTAATGAGATA-TAGAGAAGTATACCAACTCAATGAAATAAA
1 AAACAAGTGATGCAGTCATCTTCCTGATGAGATACT-GAGAAGAAGACCAAATCAATGAAACAAA
* * * * *
47401290 GCTTAATGCGAGCTAAACTTCGAACCCCAGCGTCCTGATGAGATACTGAGAAGCAGTTCGAAGCA
65 GCTCAAAGTGAGC-AAACTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
** * * ** * * * *
47401355 ATAAAGCGATTA-CCTTCTTGATGAGATACAAAGAAGTGAACTAGA-TCTGTCTCCCTGATGAGA
129 ATAAAATGGTTAGCTTTC-TGATGAGATACTGAGAAGTGGACCAAATTC-GTCTTCCTGATGAGA
47401418 TACAGAGAAG
192 TACAGAGAAG
47401428 TAGACCAAAT
Statistics
Matches: 912, Mismatches: 94, Indels: 48
0.87 0.09 0.05
Matches are distributed among these distances:
196 1 0.00
197 108 0.12
200 68 0.07
201 1 0.00
207 1 0.00
208 4 0.00
209 428 0.47
210 191 0.21
212 108 0.12
213 2 0.00
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (208 bp):
AAACAAGTGATGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAACAAAG
CTCAAAGTGAGCAAACTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAAT
AAAATGGTTAGCTTTCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACA
GAGAAGCGGATTG
Found at i:47400975 original size:419 final size:412
Alignment explanation
Indices: 47400189--47401427 Score: 1647
Period size: 419 Copynumber: 3.0 Consensus size: 412
47400179 CGATTATCCA
* *
47400189 AAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATTAATGAAACCAAG
1 AAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAG
* * *
47400254 CTCAAAGTGAGTAAATCTTCGAACCCCATCTT-TCTGATGAGATACTAAGAAGCAGGTCGAAGCA
66 CTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCT-TGATGAGATACTGAGAAGCAGGTCGAAGCA
*
47400318 ATAAAATGGTTAGCTTCCTGATAAGATACTGAGAAGTGGACCAAATTCGTCTTCCTAATGAGATA
130 ATAAAATGGTTAGCTT-CTGAT-AGA-ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATA
* * *
47400383 CAGAGAAGCGGATTGAAACAAGCGATGCAGTCAGCTTCCTGATGAGATATTGAGAAGAAGACCAA
192 TAGAGAAGCGGATTGAAACAAGCGATGCAGTCATCTTCCTAATGAGATA-TGAGAAGAAGACCAA
* * * * * * * *
47400448 ATCAATGAAGCCAAGCTCAAAGTGAGCAAATCTTTGAACCCCGGCTTCCTGATGAGATATTGAGA
256 ATCAATGAAACAAAGCTCAATGTGAG-TAA-CCTTCAACCCCAGCTTCCTGATGAGATACTGAGA
* *
47400513 AGCAGGACGAAGCAATAAAATGGTTAGCTTTCTGATGAGATACTGAGAAGTGAACCAAATTCGTC
319 AGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGAACCAAATTCGTC
*
47400578 TTCCTAATGAGATACAGAGAAGCGGATTG
384 TTCCTGATGAGATACAGAGAAGCGGATTG
47400607 AAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAG
1 AAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAA-
*
47400672 GCTCAAAGTGAGCAAATCTTTGAACCCCAGCTTCTTGATGAGATACTGAGAAGCAGGTCGAAGCA
65 GCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCTTGATGAGATACTGAGAAGCAGGTCGAAGCA
* * *
47400737 ATAAAATGATTAGCTTCTTGATGAGACACTGAGAAGTGGATCGAATTCGTCTTCCTGATGAGATA
130 ATAAAATGGTTAGCTTC-TGAT-AGA-ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATA
*
47400802 TAGAGAAGCGGATTGAAACAAGCGATGCAGTCATCTTCCTAATAAGATACTGAGAAGAAGACCAA
192 TAGAGAAGCGGATTGAAACAAGCGATGCAGTCATCTTCCTAATGAGATA-TGAGAAGAAGACCAA
* *
47400867 ATCAATGAAACAAAGCTCGATGTGAGTGAACCTTCAAGCCCCAGCTTCCTGATGAGATACTAAGA
256 ATCAATGAAACAAAGCTCAATGTGAGT-AACCTTCAA-CCCCAGCTTCCTGATGAGATACTGAGA
* *
47400932 AGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATAAGATACTGAGAAGTGGACCAAATTCGTC
319 AGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGAACCAAATTCGTC
47400997 TTCCTGATGAGATACAGAGAAGCGGATTG
384 TTCCTGATGAGATACAGAGAAGCGGATTG
* **
47401026 AAACAAGTGATGCGGTCATCTTCTTCCTTATGAGATACTGAGAAGTAGACCAAATCAATGAAATA
1 AAACAAGTGATGCGGTCA---TCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACC
* * * * * *
47401091 AAGCTCAATGCGCGCGAAA-CTTCAAACCCCCGCTTCCTGATGAGATACTGAGAAGCAGGTCGAA
63 AAGCTCAAAGTGAGC-AAATCTTCGAACCCCAGCTTCTTGATGAGATACTGAGAAGCAGGTCGAA
47401155 GCAATAAAATGGTTA----C--AT---ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATA
127 GCAATAAAATGGTTAGCTTCTGATAGAACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATA
* * * * * *
47401211 TAGAGAAGTGGATTGAAACAAGTGAGGCAGTCGTCTTCCTAATGAGATATAGAGAAGTATACCAA
192 TAGAGAAGCGGATTGAAACAAGCGATGCAGTCATCTTCCTAATGAGATAT-GAGAAGAAGACCAA
* * * * * *
47401276 CTCAATGAAATAAAGCTTAATGCGAGCTAAACTTCGAACCCCAGCGTCCTGATGAGATACTGAGA
256 ATCAATGAAACAAAGCTCAATGTGAG-TAACCTTC-AACCCCAGCTTCCTGATGAGATACTGAGA
* ** * * * ** * *
47401341 AGCAGTTCGAAGCAATAAAGCGATTACCTTCTTGATGAGATACAAAGAAGTGAACTAGA-TCTGT
319 AGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGAACCAAATTC-GT
*
47401405 CTCCCTGATGAGATACAGAGAAG
383 CTTCCTGATGAGATACAGAGAAG
47401428 TAGACCAAAT
Statistics
Matches: 735, Mismatches: 73, Indels: 35
0.87 0.09 0.04
Matches are distributed among these distances:
408 3 0.00
409 215 0.29
410 3 0.00
414 2 0.00
417 1 0.00
418 68 0.09
419 331 0.45
420 1 0.00
421 65 0.09
422 46 0.06
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (412 bp):
AAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAG
CTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCTTGATGAGATACTGAGAAGCAGGTCGAAGCAA
TAAAATGGTTAGCTTCTGATAGAACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATAGA
GAAGCGGATTGAAACAAGCGATGCAGTCATCTTCCTAATGAGATATGAGAAGAAGACCAAATCAA
TGAAACAAAGCTCAATGTGAGTAACCTTCAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGT
CGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCCTGA
TGAGATACAGAGAAGCGGATTG
Found at i:47401338 original size:197 final size:198
Alignment explanation
Indices: 47400971--47401359 Score: 604
Period size: 197 Copynumber: 2.0 Consensus size: 198
47400961 TCCTGATAAG
47400971 ATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGA
1 ATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGA
* *
47401036 TGCGGTCATCTTCTTCCTTATGAGATACTGAGAAGTAGACCAAATCAATGAAATAAAGCTCAATG
66 --CGGTCATCGTCTTCCTAATGAGATACTGAGAAGTAGACCAAATCAATGAAATAAAGCTCAATG
* * *
47401101 CGCGCGAAACTTCAAACCCCCGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATG
129 CGAGCGAAACTTCAAACCCCAGCGTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATG
47401166 GTTAC
194 GTTAC
* *
47401171 ATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATAGAGAAGTGGATTGAAACAAGTGA
1 ATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGA
* * *
47401236 -GG-CAGTCGTCTTCCTAATGAGATA-TAGAGAAGTATACCAACTCAATGAAATAAAGCTTAATG
66 CGGTCA-TCGTCTTCCTAATGAGATACT-GAGAAGTAGACCAAATCAATGAAATAAAGCTCAATG
* * *
47401298 CGAGCTAAACTTCGAACCCCAGCGTCCTGATGAGATACTGAGAAGCAGTTCGAAGCAATAAA
129 CGAGCGAAACTTCAAACCCCAGCGTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA
47401360 GCGATTACCT
Statistics
Matches: 174, Mismatches: 13, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
196 3 0.02
197 108 0.62
200 63 0.36
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (198 bp):
ATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGA
CGGTCATCGTCTTCCTAATGAGATACTGAGAAGTAGACCAAATCAATGAAATAAAGCTCAATGCG
AGCGAAACTTCAAACCCCAGCGTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGT
TAC
Found at i:47402519 original size:3 final size:3
Alignment explanation
Indices: 47402506--47402545 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
47402496 TTTCAAAATG
*
47402506 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
47402546 AAGGGAAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:47403702 original size:29 final size:28
Alignment explanation
Indices: 47403664--47403832 Score: 191
Period size: 29 Copynumber: 5.9 Consensus size: 28
47403654 TAAAAATCAT
*
47403664 ATTTTGACCCTCAAACTTCTCAAAATTAC
1 ATTTTAACCCTCAAACTT-TCAAAATTAC
* *
47403693 ATTTTAACCCTTAAACTTTTAAAAATTAC
1 ATTTTAACCCTCAAAC-TTTCAAAATTAC
47403722 ATTTT-ACCCTCAAACTTTCCAAAAATTAC
1 ATTTTAACCCTCAAACTTT-C-AAAATTAC
47403751 ATTTTAACCCTCAAACTTTCCAAAATTAC
1 ATTTTAACCCTCAAACTTT-CAAAATTAC
*
47403780 ATTTTAACCC-CGAACATTTCAAAAATTACC
1 ATTTTAACCCTCAAAC-TTTC-AAAATTA-C
* *
47403810 ATTTTACCCCT-AAACTTCCAAAA
1 ATTTTAACCCTCAAACTTTCAAAA
47403833 ATTCTATTTT
Statistics
Matches: 123, Mismatches: 9, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
27 3 0.02
28 18 0.15
29 72 0.59
30 30 0.24
ACGTcount: A:0.38, C:0.26, G:0.01, T:0.34
Consensus pattern (28 bp):
ATTTTAACCCTCAAACTTTCAAAATTAC
Found at i:47403747 original size:58 final size:59
Alignment explanation
Indices: 47403655--47403852 Score: 214
Period size: 58 Copynumber: 3.4 Consensus size: 59
47403645 TGAACTCTCT
* * * *
47403655 AAAAATCATATTTTGACCCTCAAAC-TTCTC-AAAATTACATTTTAACCCTTAAACTTTT
1 AAAAATTACATTTTAACCCTCAAACTTTC-CAAAAATTACATTTTAACCCTTAAACTTTC
*
47403713 AAAAATTACATTTT-ACCCTCAAACTTTCCAAAAATTACATTTTAACCCTCAAACTTTC
1 AAAAATTACATTTTAACCCTCAAACTTTCCAAAAATTACATTTTAACCCTTAAACTTTC
* * * *
47403771 CAAAATTACATTTTAACCC-CGAACATTT-CAAAAATTACCATTTT-ACCCCTAAACTTCC
1 AAAAATTACATTTTAACCCTCAAAC-TTTCCAAAAATTA-CATTTTAACCCTTAAACTTTC
47403829 AAAAATT-CTATTTTTAACCC-CAAA
1 AAAAATTAC-A-TTTTAACCCTCAAA
47403853 TTACCATTTT
Statistics
Matches: 122, Mismatches: 11, Indels: 13
0.84 0.08 0.09
Matches are distributed among these distances:
57 12 0.10
58 85 0.70
59 25 0.20
ACGTcount: A:0.39, C:0.25, G:0.01, T:0.34
Consensus pattern (59 bp):
AAAAATTACATTTTAACCCTCAAACTTTCCAAAAATTACATTTTAACCCTTAAACTTTC
Found at i:47403804 original size:87 final size:87
Alignment explanation
Indices: 47403655--47403852 Score: 246
Period size: 87 Copynumber: 2.3 Consensus size: 87
47403645 TGAACTCTCT
* * * ** *
47403655 AAAAATCATATTTTGACCCTCAAACTTCTCAAAATTACATTTTAACCCTTAAACTTTTAAAAATT
1 AAAAATTACATTTTAACCCTCAAACTTCTCAAAATTACATTTTAACCCCGAAACTTTCAAAAATT
47403720 A-CATTTTA-CCCTCAAACTTTCC
66 ACCATTTTACCCCT-AAAC-TTCC
47403742 AAAAATTACATTTTAACCCTCAAACTT-TCCAAAATTACATTTTAACCCCG-AACATTTCAAAAA
1 AAAAATTACATTTTAACCCTCAAACTTCT-CAAAATTACATTTTAACCCCGAAAC-TTTCAAAAA
47403805 TTACCATTTTACCCCTAAACTTCC
64 TTACCATTTTACCCCTAAACTTCC
47403829 AAAAATT-CTATTTTTAACCC-CAAA
1 AAAAATTAC-A-TTTTAACCCTCAAA
47403853 TTACCATTTT
Statistics
Matches: 99, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
86 5 0.05
87 70 0.71
88 20 0.20
89 4 0.04
ACGTcount: A:0.39, C:0.25, G:0.01, T:0.34
Consensus pattern (87 bp):
AAAAATTACATTTTAACCCTCAAACTTCTCAAAATTACATTTTAACCCCGAAACTTTCAAAAATT
ACCATTTTACCCCTAAACTTCC
Found at i:47405139 original size:16 final size:16
Alignment explanation
Indices: 47405115--47405181 Score: 68
Period size: 16 Copynumber: 4.3 Consensus size: 16
47405105 GATTTTAAAG
*
47405115 TTAAGTTTAAATTAAT
1 TTAAATTTAAATTAAT
**
47405131 TTAAATTTATCTT--T
1 TTAAATTTAAATTAAT
47405145 TTAAATTTAAATTTAA-
1 TTAAATTTAAA-TTAAT
*
47405161 TTAAATTTGAATTAAT
1 TTAAATTTAAATTAAT
47405177 TTAAA
1 TTAAA
47405182 ACTTAATATT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
14 10 0.24
15 6 0.15
16 25 0.61
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (16 bp):
TTAAATTTAAATTAAT
Found at i:47407179 original size:29 final size:30
Alignment explanation
Indices: 47407105--47407386 Score: 279
Period size: 29 Copynumber: 9.4 Consensus size: 30
47407095 CTAGGGTCCC
*
47407105 AAAATTACATTTTTAACCCTAAAACTTCTCC
1 AAAATTACATTTTTAACCCTAAAACTTC-CA
*
47407136 AAAATTACATTTTTAACCCTAAAACTTCTA
1 AAAATTACATTTTTAACCCTAAAACTTCCA
* *
47407166 AAAATTACATTTTAACCACCCTAAAACTTCTA
1 AAAATTACATTTTTA--ACCCTAAAACTTCCA
* * *
47407198 AAAATTCCATTTTTGA-CCAAAAACTTCCA
1 AAAATTACATTTTTAACCCTAAAACTTCCA
**
47407227 AAAATTACATTTTTGCCCCT-AAACTTCCA
1 AAAATTACATTTTTAACCCTAAAACTTCCA
* *
47407256 AAAATTCCA-TTTTAACCCCAAAACTTCCA
1 AAAATTACATTTTTAACCCTAAAACTTCCA
** * ***
47407285 AAAATT-TTTTTTTTACCCCCGAACTTCCA
1 AAAATTACATTTTTAACCCTAAAACTTCCA
* * *
47407314 AAAATTCCATTTTTGACCC-CAAACTTCCA
1 AAAATTACATTTTTAACCCTAAAACTTCCA
* *
47407343 AAAATTCCATTTTTTAACCCTAAAACTTTC-
1 AAAATTACA-TTTTTAACCCTAAAACTTCCA
47407373 AAAATTACCATTTT
1 AAAATTA-CATTTT
47407387 ACCCTCGGAT
Statistics
Matches: 214, Mismatches: 28, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
28 7 0.03
29 98 0.46
30 45 0.21
31 37 0.17
32 27 0.13
ACGTcount: A:0.38, C:0.26, G:0.01, T:0.35
Consensus pattern (30 bp):
AAAATTACATTTTTAACCCTAAAACTTCCA
Found at i:47407403 original size:28 final size:28
Alignment explanation
Indices: 47407372--47407531 Score: 94
Period size: 28 Copynumber: 5.5 Consensus size: 28
47407362 CTAAAACTTT
47407372 CAAAATTACCATTTTACCCTCGGA-TGTC
1 CAAAATTACCATTTTACCCTC-GATTGTC
* * * *
47407400 CAAAAATCCCATTTTTTA-TCTCGATTTTTC
1 CAAAATTACCA--TTTTACCCTCGA-TTGTC
* *
47407430 TAAAATTACCGTTTTACCCTCGATTGTC
1 CAAAATTACCATTTTACCCTCGATTGTC
* * * *
47407458 TAAAA-TATCATTTTTAACCC-CAAATTTTTC
1 CAAAATTACCA-TTTT-ACCCTC-GA-TTGTC
* **
47407488 CTAAAATTACCATTTTGCCCTCGAAAGTC
1 C-AAAATTACCATTTTACCCTCGATTGTC
47407517 CAAAATTACCATTTT
1 CAAAATTACCATTTT
47407532 GCTCTTGGAC
Statistics
Matches: 99, Mismatches: 21, Indels: 24
0.69 0.15 0.17
Matches are distributed among these distances:
27 3 0.03
28 44 0.44
29 16 0.16
30 23 0.23
31 9 0.09
32 4 0.04
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.39
Consensus pattern (28 bp):
CAAAATTACCATTTTACCCTCGATTGTC
Found at i:47407403 original size:59 final size:60
Alignment explanation
Indices: 47407339--47407531 Score: 186
Period size: 59 Copynumber: 3.3 Consensus size: 60
47407329 ACCCCAAACT
**
47407339 TCCAAAAATTCCATTTTTTAACCCTAAAACTTTC-AAAATTACCATTTTACCCTCGGATG
1 TCCAAAAATTCCATTTTTTAACCCTAAATTTTTCTAAAATTACCATTTTACCCTCGGATG
* * ** *
47407398 TCCAAAAATCCCATTTTTT-A-TCTCGATTTTTCTAAAATTACCGTTTTACCCTC-GATTG
1 TCCAAAAATTCCATTTTTTAACCCTAAATTTTTCTAAAATTACCATTTTACCCTCGGA-TG
* * * * *
47407456 T-CTAAAATAT-CA-TTTTTAACCCCAAATTTTTCCTAAAATTACCATTTTGCCCTCGAAAG
1 TCCAAAAAT-TCCATTTTTTAACCCTAAATTTTT-CTAAAATTACCATTTTACCCTCGGATG
47407515 TCC-AAAATTACCATTTT
1 TCCAAAAATT-CCATTTT
47407532 GCTCTTGGAC
Statistics
Matches: 106, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
56 5 0.05
57 18 0.17
58 31 0.29
59 45 0.42
60 4 0.04
61 3 0.03
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (60 bp):
TCCAAAAATTCCATTTTTTAACCCTAAATTTTTCTAAAATTACCATTTTACCCTCGGATG
Found at i:47407445 original size:58 final size:58
Alignment explanation
Indices: 47407339--47407531 Score: 178
Period size: 58 Copynumber: 3.3 Consensus size: 58
47407329 ACCCCAAACT
* **
47407339 TCCAAAAATTCCATTTTTTAACCCTAAAACTTTC-AAAATTACCATTTTACCCTCGGATG
1 TCCAAAAA-TCCA-TTTTTAACCCCAAATTTTTCTAAAATTACCATTTTACCCTCGGATG
* * * * *
47407398 TCCAAAAATCCCATTTTTTATCTC-GATTTTTCTAAAATTACCGTTTTACCCTC-GATTG
1 TCCAAAAAT-CCATTTTTAACCCCAAATTTTTCTAAAATTACCATTTTACCCTCGGA-TG
* * * *
47407456 TCTAAAATAT-CATTTTTAACCCCAAATTTTTCCTAAAATTACCATTTTGCCCTCGAAAG
1 TCCAAAA-ATCCATTTTTAACCCCAAATTTTT-CTAAAATTACCATTTTACCCTCGGATG
*
47407515 TCCAAAATTACCATTTT
1 TCCAAAAAT-CCATTTT
47407532 GCTCTTGGAC
Statistics
Matches: 106, Mismatches: 19, Indels: 17
0.75 0.13 0.12
Matches are distributed among these distances:
57 17 0.16
58 42 0.40
59 40 0.38
60 7 0.07
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (58 bp):
TCCAAAAATCCATTTTTAACCCCAAATTTTTCTAAAATTACCATTTTACCCTCGGATG
Found at i:47407526 original size:145 final size:145
Alignment explanation
Indices: 47407372--47407680 Score: 385
Period size: 145 Copynumber: 2.1 Consensus size: 145
47407362 CTAAAACTTT
** * * *
47407372 CAAAATTACCATTTTACCCTCGGATGTCCAAAAA-TCCCATTTTTTATCTCGATT-TTTCTAAAA
1 CAAAATTACCATTTTACCCTCGGACATCCAAAAAGTCCCATTTTTT-TCCCGATTCTTCCAAAAA
* * *
47407435 TTACCGTTTTACCCTC-GA-TTGTCTAAAATATCATTTTTAACCCCAAATTTTTC-CTAAAATTA
65 TTACCGTTTTACCCTCGGACAT-T-TAAAATATCATTTCTAACCCCAAA-TTTGCAC-AAAATTA
47407497 CCATTTTGCCCTCGAAAGTC
126 CCATTTTGCCCTCGAAAGTC
* * * * *
47407517 CAAAATTACCATTTTGCTCTTGGACATCTAAAAAGTCTCATTTTTTTCCCGATTCTTCCAAAAAT
1 CAAAATTACCATTTTACCCTCGGACATCCAAAAAGTCCCATTTTTTTCCCGATTCTTCCAAAAAT
* *
47407582 TATCGTTTTACCCTCGGACATTTAAAATGTCATTTCTAACCCCAAATTTGCACAAAATTACCATT
66 TACCGTTTTACCCTCGGACATTTAAAATATCATTTCTAACCCCAAATTTGCACAAAATTACCATT
*
47407647 TTGTCCTCGAAAGTC
131 TTGCCCTCGAAAGTC
*
47407662 CAAAATTATCATTTTACCC
1 CAAAATTACCATTTTACCC
47407681 CCGGGTATCC
Statistics
Matches: 140, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
145 81 0.58
146 55 0.39
147 3 0.02
148 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (145 bp):
CAAAATTACCATTTTACCCTCGGACATCCAAAAAGTCCCATTTTTTTCCCGATTCTTCCAAAAAT
TACCGTTTTACCCTCGGACATTTAAAATATCATTTCTAACCCCAAATTTGCACAAAATTACCATT
TTGCCCTCGAAAGTC
Found at i:47407713 original size:145 final size:146
Alignment explanation
Indices: 47407372--47407715 Score: 333
Period size: 145 Copynumber: 2.4 Consensus size: 146
47407362 CTAAAACTTT
* ** * * * * * *
47407372 CAAAATTACCATTTTACCCTCGGATGTCCAAAAA-TCCCATTTTTTATCTCGATT-TTTCTAAAA
1 CAAAATTACCATTTTACCCCCGGACATCTAAAAAGTCCCA-TTTTAACCCCGATTCTTCCAAAAA
* * *
47407435 TTACCGTTTTACCCTCGATTGTCTAAAATATCATTTTTAACCCCAAATTTTTCCTAAAATTACCA
65 TTACCGTTTTACCCTCGAATGTCTAAAATATCATTTCTAACCCCAAATTTTGCCTAAAATTACCA
47407500 TTTTGCCCTCGAAAGTC
130 TTTTGCCCTCGAAAGTC
* * ** * ***
47407517 CAAAATTACCATTTTGCTCTTGGACATCTAAAAAGTCTCATTTTTTTCCCGATTCTTCCAAAAAT
1 CAAAATTACCATTTTACCCCCGGACATCTAAAAAGTCCCATTTTAACCCCGATTCTTCCAAAAAT
* *
47407582 TATCGTTTTACCCTCGGACAT-T-TAAAATGTCATTTCTAACCCCAAA-TTTGCAC-AAAATTAC
66 TACCGTTTTACCCTC-GA-ATGTCTAAAATATCATTTCTAACCCCAAATTTTGC-CTAAAATTAC
*
47407643 CATTTTGTCCTCGAAAGTC
128 CATTTTGCCCTCGAAAGTC
* ** * * *
47407662 CAAAATTATCATTTTACCCCCGGGTATC-CAAAGGTCCCGTTTTCAACCCCGATT
1 CAAAATTACCATTTTACCCCCGGACATCTAAAAAGTCCCATTTT-AACCCCGATT
47407716 GCATCATTTT
Statistics
Matches: 162, Mismatches: 31, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
144 11 0.07
145 98 0.60
146 49 0.30
147 3 0.02
148 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.36
Consensus pattern (146 bp):
CAAAATTACCATTTTACCCCCGGACATCTAAAAAGTCCCATTTTAACCCCGATTCTTCCAAAAAT
TACCGTTTTACCCTCGAATGTCTAAAATATCATTTCTAACCCCAAATTTTGCCTAAAATTACCAT
TTTGCCCTCGAAAGTC
Found at i:47413041 original size:62 final size:59
Alignment explanation
Indices: 47412908--47413080 Score: 157
Period size: 62 Copynumber: 2.7 Consensus size: 59
47412898 TTATAAAAAA
* * * *
47412908 TTAATTTAATAATTATCTTAATAATATTTTATTAATTTAATATTAAAGTAATTATCTTAATGTTA
1 TTAATTTAATACTTATCTTGATAA-ATATTA-T-A-TTAAT-TT-AA-TAA-TAT-TTAATATTA
47412973 AAT
57 AAT
* **
47412976 TTAATTTAGTGTTTATCTTGTAGATAAATATTATATTAATTTAATAATATTTAATATTAAAT
1 TTAATTTAATACTTATC-T-T-GATAAATATTATATTAATTTAATAATATTTAATATTAAAT
* *
47413038 TTAATTTAATACTTATCTTGATAAGTATTGTATTAATTTAATA
1 TTAATTTAATACTTATCTTGATAAATATTATATTAATTTAATA
47413081 TTAAAGTGAT
Statistics
Matches: 91, Mismatches: 11, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
59 22 0.24
60 1 0.01
61 1 0.01
62 25 0.27
63 3 0.03
64 3 0.03
65 2 0.02
66 2 0.02
67 5 0.05
68 15 0.16
69 2 0.02
70 6 0.07
71 4 0.04
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.51
Consensus pattern (59 bp):
TTAATTTAATACTTATCTTGATAAATATTATATTAATTTAATAATATTTAATATTAAAT
Found at i:47413961 original size:17 final size:17
Alignment explanation
Indices: 47413930--47413988 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
47413920 ATTAATTTTT
47413930 ATTAAAAAATT-AAAAA
1 ATTAAAAAATTAAAAAA
47413946 ATTAAAAAATTAAAAAA
1 ATTAAAAAATTAAAAAA
* * * *
47413963 ATTCAAAGATTATACAA
1 ATTAAAAAATTAAAAAA
47413980 ATATAAAAA
1 AT-TAAAAA
47413989 TATATAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 11 0.31
17 20 0.57
18 4 0.11
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.25
Consensus pattern (17 bp):
ATTAAAAAATTAAAAAA
Found at i:47413965 original size:9 final size:8
Alignment explanation
Indices: 47413930--47413962 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
47413920 ATTAATTTTT
47413930 ATTAAAAA
1 ATTAAAAA
47413938 ATTAAAAA
1 ATTAAAAA
47413946 ATTAAAAA
1 ATTAAAAA
47413954 ATTAAAAA
1 ATTAAAAA
47413962 A
1 A
47413963 ATTCAAAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
ATTAAAAA
Found at i:47413974 original size:25 final size:27
Alignment explanation
Indices: 47413933--47413988 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 27
47413923 AATTTTTATT
47413933 AAAAAATTAAAAAATTA-AAAAAT-TA
1 AAAAAATTAAAAAATTATAAAAATATA
* * *
47413958 AAAAAATTCAAAGATTATACAAATATA
1 AAAAAATTAAAAAATTATAAAAATATA
47413985 AAAA
1 AAAA
47413989 TATATAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 15 0.58
26 5 0.19
27 6 0.23
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (27 bp):
AAAAAATTAAAAAATTATAAAAATATA
Found at i:47418076 original size:66 final size:66
Alignment explanation
Indices: 47417987--47418135 Score: 271
Period size: 66 Copynumber: 2.3 Consensus size: 66
47417977 CCTCACTGCT
*
47417987 GCCTCCGCTTTAAGTTGTAGGTGGAGTTCATCATATTTTTTTTGAGCCTCTGCTTCTCTCGCTAC
1 GCCTCCTCTTTAAGTTGTAGGTGGAGTTCATCATATTTTTTTTGAGCCTCTGCTTCTCTCGCTAC
47418052 A
66 A
* *
47418053 GCCTTCTCTTTAAGTTGTAGGTGGAGTTCATCATATTTTTTTTGAGCCTCTGCTTCTCTCGCTGC
1 GCCTCCTCTTTAAGTTGTAGGTGGAGTTCATCATATTTTTTTTGAGCCTCTGCTTCTCTCGCTAC
47418118 A
66 A
47418119 GCCTCCTCTTTAAGTTG
1 GCCTCCTCTTTAAGTTG
47418136 AGCAATTTGC
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 79 1.00
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.42
Consensus pattern (66 bp):
GCCTCCTCTTTAAGTTGTAGGTGGAGTTCATCATATTTTTTTTGAGCCTCTGCTTCTCTCGCTAC
A
Found at i:47421142 original size:22 final size:22
Alignment explanation
Indices: 47421116--47421158 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
47421106 TAAACCCTAT
*
47421116 CGTATAAACATGTATTAAACTA
1 CGTATAAACATGTATGAAACTA
*
47421138 CGTATTAACATGTATGAAACT
1 CGTATAAACATGTATGAAACT
47421159 TATCTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.33
Consensus pattern (22 bp):
CGTATAAACATGTATGAAACTA
Found at i:47421516 original size:43 final size:43
Alignment explanation
Indices: 47421455--47421665 Score: 250
Period size: 42 Copynumber: 5.0 Consensus size: 43
47421445 ACGCCTCTAT
* *
47421455 AGAACATGGTCTTTAGCGGTGCTTTTTCCACAAATGCTACTAA
1 AGAACATGGTCTTTAGCGGCGCTTTTTCCACAAATGCCACTAA
* * *
47421498 AGAACATGATCTTTAGCGGCGC-TTCTCCACAAATGCCGCTAA
1 AGAACATGGTCTTTAGCGGCGCTTTTTCCACAAATGCCACTAA
* * * * *
47421540 A-AACATGGTCTTTAGCGACACTTCTT-CACAAACGCCGCTAA
1 AGAACATGGTCTTTAGCGGCGCTTTTTCCACAAATGCCACTAA
* * *
47421581 AGAACATGGTCTTTAGCAGCGCTTTTCCCACAAACGCCACTAA
1 AGAACATGGTCTTTAGCGGCGCTTTTTCCACAAATGCCACTAA
** *
47421624 AGAACATAATCTTTAGCGGTG-TTTTTCCACAAATGCCACTAA
1 AGAACATGGTCTTTAGCGGCGCTTTTTCCACAAATGCCACTAA
47421666 CGTTAATAAA
Statistics
Matches: 142, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
41 32 0.23
42 59 0.42
43 51 0.36
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (43 bp):
AGAACATGGTCTTTAGCGGCGCTTTTTCCACAAATGCCACTAA
Found at i:47421540 original size:42 final size:42
Alignment explanation
Indices: 47421455--47421665 Score: 246
Period size: 43 Copynumber: 5.0 Consensus size: 42
47421445 ACGCCTCTAT
* *
47421455 AGAACATGGTCTTTAGCGGTGCTTTTTCCACAAATGCTACTAA
1 AGAACATGGTCTTTAGCGGCGC-TTTTCCACAAATGCCACTAA
* * *
47421498 AGAACATGATCTTTAGCGGCGCTTCTCCACAAATGCCGCTAA
1 AGAACATGGTCTTTAGCGGCGCTTTTCCACAAATGCCACTAA
* * * *
47421540 A-AACATGGTCTTTAGCGACACTTCTT-CACAAACGCCGCTAA
1 AGAACATGGTCTTTAGCGGCGCTT-TTCCACAAATGCCACTAA
* *
47421581 AGAACATGGTCTTTAGCAGCGCTTTTCCCACAAACGCCACTAA
1 AGAACATGGTCTTTAGCGGCGCTTTT-CCACAAATGCCACTAA
** * *
47421624 AGAACATAATCTTTAGCGGTGTTTTTCCACAAATGCCACTAA
1 AGAACATGGTCTTTAGCGGCGCTTTTCCACAAATGCCACTAA
47421666 CGTTAATAAA
Statistics
Matches: 144, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
41 36 0.25
42 53 0.37
43 55 0.38
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (42 bp):
AGAACATGGTCTTTAGCGGCGCTTTTCCACAAATGCCACTAA
Found at i:47424876 original size:40 final size:41
Alignment explanation
Indices: 47424806--47424937 Score: 117
Period size: 41 Copynumber: 3.2 Consensus size: 41
47424796 CCATCAGCAT
* * *
47424806 CGCTAATGCTCTGATCTTTAGCTG-TGCTTTTACATAAACGC
1 CGCTAATGCTCTGACCTTTAGC-GACGCTTTTACATAAACAC
* * * * *
47424847 CGCTAATGTTCTGA-CTTTAGCGACACTTTTTCGTAAGCAC
1 CGCTAATGCTCTGACCTTTAGCGACGCTTTTACATAAACAC
* * * *
47424887 TGCTAATGGTCTGACCTTTAGCGACGCTTTCT-CGTAAGCAC
1 CGCTAATGCTCTGACCTTTAGCGACGCTTT-TACATAAACAC
47424928 CGCTAATGCT
1 CGCTAATGCT
47424938 TTACTTTTTG
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 30 0.39
41 44 0.58
42 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (41 bp):
CGCTAATGCTCTGACCTTTAGCGACGCTTTTACATAAACAC
Found at i:47424922 original size:41 final size:40
Alignment explanation
Indices: 47424846--47424935 Score: 135
Period size: 41 Copynumber: 2.2 Consensus size: 40
47424836 TACATAAACG
* *
47424846 CCGCTAATGTTCTGACTTTAGCGACACTTTTTCGTAAGCA
1 CCGCTAATGGTCTGACTTTAGCGACACTTTCTCGTAAGCA
* *
47424886 CTGCTAATGGTCTGACCTTTAGCGACGCTTTCTCGTAAGCA
1 CCGCTAATGGTCTGA-CTTTAGCGACACTTTCTCGTAAGCA
47424927 CCGCTAATG
1 CCGCTAATG
47424936 CTTTACTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 13 0.30
41 31 0.70
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (40 bp):
CCGCTAATGGTCTGACTTTAGCGACACTTTCTCGTAAGCA
Found at i:47425979 original size:21 final size:22
Alignment explanation
Indices: 47425939--47425979 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
47425929 AATAATTTTT
*
47425939 AAAATTTTAATGATTAAATTAA
1 AAAATTTTAATAATTAAATTAA
*
47425961 AAAATTTT-ATAATTGAATT
1 AAAATTTTAATAATTAAATT
47425980 TGGTGAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (22 bp):
AAAATTTTAATAATTAAATTAA
Found at i:47428248 original size:21 final size:21
Alignment explanation
Indices: 47428208--47428248 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
47428198 AATAATTTTT
*
47428208 AAAATTTTAATGATTAAATTA
1 AAAATTTTAATAATTAAATTA
* *
47428229 AAAATTTTTATAATTGAATT
1 AAAATTTTAATAATTAAATT
47428249 TGGTGATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (21 bp):
AAAATTTTAATAATTAAATTA
Found at i:47429706 original size:42 final size:41
Alignment explanation
Indices: 47429643--47429843 Score: 249
Period size: 42 Copynumber: 4.8 Consensus size: 41
47429633 GCTGTTATAG
* * * * *
47429643 AACATGATCTTTAACGACGCTTTTTCAAAAACGCCGCTAAA
1 AACATGGTCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAA
* * *
47429684 GAATATGGTTTTTAGCGGCGCTTATCTCACAAACGCCGCTAAA
1 -AACATGGTCTTTAGCGGCGCTTTTC-CACAAACGCCGCTAAA
47429727 GAACATGGTCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAA
1 -AACATGGTCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAA
* * *
47429769 AATATGGTCTTTAGTGGCGCTTATCCCACAAACGCCGCTAAA
1 AACATGGTCTTTAGCGGCGCTT-TTCCACAAACGCCGCTAAA
*
47429811 AACATGGTCTTTAGCGGCACTTTTCCCACAAAC
1 AACATGGTCTTTAGCGGCGCTTTT-CCACAAAC
47429844 ACCACTAACA
Statistics
Matches: 138, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
41 21 0.15
42 79 0.57
43 38 0.28
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (41 bp):
AACATGGTCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAA
Found at i:47429804 original size:84 final size:85
Alignment explanation
Indices: 47429641--47429843 Score: 302
Period size: 84 Copynumber: 2.4 Consensus size: 85
47429631 ACGCTGTTAT
* * * * * *
47429641 AGAACATGATCTTTAACGACGCTTTTTCAAAAACGCCGCTAAAGAATATGGTTTTTAGCGGCGCT
1 AGAACATGGTCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGAATATGGTCTTTAGCGGCGCT
*
47429706 TATCTCACAAACGCCGCTAA
66 TATCCCACAAACGCCGCTAA
*
47429726 AGAACATGGTCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAA-AATATGGTCTTTAGTGGCGCT
1 AGAACATGGTCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGAATATGGTCTTTAGCGGCGCT
47429790 TATCCCACAAACGCCGCTAA
66 TATCCCACAAACGCCGCTAA
*
47429810 A-AACATGGTCTTTAGCGGCACTTTTCCCACAAAC
1 AGAACATGGTCTTTAGCGGCGCTTTT-CCACAAAC
47429844 ACCACTAACA
Statistics
Matches: 108, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
83 23 0.21
84 47 0.44
85 38 0.35
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (85 bp):
AGAACATGGTCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGAATATGGTCTTTAGCGGCGCT
TATCCCACAAACGCCGCTAA
Found at i:47438025 original size:30 final size:30
Alignment explanation
Indices: 47437989--47438128 Score: 127
Period size: 30 Copynumber: 4.9 Consensus size: 30
47437979 GGAATCTTTG
*
47437989 GAAGTTCGAGGGTAAAATGATAATTTTCAA
1 GAAGTTCGAGGGTAAAATGATAATTTTTAA
* *
47438019 GAAGTTCGA-GGT-CAA--A-AA-TTTT-G
1 GAAGTTCGAGGGTAAAATGATAATTTTTAA
*
47438042 GAAGTTCGAGGGTAAAATAATAATTTTTAA
1 GAAGTTCGAGGGTAAAATGATAATTTTTAA
* * * *
47438072 AAAGTTTGAGGTTAAAAATGA-AATTTTTGA
1 GAAGTTCGAGGGT-AAAATGATAATTTTTAA
*
47438102 -AAGTTCGAAGGTAAAATGATAATTTTT
1 GAAGTTCGAGGGTAAAATGATAATTTTT
47438129 GAAAAAATCG
Statistics
Matches: 88, Mismatches: 13, Indels: 19
0.73 0.11 0.16
Matches are distributed among these distances:
23 9 0.10
24 6 0.07
25 4 0.05
26 1 0.01
27 1 0.01
28 11 0.12
29 23 0.26
30 27 0.31
31 6 0.07
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.34
Consensus pattern (30 bp):
GAAGTTCGAGGGTAAAATGATAATTTTTAA
Found at i:47438046 original size:53 final size:57
Alignment explanation
Indices: 47437967--47438127 Score: 177
Period size: 53 Copynumber: 2.8 Consensus size: 57
47437957 TGGATACTTT
* * *
47437967 GAGGTTAAAAATGGAATCTTTGGAAGTTCGAGGGTAAAATGATAATTTTCAAGAAGTTC
1 GAGGTT-AAAA-GAAATTTTTGGAAGTTCGAGGGTAAAATGATAATTTTCAAAAAGTTC
* * * *
47438026 GAGG-T-CAA-AAA-TTTTGGAAGTTCGAGGGTAAAATAATAATTTTTAAAAAGTTT
1 GAGGTTAAAAGAAATTTTTGGAAGTTCGAGGGTAAAATGATAATTTTCAAAAAGTTC
* *
47438079 GAGGTTAAAAATGAAATTTTTGAAAGTTCGAAGGTAAAATGATAATTTT
1 GAGGTT-AAAA-GAAATTTTTGGAAGTTCGAGGGTAAAATGATAATTTT
47438128 TGAAAAAATC
Statistics
Matches: 85, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
53 41 0.48
54 3 0.04
56 4 0.05
58 4 0.05
59 33 0.39
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.33
Consensus pattern (57 bp):
GAGGTTAAAAGAAATTTTTGGAAGTTCGAGGGTAAAATGATAATTTTCAAAAAGTTC
Found at i:47438104 original size:29 final size:28
Alignment explanation
Indices: 47437985--47438220 Score: 121
Period size: 30 Copynumber: 8.2 Consensus size: 28
47437975 AAATGGAATC
*
47437985 TTTGGAAGTTCGAGGGTAAAATGATAATT
1 TTTGAAAGTTCGA-GGTAAAATGATAATT
** *
47438014 TTCAAGAAGTTCGAGGT-CAA--A-AA-T
1 TTTGA-AAGTTCGAGGTAAAATGATAATT
* *
47438038 TTTGGAAGTTCGAGGGTAAAATAATAATT
1 TTTGAAAGTTCGA-GGTAAAATGATAATT
* *
47438067 TTTAAAAAGTTTGAGGTTAAAAATGA-AATT
1 TTT-GAAAGTTCGAGG-T-AAAATGATAATT
47438097 TTTGAAAGTTCGAAGGTAAAATGATAATT
1 TTTGAAAGTTCG-AGGTAAAATGATAATT
** * *
47438126 TTTGAAAAAATCGAAGTAAAAAAT-AAAATT
1 TTTG-AAAGTTCGAGGT--AAAATGATAATT
* * *
47438156 TTTGGACA-TCCAAGGTAAAATGATAATT
1 TTT-GAAAGTTCGAGGTAAAATGATAATT
* * *
47438184 TTTAAAAAATTTGAGGATCAAAAT-ATAATT
1 TTT-GAAAGTTCGAGG-T-AAAATGATAATT
47438214 TTTGAAA
1 TTTGAAA
47438221 AGTAAAGGGT
Statistics
Matches: 156, Mismatches: 31, Indels: 40
0.69 0.14 0.18
Matches are distributed among these distances:
23 8 0.05
24 6 0.04
25 4 0.03
26 1 0.01
27 6 0.04
28 21 0.13
29 41 0.26
30 52 0.33
31 17 0.11
ACGTcount: A:0.44, C:0.05, G:0.18, T:0.33
Consensus pattern (28 bp):
TTTGAAAGTTCGAGGTAAAATGATAATT
Found at i:47438125 original size:59 final size:58
Alignment explanation
Indices: 47437964--47438220 Score: 224
Period size: 59 Copynumber: 4.5 Consensus size: 58
47437954 TTTTGGATAC
* * * * * *
47437964 TTTGAGGTTAAAAATGGAATCTTTGGAAGTTCGAGGGTAAAATGATAATTTTCAAGAAG
1 TTTGAGGTTAAAAAT-AAATTTTTGAAAGTTCGAAGGTAAAATGATAATTTTTAAAAAG
* * * * *
47438023 TTCGAGG-T--CAA-AAA-TTTTGGAAGTTCGAGGGTAAAATAATAATTTTTAAAAAG
1 TTTGAGGTTAAAAATAAATTTTTGAAAGTTCGAAGGTAAAATGATAATTTTTAAAAAG
47438076 TTTGAGGTTAAAAATGAAATTTTTGAAAGTTCGAAGGTAAAATGATAATTTTTGAAAAA-
1 TTTGAGGTTAAAAAT-AAATTTTTGAAAGTTCGAAGGTAAAATGATAATTTTT-AAAAAG
* * * * * * *
47438135 ATCGAAGTAAAAAATAAAATTTTTGGACA--TCCAAGGTAAAATGATAATTTTTAAAAAA
1 TTTGAGGTTAAAAAT-AAATTTTT-GAAAGTTCGAAGGTAAAATGATAATTTTTAAAAAG
* *
47438193 TTTGAGGATCAAAATATAATTTTTGAAA
1 TTTGAGGTTAAAAATA-AATTTTTGAAA
47438221 AGTAAAGGGT
Statistics
Matches: 162, Mismatches: 26, Indels: 22
0.77 0.12 0.10
Matches are distributed among these distances:
53 41 0.25
54 3 0.02
56 4 0.02
57 9 0.06
58 42 0.26
59 55 0.34
60 8 0.05
ACGTcount: A:0.44, C:0.05, G:0.19, T:0.33
Consensus pattern (58 bp):
TTTGAGGTTAAAAATAAATTTTTGAAAGTTCGAAGGTAAAATGATAATTTTTAAAAAG
Found at i:47438207 original size:58 final size:58
Alignment explanation
Indices: 47438052--47438223 Score: 188
Period size: 58 Copynumber: 2.9 Consensus size: 58
47438042 GAAGTTCGAG
* * * *
47438052 GGTAAAATAATAATTTTTAAAAAGTTTGAGGTTAAAAATGAAATTTTT-GAAAGTTCGAA
1 GGTAAAATGATAATTTTTAAAAAATTTGAGG-TAAAAATAAAATTTTTGGAAAG-TCCAA
* * *
47438111 GGTAAAATGATAATTTTTGAAAAAA-TCGAAGTAAAAAATAAAATTTTTGGACA-TCCAA
1 GGTAAAATGATAATTTTT-AAAAAATTTGAGGT-AAAAATAAAATTTTTGGAAAGTCCAA
* * *
47438169 GGTAAAATGATAATTTTTAAAAAATTTGAGGATCAAAATATAATTTTTGAAAAGT
1 GGTAAAATGATAATTTTTAAAAAATTTGAGG-TAAAAATAAAATTTTTGGAAAGT
47438224 AAAGGGTGGA
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
57 6 0.06
58 43 0.46
59 37 0.39
60 8 0.09
ACGTcount: A:0.48, C:0.03, G:0.15, T:0.34
Consensus pattern (58 bp):
GGTAAAATGATAATTTTTAAAAAATTTGAGGTAAAAATAAAATTTTTGGAAAGTCCAA
Found at i:47438464 original size:17 final size:17
Alignment explanation
Indices: 47438427--47438540 Score: 120
Period size: 17 Copynumber: 6.6 Consensus size: 17
47438417 TGAACCCAAT
*
47438427 TTTAAATTTTTTTTAAAA
1 TTTAAATTTATTTT-AAA
*
47438445 TTTTAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
47438462 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
** * * *
47438479 TTTAAACATACTTTGAG
1 TTTAAATTTATTTTAAA
47438496 TTTAAATTTATTTTAAAA
1 TTTAAATTTATTTT-AAA
* *
47438514 TTAAAATTTATTTTTAA
1 TTTAAATTTATTTTAAA
*
47438531 TTAAAATTTA
1 TTTAAATTTA
47438541 ATTAAAAGTG
Statistics
Matches: 80, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
17 54 0.68
18 26 0.32
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:47438535 original size:34 final size:34
Alignment explanation
Indices: 47438428--47438540 Score: 104
Period size: 35 Copynumber: 3.3 Consensus size: 34
47438418 GAACCCAATT
* **
47438428 TTAAATTTTTTTTAAAATTTTAATTTATTTTAAA
1 TTAAATTTATTTTAAAATTAAAATTTATTTTAAA
* * **
47438462 TTTAAATTTATTTTAAATTTAAACA--TACTTTGAGT
1 -TTAAATTTATTTTAAAATTAAA-ATTTA-TTTTAAA
*
47438497 TTAAATTTATTTTAAAATTAAAATTTATTTTTAA
1 TTAAATTTATTTTAAAATTAAAATTTATTTTAAA
47438531 TTAAAATTTA
1 TT-AAATTTA
47438541 ATTAAAAGTG
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
33 1 0.02
34 28 0.46
35 31 0.51
36 1 0.02
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (34 bp):
TTAAATTTATTTTAAAATTAAAATTTATTTTAAA
Found at i:47440159 original size:29 final size:27
Alignment explanation
Indices: 47440107--47440419 Score: 175
Period size: 29 Copynumber: 10.8 Consensus size: 27
47440097 CTAAAAAAAT
*
47440107 ATTTGACCCCAAACTTTCCAAAAATTAC
1 ATTTTACCCCAAACTTTCC-AAAATTAC
*
47440135 ATTTTGATCCCCAAACTTTCCAAAAAATTAT
1 ATTTT-A-CCCCAAACTTTCC--AAAATTAC
47440166 ATTTTAACCCCTAAACTTTCCAAAAATT-C
1 ATTTT-ACCCC-AAACTTTCC-AAAATTAC
*
47440195 ATTTTACCCCCAAAC-TTCCAAAATTTCC
1 ATTTTA-CCCCAAACTTTCCAAAA-TTAC
* *
47440223 ATTTTTACCCTAAACTTTCTAAAAATTACC
1 A-TTTTACCCCAAACTTTC-CAAAATTA-C
* * * *
47440253 TTTTTATCCCCGAACTTTCAAAAATTCC
1 ATTTTA-CCCCAAACTTTCCAAAATTAC
* * * *
47440281 ATTTTTGACCTCGAACATTCTAAAATTATC
1 A-TTTT-ACCCCAAACTTTCCAAAATTA-C
* *
47440311 ATTTTACCCCCGAAC-TTCCAAAAATTCC
1 ATTTTA-CCCCAAACTTTCC-AAAATTAC
** * *
47440339 ATTTTTGTCCCGAACTTTCTAAAATTATC
1 A-TTTTACCCCAAACTTTCCAAAATTA-C
* *
47440368 ATTTTACCCGTAAACTTCTCAAAAATTACC
1 ATTTTACCC-CAAACTT-TCCAAAATTA-C
*
47440398 ATTTTACCCTCGAAC-TTCCAAA
1 ATTTTACCC-CAAACTTTCCAAA
47440420 GGTTCCATTT
Statistics
Matches: 230, Mismatches: 33, Indels: 44
0.75 0.11 0.14
Matches are distributed among these distances:
26 4 0.02
27 6 0.03
28 49 0.21
29 84 0.37
30 64 0.28
31 23 0.10
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.35
Consensus pattern (27 bp):
ATTTTACCCCAAACTTTCCAAAATTAC
Found at i:47440258 original size:58 final size:58
Alignment explanation
Indices: 47440112--47440407 Score: 266
Period size: 58 Copynumber: 5.1 Consensus size: 58
47440102 AAAATATTTG
* * * ** *
47440112 ACCCCAAACTTTCCAAAAATTA-CATTTTGATCCCCAAACTTTCCAAAAAATTATATTTTA
1 ACCCTAAACTTTCTAAAAATTACCATTTT-ACCCCCAAAC-TTCC-AAAAATTCCATTTTT
* *
47440172 ACCCCTAAACTTTCCAAAAATT--CATTTTACCCCCAAACTTCCAAAATTTCCATTTTT
1 A-CCCTAAACTTTCTAAAAATTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTT
* * * *
47440229 ACCCTAAACTTTCTAAAAATTACCTTTTTATCCCCGAACTTTCAAAAATTCCATTTTT
1 ACCCTAAACTTTCTAAAAATTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTT
* * * *
47440287 GA-CCTCGAACATTCT-AAAATTATCATTTTACCCCCGAACTTCCAAAAATTCCATTTTT
1 -ACCCT-AAACTTTCTAAAAATTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTT
* * * **
47440345 GTCCC-GAACTTTCT-AAAATTATCATTTTACCCGTAAACTTCTCAAAAATTACCA-TTTT
1 -ACCCTAAACTTTCTAAAAATTACCATTTTACCCCCAAACTTC-CAAAAATT-CCATTTTT
47440403 ACCCT
1 ACCCT
47440408 CGAACTTCCA
Statistics
Matches: 203, Mismatches: 24, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
56 19 0.09
57 47 0.23
58 89 0.44
59 22 0.11
60 7 0.03
61 19 0.09
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (58 bp):
ACCCTAAACTTTCTAAAAATTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTT
Found at i:47440333 original size:116 final size:116
Alignment explanation
Indices: 47440108--47440402 Score: 307
Period size: 116 Copynumber: 2.5 Consensus size: 116
47440098 TAAAAAAATA
* * * *
47440108 TTTGACCCCAAACTTTCCAAAAATTACATTTTGATCCCCAAACTTTCCAAAAAATT--ATATTTT
1 TTTGA-CCCAAACTTTCTAAAAATTACCTTTTTATCCCCGAACTTT-C-AAAAATTCCAT-TTTT
* *
47440171 AACCCCTAAACTTTCCAAAAATTCATTTTACCCCCAAACTTCCAAAATTTCCATT
62 AACCCCTAAACATTCCAAAAATTCATTTTACCCCCAAACTTCCAAAAATTCCATT
*
47440226 TTT-ACCCTAAACTTTCTAAAAATTACCTTTTTATCCCCGAACTTTCAAAAATTCCATTTTTGAC
1 TTTGACCC-AAACTTTCTAAAAATTACCTTTTTATCCCCGAACTTTCAAAAATTCCATTTTTAAC
* * * * *
47440290 CTC-GAACATTCTAAAATTATCATTTTACCCCCGAACTTCCAAAAATTCCATT
65 CCCTAAACATTCCAAAAAT-TCATTTTACCCCCAAACTTCCAAAAATTCCATT
* * * *
47440342 TTTGTCCCGAACTTTCT-AAAATTATCATTTTA--CCCGTAAACTTCTCAAAAATTACCATTTT
1 TTTGACCCAAACTTTCTAAAAATTACCTTTTTATCCCCG--AACTT-TCAAAAATT-CCATTTT
47440403 ACCCTCGAAC
Statistics
Matches: 152, Mismatches: 16, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
113 4 0.03
115 36 0.24
116 63 0.41
117 46 0.30
118 3 0.02
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (116 bp):
TTTGACCCAAACTTTCTAAAAATTACCTTTTTATCCCCGAACTTTCAAAAATTCCATTTTTAACC
CCTAAACATTCCAAAAATTCATTTTACCCCCAAACTTCCAAAAATTCCATT
Found at i:47440371 original size:87 final size:86
Alignment explanation
Indices: 47440179--47440464 Score: 237
Period size: 87 Copynumber: 3.3 Consensus size: 86
47440169 TTAACCCCTA
** * * **
47440179 AACTTTCCAAAAATT-CATTTTACCCCCAAACTTC-CAAAATTTCCATTTTTA-CCCTAAACTTT
1 AACTTT-CAAAAATTCCATTTTACCCGTAAACTTCTAAAAATTACCA-TTTTACCCCCGAAC-TT
* *
47440241 CTAAAAATTACC-TTTTTATCCCCG
63 CCAAAAATT-CCATTTTTGTCCCCG
*
47440265 AACTTTCAAAAATTCCATTTTTGACCTCG--AACATTCT-AAAATTATCATTTTACCCCCGAACT
1 AACTTTCAAAAATTCCA-TTTT-ACC-CGTAAAC-TTCTAAAAATTACCATTTTACCCCCGAACT
47440327 TCCAAAAATTCCATTTTTGT-CCCG
62 TCCAAAAATTCCATTTTTGTCCCCG
* * *
47440351 AACTTTCTAAAATTATCATTTTACCCGTAAACTTCTCAAAAATTACCATTTTACCCTCGAACTTC
1 AACTTTCAAAAATT-CCATTTTACCCGTAAACTTCT-AAAAATTACCATTTTACCCCCGAACTTC
** * *
47440416 CAAAGGTTCCATTTTTGACCTCG
64 CAAAAATTCCATTTTTGTCCCCG
* * * *
47440439 AAGTGTCCAAAATTACCGTTTTACCC
1 AACTTTCAAAAATT-CCATTTTACCC
47440465 CGGGTATCCA
Statistics
Matches: 166, Mismatches: 20, Indels: 26
0.78 0.09 0.12
Matches are distributed among these distances:
84 2 0.01
85 15 0.09
86 34 0.20
87 70 0.42
88 44 0.27
89 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.36
Consensus pattern (86 bp):
AACTTTCAAAAATTCCATTTTACCCGTAAACTTCTAAAAATTACCATTTTACCCCCGAACTTCCA
AAAATTCCATTTTTGTCCCCG
Found at i:47440451 original size:145 final size:144
Alignment explanation
Indices: 47440088--47440465 Score: 364
Period size: 145 Copynumber: 2.6 Consensus size: 144
47440078 CAAAAGGTTT
** * * * * *
47440088 CTAAACTTTCTAAAAA--AATATTTGA-CCCCAAACTTTCCAAAAATTACA-TTTTGATCCCCAA
1 CTAAACTTTCTAAAAATTACCATTTTATCCCCGAAC-TTCCAAAAATTCCATTTTTGA-CCTCGA
* *
47440149 ACTTTCCAAAAAATTAT-ATTTTAACCCCTAAACTTTCCAAAAATTCATTTTACCCCCAAACTTC
64 ACATTCC--AAAATTATCATTTT-ACCCCCAAACTTTCCAAAAATTCATTTTACCCCCAAACTTC
47440213 CAAAATTTCCATTTTTACC
126 CAAAATTTCCATTTTTACC
* *
47440232 CTAAACTTTCTAAAAATTACCTTTTTATCCCCGAACTTTCAAAAATTCCATTTTTGACCTCGAAC
1 CTAAACTTTCTAAAAATTACCATTTTATCCCCGAACTTCCAAAAATTCCATTTTTGACCTCGAAC
* * *** * *
47440297 ATTCTAAAATTATCATTTTACCCCCGAAC-TTCCAAAAATTCCATTTTTGTCCCGAACTTTCTAA
66 ATTCCAAAATTATCATTTTACCCCCAAACTTTCCAAAAATT-CATTTTACCCCCAAAC-TTCCAA
47440361 AATTAT-CA-TTTTACC
129 AATT-TCCATTTTTACC
**
47440376 CGTAAAC-TTCTCAAAAATTACCATTTTA-CCCTCGAACTTCCAAAGGTTCCATTTTTGACCTCG
1 C-TAAACTTTCT-AAAAATTACCATTTTATCCC-CGAACTTCCAAAAATTCCATTTTTGACCTCG
* * *
47440439 AA-GTGTCCAAAATTACCGTTTTACCCC
63 AACAT-TCCAAAATTATCATTTTACCCC
47440466 GGGTATCCAA
Statistics
Matches: 196, Mismatches: 26, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
143 11 0.06
144 60 0.31
145 85 0.43
146 27 0.14
147 13 0.07
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.35
Consensus pattern (144 bp):
CTAAACTTTCTAAAAATTACCATTTTATCCCCGAACTTCCAAAAATTCCATTTTTGACCTCGAAC
ATTCCAAAATTATCATTTTACCCCCAAACTTTCCAAAAATTCATTTTACCCCCAAACTTCCAAAA
TTTCCATTTTTACC
Found at i:47447993 original size:26 final size:27
Alignment explanation
Indices: 47447921--47447993 Score: 67
Period size: 30 Copynumber: 2.6 Consensus size: 27
47447911 TATACAGTCT
*
47447921 TTTAATATATTTTAATTAATTAAATTA
1 TTTAATATATTTTAATTAAATAAATTA
* ** *
47447948 TTGTATTGTATATTAAAATTAAAT-ATTTA
1 TT-TA--ATATATTTTAATTAAATAAATTA
47447977 TTTAATATATTTTAATT
1 TTTAATATATTTTAATT
47447994 TATAGTTACA
Statistics
Matches: 35, Mismatches: 8, Indels: 7
0.70 0.16 0.14
Matches are distributed among these distances:
26 10 0.29
27 2 0.06
28 4 0.11
29 6 0.17
30 13 0.37
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (27 bp):
TTTAATATATTTTAATTAAATAAATTA
Found at i:47450871 original size:17 final size:17
Alignment explanation
Indices: 47450829--47450871 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
47450819 AAAAGGGGCA
*
47450829 GCAGAGAA-GGCTTCGG
1 GCAGAGAAGGGCCTCGG
*
47450845 GCAGGGGAAGGGCCTCGG
1 GCA-GAGAAGGGCCTCGG
47450863 GCAGAGAAG
1 GCAGAGAAG
47450872 TTTCGAGAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 3 0.14
17 9 0.41
18 10 0.45
ACGTcount: A:0.26, C:0.19, G:0.49, T:0.07
Consensus pattern (17 bp):
GCAGAGAAGGGCCTCGG
Found at i:47451732 original size:49 final size:49
Alignment explanation
Indices: 47451679--47452033 Score: 310
Period size: 49 Copynumber: 7.3 Consensus size: 49
47451669 CCTATTGTGG
* *
47451679 CTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCACCGTTGCGA
1 CTTAAACCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGA
* * * * * *
47451728 CTTAAACCTTTCCCTTCATATCTTC-GTGGTAC-TGGATTTGCCATTGCGG
1 CTTAAACCTTTCCCTTCAT-GCTTCTGAGGTACAAGG-TTCGCCGTTGCGA
* * *
47451777 CTTAAATCTTTCCCTTCATGC-CCTGAGGTACAAGGTTCGCCGTTGTGA
1 CTTAAACCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGA
* * * * * * * * *
47451825 CTTAAACCTTTCCCTTTATATCTT-AGTGGTGCTAGATTTGCCGTTGAG-
1 CTTAAACCTTTCCCTTCAT-GCTTCTGAGGTACAAGGTTCGCCGTTGCGA
* * *
47451873 CTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTC-TCATTGCGA
1 CTTAAACCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGA
* * * * * * *
47451921 CTTAAACCTTTCCATTTATATCTTC-GTGGTACTAGATTCGCAGTTGCGA
1 CTTAAACCTTTCCCTTCAT-GCTTCTGAGGTACAAGGTTCGCCGTTGCGA
* * * *
47451970 CTTAAATCTTTCCCTTCATGCTTCTAAGGTACAAGGTTCGCCATTGAGA
1 CTTAAACCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGA
*
47452019 CTCAAACCTTTCCCT
1 CTTAAACCTTTCCCT
47452034 CCAACCTGTA
Statistics
Matches: 232, Mismatches: 63, Indels: 22
0.73 0.20 0.07
Matches are distributed among these distances:
47 9 0.04
48 92 0.40
49 127 0.55
50 4 0.02
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (49 bp):
CTTAAACCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGA
Found at i:47451846 original size:97 final size:98
Alignment explanation
Indices: 47451647--47452033 Score: 523
Period size: 97 Copynumber: 4.0 Consensus size: 98
47451637 CCTTCCTTCC
* * * *
47451647 ATATCTTCATGGTACTGGA-TTCCCTATTGTGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTAC
1 ATATCTTCGTGGTACTAGATTTGCC-ATTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTAC
* * *
47451711 AAGGTTCACCGTTGCGACTTAAACCTTTCCCTTC
65 AAGGTTCGCCATTGCGACTTAAACCTTTCCCTTT
* *
47451745 ATATCTTCGTGGTACTGGATTTGCCATTGCGGCTTAAATCTTTCCCTTCATGC-CCTGAGGTACA
1 ATATCTTCGTGGTACTAGATTTGCCATTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACA
* *
47451809 AGGTTCGCCGTTGTGACTTAAACCTTTCCCTTT
66 AGGTTCGCCATTGCGACTTAAACCTTTCCCTTT
* * * *
47451842 ATATCTTAGTGGTGCTAGATTTGCCGTTG-AGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACA
1 ATATCTTCGTGGTACTAGATTTGCCATTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACA
* *
47451906 AGGTTC-TCATTGCGACTTAAACCTTTCCATTT
66 AGGTTCGCCATTGCGACTTAAACCTTTCCCTTT
* * *
47451938 ATATCTTCGTGGTACTAGATTCG-CAGTTGCGACTTAAATCTTTCCCTTCATGCTTCTAAGGTAC
1 ATATCTTCGTGGTACTAGATTTGCCA-TTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTAC
* *
47452002 AAGGTTCGCCATTGAGACTCAAACCTTTCCCT
65 AAGGTTCGCCATTGCGACTTAAACCTTTCCCT
47452034 CCAACCTGTA
Statistics
Matches: 256, Mismatches: 28, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
95 1 0.00
96 67 0.26
97 119 0.46
98 65 0.25
99 4 0.02
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (98 bp):
ATATCTTCGTGGTACTAGATTTGCCATTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACA
AGGTTCGCCATTGCGACTTAAACCTTTCCCTTT
Found at i:47458654 original size:6 final size:6
Alignment explanation
Indices: 47458645--47458743 Score: 55
Period size: 6 Copynumber: 17.0 Consensus size: 6
47458635 TAAAATGATT
* * * * **
47458645 TTTAAA TTT-AT TTCTAAA ATTAAA TTT-AC TTTAAA TTTAAA TTCATT
1 TTTAAA TTTAAA TT-TAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
47458692 TTTAAA TTTAAA TTT-AT TTTAAA TTTGAAA --TAAT TTTAAA ATTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
*
47458738 ATTAAA
1 TTTAAA
47458744 AAGCCCAAAA
Statistics
Matches: 69, Mismatches: 17, Indels: 14
0.69 0.17 0.14
Matches are distributed among these distances:
4 2 0.03
5 12 0.17
6 50 0.72
7 5 0.07
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:47458667 original size:18 final size:17
Alignment explanation
Indices: 47458645--47458737 Score: 107
Period size: 17 Copynumber: 5.4 Consensus size: 17
47458635 TAAAATGATT
47458645 TTTAAATTTATTTCTAAA
1 TTTAAATTTATTT-TAAA
* *
47458663 ATTAAATTTACTTTAAA
1 TTTAAATTTATTTTAAA
*
47458680 TTTAAATTCATTTTTAAA
1 TTTAAATTTA-TTTTAAA
47458698 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
47458715 TTTGAAA-TAATTTTAAA
1 TTT-AAATTTATTTTAAA
*
47458732 ATTAAA
1 TTTAAA
47458738 ATTAAAAAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
16 3 0.05
17 33 0.51
18 29 0.45
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:47458703 original size:35 final size:35
Alignment explanation
Indices: 47458645--47458740 Score: 113
Period size: 35 Copynumber: 2.7 Consensus size: 35
47458635 TAAAATGATT
* * *
47458645 TTTAAATTTATTTCTAAAATTAAATTTACTTTAAA
1 TTTAAATTAATTTTTAAATTTAAATTTACTTTAAA
* *
47458680 TTTAAATTCATTTTTAAATTTAAATTTATTTTAAA
1 TTTAAATTAATTTTTAAATTTAAATTTACTTTAAA
* *
47458715 TTTGAAA-TAATTTTAAAATTAAAATT
1 TTT-AAATTAATTTTTAAATTTAAATT
47458741 AAAAAGCCCA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
35 50 0.94
36 3 0.06
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (35 bp):
TTTAAATTAATTTTTAAATTTAAATTTACTTTAAA
Found at i:47458727 original size:17 final size:17
Alignment explanation
Indices: 47458645--47458742 Score: 90
Period size: 18 Copynumber: 5.6 Consensus size: 17
47458635 TAAAATGATT
*
47458645 TTTAAATTTATTTCTAAA
1 TTTAAATTAATTT-TAAA
* * *
47458663 ATTAAATTTACTTTAAA
1 TTTAAATTAATTTTAAA
*
47458680 TTTAAATTCATTTTTAAA
1 TTTAAATT-AATTTTAAA
*
47458698 TTTAAATTTATTTTAAA
1 TTTAAATTAATTTTAAA
47458715 TTTGAAA-TAATTTTAAAA
1 TTT-AAATTAATTTT-AAA
*
47458733 TTAAAATTAA
1 TTTAAATTAA
47458743 AAAGCCCAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
17 30 0.45
18 36 0.55
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (17 bp):
TTTAAATTAATTTTAAA
Found at i:47460707 original size:59 final size:59
Alignment explanation
Indices: 47460635--47461147 Score: 592
Period size: 59 Copynumber: 8.7 Consensus size: 59
47460625 TTGGACTATC
* * *
47460635 CAAAAATTACCATTTTACCCCCGAACTTCCCAAAATTCCATTTTTAACCCCAATTTCAT
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCAT
** *
47460694 CAAAAATTACCATTTTACCCCCAAAC-TTCCAAAATT-CATTTTTTAACTTC-GATTCCAT
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCA-TTTTTAACCCCAG-TTTCAT
* * * *
47460752 CAAAAATTACCATTTTACCCCCGAACTTCCCAAAATTCCATTTTAAACCCTAGTTTCAT
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCAT
** * * * *
47460811 CAAAAATTACCATTTTACCCTTAAACTTTCCAAAATTCCATTTTTAACCTCGGTTTTAC
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCAT
* * * * * *
47460870 CAAAAATTACCATTTTACCCCTAAAATTTTCCAAAATACCATTTTTAACCTCGGTTTCAC
1 CAAAAATTACCATTTTACCCC-CAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCAT
* * *
47460930 CAAAAATTACCATTTTACCCCTAAACTTTACC-AAATTCTATTTTTAACCCCAATTTCAT
1 CAAAAATTACCATTTTACCCCCAAACTTT-CCAAAATTCCATTTTTAACCCCAGTTTCAT
* * * * *
47460989 C-AAAATTACCATCTTACCCCCAAACTTTCAAAAATTCTATTATTAACCCCGGTTTCAT
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCAT
* * * * *
47461047 CAAAAATTACCATTTTACCCCTAAACTTTACAAGATTCCATTTTTAACCCTAGTTTCAC
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCAT
* *
47461106 CAAAAATTACCATTTT--CCCCACAC-ATCCAAAATTACCATTTT
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATT-CCATTTT
47461148 GCCCTCGGGT
Statistics
Matches: 387, Mismatches: 57, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
56 7 0.02
57 16 0.04
58 98 0.25
59 206 0.53
60 60 0.16
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.35
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCAT
Found at i:47460830 original size:29 final size:30
Alignment explanation
Indices: 47460749--47461121 Score: 107
Period size: 29 Copynumber: 12.6 Consensus size: 30
47460739 ACTTCGATTC
* *
47460749 CATCAAAAATTACCATTTTACCCCCGAA-CTT
1 CATCAAAAATTACCATTTTA--CCCTAAGTTT
*
47460780 C--CCAAAATT-CCATTTTAAACCCT-AGTTT
1 CATCAAAAATTACCATTTT--ACCCTAAGTTT
*
47460808 CATCAAAAATTACCATTTTACCCTTAAACTTT
1 CATCAAAAATTACCATTTTACCC-T-AAGTTT
* **
47460840 C--C-AAAATT-CCATTTTTAACCTCGGTTT
1 CATCAAAAATTACCA-TTTTACCCTAAGTTT
* * *
47460867 TACCAAAAATTACCATTTTACCCCTAAAATTT
1 CATCAAAAATTACCATTTTA-CCCT-AAGTTT
* * **
47460899 --TCCAAAA-TACCATTTTTAACCTCGGTTT
1 CATCAAAAATTACCA-TTTTACCCTAAGTTT
* *
47460927 CACCAAAAATTACCATTTTACCCCTAAACTTT
1 CATCAAAAATTACCATTTTA-CCCT-AAGTTT
* * *
47460959 -A-C-CAAATT-CTATTTTTAACCCCAA-TTT
1 CATCAAAAATTACCA-TTTT-ACCCTAAGTTT
* * **
47460986 CATC-AAAATTACCATCTTACCCCCAAACTT
1 CATCAAAAATTACCATTTTA-CCCTAAGTTT
* **
47461016 --TCAAAAATT-CTATTATTAACCC-CGGTTT
1 CATCAAAAATTACCATT-TT-ACCCTAAGTTT
*
47461044 CATCAAAAATTACCATTTTACCCCTAAACTTT
1 CATCAAAAATTACCATTTTA-CCCT-AAGTTT
*
47461076 -A-C-AAGATT-CCATTTTTAACCCT-AGTTT
1 CATCAAAAATTACCA-TTTT-ACCCTAAGTTT
*
47461103 CACCAAAAATTACCATTTT
1 CATCAAAAATTACCATTTT
47461122 CCCCACACAT
Statistics
Matches: 252, Mismatches: 46, Indels: 89
0.65 0.12 0.23
Matches are distributed among these distances:
27 11 0.04
28 37 0.15
29 86 0.34
30 73 0.29
31 31 0.12
32 14 0.06
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (30 bp):
CATCAAAAATTACCATTTTACCCTAAGTTT
Found at i:47461068 original size:117 final size:118
Alignment explanation
Indices: 47460634--47461147 Score: 610
Period size: 117 Copynumber: 4.4 Consensus size: 118
47460624 CTTGGACTAT
* *
47460634 CCAAAAATTACCATTTTACCCCCGAACTTCCCAAAATTCCATTTTTAACCCCAATTTCATCAAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTCCCAAAATTCCATTTTTAACCCCAGTTTCATCAAAA
* ** * *
47460699 ATTACCATTTTACCCCCAAAC-TTCCAAAATT-CATTTTTTAACTTCGATTCCA
66 ATTACCATTTTACCCCTAAACTTTCCAAAATTCCA-TTTTTAACCCCAATTTCA
* * * *
47460751 TCAAAAATTACCATTTTACCCCCGAACTTCCCAAAATTCCATTTTAAACCCTAGTTTCATCAAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTCCCAAAATTCCATTTTTAACCCCAGTTTCATCAAAA
* * ** *
47460816 ATTACCATTTTACCCTTAAACTTTCCAAAATTCCATTTTTAACCTCGGTTTTA
66 ATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
* * * * * * *
47460869 CCAAAAATTACCATTTTACCCCTAAAATTTTCCAAAATACCATTTTTAACCTCGGTTTCACCAAA
1 CCAAAAATTACCATTTTACCCC-CAAACTTCCCAAAATTCCATTTTTAACCCCAGTTTCATCAAA
*
47460934 AATTACCATTTTACCCCTAAACTTTACC-AAATTCTATTTTTAACCCCAATTTCA
65 AATTACCATTTTACCCCTAAACTTT-CCAAAATTCCATTTTTAACCCCAATTTCA
* * * * * * *
47460988 TC-AAAATTACCATCTTACCCCCAAACTTTCAAAAATTCTATTATTAACCCCGGTTTCATCAAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTCCCAAAATTCCATTTTTAACCCCAGTTTCATCAAAA
* * * *
47461052 ATTACCATTTTACCCCTAAACTTTACAAGATTCCATTTTTAACCCTAGTTTCA
66 ATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
* *
47461105 CCAAAAATTACCATTTT--CCCCACACAT-CCAAAATTACCATTTT
1 CCAAAAATTACCATTTTACCCCCAAACTTCCCAAAATT-CCATTTT
47461148 GCCCTCGGGT
Statistics
Matches: 341, Mismatches: 49, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
115 7 0.02
116 14 0.04
117 162 0.48
118 76 0.22
119 80 0.23
120 2 0.01
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.35
Consensus pattern (118 bp):
CCAAAAATTACCATTTTACCCCCAAACTTCCCAAAATTCCATTTTTAACCCCAGTTTCATCAAAA
ATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
Found at i:47461087 original size:236 final size:235
Alignment explanation
Indices: 47460634--47461147 Score: 657
Period size: 236 Copynumber: 2.2 Consensus size: 235
47460624 CTTGGACTAT
** * *
47460634 CCAAAAATTACCATTTTACCCCCGAACTTCCCAAAATTCCATTTTTAACCCCAATTTCATCAAAA
1 CCAAAAATTACCATTTTACCCCAAAACTTCCCAAAATACCATTTTTAACCCCAATTTCACCAAAA
** *
47460699 ATTACCATTTTACCCCCAAACTTCCAAAATTCATTTTTTAACTTCGATTCCATCAAAAATTACCA
66 ATTACCATTTTACCCCCAAACTTCCAAAATTCATTTTTTAACCCCAATTCCATCAAAAATTACCA
* * * *
47460764 TTTTACCCCCGAACTTCCCAAAATTCCATTTTAAACCCTAGTTTCATCAAAAATTACCATTTTAC
131 TCTTACCCCCAAACTTCCAAAAATTCCATTTTAAACCCCAGTTTCATCAAAAATTACCATTTTAC
* * * *
47460829 CCTTAAACTTTCCAAAATTCCATTTTTAA-CCTCGGTTTTA
196 CCCTAAACTTTACAAAATTCCATTTTTAACCCT-AGTTTCA
* * * **
47460869 CCAAAAATTACCATTTTACCCCTAAAATTTTCCAAAATACCATTTTTAACCTCGGTTTCACCAAA
1 CCAAAAATTACCATTTTACCCC-AAAACTTCCCAAAATACCATTTTTAACCCCAATTTCACCAAA
* *
47460934 AATTACCATTTTACCCCTAAACTTTACC-AAATTC-TATTTTTAACCCCAATTTCATC-AAAATT
65 AATTACCATTTTACCCCCAAAC-TT-CCAAAATTCAT-TTTTTAACCCCAATTCCATCAAAAATT
* * *
47460996 ACCATCTTACCCCCAAACTTTCAAAAATTCTATTATT-AACCCCGGTTTCATCAAAAATTACCAT
127 ACCATCTTACCCCCAAACTTCCAAAAATTCCATT-TTAAACCCCAGTTTCATCAAAAATTACCAT
*
47461060 TTTACCCCTAAACTTTACAAGATTCCATTTTTAACCCTAGTTTCA
191 TTTACCCCTAAACTTTACAAAATTCCATTTTTAACCCTAGTTTCA
* *
47461105 CCAAAAATTACCATTTT-CCCC-ACACAT-CCAAAATTACCATTTT
1 CCAAAAATTACCATTTTACCCCAAAACTTCCCAAAA-TACCATTTT
47461148 GCCCTCGGGT
Statistics
Matches: 243, Mismatches: 29, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
232 6 0.02
233 12 0.05
235 26 0.11
236 168 0.69
237 29 0.12
238 2 0.01
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.35
Consensus pattern (235 bp):
CCAAAAATTACCATTTTACCCCAAAACTTCCCAAAATACCATTTTTAACCCCAATTTCACCAAAA
ATTACCATTTTACCCCCAAACTTCCAAAATTCATTTTTTAACCCCAATTCCATCAAAAATTACCA
TCTTACCCCCAAACTTCCAAAAATTCCATTTTAAACCCCAGTTTCATCAAAAATTACCATTTTAC
CCCTAAACTTTACAAAATTCCATTTTTAACCCTAGTTTCA
Found at i:47474394 original size:18 final size:19
Alignment explanation
Indices: 47474368--47474411 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
47474358 ATACAATCTT
* *
47474368 TTAATATATTTTAATTA-A
1 TTAAAATATTATAATTATA
*
47474386 TTAAAATATTATATTTATA
1 TTAAAATATTATAATTATA
47474405 TTAAAAT
1 TTAAAAT
47474412 TAAATATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAAAATATTATAATTATA
Found at i:47474407 original size:23 final size:24
Alignment explanation
Indices: 47474372--47474425 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 24
47474362 AATCTTTTAA
47474372 TATATTT-TAATT-AATTAAAATAT
1 TATATTTATAATTAAATT-AAATAT
47474395 TATATTTAT-ATTAAAATTAAATAT
1 TATATTTATAATT-AAATTAAATAT
47474419 T-TATTTA
1 TATATTTA
47474426 ATATATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 16 0.57
24 8 0.29
25 4 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TATATTTATAATTAAATTAAATAT
Found at i:47474409 original size:19 final size:19
Alignment explanation
Indices: 47474385--47474442 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
47474375 ATTTTAATTA
47474385 ATTAAAATATTATATTTAT
1 ATTAAAATATTATATTTAT
*
47474404 ATTAAAAT-TAAATATTTAT
1 ATTAAAATAT-TATATTTAT
* *
47474423 -TTAATATATTTTAATTTAT
1 ATTAAAATATTAT-ATTTAT
47474442 A
1 A
47474443 AATACAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
18 8 0.26
19 23 0.74
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTAAAATATTATATTTAT
Found at i:47486066 original size:212 final size:214
Alignment explanation
Indices: 47485698--47486125 Score: 824
Period size: 212 Copynumber: 2.0 Consensus size: 214
47485688 ATAACTATGA
*
47485698 AACATATATCTATAAAGAGCTCTATAAACCCAGAATCAGTTTGCATTCTACAAGTTTTGGGGGTT
1 AACATATATCTATAAAGAGCTCTATAAACCCAGAATCACTTTGCATTCTACAAGTTTTGGGGGTT
*
47485763 CCAATCCTAGCATAGCTTGTGTTTATTAGGTGTTATCATGTGTTATATCTTGTATTAATAAAGCA
66 CCAATCCTAGCATAGCTTGAGTTTATTAGGTGTTATCATGTGTTATATCTTGTATTAATAAAGCA
47485828 TTCTGCTTTTAAAAGAAAAGGATTAAATCTAGTAGTGGAGTTTTCAAATGGGTTAAATATTGTCA
131 TTCTGCTTTTAAAAGAAAAGGATTAAATCTAGTAGTGGAGTTTTCAAATGGGTTAAATATTGTCA
47485893 ATTTAATTAG-TTATTGCT
196 ATTTAATTAGTTTATTGCT
47485911 AACATATATCTATAAAGAGCTCTATAAACCCAGAATCACTTTGCATTCTACAAG-TTTGGGGGTT
1 AACATATATCTATAAAGAGCTCTATAAACCCAGAATCACTTTGCATTCTACAAGTTTTGGGGGTT
47485975 CCAATCCTAGCATAGCTTGAGTTTATTAGGTGTTATCATGTGTTATATCTTGTATTAATAAAGCA
66 CCAATCCTAGCATAGCTTGAGTTTATTAGGTGTTATCATGTGTTATATCTTGTATTAATAAAGCA
47486040 TTCTGCTTTTAAAAGAAAAGGATTAAATCTAGTAGTGGAGTTTTCAAATGGGTTAAATATTGTCA
131 TTCTGCTTTTAAAAGAAAAGGATTAAATCTAGTAGTGGAGTTTTCAAATGGGTTAAATATTGTCA
47486105 ATTTAATTAGTTTATTGCT
196 ATTTAATTAGTTTATTGCT
47486124 AA
1 AA
47486126 TTCATTTATT
Statistics
Matches: 212, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
212 149 0.70
213 63 0.30
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (214 bp):
AACATATATCTATAAAGAGCTCTATAAACCCAGAATCACTTTGCATTCTACAAGTTTTGGGGGTT
CCAATCCTAGCATAGCTTGAGTTTATTAGGTGTTATCATGTGTTATATCTTGTATTAATAAAGCA
TTCTGCTTTTAAAAGAAAAGGATTAAATCTAGTAGTGGAGTTTTCAAATGGGTTAAATATTGTCA
ATTTAATTAGTTTATTGCT
Found at i:47487832 original size:24 final size:24
Alignment explanation
Indices: 47487793--47487848 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
47487783 AGTCTTATAA
47487793 ACCCAAA-CCTTATAAACCTTTTG
1 ACCCAAACCCTTATAAACCTTTTG
*
47487816 ACCCAAACCCTTATAAACTTTTTG
1 ACCCAAACCCTTATAAACCTTTTG
*
47487840 ACCTAAACC
1 ACCCAAACC
47487849 AAGTGAACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 7 0.23
24 23 0.77
ACGTcount: A:0.36, C:0.32, G:0.04, T:0.29
Consensus pattern (24 bp):
ACCCAAACCCTTATAAACCTTTTG
Found at i:47487925 original size:7 final size:7
Alignment explanation
Indices: 47487910--47488032 Score: 99
Period size: 7 Copynumber: 17.6 Consensus size: 7
47487900 ACCCGACCCA
*
47487910 TTGACCG
1 TTGATCG
47487917 TTGATCG
1 TTGATCG
*
47487924 TTGA-CTA
1 TTGATC-G
47487931 TTGATCG
1 TTGATCG
47487938 TTGATCG
1 TTGATCG
47487945 TTGA-CTG
1 TTGATC-G
*
47487952 TTGA-CAT
1 TTGATC-G
*
47487959 TTGACCG
1 TTGATCG
47487966 TTGATCG
1 TTGATCG
*
47487973 TTGATCA
1 TTGATCG
*
47487980 TTGACCG
1 TTGATCG
*
47487987 TTGACCG
1 TTGATCG
*
47487994 TTGATCA
1 TTGATCG
*
47488001 TTGATCA
1 TTGATCG
*
47488008 TTGATCA
1 TTGATCG
*
47488015 TTGATCA
1 TTGATCG
47488022 TTGATCG
1 TTGATCG
47488029 TTGA
1 TTGA
47488033 CATTTGACCA
Statistics
Matches: 99, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
6 2 0.02
7 95 0.96
8 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (7 bp):
TTGATCG
Found at i:47487939 original size:21 final size:21
Alignment explanation
Indices: 47487917--47488046 Score: 115
Period size: 21 Copynumber: 6.2 Consensus size: 21
47487907 CCATTGACCG
*
47487917 TTGATCGTTGACTATTGATCG
1 TTGATCGTTGACTATTGATCA
*
47487938 TTGATCGTTGACTGTTGA-CA
1 TTGATCGTTGACTATTGATCA
* *
47487958 TTTGACCGTTGA-TCGTTGATCA
1 -TTGATCGTTGACT-ATTGATCA
* **
47487980 TTGACCGTTGACCGTTGATCA
1 TTGATCGTTGACTATTGATCA
*
47488001 TTGATCATTGA-TCATTGATCA
1 TTGATCGTTGACT-ATTGATCA
*
47488022 TTGATCGTTGAC-ATTTGACCA
1 TTGATCGTTGACTA-TTGATCA
47488043 TTGA
1 TTGA
47488047 CCATTAACTG
Statistics
Matches: 92, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
20 3 0.03
21 87 0.95
22 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.40
Consensus pattern (21 bp):
TTGATCGTTGACTATTGATCA
Found at i:47487954 original size:28 final size:28
Alignment explanation
Indices: 47487910--47488048 Score: 140
Period size: 28 Copynumber: 5.0 Consensus size: 28
47487900 ACCCGACCCA
* * * *
47487910 TTGACCGTTGATCGTTGACTATTGATCG
1 TTGATCGTTGATCATTGACCATTGACCG
*
47487938 TTGATCGTTGA-CTGTTGA-CATTTGACCG
1 TTGATCGTTGATC-ATTGACCA-TTGACCG
*
47487966 TTGATCGTTGATCATTGACCGTTGACCG
1 TTGATCGTTGATCATTGACCATTGACCG
* * * *
47487994 TTGATCATTGATCATTGATCATTGATCA
1 TTGATCGTTGATCATTGACCATTGACCG
47488022 TTGATCGTTGA-CATTTGACCATTGACC
1 TTGATCGTTGATCA-TTGACCATTGACC
47488049 ATTAACTGTT
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
27 4 0.04
28 87 0.94
29 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.39
Consensus pattern (28 bp):
TTGATCGTTGATCATTGACCATTGACCG
Found at i:47488046 original size:7 final size:7
Alignment explanation
Indices: 47487966--47488051 Score: 84
Period size: 7 Copynumber: 12.3 Consensus size: 7
47487956 CATTTGACCG
*
47487966 TTGATCG
1 TTGATCA
47487973 TTGATCA
1 TTGATCA
* *
47487980 TTGACCG
1 TTGATCA
* *
47487987 TTGACCG
1 TTGATCA
47487994 TTGATCA
1 TTGATCA
47488001 TTGATCA
1 TTGATCA
47488008 TTGATCA
1 TTGATCA
47488015 TTGATCA
1 TTGATCA
*
47488022 TTGATCG
1 TTGATCA
47488029 TTGA-CA
1 TTGATCA
*
47488035 TTTGACCA
1 -TTGATCA
*
47488043 TTGACCA
1 TTGATCA
47488050 TT
1 TT
47488052 AACTGTTGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
6 1 0.01
7 67 0.96
8 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (7 bp):
TTGATCA
Found at i:47488051 original size:28 final size:28
Alignment explanation
Indices: 47487907--47488068 Score: 134
Period size: 28 Copynumber: 5.8 Consensus size: 28
47487897 CCGACCCGAC
* * *
47487907 CCATTGACCGTTGATCGTTGACTATTGA
1 CCATTGATCGTTGATCATTGACCATTGA
* * *
47487935 TCGTTGATCGTTGA-CTGTTGA-CATTTGA
1 CCATTGATCGTTGATC-ATTGACCA-TTGA
* *
47487963 CCGTTGATCGTTGATCATTGACCGTTGA
1 CCATTGATCGTTGATCATTGACCATTGA
* * *
47487991 CCGTTGATCATTGATCATTGATCATTGA
1 CCATTGATCGTTGATCATTGACCATTGA
*
47488019 TCATTGATCGTTGA-CATTTGACCATTGA
1 CCATTGATCGTTGATCA-TTGACCATTGA
* *
47488047 CCATT-AACTGTTGATCGTTGAC
1 CCATTGATC-GTTGATCATTGAC
47488069 TTTTTGGGTT
Statistics
Matches: 110, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
27 6 0.05
28 101 0.92
29 3 0.03
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (28 bp):
CCATTGATCGTTGATCATTGACCATTGA
Found at i:47490726 original size:100 final size:99
Alignment explanation
Indices: 47490611--47490839 Score: 422
Period size: 100 Copynumber: 2.3 Consensus size: 99
47490601 TTTTAAGTAG
*
47490611 TAAATTGTCGATTTGGTGTTTTGGATATAAATGTTAGCTTGATGTATGGCACATGGGTTGTTATG
1 TAAATTGTCGATTTGGTGTTTTGGATATAAATGTTAGCTTGATGTATGACACATGGGTTGTTATG
47490676 GTATATATGTTCTTTTACATAATATTCTTTTTACA
66 GTATATATGTTCTTTTACATAATATTC-TTTTACA
47490711 TAAATTGTCGATTTGGTGTTTTGGATATAAATGTTAGCTTGATGTATGACACATGGGTTGTTATG
1 TAAATTGTCGATTTGGTGTTTTGGATATAAATGTTAGCTTGATGTATGACACATGGGTTGTTATG
47490776 GTATATATGTTCTTTTACATAATATTCTTTTACA
66 GTATATATGTTCTTTTACATAATATTCTTTTACA
* *
47490810 TAGATTGTGGATTTGGTGTTTTGGATATAA
1 TAAATTGTCGATTTGGTGTTTTGGATATAA
47490840 TTTATGTTTC
Statistics
Matches: 126, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
99 35 0.28
100 91 0.72
ACGTcount: A:0.25, C:0.07, G:0.21, T:0.47
Consensus pattern (99 bp):
TAAATTGTCGATTTGGTGTTTTGGATATAAATGTTAGCTTGATGTATGACACATGGGTTGTTATG
GTATATATGTTCTTTTACATAATATTCTTTTACA
Found at i:47491265 original size:16 final size:14
Alignment explanation
Indices: 47491244--47491277 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 14
47491234 AATTTGAGTA
47491244 AAAATTAATAAAATAG
1 AAAATTAA-AAAA-AG
47491260 AAAATTAAAAAAAG
1 AAAATTAAAAAAAG
47491274 AAAA
1 AAAA
47491278 ATTACTTGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 4 0.22
16 8 0.44
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (14 bp):
AAAATTAAAAAAAG
Found at i:47491278 original size:15 final size:17
Alignment explanation
Indices: 47491243--47491281 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
47491233 AAATTTGAGT
47491243 AAAAATTAATAAAATAG
1 AAAAATTAATAAAATAG
47491260 -AAAATTAA-AAAA-AG
1 AAAAATTAATAAAATAG
47491274 AAAAATTA
1 AAAAATTA
47491282 CTTGCCTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 2 0.10
15 11 0.52
16 8 0.38
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAAATTAATAAAATAG
Found at i:47493021 original size:13 final size:13
Alignment explanation
Indices: 47493003--47493027 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47492993 TGGCCTGTGA
47493003 CACAACCGCGTGG
1 CACAACCGCGTGG
47493016 CACAACCGCGTG
1 CACAACCGCGTG
47493028 ACCCAAGTTA
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:0.24, C:0.40, G:0.28, T:0.08
Consensus pattern (13 bp):
CACAACCGCGTGG
Found at i:47493071 original size:12 final size:12
Alignment explanation
Indices: 47493056--47493086 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
47493046 CACGGGTAAA
47493056 GACACAGGTTGG
1 GACACAGGTTGG
47493068 GACACAGGTTGG
1 GACACAGGTTGG
47493080 GACACAG
1 GACACAG
47493087 CCGTGTGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.29, C:0.19, G:0.39, T:0.13
Consensus pattern (12 bp):
GACACAGGTTGG
Found at i:47503846 original size:2 final size:2
Alignment explanation
Indices: 47503839--47503882 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
47503829 ATGTTGAAAT
*
47503839 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47503881 TA
1 TA
47503883 AGTGCATAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:47504110 original size:11 final size:11
Alignment explanation
Indices: 47504096--47504122 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
47504086 TATTATTTAT
47504096 ATTTATATTTG
1 ATTTATATTTG
47504107 ATTTATATTTG
1 ATTTATATTTG
47504118 ATTTA
1 ATTTA
47504123 GAGGATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (11 bp):
ATTTATATTTG
Found at i:47511328 original size:20 final size:20
Alignment explanation
Indices: 47511303--47511354 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
47511293 TAAGCTTAAC
47511303 TAATCTAGTTTATTAAACAT
1 TAATCTAGTTTATTAAACAT
47511323 TAATCTAGTTTATTAAACAT
1 TAATCTAGTTTATTAAACAT
47511343 TAATCTAGTTTA
1 TAATCTAGTTTA
47511355 CTAGTTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (20 bp):
TAATCTAGTTTATTAAACAT
Found at i:47511980 original size:28 final size:28
Alignment explanation
Indices: 47511940--47511995 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
47511930 GCTTTGATTA
47511940 GCACTTAACAAGCCAATTCAAAAACTTT
1 GCACTTAACAAGCCAATTCAAAAACTTT
47511968 GCACTTAACAAGCCAATTCAAAAACTTT
1 GCACTTAACAAGCCAATTCAAAAACTTT
47511996 CCTCAACATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.25, G:0.07, T:0.25
Consensus pattern (28 bp):
GCACTTAACAAGCCAATTCAAAAACTTT
Found at i:47513907 original size:12 final size:12
Alignment explanation
Indices: 47513890--47513921 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
47513880 GATGGCAGTG
*
47513890 CAGTGACGACGA
1 CAGTGACGACAA
47513902 CAGTGACGACAA
1 CAGTGACGACAA
47513914 CAGTGACG
1 CAGTGACG
47513922 GCGGTGACAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.34, C:0.25, G:0.31, T:0.09
Consensus pattern (12 bp):
CAGTGACGACAA
Found at i:47514558 original size:30 final size:30
Alignment explanation
Indices: 47514522--47514750 Score: 204
Period size: 30 Copynumber: 7.8 Consensus size: 30
47514512 AAGAGGTCTC
*
47514522 CAAACTTTTCCAAAATTACATTTTAACCCT
1 CAAACTTTTCCAAAATTACATTTTGACCCT
*
47514552 CAAAC-TTTCC-TAATTACATTTTGACACCT
1 CAAACTTTTCCAAAATTACATTTTGAC-CCT
47514581 -AAACTTTTCCAAAATTACATTTTGACTCC-
1 CAAACTTTTCCAAAATTACATTTTGAC-CCT
* **
47514610 CAAACTTTTCCAAAATTATATTTT-AATCT
1 CAAACTTTTCCAAAATTACATTTTGACCCT
* *
47514639 CTAAACTTTTCCAAAATTATA-TTTGATCCT
1 C-AAACTTTTCCAAAATTACATTTTGACCCT
* ** *
47514669 TAAACTTTTCCAAAACCACA-TTTAACCC-
1 CAAACTTTTCCAAAATTACATTTTGACCCT
* * *
47514697 CAAACTTTTCTAAAATCATATTTTGACCCT
1 CAAACTTTTCCAAAATTACATTTTGACCCT
* ** * *
47514727 CGAGTTTTTCTAAAATTTCATTTT
1 CAAACTTTTCCAAAATTACATTTT
47514751 CATCCCGAGT
Statistics
Matches: 164, Mismatches: 26, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
28 34 0.21
29 47 0.29
30 83 0.51
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.40
Consensus pattern (30 bp):
CAAACTTTTCCAAAATTACATTTTGACCCT
Found at i:47514593 original size:58 final size:60
Alignment explanation
Indices: 47514518--47514683 Score: 184
Period size: 58 Copynumber: 2.8 Consensus size: 60
47514508 GCTCAAGAGG
* *
47514518 TCTCCAAACTTTTCCAAAATTACATTTTAAC-CCTCAAAC-TTTCC-TAATTACATTTTGACA
1 TCTCTAAACTTTTCCAAAATTACATTTTAACTCC-CAAACTTTTCCAAAATTACATTTT-A-A
* *
47514578 -C-CTAAACTTTTCCAAAATTACATTTTGACTCCCAAACTTTTCCAAAATTATATTTTAA
1 TCTCTAAACTTTTCCAAAATTACATTTTAACTCCCAAACTTTTCCAAAATTACATTTTAA
* * *
47514636 TCTCTAAACTTTTCCAAAATTATA-TTTGA-TCCTTAAACTTTTCCAAAA
1 TCTCTAAACTTTTCCAAAATTACATTTTAACTCC-CAAACTTTTCCAAAA
47514684 CCACATTTAA
Statistics
Matches: 94, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
58 35 0.37
59 29 0.31
60 30 0.32
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.40
Consensus pattern (60 bp):
TCTCTAAACTTTTCCAAAATTACATTTTAACTCCCAAACTTTTCCAAAATTACATTTTAA
Found at i:47514743 original size:87 final size:89
Alignment explanation
Indices: 47514521--47514720 Score: 232
Period size: 88 Copynumber: 2.3 Consensus size: 89
47514511 CAAGAGGTCT
* * * * *
47514521 CCAAACTTTTCCAAAATTACATTTTAACC-CTCAAAC-TTTCC-TAATTACATTTTGA-CACCTA
1 CCAAACTTTTCCAAAATCATATTTTAACCTCT-AAACTTTTCCAAAATTATA-TTTGATC-CTTA
** *
47514582 AACTTTTCCAAAATTACATTTTGACTC
63 AACTTTTCCAAAACCACATTTTAACTC
* *
47514609 CCAAACTTTTCCAAAATTATATTTTAATCTCTAAACTTTTCCAAAATTATATTTGATCCTTAAAC
1 CCAAACTTTTCCAAAATCATATTTTAACCTCTAAACTTTTCCAAAATTATATTTGATCCTTAAAC
47514674 TTTTCCAAAACCACA-TTTAAC-C
66 TTTTCCAAAACCACATTTTAACTC
*
47514696 CCAAACTTTTCTAAAATCATATTTT
1 CCAAACTTTTCCAAAATCATATTTT
47514721 GACCCTCGAG
Statistics
Matches: 98, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
87 24 0.24
88 36 0.37
89 31 0.32
90 7 0.07
ACGTcount: A:0.35, C:0.24, G:0.01, T:0.39
Consensus pattern (89 bp):
CCAAACTTTTCCAAAATCATATTTTAACCTCTAAACTTTTCCAAAATTATATTTGATCCTTAAAC
TTTTCCAAAACCACATTTTAACTC
Found at i:47521032 original size:49 final size:49
Alignment explanation
Indices: 47520962--47521717 Score: 460
Period size: 49 Copynumber: 15.5 Consensus size: 49
47520952 GTACCTTAGT
* * *
47520962 AGATATTATGGGAAAGATTTAAGCCGCAACGGCGAATCCAATACCATGA
1 AGATATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCATGA
* * * * *
47521011 AGATTTGAAGGGAAAGGTTTAAGTCGCAACGGTGAA-CCTTGTACC-TCAGA
1 AGATATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCAT--GA
* * * *
47521061 AG-CATGAAGGGAAATATTTAAGCCGCAACGAAAC-AATCCAGTACCACGA
1 AGATATGAAGGGAAAGATTTAAGCCGCAACG--GCGAATCCAGTACCATGA
* * * * * *
47521110 AGATTTGGAGGGAAAGGTTTAAGTCGCAACGGCGAA-CCTTGTACCTTAGA
1 AGATATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCAT-GA
* *
47521160 AG-CATGAA-GGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGA
1 AGATATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCATGA
* * * *
47521207 AGATATGGAGGGAAAGGTTTAAAGTCGCAACGGCGAA-CCTTGTACC-TCAGA
1 AGATATGAAGGGAAAGATTT-AAGCCGCAACGGCGAATCC-AGTACCAT--GA
* ** * **
47521258 AG-CATGAAGGGAAAGATTTAAGCCGCAACAACGAATCCAATACCACAA
1 AGATATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCATGA
* ** * ** *
47521306 AGATAT-AGAGGGAAAGGTTTAAGTTGTAAATGCGAA-CCTTGTACC-TCAGA
1 AGATATGA-AGGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCAT--GA
* * **
47521356 AG-CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAATACCACAA
1 AGATATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCATGA
* * * * * *
47521404 AGATATGGAGGGAAA-AGTTTAAGTCGCAACGG-TAAACCTTGTACCTTAGA
1 AGATATGAAGGGAAAGA-TTTAAGCCGCAACGGCGAATCC-AGTACCAT-GA
* * *
47521454 AG-CATGAAGGGAAAGATTTAAG-C-C-ACGGTGAATCCAGTACCACGA
1 AGATATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCATGA
* * * * *
47521499 AGATATGGAGGGAAAGGTTTAAGTCGCAACGACGAA-CCTTA-TACC-TCA
1 AGATATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCC--AGTACCATGA
* * * * * * * * *
47521547 AAAGCATCAAGGGAAAAATTTAAGCTGCAACGACGAATCTAGTATCACGA
1 AGA-TATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCATGA
* * * *
47521597 AGATATGGAGGGAAAGATTTAAACCGCAATGGCAAATCCAGTACCATGA
1 AGATATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCATGA
* * * * * * *
47521646 GGATATGATGGGAAAGATTTAAGCTGCAATGGCTAATCTAGTACCACGA
1 AGATATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCATGA
* * *
47521695 AGATTTAAAGGGAAAGGTTTAAG
1 AGATATGAAGGGAAAGATTTAAG
47521718 TCACAACGAT
Statistics
Matches: 527, Mismatches: 136, Indels: 88
0.70 0.18 0.12
Matches are distributed among these distances:
45 4 0.01
46 26 0.05
47 10 0.02
48 61 0.12
49 332 0.63
50 88 0.17
51 6 0.01
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (49 bp):
AGATATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCATGA
Found at i:47521243 original size:98 final size:98
Alignment explanation
Indices: 47520971--47521742 Score: 964
Period size: 98 Copynumber: 7.9 Consensus size: 98
47520961 TAGATATTAT
* * * *
47520971 GGGAAAGATTTAAGCCGCAACGGCGAATCCAATACCATGAAGATTTGAAGGGAAAGGTTTAAGTC
1 GGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTC
*
47521036 GCAACGGTGAACCTTGTACCTCAGAAGCATGAA
66 GCAACGGCGAACCTTGTACCTCAGAAGCATGAA
* * *
47521069 GGGAAATATTTAAGCCGCAACGAAAC-AATCCAGTACCACGAAGATTTGGAGGGAAAGGTTTAAG
1 GGGAAAGATTTAAGCCGCAACG--GCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAG
*
47521133 TCGCAACGGCGAACCTTGTACCTTAGAAGCATGAA
64 TCGCAACGGCGAACCTTGTACCTCAGAAGCATGAA
47521168 -GGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAAGT
1 GGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTT-AAGT
47521232 CGCAACGGCGAACCTTGTACCTCAGAAGCATGAA
65 CGCAACGGCGAACCTTGTACCTCAGAAGCATGAA
** * * * *
47521266 GGGAAAGATTTAAGCCGCAACAACGAATCCAATACCACAAAGATATAGAGGGAAAGGTTTAAGTT
1 GGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTC
* **
47521331 GTAAATGCGAACCTTGTACCTCAGAAGCATGAA
66 GCAACGGCGAACCTTGTACCTCAGAAGCATGAA
* * *
47521364 GGGAAAGATTTAAGCCGCAACGGCGAATCCAATACCACAAAGATATGGAGGGAAAAGTTTAAGTC
1 GGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTC
** *
47521429 GCAACGGTAAACCTTGTACCTTAGAAGCATGAA
66 GCAACGGCGAACCTTGTACCTCAGAAGCATGAA
*
47521462 GGGAAAGATTTAAG-C-C-ACGGTGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTC
1 GGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTC
* * * *
47521524 GCAACGACGAACCTTATACCTCAAAAGCATCAA
66 GCAACGGCGAACCTTGTACCTCAGAAGCATGAA
* * * * * * **
47521557 GGGAAAAATTTAAGCTGCAACGACGAATCTAGTATCACGAAGATATGGAGGGAAAGATTTAAACC
1 GGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTC
* * * * * * *
47521622 GCAATGGCAAATCC-AGTACCATGAGGA-TATGAT
66 GCAACGGCGAA-CCTTGTACC-TCAGAAGCATGAA
* * * * * **
47521655 GGGAAAGATTTAAGCTGCAATGGCTAATCTAGTACCACGAAGATTTAAAGGGAAAGGTTTAAGTC
1 GGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTC
* **
47521720 ACAACGATGAACCTTGTACCTCA
66 GCAACGGCGAACCTTGTACCTCA
47521743 AAAACATAAA
Statistics
Matches: 583, Mismatches: 80, Indels: 23
0.85 0.12 0.03
Matches are distributed among these distances:
95 81 0.14
96 2 0.00
97 40 0.07
98 332 0.57
99 127 0.22
100 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (98 bp):
GGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTC
GCAACGGCGAACCTTGTACCTCAGAAGCATGAA
Found at i:47522130 original size:40 final size:38
Alignment explanation
Indices: 47522081--47522155 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 38
47522071 TCACCATCTA
* *
47522081 ATCTCTTACCCCGATCATGGGGCAAATTAAAAACCATCCG
1 ATCTCTTA-CCCAATCATGAGGCAAATT-AAAACCATCCG
* *
47522121 ATCTTTTACCCAATCATGAGGCAAATTGAAACCAT
1 ATCTCTTACCCAATCATGAGGCAAATTAAAACCAT
47522156 AATTCAATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 7 0.23
39 17 0.55
40 7 0.23
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.25
Consensus pattern (38 bp):
ATCTCTTACCCAATCATGAGGCAAATTAAAACCATCCG
Found at i:47522736 original size:24 final size:25
Alignment explanation
Indices: 47522709--47522755 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
47522699 CAAATAACCT
*
47522709 AAACACTAAGCCCAATT-CCTAAAC
1 AAACACTAAACCCAATTACCTAAAC
*
47522733 AAACCCTAAACCCAATTACCTAA
1 AAACACTAAACCCAATTACCTAA
47522756 CAAGCCCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.47, C:0.34, G:0.02, T:0.17
Consensus pattern (25 bp):
AAACACTAAACCCAATTACCTAAAC
Found at i:47524155 original size:30 final size:30
Alignment explanation
Indices: 47524124--47524388 Score: 329
Period size: 30 Copynumber: 8.9 Consensus size: 30
47524114 AGAGGTTCCC
* *
47524124 AAACTTTTCAAAAATTACATTTTAACCCCC
1 AAACTTTTCCAAAATTACATTTTAACCCCT
* * * * *
47524154 AAAATTTTTCAAAATTATATTTTGA-CCAT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
*
47524183 AAACTTTTCCAAAATTATATTTTAACCCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
*
47524213 AAAC-TTTCCAAAACTACATTTTAACCCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
47524242 AAACTTTTCCAAAATTACATTTTAACCCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
* *
47524272 AAACTTTTCCAAAATTATATTTTGACCCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
* * *
47524302 AAACTTTTCTAAAATTATA-TTTGACCCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
**
47524331 AAACTTTTCCAAAACCACATTTTAACCCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
* ** *
47524361 AAAATTTTCCAAAACCACATTTTGACCC
1 AAACTTTTCCAAAATTACATTTTAACCC
47524389 TCTAGTTTTT
Statistics
Matches: 208, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
29 76 0.37
30 132 0.63
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.36
Consensus pattern (30 bp):
AAACTTTTCCAAAATTACATTTTAACCCCT
Found at i:47524383 original size:89 final size:90
Alignment explanation
Indices: 47524124--47524413 Score: 354
Period size: 89 Copynumber: 3.3 Consensus size: 90
47524114 AGAGGTTCCC
* * * * * * *
47524124 AAACTTTTCAAAAATTACATTTTAACCCCCAAAATTTTTCAAAATTATATTTTGA-CCATAAACT
1 AAACTTTTCTAAAATTACATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACCCCTAAACT
*
47524188 TTTCCAAAATTATATTTTAACCCCT
66 TTTCCAAAATTATATTTTGACCCCT
* *
47524213 AAAC-TTTCCAAAACTACATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACCCCTAAACT
1 AAACTTTTCTAAAATTACATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACCCCTAAACT
47524277 TTTCCAAAATTATATTTTGACCCCT
66 TTTCCAAAATTATATTTTGACCCCT
* * ** *
47524302 AAACTTTTCTAAAATTATA-TTTGACCCCTAAACTTTTCCAAAACCACATTTTAACCCCTAAAAT
1 AAACTTTTCTAAAATTACATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACCCCTAAACT
** *
47524366 TTTCCAAAACCACATTTTGACCCTCT
66 TTTCCAAAATTATATTTTGACCC-CT
** *
47524392 -AGTTTTTCTAAAATTTCATTTT
1 AAACTTTTCTAAAATTACATTTT
47524414 CATCCTGAGT
Statistics
Matches: 174, Mismatches: 23, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
88 43 0.25
89 115 0.66
90 16 0.09
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (90 bp):
AAACTTTTCTAAAATTACATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACCCCTAAACT
TTTCCAAAATTATATTTTGACCCCT
Found at i:47524412 original size:60 final size:60
Alignment explanation
Indices: 47524124--47524413 Score: 295
Period size: 59 Copynumber: 4.9 Consensus size: 60
47524114 AGAGGTTCCC
* * * * * * *
47524124 AAACTTTTCAAAAATTACATTTTAACCCCCAAAATTTTTCAAAATTAT-ATTTTGA-CCAT
1 AAACTTTTCCAAAATTACATTTTGACCCCTAAACTTTTCCAAAATT-TCATTTTAACCCCT
* * * *
47524183 AAACTTTTCCAAAATTATATTTTAACCCCTAAAC-TTTCCAAAACTACATTTTAACCCCT
1 AAACTTTTCCAAAATTACATTTTGACCCCTAAACTTTTCCAAAATTTCATTTTAACCCCT
* *
47524242 AAACTTTTCCAAAATTACATTTTAACCCCTAAACTTTTCCAAAATTAT-ATTTTGACCCCT
1 AAACTTTTCCAAAATTACATTTTGACCCCTAAACTTTTCCAAAATT-TCATTTTAACCCCT
* * ***
47524302 AAACTTTTCTAAAATTATA-TTTGACCCCTAAACTTTTCCAAAACCACATTTTAACCCCT
1 AAACTTTTCCAAAATTACATTTTGACCCCTAAACTTTTCCAAAATTTCATTTTAACCCCT
* ** ** *
47524361 AAAATTTTCCAAAACCACATTTTGACCCTCT-AGTTTTTCTAAAATTTCATTTT
1 AAACTTTTCCAAAATTACATTTTGACCC-CTAAACTTTTCCAAAATTTCATTTT
47524414 CATCCTGAGT
Statistics
Matches: 193, Mismatches: 31, Indels: 13
0.81 0.13 0.05
Matches are distributed among these distances:
58 15 0.08
59 114 0.59
60 62 0.32
61 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (60 bp):
AAACTTTTCCAAAATTACATTTTGACCCCTAAACTTTTCCAAAATTTCATTTTAACCCCT
Found at i:47527711 original size:47 final size:46
Alignment explanation
Indices: 47527660--47527748 Score: 117
Period size: 47 Copynumber: 1.9 Consensus size: 46
47527650 TCATTAATAT
* *
47527660 TGTTCGTGAACATGTTCAATTATATGTT-CATGAACATGTTTGTTTAA
1 TGTTCGTGAACATGCTCAATTA-A-GTTAAATGAACATGTTTGTTTAA
* *
47527707 TGTTCGTGAGCATGCTCGATTAAGTTAAATGAACATGTTTGT
1 TGTTCGTGAACATGCTCAATTAAGTTAAATGAACATGTTTGT
47527749 GAACATTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
45 3 0.08
46 15 0.41
47 19 0.51
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (46 bp):
TGTTCGTGAACATGCTCAATTAAGTTAAATGAACATGTTTGTTTAA
Found at i:47534845 original size:6 final size:6
Alignment explanation
Indices: 47534823--47534882 Score: 54
Period size: 6 Copynumber: 10.5 Consensus size: 6
47534813 GTTAAAATTG
* * * *
47534823 ATTTAA ATTTAT A-TTAA ATTTAA ATTT-A CTCTAA ATTTAA GTTT-A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
*
47534868 ATTGAA ATTTAA ATT
1 ATTTAA ATTTAA ATT
47534883 GATATTAAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
5 10 0.24
6 31 0.76
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:47534845 original size:17 final size:17
Alignment explanation
Indices: 47534823--47534891 Score: 79
Period size: 17 Copynumber: 4.1 Consensus size: 17
47534813 GTTAAAATTG
47534823 ATTTAAATTTATATTAA
1 ATTTAAATTTATATTAA
*
47534840 ATTTAAATTTACT-CTAA
1 ATTTAAATTTA-TATTAA
*
47534857 ATTTAAGTTTA-ATTGAA
1 ATTTAAATTTATATT-AA
*
47534874 ATTTAAATTGATATTAA
1 ATTTAAATTTATATTAA
47534891 A
1 A
47534892 AACCCAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
16 1 0.02
17 38 0.88
18 4 0.09
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (17 bp):
ATTTAAATTTATATTAA
Found at i:47536775 original size:30 final size:30
Alignment explanation
Indices: 47536741--47536814 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 30
47536731 TAAACTGTCC
*
47536741 AAAAATTATATTTTTGAC-CCTAAAACTTAA
1 AAAAATTATATTTTTGACATC-AAAACTTAA
* * **
47536771 AAAAAATACA-TTTTGACATCAAAACTTCC
1 AAAAATTATATTTTTGACATCAAAACTTAA
47536800 AAAAATTATCATTTT
1 AAAAATTAT-ATTTT
47536815 ACCCCCGAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
29 21 0.62
30 10 0.29
31 3 0.09
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAAATTATATTTTTGACATCAAAACTTAA
Done.