Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 31 of 167
Found at i:9268687 original size:19 final size:20
Alignment explanation
Indices: 9268635--9268687 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
9268625 TTGATAATGC
9268635 TTTTCT-ATTGATTTTGTACT
1 TTTTCTAATTG-TTTTGTACT
* * *
9268655 TTTTCCACTCGTTTTG-ACT
1 TTTTCTAATTGTTTTGTACT
9268674 TTTTCTAATTGTTT
1 TTTTCTAATTGTTT
9268688 CTTTATTCAC
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
19 14 0.54
20 10 0.38
21 2 0.08
ACGTcount: A:0.13, C:0.15, G:0.09, T:0.62
Consensus pattern (20 bp):
TTTTCTAATTGTTTTGTACT
Found at i:9288694 original size:23 final size:23
Alignment explanation
Indices: 9288661--9288738 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
9288651 GACGCCACAT
9288661 AGGTGCTTGGGGAGTGGCGTGGG
1 AGGTGCTTGGGGAGTGGCGTGGG
* ** * *
9288684 AGATGCTTGGGTTCGAGGCAT---
1 AGGTGCTTGGG-GAGTGGCGTGGG
9288705 AGGTGCTTGGGGAGTGGCGTGGG
1 AGGTGCTTGGGGAGTGGCGTGGG
9288728 AGGTGCTTGGG
1 AGGTGCTTGGG
9288739 TTCAAGGCAT
Statistics
Matches: 41, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
20 5 0.12
21 10 0.24
23 21 0.51
24 5 0.12
ACGTcount: A:0.12, C:0.10, G:0.54, T:0.24
Consensus pattern (23 bp):
AGGTGCTTGGGGAGTGGCGTGGG
Found at i:9288721 original size:44 final size:44
Alignment explanation
Indices: 9288658--9288748 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
9288648 TGTGACGCCA
*
9288658 CATAGGTGCTTGGGGAGTGGCGTGGGAGATGCTTGGGTTCGAGG
1 CATAGGTGCTTGGGGAGTGGCGTGGGAGATGCTTGGGTTCAAGG
*
9288702 CATAGGTGCTTGGGGAGTGGCGTGGGAGGTGCTTGGGTTCAAGG
1 CATAGGTGCTTGGGGAGTGGCGTGGGAGATGCTTGGGTTCAAGG
9288746 CAT
1 CAT
9288749 GGCGCGCGCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.14, C:0.12, G:0.48, T:0.25
Consensus pattern (44 bp):
CATAGGTGCTTGGGGAGTGGCGTGGGAGATGCTTGGGTTCAAGG
Found at i:9290661 original size:27 final size:26
Alignment explanation
Indices: 9290593--9290703 Score: 116
Period size: 27 Copynumber: 4.1 Consensus size: 26
9290583 GGAAGCATTT
* *
9290593 TGGTGGCTATGCCACAAACATCTGTTTC
1 TGGTGGCTCTGCCAC-AATATCTG-TTC
*
9290621 TAGTGGCTAC-GCCACAAATATCTGTTC
1 TGGTGGCT-CTGCCAC-AATATCTGTTC
9290648 TGGTGGCTCTGCCACAATATCTGTATC
1 TGGTGGCTCTGCCACAATATCTGT-TC
* * *
9290675 TAGTGACTCTGTCACAATATCTGTTC
1 TGGTGGCTCTGCCACAATATCTGTTC
9290701 TGG
1 TGG
9290704 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 14 0.19
27 38 0.53
28 20 0.28
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (26 bp):
TGGTGGCTCTGCCACAATATCTGTTC
Found at i:9290691 original size:54 final size:54
Alignment explanation
Indices: 9290593--9290703 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
9290583 GGAAGCATTT
* *
9290593 TGGTGGCTATGCCACAAACATCTGTTTCTAGTGGCTACGCCACAAATATCTGTTC
1 TGGTGGCTATGCCACAAACATCTGTATCTAGTGACTACGCCAC-AATATCTGTTC
* * *
9290648 TGGTGGCTCTGCCAC-AATATCTGTATCTAGTGACT-CTGTCACAATATCTGTTC
1 TGGTGGCTATGCCACAAACATCTGTATCTAGTGACTAC-GCCACAATATCTGTTC
9290701 TGG
1 TGG
9290704 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
53 15 0.30
54 21 0.42
55 14 0.28
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (54 bp):
TGGTGGCTATGCCACAAACATCTGTATCTAGTGACTACGCCACAATATCTGTTC
Found at i:9300302 original size:26 final size:25
Alignment explanation
Indices: 9300273--9300324 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
9300263 ATTTTGTATC
*
9300273 TTTTA-ATTTTAAGCTATTAATTATTA
1 TTTTACATTTTAACCT-TT-ATTATTA
9300299 TTTTACCATTTTAACCTTTATTATTA
1 TTTTA-CATTTTAACCTTTATTATTA
9300325 AACATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 12 0.52
27 2 0.09
28 9 0.39
ACGTcount: A:0.31, C:0.10, G:0.02, T:0.58
Consensus pattern (25 bp):
TTTTACATTTTAACCTTTATTATTA
Found at i:9301032 original size:21 final size:21
Alignment explanation
Indices: 9301006--9301061 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
9300996 ACCCATAAAG
9301006 GTTGAACGGAAGCTCGTAAGA
1 GTTGAACGGAAGCTCGTAAGA
* * *
9301027 GTTGAACGGAAACCCGTAAGG
1 GTTGAACGGAAGCTCGTAAGA
* *
9301048 GTTAAACAGAAGCT
1 GTTGAACGGAAGCT
9301062 TAATAGAGCT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.18
Consensus pattern (21 bp):
GTTGAACGGAAGCTCGTAAGA
Found at i:9301112 original size:42 final size:41
Alignment explanation
Indices: 9300968--9301122 Score: 114
Period size: 42 Copynumber: 3.7 Consensus size: 41
9300958 CCGGAGGATG
* * ** *
9300968 AACAGAAGCTCATGAGAGCTAAATAGAAACCCATAA-AGGTTG
1 AACAGAAGCTCGT-AGAGCTGAACGGAAACCCATAAGA-GTTA
* * * *
9301010 AACGGAAGCTCGTAAGAGTTGAACGGAAACCCGTAAGGGTTA
1 AACAGAAGCTCGT-AGAGCTGAACGGAAACCCATAAGAGTTA
** * *
9301052 AACAGAAGCTTAATAGAGCTGAACGGAAACTCATATGAGTTA
1 AACAGAAGC-TCGTAGAGCTGAACGGAAACCCATAAGAGTTA
* * *
9301094 AATAGAAGCTCGTGAGAGCTAAATGGAAA
1 AACAGAAGCTCGT-AGAGCTGAACGGAAA
9301123 GTAAACCTGA
Statistics
Matches: 87, Mismatches: 23, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
41 2 0.02
42 83 0.95
43 2 0.02
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.18
Consensus pattern (41 bp):
AACAGAAGCTCGTAGAGCTGAACGGAAACCCATAAGAGTTA
Found at i:9309768 original size:36 final size:36
Alignment explanation
Indices: 9309690--9309761 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
9309680 TCTTAGAGTA
*
9309690 TGCCAAAATGTCGTTGATGAAGACCACGATGAATTG
1 TGCCAAAATGTCATTGATGAAGACCACGATGAATTG
9309726 TGCCAAAATGTCATTGATGAAGACCACGATGAATTG
1 TGCCAAAATGTCATTGATGAAGACCACGATGAATTG
9309762 ATCCAAATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.25
Consensus pattern (36 bp):
TGCCAAAATGTCATTGATGAAGACCACGATGAATTG
Found at i:9312987 original size:35 final size:35
Alignment explanation
Indices: 9312941--9313022 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
9312931 TCAGTTATAA
* * *
9312941 ACAGATACAGATTTGGGCTTAAGCCCAT-TACAGAT
1 ACAGATACAGATTCGAGCCTAAGCCCATCT-CAGAT
*
9312976 ACAGATGCAGATTCGAGCCTAAGCCCATCTCAGAT
1 ACAGATACAGATTCGAGCCTAAGCCCATCTCAGAT
*
9313011 ATAGATACAGAT
1 ACAGATACAGAT
9313023 GTACAAATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
35 39 0.98
36 1 0.03
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (35 bp):
ACAGATACAGATTCGAGCCTAAGCCCATCTCAGAT
Found at i:9318228 original size:22 final size:22
Alignment explanation
Indices: 9318203--9318353 Score: 110
Period size: 22 Copynumber: 6.9 Consensus size: 22
9318193 ACGTGCAATC
* *
9318203 AGAGAGTACATAAGTGCTAAAT
1 AGAGAGCACAAAAGTGCTAAAT
* *
9318225 AGAGAGCACCAAAGT--TTAAT
1 AGAGAGCACAAAAGTGCTAAAT
* * * * * *
9318245 CAGCGAGTACATAAGTGTTATAC
1 -AGAGAGCACAAAAGTGCTAAAT
9318268 AGAGAGCACAAAAGTGC-AAATT
1 AGAGAGCACAAAAGTGCTAAA-T
* * *
9318290 AGAGAGCCCAAAAGTGATAATT
1 AGAGAGCACAAAAGTGCTAAAT
* *
9318312 AGAGAGCATAAAAGTACTAAAT
1 AGAGAGCACAAAAGTGCTAAAT
**
9318334 AGAGAGCACTGAAGTGCTAA
1 AGAGAGCACAAAAGTGCTAA
9318354 TCCGAGATCC
Statistics
Matches: 95, Mismatches: 29, Indels: 10
0.71 0.22 0.07
Matches are distributed among these distances:
20 4 0.04
21 13 0.14
22 74 0.78
23 4 0.04
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (22 bp):
AGAGAGCACAAAAGTGCTAAAT
Found at i:9318235 original size:43 final size:43
Alignment explanation
Indices: 9318187--9318319 Score: 131
Period size: 43 Copynumber: 3.1 Consensus size: 43
9318177 ACAATCAAAG
* *
9318187 GCACCAACGTGCAATCAGAGAGTACATAAGTGCTAAATAGAGA
1 GCACCAAAGTGCAATCAGAGAGTACATAAGTGATAAATAGAGA
** * * * *
9318230 GCACCAAAGTTTAATCAGCGAGTACATAAGTGTTATACAGAGA
1 GCACCAAAGTGCAATCAGAGAGTACATAAGTGATAAATAGAGA
* * ** * *
9318273 GCACAAAAGTGCAAATTAGAGAGCCCAAAAGTGATAATTAGAGA
1 GCACCAAAGTGC-AATCAGAGAGTACATAAGTGATAAATAGAGA
9318317 GCA
1 GCA
9318320 TAAAAGTACT
Statistics
Matches: 70, Mismatches: 19, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
43 45 0.64
44 25 0.36
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.18
Consensus pattern (43 bp):
GCACCAAAGTGCAATCAGAGAGTACATAAGTGATAAATAGAGA
Found at i:9319555 original size:23 final size:23
Alignment explanation
Indices: 9319511--9319555 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
9319501 TTAAAAAGTA
*
9319511 GTTAATTTCCAATTTAAACCTTG
1 GTTAATTTCCAATATAAACCTTG
*
9319534 GTTAATTTACC-ATATAAGCCTT
1 GTTAATTT-CCAATATAAACCTT
9319556 TTAACTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (23 bp):
GTTAATTTCCAATATAAACCTTG
Found at i:9322433 original size:81 final size:79
Alignment explanation
Indices: 9322344--9322628 Score: 279
Period size: 81 Copynumber: 3.5 Consensus size: 79
9322334 GTGTAAACAC
*
9322344 GGCACGTATGTGC-ATTTCAGGGGTACCAAAGTACAACATAGGCACATATGTGCAATTCAGGGGT
1 GGCACGTATGTGCAATTT-AGGGGTACCAAAGTACAA-ATAGGCACGTATGTGCAATTCAGGGGT
*
9322408 ACCGCAGTACAAATAAG
64 ACTG-AGTACAAATAAG
* * * **
9322425 GGCACGTATGTGAAATTCAGGGGTACCGAAGTATGAATAAGGGCACGTATGTGCAA-TCAGGGGT
1 GGCACGTATGTGCAATTTAGGGGTACCAAAGTACAAAT-A-GGCACGTATGTGCAATTCAGGGGT
* *
9322489 GCTGATGGACAAA-AAG
64 ACTGA-GTACAAATAAG
* * * ** *
9322505 GGCACATATGTGCAATTTAGGGGTACCAAAGTACAAACATGGGCATGTATGTAAAATTTAGGGGT
1 GGCACGTATGTGCAATTTAGGGGTACCAAAGTAC-AA-ATAGGCACGTATGTGCAATTCAGGGGT
* * * *
9322570 ACTAAAATGCAAATAGGG
64 ACT-GAGTACAAATA-AG
*
9322588 GGCACGTATGTGCAATTTAGGGGTACCGAAGTACAAATAGG
1 GGCACGTATGTGCAATTTAGGGGTACCAAAGTACAAATAGG
9322629 GGCACGCATA
Statistics
Matches: 165, Mismatches: 29, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
80 47 0.28
81 62 0.38
82 23 0.14
83 33 0.20
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (79 bp):
GGCACGTATGTGCAATTTAGGGGTACCAAAGTACAAATAGGCACGTATGTGCAATTCAGGGGTAC
TGAGTACAAATAAG
Found at i:9322442 original size:41 final size:41
Alignment explanation
Indices: 9322344--9322650 Score: 298
Period size: 41 Copynumber: 7.5 Consensus size: 41
9322334 GTGTAAACAC
* *
9322344 GGCACGTATGTGCATTTCAGGGGTACCAAAGTACAACAT-A-
1 GGCACGTATGTGCAATTCAGGGGTACCGAAGTACAA-ATAAG
* *
9322384 GGCACATATGTGCAATTCAGGGGTACCGCAGTACAAATAAG
1 GGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAATAAG
* **
9322425 GGCACGTATGTGAAATTCAGGGGTACCGAAGTATGAATAAG
1 GGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAATAAG
* * * *
9322466 GGCACGTATGTGCAA-TCAGGGGTGCTGATGGACAAA-AAG
1 GGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAATAAG
* * * * *
9322505 GGCACATATGTGCAATTTAGGGGTACCAAAGTACAAACATG
1 GGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAATAAG
* ** * ** * * *
9322546 GGCATGTATGTAAAATTTAGGGGTACTAAAATGCAAATAGGG
1 GGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAATA-AG
* *
9322588 GGCACGTATGTGCAATTTAGGGGTACCGAAGTACAAATAGG
1 GGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAATAAG
* * *
9322629 GGCACGCATATACAATTCAGGG
1 GGCACGTATGTGCAATTCAGGG
9322651 AATAATTAAG
Statistics
Matches: 218, Mismatches: 44, Indels: 9
0.80 0.16 0.03
Matches are distributed among these distances:
39 19 0.09
40 63 0.29
41 103 0.47
42 33 0.15
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (41 bp):
GGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAATAAG
Found at i:9331483 original size:20 final size:20
Alignment explanation
Indices: 9331460--9331500 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
9331450 AAACAGTAGC
9331460 TCATCCATATAAATAGTATT
1 TCATCCATATAAATAGTATT
9331480 TCATCCATATAAATAGTATT
1 TCATCCATATAAATAGTATT
9331500 T
1 T
9331501 ATGCCCGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (20 bp):
TCATCCATATAAATAGTATT
Found at i:9331710 original size:24 final size:24
Alignment explanation
Indices: 9331635--9331712 Score: 77
Period size: 24 Copynumber: 3.3 Consensus size: 24
9331625 AAGCTGATGG
*
9331635 ACAGTAAGCTCTGACGAGCTAAAA
1 ACAGTAAGCTCTAACGAGCTAAAA
* * * * *
9331659 ATAGTAAGCTTTTATGAG-TTAAA
1 ACAGTAAGCTCTAACGAGCTAAAA
* *
9331682 ACAGTAAGCTCCAACGAGCTGAAA
1 ACAGTAAGCTCTAACGAGCTAAAA
9331706 ACAGTAA
1 ACAGTAA
9331713 ACACTTATGA
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
23 17 0.40
24 25 0.60
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (24 bp):
ACAGTAAGCTCTAACGAGCTAAAA
Found at i:9336841 original size:165 final size:165
Alignment explanation
Indices: 9336564--9336895 Score: 531
Period size: 165 Copynumber: 2.0 Consensus size: 165
9336554 TACTTGAGTC
* *
9336564 ATGTATAATGTACTTTATTATAGTCAGTCATATCTATGTCTCTATTTTTCAAGAGACATCTGCTT
1 ATGTATAATGTACTTTATTACAGTCAGTCATATATATGTCTCTATTTTTCAAGAGACATCTGCTT
* * * * * *
9336629 CTATACCTAAGTTAAGATATCTTCCAATTGGACTTGATAGACAACATATTAGTCTTT-TATTCGA
66 CAATACCTAAGATAAGATATCTCCCAATTGGACTTGACAGACAACATATTAATCTTTCAATT-GA
*
9336693 TTTGCTCAATTTTGATTAGACTAAGAATGTATTTAG
130 TTTGCTCAATTTTGATTAGACTAAGAATATATTTAG
*
9336729 ATGTATAATGTACTTTATTCCAGTCAGTCATATATATGTCTCTATTTTTCAAGAGACATCTGCTT
1 ATGTATAATGTACTTTATTACAGTCAGTCATATATATGTCTCTATTTTTCAAGAGACATCTGCTT
* *
9336794 CAATACCTAAGATAAGATATCTCCCAATTGGACTTGGCAGGCAACATATTAATCTTTCAATTGAT
66 CAATACCTAAGATAAGATATCTCCCAATTGGACTTGACAGACAACATATTAATCTTTCAATTGAT
*
9336859 TTGTTCAATTTTGATTAGACTAAGAATATATTTAG
131 TTGCTCAATTTTGATTAGACTAAGAATATATTTAG
9336894 AT
1 AT
9336896 TATCTATTAA
Statistics
Matches: 153, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
165 150 0.98
166 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.40
Consensus pattern (165 bp):
ATGTATAATGTACTTTATTACAGTCAGTCATATATATGTCTCTATTTTTCAAGAGACATCTGCTT
CAATACCTAAGATAAGATATCTCCCAATTGGACTTGACAGACAACATATTAATCTTTCAATTGAT
TTGCTCAATTTTGATTAGACTAAGAATATATTTAG
Found at i:9337391 original size:204 final size:207
Alignment explanation
Indices: 9337030--9337442 Score: 645
Period size: 204 Copynumber: 2.0 Consensus size: 207
9337020 CTGAAGGTTT
*
9337030 ATGGTTTGTCATAAAATATACTTCATTCCCATGAGTAAGGATCAAACCTTGAAACTCCAAGCTTG
1 ATGGTTGGTCATAAAATATACTTCATTCCCATGAGTAAGGATCAAACCTTGAAACTCCAAGCTTG
* * * * *
9337095 TGATTATGGGATGAAGTAAACAACCACCACACCACGCCTCATCGTTATGTATAAAATTGGTGATT
66 TGATTATGAGATGAAATAAACAACCACCACACCACACCTCATCATTATATATAAAATTGGTGATT
* *
9337160 TTGATTCAAACTCTAAAAAAATCAATAAAGTTAACCTCCAACATTTACAAAATGTCAA-AT-TAT
131 TTAATTCAAACTCCAAAAAAATCAATAAAGTTAACCTCCAACATTTACAAAATGTCAAGATATAT
9337223 A-ATTTTTAAAA
196 ATATTTTTAAAA
* *
9337234 ATGGTTGGTCATAAAATATACTTCATTCCCATGAGTAAGGATCAAACCTT-AAACCTCTAATCTT
1 ATGGTTGGTCATAAAATATACTTCATTCCCATGAGTAAGGATCAAACCTTGAAA-CTCCAAGCTT
* * * *
9337298 GTGATTATGAGATGAAATAAACAACCACCACACTACACCTCATTATTTTATATAAAATTTGTGAT
65 GTGATTATGAGATGAAATAAACAACCACCACACCACACCTCATCATTATATATAAAATTGGTGAT
* *
9337363 TTTAATTCAAACTCCAAAAAATTCAATAAAGTTAACCTCCAACATTTACAAAATGTCAAGTTATA
130 TTTAATTCAAACTCCAAAAAAATCAATAAAGTTAACCTCCAACATTTACAAAATGTCAAGATATA
9337428 TATATTTTTAAAA
195 TATATTTTTAAAA
9337441 AT
1 AT
9337443 TTATAAAATT
Statistics
Matches: 189, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
203 3 0.02
204 169 0.89
205 1 0.01
206 4 0.02
207 12 0.06
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (207 bp):
ATGGTTGGTCATAAAATATACTTCATTCCCATGAGTAAGGATCAAACCTTGAAACTCCAAGCTTG
TGATTATGAGATGAAATAAACAACCACCACACCACACCTCATCATTATATATAAAATTGGTGATT
TTAATTCAAACTCCAAAAAAATCAATAAAGTTAACCTCCAACATTTACAAAATGTCAAGATATAT
ATATTTTTAAAA
Found at i:9340777 original size:29 final size:29
Alignment explanation
Indices: 9340744--9340801 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
9340734 CGGTGTAATT
9340744 CCTGCTAATGTGAATTTTGTGAAAGAGGA
1 CCTGCTAATGTGAATTTTGTGAAAGAGGA
* * *
9340773 CCTGCTGATGTGATTTTTGTGATAGAGGA
1 CCTGCTAATGTGAATTTTGTGAAAGAGGA
9340802 GAAGCCACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.26, C:0.10, G:0.29, T:0.34
Consensus pattern (29 bp):
CCTGCTAATGTGAATTTTGTGAAAGAGGA
Found at i:9342476 original size:2 final size:2
Alignment explanation
Indices: 9342469--9342493 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9342459 TTAAACATGT
9342469 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9342494 TAAAACTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9347161 original size:29 final size:29
Alignment explanation
Indices: 9347127--9347184 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
9347117 AACACAATCG
*
9347127 CATAGTATTCGTAGCATTAACCACCATAT
1 CATAGTACTCGTAGCATTAACCACCATAT
9347156 CATAGTACTCGTAGCATTAACCACCATAT
1 CATAGTACTCGTAGCATTAACCACCATAT
9347185 TGCATATCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.29
Consensus pattern (29 bp):
CATAGTACTCGTAGCATTAACCACCATAT
Found at i:9348776 original size:23 final size:24
Alignment explanation
Indices: 9348745--9348807 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 24
9348735 TAAATGTTGC
9348745 AGATAAAACCTGCTAATACAATGT
1 AGATAAAACCTGCTAATACAATGT
* * *
9348769 GGAT-AAACC-ACTAAT-CAGTGT
1 AGATAAAACCTGCTAATACAATGT
*
9348790 AGATAAAAACTGCTAATA
1 AGATAAAACCTGCTAATA
9348808 TGGTATGGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
21 8 0.27
22 9 0.30
23 10 0.33
24 3 0.10
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (24 bp):
AGATAAAACCTGCTAATACAATGT
Found at i:9348861 original size:44 final size:45
Alignment explanation
Indices: 9348745--9348871 Score: 157
Period size: 45 Copynumber: 2.8 Consensus size: 45
9348735 TAAATGTTGC
* * *
9348745 AGATAAAACCTGCTAATACAATGTGGATAAACCACTAATCAGTGT
1 AGATAAAAACTGCTAATACGATGTGGATAAACCACTAATCAGTAT
* * *
9348790 AGATAAAAACTGCTAATATGGTATGGATAAACCACTAATC-GTAT
1 AGATAAAAACTGCTAATACGATGTGGATAAACCACTAATCAGTAT
** * *
9348834 AGATAAAAGTTGCTAATACGACGTGGATTAACCACTAA
1 AGATAAAAACTGCTAATACGATGTGGATAAACCACTAA
9348872 ACGGTGAAGA
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
44 34 0.49
45 35 0.51
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.25
Consensus pattern (45 bp):
AGATAAAAACTGCTAATACGATGTGGATAAACCACTAATCAGTAT
Found at i:9351831 original size:26 final size:26
Alignment explanation
Indices: 9351795--9351850 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
9351785 TAGTAAATGC
9351795 TATTTTGAAATTAT-TATTAAGTATTA
1 TATTTTGAAATT-TGTATTAAGTATTA
* **
9351821 TATTTTTAAATTTGTATTATTTATTA
1 TATTTTGAAATTTGTATTAAGTATTA
9351847 TATT
1 TATT
9351851 ATTATCATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (26 bp):
TATTTTGAAATTTGTATTAAGTATTA
Found at i:9354935 original size:200 final size:200
Alignment explanation
Indices: 9354588--9354987 Score: 712
Period size: 200 Copynumber: 2.0 Consensus size: 200
9354578 TTTGGTGTAT
*
9354588 TTGTCTTGTGATATATATTAACGCTATTCTTCTGCATGAGTCAACGTTTTAGATAAAGAAATTCA
1 TTGTCTTGTGATACATATTAACGCTATTCTTCTGCATGAGTCAACGTTTTAGATAAAGAAATTCA
* *
9354653 TTTTACCAAATTCCTCAAAAGTTTTCCAAAATAAAAGGCAATGCTTGATGTTTGGAAACTTCGAG
66 TTTTACCAAATTCCTCAAAAGTTTTCCAAAATAAAAGACAATGCTTGATGTTTGAAAACTTCGAG
* * *
9354718 CAAGGTAGTGTCCTAACTTACTGGGTTGCGACTTTTCTCGTTGAATTCGAATAGTCAAGCACCTT
131 AAAGGTAGTGCCCTAACTTACTGGGTTGCGACTTTTCTCGTTGAATTCGAATAGTCAAGCACCCT
9354783 TCTAA
196 TCTAA
9354788 TTGTCTTGTGATACATATTAACG-TCATTCTTCTGCATGAGTCAACGTTTTAGATAAAGAAATTC
1 TTGTCTTGTGATACATATTAACGCT-ATTCTTCTGCATGAGTCAACGTTTTAGATAAAGAAATTC
* *
9354852 ATTTTACCTAATTCCTCAAAAGTTTTCTAAAATAAAAGACAATGCTTGATGTTTGAAAACTTCGA
65 ATTTTACCAAATTCCTCAAAAGTTTTCCAAAATAAAAGACAATGCTTGATGTTTGAAAACTTCGA
9354917 GAAAGGTAGTGCCCTAACTTACTGGGTTGCGACTTTTCTCGTTGAATTCGAATAGTCAAGCACCC
130 GAAAGGTAGTGCCCTAACTTACTGGGTTGCGACTTTTCTCGTTGAATTCGAATAGTCAAGCACCC
9354982 TTCTAA
195 TTCTAA
9354988 GTGATTTTGA
Statistics
Matches: 191, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
199 1 0.01
200 190 0.99
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (200 bp):
TTGTCTTGTGATACATATTAACGCTATTCTTCTGCATGAGTCAACGTTTTAGATAAAGAAATTCA
TTTTACCAAATTCCTCAAAAGTTTTCCAAAATAAAAGACAATGCTTGATGTTTGAAAACTTCGAG
AAAGGTAGTGCCCTAACTTACTGGGTTGCGACTTTTCTCGTTGAATTCGAATAGTCAAGCACCCT
TCTAA
Found at i:9367834 original size:175 final size:175
Alignment explanation
Indices: 9367543--9367886 Score: 555
Period size: 175 Copynumber: 2.0 Consensus size: 175
9367533 GATCCAGGAT
* *
9367543 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTAG
*
9367608 CAGGGAGCAGATCAAAGACATAGTTGATTTGACTTTCACGTGTTTACGTTGAAGCAAATCTAAAA
66 CAGGGAGCAGATCAAAGACATAGCTGATTTGACTTTCACGTGTTTACGTTGAAGCAAATCTAAAA
*
9367673 TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATGGAAGGCAGCA
131 TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGGCAGCA
* * * *
9367718 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATACCAAATTTGGCGTTTCTGTATTAT
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTAG
* * * *
9367783 CAGGGAGCCA-ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAG
66 CAGGGAG-CAGATCAAAGACATAGCTGATTTGACTTTCACGTGTTTACGTTGAAGCAAATCTAAA
*
9367847 ATGATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAG
130 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAG
9367887 ATACCAAATT
Statistics
Matches: 155, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
175 153 0.99
176 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (175 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTAG
CAGGGAGCAGATCAAAGACATAGCTGATTTGACTTTCACGTGTTTACGTTGAAGCAAATCTAAAA
TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGGCAGCA
Found at i:9367853 original size:131 final size:131
Alignment explanation
Indices: 9367718--9368717 Score: 1531
Period size: 131 Copynumber: 7.6 Consensus size: 131
9367708 GAAGGCAGCA
* * * * **
9367718 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATACCAAATTTGGCGTTTCTGTATTAT
1 GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATACCAGATTTGGCATCTCTGTATTGG
*
9367783 CAGGGAGCCAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAGA
66 CAGGGAGCCAATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAGA
9367848 T
131 T
* * * **
9367849 GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATACCAAATTTGGCGTTTCTGTATTAT
1 GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATACCAGATTTGGCATCTCTGTATTGG
*
9367914 CAGGGAGCCAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAGA
66 CAGGGAGCCAATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAGA
9367979 T
131 T
* * * **
9367980 GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATACCAAATTTGGCGTTTCTGTATTAT
1 GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATACCAGATTTGGCATCTCTGTATTGG
*
9368045 CAGGGAGCCAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAGA
66 CAGGGAGCCAATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAGA
9368110 T
131 T
* **
9368111 GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGACAGTAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATACCAGATTTGGCATCTCTGTATTGG
* *
9368176 CAGGGAG-CAGATCAAAGACATAATTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAG
66 CAGGGAGCCA-ATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAG
9368240 AT
130 AT
* **
9368242 GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGACAGTAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATACCAGATTTGGCATCTCTGTATTGG
* *
9368307 CAGGGAG-CAGATCAAAGACATAATTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAG
66 CAGGGAGCCA-ATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAG
9368371 AT
130 AT
* **
9368373 GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGACAGTAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATACCAGATTTGGCATCTCTGTATTGG
* *
9368438 CAGGGAG-CAGATCAAAGACATAATTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAG
66 CAGGGAGCCA-ATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAG
9368502 AT
130 AT
*
9368504 GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATACCAGATTTGGCATCTCTGTATTGG
* * * * *
9368569 CAGGGAGCAAATTGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGCAGATCTAATA
66 CAGGGAGCCAATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAGA
9368634 T
131 T
* * **
9368635 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAGTAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATACCAGATTTGGCATCTCTGTATTGG
*
9368700 CAGAGAG-CAGATCGAAGA
66 CAGGGAGCCA-ATCGAAGA
9368718 TAACAGATTT
Statistics
Matches: 837, Mismatches: 29, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
130 3 0.00
131 833 1.00
132 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (131 bp):
GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATACCAGATTTGGCATCTCTGTATTGG
CAGGGAGCCAATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAGA
T
Found at i:9367930 original size:175 final size:175
Alignment explanation
Indices: 9367544--9367931 Score: 537
Period size: 175 Copynumber: 2.2 Consensus size: 175
9367534 ATCCAGGATG
* * *
9367544 ATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGC
1 ATTTGGCATCTCTGTATTAGCAGAGAGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTAGC
*
9367609 AGGGAGCAGATCAAAGACATAGTTGATTTGACTTTCACGTGTTTACGTTGAAGCAAATCTAAAAT
66 AGGGAGCAGATCAAAGACATAGCTGATTTGACTTTCACGTGTTTACGTTGAAGCAAATCTAAAAT
* * * *
9367674 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATGGAAGGCAGCAG
131 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACACCAA
* * * * *
9367719 ATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATACCAAATTTGGCGTTTCTGTATTATC
1 ATTTGGCATCTCTGTATTAGCAGAGAGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTAGC
* * * *
9367784 AGGGAGCCA-ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAGA
66 AGGGAG-CAGATCAAAGACATAGCTGATTTGACTTTCACGTGTTTACGTTGAAGCAAATCTAAAA
* *
9367848 TGATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATACCAA
130 TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACACCAA
* * * *
9367894 ATTTGGCGTTTCTGTATTATCAGGGAGCCA-ATCGAAGA
1 ATTTGGCATCTCTGTATTAGCAGAGAG-CAGATCGAAGA
9367932 CATAGCTGAT
Statistics
Matches: 189, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
175 185 0.98
176 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (175 bp):
ATTTGGCATCTCTGTATTAGCAGAGAGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTAGC
AGGGAGCAGATCAAAGACATAGCTGATTTGACTTTCACGTGTTTACGTTGAAGCAAATCTAAAAT
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACACCAA
Found at i:9368174 original size:175 final size:173
Alignment explanation
Indices: 9367980--9369023 Score: 940
Period size: 175 Copynumber: 6.0 Consensus size: 173
9367970 AATCTAAGAT
* * * * * **
9367980 GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATACCAAATTTGGCGTTTCTGTATTAT
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
*
9368045 CAGGGAGCCA-ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAG
66 CAGGGAG-CAGATCGAAGACATAG-TGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAG
*
9368109 ATGATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGACAGTA
129 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACA-TA
* * ** * *
9368155 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCAAAGACATAATTGATTTGGCTTTCACGTGT-
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAG--ATAACAGATTTGGC-ATCTC-TGTA
* * * * * * ** * ** *
9368219 TT-AC-GTTGAAGTAAATCTAAG----A-TGATTTGGC-ATC-TTTGTATT-GGCAGAGAGCAGA
62 TTGGCAG--GGAGCAGATCGAAGACATAGTGATTTGGCTTTCACGTGT-TTACGTTGA-AGCAAA
* * *
9368274 TCGAAGACAGTAGATTTGGCATCTCTGTATTGGCAGGGAGCAGATCAAAGACATAA
123 TCTAAG--A-T-GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAT-A
* * * ** * * * *
9368330 TTGATTTGGCTTTCACGTGT-TTACGTTGA-AGTAAATCTAAGAT----GATTTGGCATCTTTGT
1 --GATTTGGC-ATCTC-TGTATT-GGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGT
* * * * *
9368389 ATTGGCAGAGAGCAGATCGAAGAC--AGTAGATTTGGC-ATCTC-TGTATTGGCAG-GGAGCAGA
61 ATTGGCAGGGAGCAGATCGAAGACATAGT-GATTTGGCTTTCACGTGT-TT-AC-GTTGA--AG-
* * * * * ** * * *
9368449 TCAAAGACATAA-TTGATTTGGCTTTCACGTGT-TTACGTTGA-AGTAAATCTAAG--AT-
119 -CAAA-TC-TAAGATGATTTGGC-ATCTC-TGTATT-GGCAGAGAGCAGATCGAAGACATA
*
9368504 GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
* * * *
9368569 CAGGGAGCAAATTGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGCAGATCTAATA
66 CAGGGAGCAGATCGAAGACATAG-TGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGA
9368634 TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAGTA
130 TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACA-TA
9368679 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
*
9368744 CAGGGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGA
66 CAGGGAGCAGATCGAAGACAT-AGTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGA
*
9368809 TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAACA
130 TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAC-ATA
* * *
9368854 GATTTGGCATCTCTGTATTGGCAGATAGTAGATCGAAGATAACAGATTTGGCATCTCTATATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
*
9368919 CAGGGAGCAGATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAGA
66 CAGGGAGCAGATCGAAGACATAG-TGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGA
*
9368984 TGATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGA
130 TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGA
9369024 TACCAAATTT
Statistics
Matches: 707, Mismatches: 102, Indels: 120
0.76 0.11 0.13
Matches are distributed among these distances:
170 21 0.03
171 58 0.08
172 36 0.05
173 7 0.01
174 6 0.01
175 455 0.64
176 8 0.01
177 43 0.06
178 51 0.07
179 16 0.02
180 3 0.00
181 1 0.00
182 2 0.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (173 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
CAGGGAGCAGATCGAAGACATAGTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGAT
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACATA
Found at i:9368554 original size:306 final size:305
Alignment explanation
Indices: 9368242--9369219 Score: 1286
Period size: 306 Copynumber: 3.2 Consensus size: 305
9368232 AATCTAAGAT
*
9368242 GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGACAGTAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAGTAGATTTGGCATCTCTGTATTGG
9368307 CAGGGAGCAGATCAAAGACATAATTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAGA
66 CAGGGAGCAGATC-AAGACATAATTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAGA
* **
9368372 TGATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGACAGTAGATTTGGCATCTCTGTATTG
130 TGATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTG
* * *
9368437 GCAGGGAGCAGATCAAAGACATAATTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAG
195 GCAGGGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAG
*
9368502 ATGATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATAACA
260 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * * * * *
9368548 GATTTGGCATCTCTGTATTGGCAGGGAGCAAATTGAAGACATAGTTGATTTGGCTTTCACGTGT-
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAC--AGTAGATTTGGC-ATCTC-TGTA
* * * * * * ** * *
9368612 TT-AC-GTTGAAGCAGATC--TA-AT-A-TGATTTGGC-ATCTC-TGTATT-GGCAGAGAGCAGA
62 TTGGCAG--GGAGCAGATCAAGACATAATTGATTTGGCTTTCACGTGT-TTACGTTGA-AGTAAA
* *
9368667 TCGAAGACAGTAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCA
123 TCTAAG--A-T-GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCA
9368732 TCTCTGTATTGGCAGGGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTGTTTACGTTGAA
184 TCTCTGTATTGGCAGGGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTGTTTACGTTGAA
*
9368797 GCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAACA
249 GCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * * ** *
9368854 GATTTGGCATCTCTGTATTGGCAGATAGTAGATCGAAGATAACAGATTTGGCATCTCTATATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAGTAGATTTGGCATCTCTGTATTGG
*
9368919 CAGGGAGCAGATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAGA
66 CAGGGAGCAGATC-AAGACATAATTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAGA
* * * * *
9368984 TGATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATACCAAATTTGGCGTTTCTGTATTA
130 TGATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTG
* *
9369049 TCAGGGAGCCA-ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAA
195 GCAGGGAG-CAGATCGAAGACATAACTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAA
* * *
9369113 GATGATTTAGCATCTCTGTATTGGCAGAGAGCAAATCTAAGATAACA
259 GATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * *
9369160 GATTTGGCATCTCTGTATTGGCAGAAAGTAGATCGAAG--A-T-GATTTGGCGTCTCTGTATTG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAGTAGATTTGGCATCTCTGTATTG
9369220 TCAAAGAGCA
Statistics
Matches: 580, Mismatches: 67, Indels: 54
0.83 0.10 0.08
Matches are distributed among these distances:
301 6 0.01
302 34 0.06
303 23 0.04
304 13 0.02
305 4 0.01
306 435 0.75
307 6 0.01
308 13 0.02
309 23 0.04
310 17 0.03
311 6 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (305 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAGTAGATTTGGCATCTCTGTATTGG
CAGGGAGCAGATCAAGACATAATTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAGAT
GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
CAGGGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGA
TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
Found at i:9368989 original size:131 final size:131
Alignment explanation
Indices: 9368854--9369198 Score: 512
Period size: 131 Copynumber: 2.6 Consensus size: 131
9368844 GAAGACAACA
* * *
9368854 GATTTGGCATCTCTGTATTGGCAGATAGTAGATCGAAGATAACAGATTTGGCATCTCTATATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
* *
9368919 CAGGGAGCAGATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAGA
66 CAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGA
9368984 T
131 T
* * * * * **
9368985 GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATACCAAATTTGGCGTTTCTGTATTAT
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
9369050 CAGGGAGCCA-ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAG
66 CAGGGAG-CAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAG
9369114 AT
130 AT
* * *
9369116 GATTTAGCATCTCTGTATTGGCAGAGAGCAAATCTAAGATAACAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
** *
9369181 CAGAAAGTAGATCGAAGA
66 CAGGGAGCAGATCGAAGA
9369199 TGATTTGGCG
Statistics
Matches: 187, Mismatches: 25, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
130 1 0.01
131 184 0.98
132 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (131 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
CAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGA
T
Found at i:9369147 original size:40 final size:40
Alignment explanation
Indices: 9369102--9369286 Score: 165
Period size: 44 Copynumber: 4.4 Consensus size: 40
9369092 TTTACGTTGA
* *
9369102 AGCAAATCTAAGATGATTTAGCATCTCTGTATTGGCAGAG
1 AGCAAATCGAAGATGATTTGGCATCTCTGTATTGGCAGAG
* *
9369142 AGCAAATCTAAGATAACAGATTTGGCATCTCTGTATTGGCAGAA
1 AGCAAATCGAAGAT----GATTTGGCATCTCTGTATTGGCAGAG
* * * * *
9369186 AGTAGATCGAAGATGATTTGGCGTCTCTGTATTGTCAAAG
1 AGCAAATCGAAGATGATTTGGCATCTCTGTATTGGCAGAG
* *
9369226 AGCAAATCGAAGACGATAGATTTGG-AGTCTCTGTATTGTCAGGG
1 AGCAAATCG-A-A-GAT-GATTTGGCA-TCTCTGTATTGGCAGAG
* *
9369270 AGCAGATCGAAAATGAT
1 AGCAAATCGAAGATGAT
9369287 AGATTTTGCG
Statistics
Matches: 120, Mismatches: 16, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
40 46 0.38
41 3 0.03
42 2 0.02
43 4 0.03
44 65 0.54
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (40 bp):
AGCAAATCGAAGATGATTTGGCATCTCTGTATTGGCAGAG
Found at i:9370417 original size:35 final size:35
Alignment explanation
Indices: 9370371--9370442 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
9370361 AGCCCCTCCC
9370371 CAACTCTCTTTCAGAGAGTTTCTTTTTTTTTTCTT
1 CAACTCTCTTTCAGAGAGTTTCTTTTTTTTTTCTT
9370406 CAACTCTCTTTCAGAGAGTTTCTTTTTTTTTTCTT
1 CAACTCTCTTTCAGAGAGTTTCTTTTTTTTTTCTT
9370441 CA
1 CA
9370443 GAATAGACTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.15, C:0.21, G:0.08, T:0.56
Consensus pattern (35 bp):
CAACTCTCTTTCAGAGAGTTTCTTTTTTTTTTCTT
Found at i:9374408 original size:3 final size:3
Alignment explanation
Indices: 9374402--9374453 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
9374392 GAGAAAAAAA
*
9374402 AAG AAG AAG AAG AGG AA- AAG AAGG AA- AAG AAG AAG AAG AAGG AA-
1 AAG AAG AAG AAG AAG AAG AAG AA-G AAG AAG AAG AAG AAG AA-G AAG
9374446 AAG AAG AA
1 AAG AAG AA
9374454 AAATTGATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
2 6 0.14
3 30 0.71
4 6 0.14
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9374426 original size:9 final size:8
Alignment explanation
Indices: 9374400--9374455 Score: 67
Period size: 9 Copynumber: 6.5 Consensus size: 8
9374390 TAGAGAAAAA
9374400 AAAAGAAG
1 AAAAGAAG
*
9374408 AAGAAGAGG
1 AA-AAGAAG
9374417 AAAAGAAGG
1 AAAAGAA-G
9374426 AAAAGAAG
1 AAAAGAAG
9374434 AAGAAGAAGG
1 AA-AAGAA-G
9374444 AAAAGAAG
1 AAAAGAAG
9374452 AAAA
1 AAAA
9374456 ATTGATATGC
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
8 14 0.33
9 25 0.60
10 3 0.07
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (8 bp):
AAAAGAAG
Found at i:9374433 original size:26 final size:27
Alignment explanation
Indices: 9374399--9374456 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
9374389 CTAGAGAAAA
9374399 AAAAAGAAGAAGAAG-AGGAAAAGAAG
1 AAAAAGAAGAAGAAGAAGGAAAAGAAG
*
9374425 GAAAAGAAGAAGAAGAAGGAAAAGAAG
1 AAAAAGAAGAAGAAGAAGGAAAAGAAG
9374452 AAAAA
1 AAAAA
9374457 TTGATATGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 14 0.48
27 15 0.52
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (27 bp):
AAAAAGAAGAAGAAGAAGGAAAAGAAG
Found at i:9374442 original size:18 final size:17
Alignment explanation
Indices: 9374400--9374455 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 17
9374390 TAGAGAAAAA
*
9374400 AAAAGAA-GAAGAAGAGG
1 AAAAGAAGGAA-AAGAAG
9374417 AAAAGAAGGAAAAGAAG
1 AAAAGAAGGAAAAGAAG
9374434 AAGAAGAAGGAAAAGAAG
1 AA-AAGAAGGAAAAGAAG
9374452 AAAA
1 AAAA
9374456 ATTGATATGC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.44
18 20 0.56
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (17 bp):
AAAAGAAGGAAAAGAAG
Found at i:9376084 original size:22 final size:22
Alignment explanation
Indices: 9376054--9376097 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9376044 AGGCAAACAC
9376054 TAAAGATATTTTATAAGTGGAT
1 TAAAGATATTTTATAAGTGGAT
*
9376076 TAAATATATTTTATAAGTGGAT
1 TAAAGATATTTTATAAGTGGAT
9376098 AATTTTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (22 bp):
TAAAGATATTTTATAAGTGGAT
Found at i:9385841 original size:25 final size:25
Alignment explanation
Indices: 9385800--9385848 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
9385790 TCTTGTACAT
* *
9385800 GTATGCTCATACAAGCTGTGAATTG
1 GTATGCTCACACAAGCTGTAAATTG
*
9385825 GTATGCTCACACGAGCTGTAAATT
1 GTATGCTCACACAAGCTGTAAATT
9385849 AAGTTCCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (25 bp):
GTATGCTCACACAAGCTGTAAATTG
Found at i:9394672 original size:79 final size:80
Alignment explanation
Indices: 9394540--9394743 Score: 236
Period size: 79 Copynumber: 2.6 Consensus size: 80
9394530 AATTATTGTA
* * *
9394540 TGAATGCACATGCGTGCCCCTGTTTGTACCGT-GGTACCCCTA-AAGGCACATGCGTGCCCCTGT
1 TGAATGCACATACGTGCCCCTGTTTGTA-CTTCGGTACCCC-AGAATGCACATGCGTGCCCCTGT
9394603 TTGTACTT-GGTTACCCC
64 TTGTACTTCGG-TACCCC
* * * *
9394620 TGAATGCACATACATGCCCTTG-TTGTACTTCGGTACCCCAGAATGCACATGCGTGCCCTTTTTT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCAGAATGCACATGCGTGCCCCTGTTT
* *
9394684 GTACTTCGGTGCCCT
66 GTACTTCGGTACCCC
* * * *
9394699 TGAATGCATATATGTGCCCCTGTTTGTACTTCAGTACCCCTGAAT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCAGAAT
9394744 ACTCTTATAT
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
78 3 0.03
79 61 0.58
80 41 0.39
ACGTcount: A:0.18, C:0.29, G:0.21, T:0.32
Consensus pattern (80 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCAGAATGCACATGCGTGCCCCTGTTT
GTACTTCGGTACCCC
Found at i:9394743 original size:40 final size:40
Alignment explanation
Indices: 9394540--9394743 Score: 225
Period size: 40 Copynumber: 5.1 Consensus size: 40
9394530 AATTATTGTA
* *
9394540 TGAATGCACATGCGTGCCCCTGTTTGTACCGT-GGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTA-CTTCGGTACCCC
* * *
9394580 TAAAGGCACATGCGTGCCCCTGTTTGTACTT-GGTTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGG-TACCCC
* *
9394620 TGAATGCACATACATGCCCTTG-TTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * * *
9394659 AGAATGCACATGCGTGCCCTTTTTTGTACTTCGGTGCCCT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
9394699 TGAATGCATATATGTGCCCCTGTTTGTACTTCAGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
9394739 TGAAT
1 TGAAT
9394744 ACTCTTATAT
Statistics
Matches: 138, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
39 36 0.26
40 102 0.74
ACGTcount: A:0.18, C:0.29, G:0.21, T:0.32
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:9395905 original size:40 final size:40
Alignment explanation
Indices: 9395858--9396054 Score: 211
Period size: 40 Copynumber: 5.0 Consensus size: 40
9395848 TTATTGTATG
*
9395858 AATGCACATGCGTGCCCCTGTTTGTACTTTGGTGCCCCTA
1 AATGCACATGCGTGCCCCTGTTTGTACTTTGGTACCCCTA
* * * * *
9395898 AAGGCACATGTGTGCCCCTATTTGTACTTTGGTACCCTTG
1 AATGCACATGCGTGCCCCTGTTTGTACTTTGGTACCCCTA
* *
9395938 AATGCACATACGTGCCCCTG-TTGTACTTCGGTACCCCTA
1 AATGCACATGCGTGCCCCTGTTTGTACTTTGGTACCCCTA
* * * ** *
9395977 AATGCACATGTGTGCCCTTGTTTGTTCTTCAGTACCCCTG
1 AATGCACATGCGTGCCCCTGTTTGTACTTTGGTACCCCTA
* * *
9396017 AATGCACTAT--GTGCCCTTATTTGTACTCTGGTACCCCT
1 AATGCAC-ATGCGTGCCCCTGTTTGTACTTTGGTACCCCT
9396055 GAATACTCTT
Statistics
Matches: 131, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 56 0.43
40 73 0.56
41 2 0.02
ACGTcount: A:0.17, C:0.29, G:0.20, T:0.34
Consensus pattern (40 bp):
AATGCACATGCGTGCCCCTGTTTGTACTTTGGTACCCCTA
Found at i:9395988 original size:79 final size:79
Alignment explanation
Indices: 9395856--9396054 Score: 240
Period size: 79 Copynumber: 2.5 Consensus size: 79
9395846 AATTATTGTA
* * *
9395856 TGAATGCACATGCGTGCCCCTGTTTGTACTTTGGTGCCCCTAAAGGCACATGTGTGCCCCTATTT
1 TGAATGCACATACGTGCCCCTG-TTGTACTTCGGTACCCCTAAAGGCACATGTGTGCCCCTATTT
** *
9395921 GTACTTTGGTACCCT
65 GTACTTCAGTACCCC
* * *
9395936 TGAATGCACATACGTGCCCCTGTTGTACTTCGGTACCCCTAAATGCACATGTGTGCCCTTGTTTG
1 TGAATGCACATACGTGCCCCTGTTGTACTTCGGTACCCCTAAAGGCACATGTGTGCCCCTATTTG
*
9396001 TTCTTCAGTACCCC
66 TACTTCAGTACCCC
* * *
9396015 TGAATGCAC-TATGTGCCCTTATTTGTAC-TCTGGTACCCCT
1 TGAATGCACATACGTGCCCCT-GTTGTACTTC-GGTACCCCT
9396055 GAATACTCTT
Statistics
Matches: 104, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
78 11 0.11
79 72 0.69
80 21 0.20
ACGTcount: A:0.17, C:0.29, G:0.20, T:0.34
Consensus pattern (79 bp):
TGAATGCACATACGTGCCCCTGTTGTACTTCGGTACCCCTAAAGGCACATGTGTGCCCCTATTTG
TACTTCAGTACCCC
Found at i:9398896 original size:30 final size:30
Alignment explanation
Indices: 9398862--9398922 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
9398852 TCCTTAACTC
9398862 AAACTTTTAAAAAATTACAATTTTGCCCCT
1 AAACTTTTAAAAAATTACAATTTTGCCCCT
** * * *
9398892 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTAAAAAATTACAATTTTGCCCCT
9398922 A
1 A
9398923 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (30 bp):
AAACTTTTAAAAAATTACAATTTTGCCCCT
Found at i:9403359 original size:31 final size:31
Alignment explanation
Indices: 9403316--9403399 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
9403306 TCAGTCTTGA
*
9403316 CATAT-ACTGGGCCAAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
*
9403346 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
9403377 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
9403400 ACTGTAAACG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:9403416 original size:23 final size:23
Alignment explanation
Indices: 9403386--9403433 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
9403376 TCATATCACT
9403386 GGGCCGAAGCCTTTACTGTAAAC
1 GGGCCGAAGCCTTTACTGTAAAC
9403409 GGGCCGAAGCCTTTACTGTAAAC
1 GGGCCGAAGCCTTTACTGTAAAC
9403432 GG
1 GG
9403434 TATGGCCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.21
Consensus pattern (23 bp):
GGGCCGAAGCCTTTACTGTAAAC
Found at i:9403493 original size:42 final size:42
Alignment explanation
Indices: 9403446--9404419 Score: 1923
Period size: 42 Copynumber: 23.2 Consensus size: 42
9403436 TGGCCCTTAG
*
9403446 GCCCATTTCAATATCACATGTAATGTCAAT-AGATGTATGCAT
1 GCCCATTTCAATATCACATGTAATGTCAATGA-ATGTATGCAA
9403488 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9403530 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9403572 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9403614 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9403656 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9403698 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9403740 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9403782 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9403824 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9403866 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9403908 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9403950 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9403992 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9404034 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9404076 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9404118 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9404160 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9404202 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9404244 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9404286 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9404328 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9404370 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9404412 GCCCATTT
1 GCCCATTT
9404420 GGGGAGACTA
Statistics
Matches: 930, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
42 929 1.00
43 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:9404636 original size:25 final size:26
Alignment explanation
Indices: 9404567--9404636 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 26
9404557 CTCTTTTAAT
*
9404567 AACTGGGGCAAAACCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTCTGATA
* * *
9404592 AACTAGGGCAAAGCCTTTTTC-GGTA
1 AACTGGGGCAAAGCCCTTTTCTGATA
*
9404617 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
9404637 AGCACTTCCT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
25 33 0.89
26 4 0.11
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTCTGATA
Found at i:9405593 original size:27 final size:26
Alignment explanation
Indices: 9405563--9405644 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 26
9405553 GTAAATCTAC
9405563 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTT-T
*
9405590 AAACCAATGGTATTTCTA-TAATTTTT
1 AAACCAAGGGTATTTC-AGTAATTTTT
* *
9405616 AGAAAGTCAAGGGTATTTCTGTAATTTTT
1 --AAA-CCAAGGGTATTTCAGTAATTTTT
9405645 TAAATTAGGG
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
26 1 0.02
27 22 0.48
28 4 0.09
29 19 0.41
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (26 bp):
AAACCAAGGGTATTTCAGTAATTTTT
Found at i:9405666 original size:27 final size:27
Alignment explanation
Indices: 9405626--9405749 Score: 144
Period size: 27 Copynumber: 4.6 Consensus size: 27
9405616 AGAAAGTCAA
** *
9405626 GGGTATTTCT-GTAATTTTTTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
*
9405653 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
9405679 AGGGTATTTCGGTAATTTCACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
* *
9405707 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
9405734 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
9405750 CTATCCTACA
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
26 3 0.04
27 79 0.94
28 2 0.02
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:9405767 original size:81 final size:80
Alignment explanation
Indices: 9405627--9405782 Score: 197
Period size: 81 Copynumber: 1.9 Consensus size: 80
9405617 GAAAGTCAAG
* ** * * ** *
9405627 GGTATTTCTGTAATTTTTTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGT
1 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTAC-AATACAGGGTATTTCAGT
9405692 AATTTCACAAACTAGT
65 AATTTCACAAACTAGT
*
9405708 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATC-CTACAGGCGTATTTCAG
1 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTA-CAATACAGG-GTATTTCAG
9405772 TAATTTCACAA
64 TAATTTCACAA
9405783 TTGAGGGTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
80 4 0.06
81 59 0.92
82 1 0.02
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (80 bp):
GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACAATACAGGGTATTTCAGTA
ATTTCACAAACTAGT
Found at i:9405892 original size:54 final size:54
Alignment explanation
Indices: 9405785--9405899 Score: 194
Period size: 54 Copynumber: 2.1 Consensus size: 54
9405775 TTTCACAATT
* **
9405785 GAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTAAATC
1 GAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTCTACAAATC
*
9405839 TAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTCTACAAATC
1 GAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTCTACAAATC
9405893 GAGGGTA
1 GAGGGTA
9405900 TTTCAGTAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (54 bp):
GAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTCTACAAATC
Found at i:9405899 original size:27 final size:27
Alignment explanation
Indices: 9405784--9405883 Score: 166
Period size: 27 Copynumber: 3.7 Consensus size: 27
9405774 ATTTCACAAT
9405784 TGAGGGTAAAACGGTAATTTTGTAAAC
1 TGAGGGTAAAACGGTAATTTTGTAAAC
*
9405811 TGAGGGTAAAATGGTAATTTTGTAAATC
1 TGAGGGTAAAACGGTAATTTTGTAAA-C
9405839 T-AGGGTAAAACGGTAATTTTGTAAAC
1 TGAGGGTAAAACGGTAATTTTGTAAAC
*
9405865 TGAGGGTAAAATGGTAATT
1 TGAGGGTAAAACGGTAATT
9405884 CTACAAATCG
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
26 2 0.03
27 64 0.94
28 2 0.03
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (27 bp):
TGAGGGTAAAACGGTAATTTTGTAAAC
Found at i:9405909 original size:54 final size:54
Alignment explanation
Indices: 9405785--9405919 Score: 180
Period size: 54 Copynumber: 2.5 Consensus size: 54
9405775 TTTCACAATT
* * **
9405785 GAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTAAATC
1 GAGGGTAAAACAGTAATTTTGTAAACTGAGGGTAAAATGGTAATTCTACAAATC
* *
9405839 TAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTCTACAAATC
1 GAGGGTAAAACAGTAATTTTGTAAACTGAGGGTAAAATGGTAATTCTACAAATC
*** *
9405893 GAGGGTATTTCAGTAATTTGGTAAACT
1 GAGGGTAAAACAGTAATTTTGTAAACT
9405920 AAAGTATTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.36, C:0.07, G:0.24, T:0.32
Consensus pattern (54 bp):
GAGGGTAAAACAGTAATTTTGTAAACTGAGGGTAAAATGGTAATTCTACAAATC
Found at i:9422826 original size:14 final size:14
Alignment explanation
Indices: 9422807--9422833 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9422797 AGATTTACTA
9422807 AGTAACTAAAGTAT
1 AGTAACTAAAGTAT
9422821 AGTAACTAAAGTA
1 AGTAACTAAAGTA
9422834 AAAATTTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.15, T:0.26
Consensus pattern (14 bp):
AGTAACTAAAGTAT
Found at i:9425487 original size:13 final size:13
Alignment explanation
Indices: 9425469--9425499 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
9425459 TTTTTTAATC
*
9425469 TATTTGGTTTATT
1 TATTTGGCTTATT
9425482 TATTTGGCTTATT
1 TATTTGGCTTATT
9425495 TATTT
1 TATTT
9425500 ATTGTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.03, G:0.13, T:0.68
Consensus pattern (13 bp):
TATTTGGCTTATT
Found at i:9431986 original size:9 final size:9
Alignment explanation
Indices: 9431942--9431973 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
9431932 ATGCTCTTCT
9431942 TTTTTTGAA
1 TTTTTTGAA
9431951 TTTTTATGAA
1 TTTTT-TGAA
9431961 TTTTTTGAA
1 TTTTTTGAA
9431970 TTTT
1 TTTT
9431974 AATTTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.69
Consensus pattern (9 bp):
TTTTTTGAA
Found at i:9434136 original size:8 final size:9
Alignment explanation
Indices: 9434115--9434146 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
9434105 TTATAGTTTT
9434115 TTTTTACAA
1 TTTTTACAA
9434124 TTTTTACAA
1 TTTTTACAA
*
9434133 TTTTTATAA
1 TTTTTACAA
9434142 TTTTT
1 TTTTT
9434147 TATAATGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (9 bp):
TTTTTACAA
Found at i:9438805 original size:46 final size:46
Alignment explanation
Indices: 9438720--9438816 Score: 133
Period size: 46 Copynumber: 2.1 Consensus size: 46
9438710 GATGGTAATT
* *
9438720 TAAAAAGCCATCAAAACTGGGTCGACCGAGATGATAGTTATTATAG
1 TAAAAAGCCATCAAAACCGGGTCAACCGAGATGATAGTTATTATAG
* * *
9438766 TAAAAAGCCATCAAAACCGGG-CAACCGGGATGGTAAGTTATTGTAG
1 TAAAAAGCCATCAAAACCGGGTCAACCGAGATGAT-AGTTATTATAG
9438812 TAAAA
1 TAAAA
9438817 GTCATCGTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
45 10 0.22
46 35 0.78
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
TAAAAAGCCATCAAAACCGGGTCAACCGAGATGATAGTTATTATAG
Found at i:9441549 original size:30 final size:30
Alignment explanation
Indices: 9441514--9441573 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
9441504 CAAAAATCCG
9441514 AAATTTCTCCCTAAATTTCTCAAAGCTCTC
1 AAATTTCTCCCTAAATTTCTCAAAGCTCTC
*
9441544 AAATTTCTCCTTAAATTTCTCAAAGCTCTC
1 AAATTTCTCCCTAAATTTCTCAAAGCTCTC
9441574 TTTAATTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.28, G:0.03, T:0.38
Consensus pattern (30 bp):
AAATTTCTCCCTAAATTTCTCAAAGCTCTC
Found at i:9443167 original size:36 final size:36
Alignment explanation
Indices: 9443120--9443191 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
9443110 GTCATGATTT
9443120 AGGATCCATTGTAAGCCATATTTTTCTATCGGAAGA
1 AGGATCCATTGTAAGCCATATTTTTCTATCGGAAGA
9443156 AGGATCCATTGTAAGCCATATTTTTCTATCGGAAGA
1 AGGATCCATTGTAAGCCATATTTTTCTATCGGAAGA
9443192 GCAGAGGTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (36 bp):
AGGATCCATTGTAAGCCATATTTTTCTATCGGAAGA
Found at i:9443380 original size:18 final size:18
Alignment explanation
Indices: 9443357--9443394 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
9443347 TGCCAGGTGC
*
9443357 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
9443375 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
9443393 GT
1 GT
9443395 TTCTTTTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:9445113 original size:18 final size:18
Alignment explanation
Indices: 9445090--9445129 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
9445080 TGTAACGTCT
9445090 CCAATCAGATGTAGATTG
1 CCAATCAGATGTAGATTG
9445108 CCAATCAGATGTAGATTG
1 CCAATCAGATGTAGATTG
9445126 CCAA
1 CCAA
9445130 CCATTAGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (18 bp):
CCAATCAGATGTAGATTG
Found at i:9445825 original size:42 final size:42
Alignment explanation
Indices: 9445766--9445850 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
9445756 TTGGCTCATT
*
9445766 TATAGCCTAAGGCCAAACATGAACAACTATAGAAAAAGAGCG
1 TATAGCCTAAGGCCAAACATGAACAACCATAGAAAAAGAGCG
* *
9445808 TATAGCCTAAGGCCAAACATGAACTACCGTAGAAAAAGAGCG
1 TATAGCCTAAGGCCAAACATGAACAACCATAGAAAAAGAGCG
9445850 T
1 T
9445851 CGACGTGTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.15
Consensus pattern (42 bp):
TATAGCCTAAGGCCAAACATGAACAACCATAGAAAAAGAGCG
Found at i:9446060 original size:125 final size:124
Alignment explanation
Indices: 9445828--9446220 Score: 538
Period size: 125 Copynumber: 3.1 Consensus size: 124
9445818 GGCCAAACAT
* * *
9445828 GAACTACCGTAGAAAAAGAGCGTCGACGTGTGAGCTTTTTTCA-TCAATTTTGCTGATAGTGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGT-AATTTTGCTGATAGTGCAT
* *
9445892 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACATTCTTCTCAAAATTATTTTTGTAG
65 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAAC-GTCTTCTCAAAATTATTTTT-TAG
* *
9445954 GAACTACTGTAGAAAAAGAGCGTCTACGTGGGAGCTTTTTTCAGTAA-TTTGCTAATAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATC
* *
9446018 CTACTTGAAGCGTTTTTGACACTATTTGTTCATAAACGTCTTCTCAAAATTATTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCA-AAACGTCTTCTCAAAATTATTTTTTAG
* * * *
9446078 GAACTACTGAAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTAATTTTGCTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATC
* * * * * *
9446143 CTGCTTGAAGCATTTTTCACACTATTTGTTCAGAATCGTATTCTCAAAATTGTTTTTTCAA
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCA-AAACGTCTTCTCAAAATTATTTTTT-AG
*
9446204 GAACTACTATAGAAAAA
1 GAACTACTGTAGAAAAA
9446221 AAAACAAAGT
Statistics
Matches: 238, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
124 46 0.19
125 130 0.55
126 61 0.26
127 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (124 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAACGTCTTCTCAAAATTATTTTTTAG
Found at i:9446336 original size:34 final size:34
Alignment explanation
Indices: 9446289--9446407 Score: 154
Period size: 34 Copynumber: 3.5 Consensus size: 34
9446279 CATAACATTA
9446289 TTTAAAAAA-ACTAAACCCTAATTTAATTAATTT
1 TTTAAAAAACACTAAACCCTAATTTAATTAATTT
9446322 TTTAAAAAACACTAAACCCTAATTTAATTAATTT
1 TTTAAAAAACACTAAACCCTAATTTAATTAATTT
* *
9446356 ATTT--AAAACCCTTAAACCGTAATTTAATTAATTT
1 -TTTAAAAAACAC-TAAACCCTAATTTAATTAATTT
*
9446390 TTAAAAAAGAACACTAAA
1 TT-TAAAA-AACACTAAA
9446408 TCTTGATTTA
Statistics
Matches: 75, Mismatches: 4, Indels: 11
0.83 0.04 0.12
Matches are distributed among these distances:
33 17 0.23
34 45 0.60
35 3 0.04
36 6 0.08
37 4 0.05
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (34 bp):
TTTAAAAAACACTAAACCCTAATTTAATTAATTT
Found at i:9446485 original size:36 final size:36
Alignment explanation
Indices: 9446415--9446485 Score: 83
Period size: 36 Copynumber: 2.0 Consensus size: 36
9446405 AAATCTTGAT
* * *
9446415 TTATTTTTTAAAATTCCTAAAACCCAGAACCCTAAA
1 TTATTTTATAAAATTCCTAAAACCCACAAACCTAAA
9446451 TTATTTTAATAAAA-TCCT-AAACCCTACAAACCTAA
1 TTATTTT-ATAAAATTCCTAAAACCC-ACAAACCTAA
9446486 GCCTAAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
35 6 0.20
36 19 0.63
37 5 0.17
ACGTcount: A:0.44, C:0.23, G:0.01, T:0.32
Consensus pattern (36 bp):
TTATTTTATAAAATTCCTAAAACCCACAAACCTAAA
Found at i:9446523 original size:15 final size:15
Alignment explanation
Indices: 9446503--9446542 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
9446493 TTATTTTAAC
* *
9446503 AAAACCCTAACCCTA
1 AAAACCCTAAACCAA
9446518 AAAACCCTAAACCAA
1 AAAACCCTAAACCAA
9446533 AAAACCCTAA
1 AAAACCCTAA
9446543 GGACTAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.55, C:0.35, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAACCCTAAACCAA
Found at i:9446527 original size:42 final size:42
Alignment explanation
Indices: 9446445--9446523 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
9446435 AACCCAGAAC
* * *
9446445 CCTAAATTATTTTAATAAAATCCTAAACCCTACAAACCTAAG
1 CCTAAATTATTTTAACAAAACCCTAAACCCTAAAAACCTAAG
9446487 CCTAAATTATTTTAACAAAACCCT-AACCCTAAAAACC
1 CCTAAATTATTTTAACAAAACCCTAAACCCTAAAAACC
9446524 CTAAACCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
41 12 0.35
42 22 0.65
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.27
Consensus pattern (42 bp):
CCTAAATTATTTTAACAAAACCCTAAACCCTAAAAACCTAAG
Found at i:9448796 original size:17 final size:17
Alignment explanation
Indices: 9448763--9448798 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
9448753 CCACAGTTCA
9448763 CATATAAACACAACTTG
1 CATATAAACACAACTTG
*
9448780 CATATAAACACAGCTTG
1 CATATAAACACAACTTG
9448797 CA
1 CA
9448799 CATTGTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.25, G:0.08, T:0.22
Consensus pattern (17 bp):
CATATAAACACAACTTG
Found at i:9454528 original size:13 final size:13
Alignment explanation
Indices: 9454510--9454534 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9454500 GTATATTAAC
9454510 TTTATAATATTTT
1 TTTATAATATTTT
9454523 TTTATAATATTT
1 TTTATAATATTT
9454535 AAGTGCATAT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTATAATATTTT
Found at i:9468668 original size:112 final size:112
Alignment explanation
Indices: 9468444--9469790 Score: 2306
Period size: 112 Copynumber: 11.9 Consensus size: 112
9468434 ATTTATACTT
* * * * *
9468444 GATTTGGTTATGTAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTA--GTATTAGCGTATTGTAATTTTTTTAG
*
9468509 TAATATATTTTTAAAAAA-ATAATTTTATAGCTATTTTATTAGTAATTTAA
64 TAATATA--TTTAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
9468559 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTATTAGCGTATTGTAATTTTTTTAGTA
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTATTAGCGTATTGTAATTTTTTTAGTA
9468624 ATATATTTAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
66 ATATATTTAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
* * * *
9468671 GATTAGCTTATATAAATTATTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTTA
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTA--GTATTAGCGTATTGT-AATTTTTTTA
9468736 GTAATATATTTTAAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
63 GTAATATA-TTT-AAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
9468788 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTATTAGCGTATTGTAATTTTTTTAGTA
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTATTAGCGTATTGTAATTTTTTTAGTA
9468853 ATATATTTAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
66 ATATATTTAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
9468900 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTATTAGCGTATTGTAATTTTTTTAGTA
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTATTAGCGTATTGTAATTTTTTTAGTA
9468965 ATATATTTAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
66 ATATATTTAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
9469012 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTATTAGCGTATTGTAATTTTTTTAGTA
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTATTAGCGTATTGTAATTTTTTTAGTA
9469077 ATATATTTAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
66 ATATATTTAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
9469124 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTATTAGCGTATTGTAATTTTTTTAGTA
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTATTAGCGTATTGTAATTTTTTTAGTA
9469189 ATATATTTAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
66 ATATATTTAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
9469236 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTATTAGCGTATTGTAATTTTTTTAGTA
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTATTAGCGTATTGTAATTTTTTTAGTA
9469301 ATATATTTAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
66 ATATATTTAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
9469348 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTATTAGCGTATTGTAATTTTTTTAGTA
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTATTAGCGTATTGTAATTTTTTTAGTA
9469413 ATATATTTAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
66 ATATATTTAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
9469460 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTATTAGCGTATTGTAATTTTTTTAGTA
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTATTAGCGTATTGTAATTTTTTTAGTA
9469525 ATATATTTAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
66 ATATATTTAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
* * * *
9469572 GATTAGCTTATATAAATTATTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTTA
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTA--GTATTAGCGTATTGT-AATTTTTTTA
9469637 GTAATATATTTTAAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
63 GTAATATA-TTT-AAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
** *
9469689 GATTAGGTTATAT--ATTGTTAGTGTTTAGTGGTTTAGTGTGTATTAATGTATTGTGATTTTTTT
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTA----GTATTAGCGTATTGT-A-ATTTTT
* * *
9469752 TTAGTAATGTATTTAAAAAA-ATAATTTTATAGTTATTTT
60 TTAGTAATATATTTAAAAAATATATTTTTATAGCTATTTT
9469791 GTGTTAGTAT
Statistics
Matches: 1194, Mismatches: 24, Indels: 28
0.96 0.02 0.02
Matches are distributed among these distances:
111 9 0.01
112 812 0.68
113 34 0.03
114 45 0.04
115 120 0.10
116 12 0.01
117 146 0.12
118 16 0.01
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.51
Consensus pattern (112 bp):
GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTATTAGCGTATTGTAATTTTTTTAGTA
ATATATTTAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
Found at i:9469877 original size:15 final size:16
Alignment explanation
Indices: 9469848--9469879 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
9469838 TGTGATTTTT
9469848 TAATGTAATTTTTATA
1 TAATGTAATTTTTATA
9469864 TAATGTAA-TTTTATA
1 TAATGTAATTTTTATA
9469879 T
1 T
9469880 TATTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATGTAATTTTTATA
Found at i:9472042 original size:33 final size:33
Alignment explanation
Indices: 9471889--9472047 Score: 131
Period size: 33 Copynumber: 4.8 Consensus size: 33
9471879 CAGCCCACTA
* * * * * *
9471889 CCACCTCAGTACTCCAGTCATCCCGGCTCATAT
1 CCACCTCCGTACTCTACTCCTCCCGGCCCGTAT
* * * *
9471922 TCATCTCAGTACTCTACTCCTTCCGGCCCGTAT
1 CCACCTCCGTACTCTACTCCTCCCGGCCCGTAT
** * *
9471955 CCACCTATGTACTCAACTCCTCCAGAG-CCGTAT
1 CCACCTCCGTACTCTACTCCTCCCG-GCCCGTAT
* *
9471988 CCACCGCCGTACTCTACTCCTCCCGGCCCATAT
1 CCACCTCCGTACTCTACTCCTCCCGGCCCGTAT
* * *
9472021 CCACCTCCATATTCTACTCCTCTCGGC
1 CCACCTCCGTACTCTACTCCTCCCGGC
9472048 TCAAGTTCAT
Statistics
Matches: 99, Mismatches: 25, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
32 1 0.01
33 97 0.98
34 1 0.01
ACGTcount: A:0.18, C:0.44, G:0.11, T:0.26
Consensus pattern (33 bp):
CCACCTCCGTACTCTACTCCTCCCGGCCCGTAT
Found at i:9473114 original size:42 final size:42
Alignment explanation
Indices: 9473047--9473131 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
9473037 TCAACGACCG
9473047 ATGGCCTCTGTAACGCGAAACGTTTCATTACGTCGTGAATAT
1 ATGGCCTCTGTAACGCGAAACGTTTCATTACGTCGTGAATAT
* *
9473089 ATGGTCTCTGTAACGCGAAATGTTTCATTACGTCGTGAATAT
1 ATGGCCTCTGTAACGCGAAACGTTTCATTACGTCGTGAATAT
9473131 A
1 A
9473132 CTTCTACATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (42 bp):
ATGGCCTCTGTAACGCGAAACGTTTCATTACGTCGTGAATAT
Found at i:9475699 original size:18 final size:18
Alignment explanation
Indices: 9475676--9475711 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9475666 AAGAAGGCAC
*
9475676 AACTAGTCGTGCCTGTCA
1 AACTAGTCGAGCCTGTCA
*
9475694 AACTAGTTGAGCCTGTCA
1 AACTAGTCGAGCCTGTCA
9475712 GGTAGGCACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (18 bp):
AACTAGTCGAGCCTGTCA
Found at i:9489944 original size:21 final size:19
Alignment explanation
Indices: 9489910--9489950 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
9489900 TTGTAAAAAA
9489910 AAATTATAATTTTTATGAAT
1 AAATTATAATTTTTAT-AAT
*
9489930 AAATATATTATTTTTATAAT
1 AAAT-TATAATTTTTATAAT
9489950 A
1 A
9489951 TATAACATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
AAATTATAATTTTTATAAT
Found at i:9491293 original size:62 final size:62
Alignment explanation
Indices: 9491171--9491297 Score: 164
Period size: 62 Copynumber: 2.0 Consensus size: 62
9491161 GTCTGGGTTG
* * * **
9491171 TGTAACTCACTATTTATGGTATAAAACCATACGGCCAGGGACACGAGCATGTGCTTAGGCCA
1 TGTAACTCACTATTTATGGTATAAAACCACACGGCCAGAGACACGAGCATGTACCCAGGCCA
* * * * *
9491233 TGTAACTCACTTTTTATGGTATAAAACCACATGGTCAGAGACATGGGCATGTACCCAGGCCA
1 TGTAACTCACTATTTATGGTATAAAACCACACGGCCAGAGACACGAGCATGTACCCAGGCCA
9491295 TGT
1 TGT
9491298 GAGTCACACG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (62 bp):
TGTAACTCACTATTTATGGTATAAAACCACACGGCCAGAGACACGAGCATGTACCCAGGCCA
Found at i:9496884 original size:9 final size:9
Alignment explanation
Indices: 9496870--9496905 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
9496860 TAGAGACTGG
9496870 AAAATTCCT
1 AAAATTCCT
9496879 AAAATTCCT
1 AAAATTCCT
* *
9496888 GAAATTTCT
1 AAAATTCCT
9496897 AAAATTCCT
1 AAAATTCCT
9496906 TCTGATACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.42, C:0.19, G:0.03, T:0.36
Consensus pattern (9 bp):
AAAATTCCT
Found at i:9496898 original size:18 final size:18
Alignment explanation
Indices: 9496871--9496905 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9496861 AGAGACTGGA
9496871 AAATTCCTAAAATTCCTG
1 AAATTCCTAAAATTCCTG
*
9496889 AAATTTCTAAAATTCCT
1 AAATTCCTAAAATTCCT
9496906 TCTGATACTT
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:0.40, C:0.20, G:0.03, T:0.37
Consensus pattern (18 bp):
AAATTCCTAAAATTCCTG
Found at i:9506707 original size:17 final size:16
Alignment explanation
Indices: 9506684--9506730 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 16
9506674 TGTTTTGATC
9506684 TTTTTGTTTCTTTTAT
1 TTTTTGTTTCTTTTAT
* *
9506700 TTTCTTGTTTCATTTGT
1 TTT-TTGTTTCTTTTAT
*
9506717 TTTTTTTTTCTTTT
1 TTTTTGTTTCTTTT
9506731 TTACAAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.04, C:0.09, G:0.06, T:0.81
Consensus pattern (16 bp):
TTTTTGTTTCTTTTAT
Found at i:9507605 original size:31 final size:31
Alignment explanation
Indices: 9507542--9507611 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 31
9507532 TTAAAACTGT
* *
9507542 TTTATATTTTTTCTATATTACGTATTTTAAA
1 TTTATATTTTTTATATATTACGTATTTAAAA
**
9507573 TTTAT-TTTTTTATATATTATTTAGTTTAAAA
1 TTTATATTTTTTATATATTACGTA-TTTAAAA
9507604 TTTTATAT
1 -TTTATAT
9507612 GTCATTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 15 0.47
31 11 0.34
32 5 0.16
33 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (31 bp):
TTTATATTTTTTATATATTACGTATTTAAAA
Found at i:9507644 original size:26 final size:27
Alignment explanation
Indices: 9507609--9507682 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 27
9507599 TAAAATTTTA
*
9507609 TATGTCATTTTAAATTGTTTTATAAAT
1 TATGTTATTTTAAATTGTTTTATAAAT
* * *
9507636 TA-GTTATTTTAGATCGTTTTATATAT
1 TATGTTATTTTAAATTGTTTTATAAAT
*
9507662 TATTTTATTTTAAATTGTTTT
1 TATGTTATTTTAAATTGTTTT
9507683 GTATATTAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 22 0.56
27 17 0.44
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.61
Consensus pattern (27 bp):
TATGTTATTTTAAATTGTTTTATAAAT
Found at i:9507681 original size:27 final size:27
Alignment explanation
Indices: 9507615--9507695 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
9507605 TTTATATGTC
* *
9507615 ATTTTAAATTGTTTTATAAATTA-GTT
1 ATTTTAAATTGTTTTATATATTATTTT
* *
9507641 ATTTTAGATCGTTTTATATATTATTTT
1 ATTTTAAATTGTTTTATATATTATTTT
*
9507668 ATTTTAAATTGTTTTGTATATTAATTTT
1 ATTTTAAATTGTTTTATATATT-ATTTT
9507696 TAATTATTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
26 20 0.43
27 21 0.46
28 5 0.11
ACGTcount: A:0.30, C:0.01, G:0.07, T:0.62
Consensus pattern (27 bp):
ATTTTAAATTGTTTTATATATTATTTT
Found at i:9513919 original size:5 final size:5
Alignment explanation
Indices: 9513909--9513937 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
9513899 CTAAACTTCT
9513909 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
9513938 TTCCCTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:9514694 original size:30 final size:31
Alignment explanation
Indices: 9514640--9514698 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
9514630 GCCATAATTT
* * *
9514640 AAAATCAAGCAAAATTGGCTAAATTGGAACA
1 AAAAGCAAGCAAAATGGGCCAAATTGGAACA
9514671 AAAAGCAAG-AAAATGGGCCAAATTGGAA
1 AAAAGCAAGCAAAATGGGCCAAATTGGAA
9514699 TAATTGTAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.53, C:0.12, G:0.20, T:0.15
Consensus pattern (31 bp):
AAAAGCAAGCAAAATGGGCCAAATTGGAACA
Found at i:9519526 original size:44 final size:43
Alignment explanation
Indices: 9519458--9519544 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 43
9519448 TGAGTACTAT
*
9519458 AGTATTGCTCTTAAAGTAATTTGATTGCAAAAACAAAGGGAAA
1 AGTAATGCTCTTAAAGTAATTTGATTGCAAAAACAAAGGGAAA
** *
9519501 NAGTAATGCTCTTACTGTAATTTGATTGCAGAAACAAAGGGAAA
1 -AGTAATGCTCTTAAAGTAATTTGATTGCAAAAACAAAGGGAAA
9519545 GAGATTATAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.28
Consensus pattern (43 bp):
AGTAATGCTCTTAAAGTAATTTGATTGCAAAAACAAAGGGAAA
Found at i:9521204 original size:13 final size:12
Alignment explanation
Indices: 9521184--9521215 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
9521174 TATATAACAA
9521184 AAAGAAAAAAAC
1 AAAGAAAAAAAC
9521196 AAGAGAAAAAAAC
1 AA-AGAAAAAAAC
9521209 AAAGAAA
1 AAAGAAA
9521216 CCAGATATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.81, C:0.06, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAAC
Found at i:9521213 original size:14 final size:14
Alignment explanation
Indices: 9521179--9521213 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
9521169 GTGTATATAT
*
9521179 AACAAAAAGAAAAA
1 AACAAAGAGAAAAA
9521193 AAC-AAGAGAAAAA
1 AACAAAGAGAAAAA
9521206 AACAAAGA
1 AACAAAGA
9521214 AACCAGATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.80, C:0.09, G:0.11, T:0.00
Consensus pattern (14 bp):
AACAAAGAGAAAAA
Found at i:9523075 original size:18 final size:18
Alignment explanation
Indices: 9523052--9523087 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9523042 TTTGTTGAAA
*
9523052 CAAATCGAATTGGCCAAC
1 CAAATCGAATCGGCCAAC
9523070 CAAATCGAATCGGCCAAC
1 CAAATCGAATCGGCCAAC
9523088 AACCCTCCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.31, G:0.17, T:0.14
Consensus pattern (18 bp):
CAAATCGAATCGGCCAAC
Found at i:9523491 original size:20 final size:20
Alignment explanation
Indices: 9523450--9523497 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
9523440 TTTTTAATTA
* * *
9523450 TTTATTGTTATTTTTTTGTT
1 TTTATTTTTATTTTCTTATT
9523470 TTTATTTTTATTTTCTTATT
1 TTTATTTTTATTTTCTTATT
*
9523490 TTTCTTTT
1 TTTATTTT
9523498 CTTCTTCAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.10, C:0.04, G:0.04, T:0.81
Consensus pattern (20 bp):
TTTATTTTTATTTTCTTATT
Found at i:9523498 original size:14 final size:13
Alignment explanation
Indices: 9523457--9523500 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
9523447 TTATTTATTG
*
9523457 TTATTTTTTTGTTT
1 TTATTTTTTT-TTC
9523471 TTATTTTTATTTTC
1 TTATTTTT-TTTTC
9523485 TTATTTTTCTTTTC
1 TTATTTTT-TTTTC
9523499 TT
1 TT
9523501 CTTCAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 25 0.93
15 2 0.07
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.82
Consensus pattern (13 bp):
TTATTTTTTTTTC
Found at i:9531014 original size:14 final size:15
Alignment explanation
Indices: 9530982--9531015 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
9530972 AAAAGTAAGT
9530982 TATTTTCTAGAAATC
1 TATTTTCTAGAAATC
9530997 -ATTTTCTAG-AATC
1 TATTTTCTAGAAATC
9531010 TATTTT
1 TATTTT
9531016 TAGTTAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (15 bp):
TATTTTCTAGAAATC
Found at i:9531769 original size:51 final size:51
Alignment explanation
Indices: 9531711--9531816 Score: 185
Period size: 51 Copynumber: 2.1 Consensus size: 51
9531701 TCTTCCCCTT
9531711 ACTTTTCAAGTTTCAAACTTTGTATCTCACATTTATTAAAGCATGCTTCTC
1 ACTTTTCAAGTTTCAAACTTTGTATCTCACATTTATTAAAGCATGCTTCTC
* * *
9531762 ACTTTTCAAGTTTCAAACTTTGTATCTCGCCTTTATTAAAGTATGCTTCTC
1 ACTTTTCAAGTTTCAAACTTTGTATCTCACATTTATTAAAGCATGCTTCTC
9531813 ACTT
1 ACTT
9531817 ACGTGTTTAC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.25, C:0.22, G:0.08, T:0.44
Consensus pattern (51 bp):
ACTTTTCAAGTTTCAAACTTTGTATCTCACATTTATTAAAGCATGCTTCTC
Found at i:9532246 original size:19 final size:18
Alignment explanation
Indices: 9532222--9532257 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9532212 TATTAAATTA
*
9532222 TTTAATATTAAAATTTTAT
1 TTTAATAAT-AAATTTTAT
9532241 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
9532258 ACAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:9532271 original size:15 final size:16
Alignment explanation
Indices: 9532244--9532273 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9532234 ATTTTATTTT
9532244 AATAATAAATTTTAAC
1 AATAATAAATTTTAAC
9532260 AATAAT-AATTTTAA
1 AATAATAAATTTTAA
9532274 AGTTTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAATAAATTTTAAC
Found at i:9539596 original size:48 final size:47
Alignment explanation
Indices: 9539532--9539696 Score: 147
Period size: 46 Copynumber: 3.5 Consensus size: 47
9539522 ACCGATGCCG
* * *
9539532 TGTCCTAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCTGACGCA
1 TGTCCCAGACATGTCTTACACTAGCTT-TATATCTCGAGGCTGATGCA
* * * * * * *
9539580 TGTCCCAGACATGTCTTGCAGTAGCTCT-TATCTCAATGCCGATACA
1 TGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCTGATGCA
* * * * *
9539626 TGTCCCAGACATGTCTTACACTGGCTCTCATA-AT-GTGGTTGATGCA
1 TGTCCCAGACATGTCTTACACTAGCT-TTATATCTCGAGGCTGATGCA
*
9539672 TGTCCCAAACATGTCTTACACTAGC
1 TGTCCCAGACATGTCTTACACTAGC
9539697 ACACTTATCA
Statistics
Matches: 91, Mismatches: 24, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
46 65 0.71
47 2 0.02
48 24 0.26
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (47 bp):
TGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCTGATGCA
Found at i:9545015 original size:24 final size:24
Alignment explanation
Indices: 9544988--9545035 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
9544978 CACCGTCATA
9544988 CGACCTTACTTCAGCTCAAGGAAT
1 CGACCTTACTTCAGCTCAAGGAAT
9545012 CGACCTTACTTCAGCTCAAGGAAT
1 CGACCTTACTTCAGCTCAAGGAAT
9545036 TCTTTCCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (24 bp):
CGACCTTACTTCAGCTCAAGGAAT
Found at i:9547466 original size:48 final size:47
Alignment explanation
Indices: 9547402--9547566 Score: 147
Period size: 46 Copynumber: 3.5 Consensus size: 47
9547392 ACCGATGCCG
* * *
9547402 TGTCCTAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCTGACGCA
1 TGTCCCAGACATGTCTTACACTAGCTT-TATATCTCGAGGCTGATGCA
* * * * * * *
9547450 TGTCCCAGACATGTCTTGCAGTAGCTCT-TATCTCAATGCCGATACA
1 TGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCTGATGCA
* * * * *
9547496 TGTCCCAGACATGTCTTACACTGGCTCTCATA-AT-GTGGTTGATGCA
1 TGTCCCAGACATGTCTTACACTAGCT-TTATATCTCGAGGCTGATGCA
*
9547542 TGTCCCAAACATGTCTTACACTAGC
1 TGTCCCAGACATGTCTTACACTAGC
9547567 ACACTTATCA
Statistics
Matches: 91, Mismatches: 24, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
46 65 0.71
47 2 0.02
48 24 0.26
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (47 bp):
TGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCTGATGCA
Found at i:9557719 original size:27 final size:27
Alignment explanation
Indices: 9557689--9557990 Score: 249
Period size: 27 Copynumber: 11.2 Consensus size: 27
9557679 ATAGAATTTA
*
9557689 TGGCTTAATATGAAAGAAAAGCCTTTG
1 TGGCATAATATGAAAGAAAAGCCTTTG
* * * **
9557716 TGGCGTAATAAGTAAGAAAAGAATTTG
1 TGGCATAATATGAAAGAAAAGCCTTTG
* * * *
9557743 TGGCGTAATATGAAATAATATCCTTTG
1 TGGCATAATATGAAAGAAAAGCCTTTG
***
9557770 TGATGTAATATGAAAGAAAAGCCTTTG
1 TGGCATAATATGAAAGAAAAGCCTTTG
* *
9557797 TGGCGTAATATGTATA-AAAAGCCTTTG
1 TGGCATAATATG-AAAGAAAAGCCTTTG
* * *
9557824 TGACATAATATAAAAGAATAA-CTTTTG
1 TGGCATAATATGAAAGAA-AAGCCTTTG
*
9557851 TGGCATAATATGAAAGAAAAACCTTTG
1 TGGCATAATATGAAAGAAAAGCCTTTG
*
9557878 TGGCATAATATGAAAGAATAGCCTTTG
1 TGGCATAATATGAAAGAAAAGCCTTTG
* * * *
9557905 TGGCAAAATATAAAATG-AAGGTCTTTG
1 TGGCATAATATGAAA-GAAAAGCCTTTG
* *
9557932 TGGCA-AACCATGACAAG-AAAGCATTTG
1 TGGCATAA-TATGA-AAGAAAAGCCTTTG
*
9557959 TGGCA-AATCATGAAATGGAAA-CCTTTG
1 TGGCATAAT-ATGAAA-GAAAAGCCTTTG
9557986 TGGCA
1 TGGCA
9557991 ATCTCTAAAA
Statistics
Matches: 223, Mismatches: 42, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
26 8 0.04
27 205 0.92
28 10 0.04
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (27 bp):
TGGCATAATATGAAAGAAAAGCCTTTG
Found at i:9557833 original size:81 final size:80
Alignment explanation
Indices: 9557694--9557920 Score: 276
Period size: 81 Copynumber: 2.8 Consensus size: 80
9557684 ATTTATGGCT
* ** * *
9557694 TAATATGAAAGAAAAGCCTTTGTGGCGTAATAAGTAAGAAAAGAATTTGTGGCGTAATATGAAAT
1 TAATATGAAAGAAAAGCCTTTGTGGCGTAATATGTAA-AAAAGCCTTTGTGGCATAATATAAAAT
* **
9557759 AATATCCTTTGTGATG
65 AATAACCTTTGTGACA
* *
9557775 TAATATGAAAGAAAAGCCTTTGTGGCGTAATATGTATAAAAAGCCTTTGTGACATAATATAAAAG
1 TAATATGAAAGAAAAGCCTTTGTGGCGTAATATGTA-AAAAAGCCTTTGTGGCATAATATAAAAT
* *
9557840 AATAACTTTTGTGGCA
65 AATAACCTTTGTGACA
* * *
9557856 TAATATGAAAGAAAAACCTTTGTGGCATAATATG-AAAGAATAGCCTTTGTGGCAAAATATAAAA
1 TAATATGAAAGAAAAGCCTTTGTGGCGTAATATGTAAA-AA-AGCCTTTGTGGCATAATATAAAA
9557920 T
64 T
9557921 GAAGGTCTTT
Statistics
Matches: 126, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
79 2 0.02
80 3 0.02
81 120 0.95
82 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (80 bp):
TAATATGAAAGAAAAGCCTTTGTGGCGTAATATGTAAAAAAGCCTTTGTGGCATAATATAAAATA
ATAACCTTTGTGACA
Found at i:9560009 original size:41 final size:40
Alignment explanation
Indices: 9559952--9560175 Score: 205
Period size: 41 Copynumber: 5.5 Consensus size: 40
9559942 CTTTAATTAT
** * *
9559952 TTTGTACTTCGGTACCCCTTAAATGCACATACGTGCTCCTG
1 TTTGTACTTCAATACCCCTGAATTGCACATACGTGC-CCTG
* * *
9559993 TTTGTACTTTAATACCCTTGAATTGCACATACATGACCCTG
1 TTTGTACTTCAATACCCCTGAATTGCACATACGTG-CCCTG
* *
9560034 TTTGTACTTCAATACCTCTGAATTGCATATACGTGCCCGTG
1 TTTGTACTTCAATACCCCTGAATTGCACATACGTGCCC-TG
** * *
9560075 TTTGTACTTCGGTACACCTGAATTGCACATACGTACCCCTG
1 TTTGTACTTCAATACCCCTGAATTGCACATACGT-GCCCTG
* ** * * *
9560116 TTCGTACTTCGGTACCTCTGAATTACACATACGTACCCCTG
1 TTTGTACTTCAATACCCCTGAATTGCACATACGT-GCCCTG
* **
9560157 TTTATACTTCGGTACCCCT
1 TTTGTACTTCAATACCCCT
9560176 AGATGTACTT
Statistics
Matches: 155, Mismatches: 25, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
40 3 0.02
41 148 0.95
42 4 0.03
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (40 bp):
TTTGTACTTCAATACCCCTGAATTGCACATACGTGCCCTG
Found at i:9560097 original size:82 final size:81
Alignment explanation
Indices: 9559952--9560173 Score: 259
Period size: 82 Copynumber: 2.7 Consensus size: 81
9559942 CTTTAATTAT
* * * ***
9559952 TTTGTACTTCGGTACCCCTTAAATGCACATACGTGCTCCTGTTTGTACTTTAATACCCTTGAATT
1 TTTGTACTTCGGTACCTCTGAATTGCACATACGTGC-CCTGTTTGTACTTCGGTACCCTTGAATT
9560017 GCACATACATGA-CCCTG
65 GCACATACAT-ACCCCTG
** *
9560034 TTTGTACTTCAATACCTCTGAATTGCATATACGTGCCCGTGTTTGTACTTCGGTACACC-TGAAT
1 TTTGTACTTCGGTACCTCTGAATTGCACATACGTGCCC-TGTTTGTACTTCGGTAC-CCTTGAAT
*
9560098 TGCACATACGTACCCCTG
64 TGCACATACATACCCCTG
* * * *
9560116 TTCGTACTTCGGTACCTCTGAATTACACATACGTACCCCTGTTTATACTTCGGTACCC
1 TTTGTACTTCGGTACCTCTGAATTGCACATACGT-GCCCTGTTTGTACTTCGGTACCC
9560174 CTAGATGTAC
Statistics
Matches: 119, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
81 5 0.04
82 109 0.92
83 5 0.04
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (81 bp):
TTTGTACTTCGGTACCTCTGAATTGCACATACGTGCCCTGTTTGTACTTCGGTACCCTTGAATTG
CACATACATACCCCTG
Found at i:9560115 original size:21 final size:21
Alignment explanation
Indices: 9560086--9560156 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
9560076 TTGTACTTCG
*
9560086 GTACACCTGAATTGCACATAC
1 GTACCCCTGAATTGCACATAC
* *
9560107 GTACCCCTG--TTCGTAC-TTC
1 GTACCCCTGAATT-GCACATAC
* *
9560126 GGTACCTCTGAATTACACATAC
1 -GTACCCCTGAATTGCACATAC
9560148 GTACCCCTG
1 GTACCCCTG
9560157 TTTATACTTC
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
19 4 0.11
20 11 0.30
21 18 0.49
22 4 0.11
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.28
Consensus pattern (21 bp):
GTACCCCTGAATTGCACATAC
Found at i:9560173 original size:20 final size:20
Alignment explanation
Indices: 9560107--9560175 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
9560097 TTGCACATAC
**
9560107 GTACCCCTGTTCGTACTTCG
1 GTACCCCTGTTTATACTTCG
* * * *
9560127 GTACCTCTGAATTACACATAC-
1 GTACCCCTG-TTTATAC-TTCG
9560148 GTACCCCTGTTTATACTTCG
1 GTACCCCTGTTTATACTTCG
9560168 GTACCCCT
1 GTACCCCT
9560176 AGATGTACTT
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
19 2 0.06
20 21 0.58
21 11 0.31
22 2 0.06
ACGTcount: A:0.19, C:0.33, G:0.14, T:0.33
Consensus pattern (20 bp):
GTACCCCTGTTTATACTTCG
Found at i:9568012 original size:18 final size:17
Alignment explanation
Indices: 9567964--9568014 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 17
9567954 TGTTAATTTC
9567964 ACATTTAAAAATAATTAT
1 ACATTT-AAAATAATTAT
9567982 A-ATTTAATTAATAATTAT
1 ACATTTAA--AATAATTAT
9568000 ACATTTACAAATAAT
1 ACATTTA-AAATAAT
9568015 CAAAATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 2 0.07
17 4 0.14
18 17 0.59
19 5 0.17
20 1 0.03
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
ACATTTAAAATAATTAT
Found at i:9568034 original size:36 final size:36
Alignment explanation
Indices: 9567964--9568035 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
9567954 TGTTAATTTC
* * *
9567964 ACATTTAAAAATAATTATAATTTAATTAATAATTAT
1 ACATTTAAAAATAATCAAAATTTAATTAACAATTAT
*
9568000 ACATTTACAAATAATCAAAATTTAAATT-ACAATTAT
1 ACATTTAAAAATAATCAAAATTT-AATTAACAATTAT
9568036 TCCTTAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 27 0.87
37 4 0.13
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (36 bp):
ACATTTAAAAATAATCAAAATTTAATTAACAATTAT
Found at i:9568772 original size:3 final size:3
Alignment explanation
Indices: 9568764--9568798 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
9568754 AGAAAATCCT
9568764 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
9568799 TTTGCATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:9581703 original size:27 final size:29
Alignment explanation
Indices: 9581660--9581736 Score: 72
Period size: 29 Copynumber: 2.7 Consensus size: 29
9581650 AAGTTACACC
*
9581660 TATTTTATTA-TTA-TTTAA-G-TATAAA
1 TATTTTTTTATTTATTTTAATGTTATAAA
* *
9581685 TATTTTTTTATTTATTTTAATGTTTTACA
1 TATTTTTTTATTTATTTTAATGTTATAAA
9581714 TATTTTTATGTATTATATTTTAA
1 TATTTTT-T-TATT-TATTTTAA
9581737 ATTTATTTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
25 9 0.21
26 3 0.07
27 5 0.12
28 1 0.02
29 11 0.26
30 1 0.02
31 4 0.10
32 8 0.19
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (29 bp):
TATTTTTTTATTTATTTTAATGTTATAAA
Found at i:9587910 original size:3 final size:3
Alignment explanation
Indices: 9587902--9587957 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
9587892 AATTTCAACT
9587902 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
9587950 ATC ATC AT
1 ATC ATC AT
9587958 TCTTATTCTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:9588175 original size:3 final size:3
Alignment explanation
Indices: 9588161--9588206 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
9588151 GAAAATTTTA
* **
9588161 TAT TAT TCAT TAT TAT TAT TGT TAT TAT TAT TAT TGC TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9588207 CCTTTTTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:9588187 original size:15 final size:15
Alignment explanation
Indices: 9588161--9588206 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
9588151 GAAAATTTTA
9588161 TATTATT-C-ATTAT
1 TATTATTGCTATTAT
*
9588174 TATTATTGTTATTAT
1 TATTATTGCTATTAT
9588189 TATTATTGCTATTAT
1 TATTATTGCTATTAT
9588204 TAT
1 TAT
9588207 CCTTTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 7 0.24
15 22 0.76
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (15 bp):
TATTATTGCTATTAT
Found at i:9594026 original size:53 final size:53
Alignment explanation
Indices: 9593946--9594092 Score: 231
Period size: 53 Copynumber: 2.8 Consensus size: 53
9593936 CATCTTACCT
*
9593946 TTATTACATTTGCTATCTTTGATTAACTTACTCATTTCGAGTTAATTCCCTTC
1 TTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAGTTAATTCCCTTC
* * *
9593999 TTATTACATTTGCTACCTTTGATTAACTTATTCATTTCAAGTTAATTTCCTTC
1 TTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAGTTAATTCCCTTC
* * *
9594052 TTATTGCATTTGTTATCTTTGATTAATTTATTCATTTCGAG
1 TTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAG
9594093 CTATGCTCCC
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 85 1.00
ACGTcount: A:0.23, C:0.17, G:0.08, T:0.52
Consensus pattern (53 bp):
TTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAGTTAATTCCCTTC
Found at i:9599643 original size:19 final size:19
Alignment explanation
Indices: 9599619--9599663 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
9599609 CGACACCTTT
* *
9599619 TGCATT-CATTTCATGCATC
1 TGCATTACATTACAT-CATA
9599638 TGCATTACATTACATCATA
1 TGCATTACATTACATCATA
9599657 TGCATTA
1 TGCATTA
9599664 AAGTCTACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (19 bp):
TGCATTACATTACATCATA
Found at i:9606966 original size:42 final size:42
Alignment explanation
Indices: 9606905--9606988 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
9606895 ACTTAAAGAG
*
9606905 GGAAAGAGGCCAAATTGAAAACCCGTAAAGGGCGCTTTGAGA
1 GGAAAGAGGCCAAAGTGAAAACCCGTAAAGGGCGCTTTGAGA
*
9606947 GGAAAGAGGCTAAAGTGAAAACCCGTAAAGGGCGCTTTGAGA
1 GGAAAGAGGCCAAAGTGAAAACCCGTAAAGGGCGCTTTGAGA
9606989 CCTTCTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.38, C:0.15, G:0.32, T:0.14
Consensus pattern (42 bp):
GGAAAGAGGCCAAAGTGAAAACCCGTAAAGGGCGCTTTGAGA
Found at i:9608569 original size:177 final size:174
Alignment explanation
Indices: 9608273--9608801 Score: 659
Period size: 177 Copynumber: 3.0 Consensus size: 174
9608263 ATTACAGATC
* *
9608273 TTATCTTCCTGAGGTAGCAAGGGAGTAGACTAATGATATAGATCTTGTCTCCTCGAGATAACAGT
1 TTATCTTCCTGAGGTAGCAAGGGAGTAGACTAATGAT-TAGATCTTGTCTCCTCAAGATAGCAGT
* * * * *
9608338 GGGGCAGATTGAAAATGGCAAACCATATCTTCCCGAGGTAGCAGAGAAGTAGATTTTAGCCACTA
65 -GGGCAGATTGAAAATGGCGAATCTTATCTTCCCGAGGTAGTAGAGGAGTAGATTTTAGCCACTA
* * *
9608403 GCCTGATCTCCCTGAGGTAGTAATGGAGTAGGCTAGAGATTGTAGTA
129 GCCTTATCTCCCTGAGGTAGCAAGGGAGTAGGCT-GAGATTGTAGTA
* * *
9608450 TTATCTTCCTTAGGTAGCAAGGGAGCAGACTGATGATGTAGATCTTGTCTCCTCAAGATAGCAGT
1 TTATCTTCCTGAGGTAGCAAGGGAGTAGACTAATGAT-TAGATCTTGTCTCCTCAAGATAGCAGT
** *
9608515 GGGACAGATCAAAAATTGCGAATCTTATCTTCCCGAGGTAGTAGAGGAGTAGATTTTAGCCACTA
65 GGG-CAGATTGAAAATGGCGAATCTTATCTTCCCGAGGTAGTAGAGGAGTAGATTTTAGCCACTA
* *
9608580 GCCTTATCTCCCTGAGGTAGCAAGGGAGTAGGCTGGATATTGTAGTC
129 GCCTTATCTCCCTGAGGTAGCAAGGGAGTAGGCT-GAGATTGTAGTA
* * * *
9608627 TTATCTTCCTGAGTTAGCAAGGGAGTATACTAATGATTCAGATTTTGTCTCCT-AGAGATAGTAG
1 TTATCTTCCTGAGGTAGCAAGGGAGTAGACTAATGATT-AGATCTTGTCTCCTCA-AGATAGCAG
* ** * *
9608691 TAGGGTAGATTGAAAGCGGTGAATCTTATCTTCCCGAGGTAGTAG-GAGAGCAGATTTTAGCCAC
64 T-GGGCAGATTGAAAATGGCGAATCTTATCTTCCCGAGGTAGTAGAG-GAGTAGATTTTAGCCAC
* * * *
9608755 CAGCCTTATCTCTCT-AGGTAGCAAGGGAGCAAGCTGAAGATTGTAGT
127 TAGCCTTATCTCCCTGAGGTAGCAAGGGAGTAGGCTG-AGATTGTAGT
9608802 CTCATTTTCC
Statistics
Matches: 306, Mismatches: 40, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
175 1 0.00
176 33 0.11
177 269 0.88
178 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (174 bp):
TTATCTTCCTGAGGTAGCAAGGGAGTAGACTAATGATTAGATCTTGTCTCCTCAAGATAGCAGTG
GGCAGATTGAAAATGGCGAATCTTATCTTCCCGAGGTAGTAGAGGAGTAGATTTTAGCCACTAGC
CTTATCTCCCTGAGGTAGCAAGGGAGTAGGCTGAGATTGTAGTA
Found at i:9610940 original size:15 final size:15
Alignment explanation
Indices: 9610917--9610955 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
9610907 TTATCTTAAA
* *
9610917 ATTAATTTATATATT
1 ATTATTTTACATATT
9610932 ATTATTTTACATATT
1 ATTATTTTACATATT
9610947 ATTTATTTT
1 A-TTATTTT
9610956 TATTCTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTATTTTACATATT
Found at i:9612160 original size:46 final size:46
Alignment explanation
Indices: 9612107--9612254 Score: 206
Period size: 46 Copynumber: 3.2 Consensus size: 46
9612097 AGAGCAAATT
* *
9612107 GATTGAAGAAGATACAAATCCTATACCCCTGAATTGTAGTGGGATG
1 GATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGGATG
* *
9612153 GATTGAAGAAGATACAAATCCTATACCCCTGAGCTGCAATGGGATG
1 GATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGGATG
* * * * *
9612199 GATTGAAGATGGTACAAATTCTATACCCTTGAGTTGCAGTGAGATG
1 GATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGGATG
*
9612245 GATGGAAGAA
1 GATTGAAGAA
9612255 ACCACAAATT
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 89 1.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (46 bp):
GATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGGATG
Found at i:9612979 original size:143 final size:143
Alignment explanation
Indices: 9612685--9613051 Score: 488
Period size: 143 Copynumber: 2.6 Consensus size: 143
9612675 TAGATTGAAG
* * * * *
9612685 ATGGTGGATCTTATCTTCCTGAAGTTAC-GTGAAGTAGATTGAAGCCACCGGCCTTATCTCCTTG
1 ATGGTGGATCTTATCTTTCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCCTG
* * * * * *
9612749 AAGTTTCAACCGAACAAACTGAAGAAAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATT
66 AAGTTGCAGCGGAGCAGACTGAAGAAAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
9612814 AAAGCTACAAATA
131 AAAGCTACAAATA
* *
9612827 ATGGCGGATCTTATCTTTCTGAAGTTGCAGTGGAGTAGATTAAAGCCACCAGCCTTATCTCCCTG
1 ATGGTGGATCTTATCTTTCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCCTG
*
9612892 AAGTTGCAGCGGAGCAGACTGAAGAAAGCGAATCTTATTTCTCT-AGAGTTGCAGTGGAACAGAT
66 AAGTTGCAGCGGAGCAGACTGAAGAAAGCGAATCTTATTTCCCTGA-AGTTGCAGTGGAACAGAT
* *
9612956 TGAAGCTACAAATT
130 TAAAGCTACAAATA
* * * **
9612970 ATGGTGGATCTTATC-TTCTTAAAGTTGCAATGGAGGAGATTGAAGCTGCCAGCCTTATCTCCCT
1 ATGGTGGATCTTATCTTTC-TGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCCT
* *
9613034 GAAGTTGTAGTGGAGCAG
65 GAAGTTGCAGCGGAGCAG
9613052 GTTGAAATTA
Statistics
Matches: 197, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
142 29 0.15
143 168 0.85
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (143 bp):
ATGGTGGATCTTATCTTTCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCCTG
AAGTTGCAGCGGAGCAGACTGAAGAAAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
AAAGCTACAAATA
Done.