Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01009222.1 Corchorus capsularis cultivar CVL-1 contig09243, whole genome shotgun sequence
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: 146527
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:603 original size:322 final size:321
Alignment explanation
Indices: 8--887 Score: 1106
Period size: 322 Copynumber: 2.7 Consensus size: 321
1 TACGAGT
* *
8 ATCTGAATCTTGTTTCGATTTATTTAGAAATAAATTAGGAAAAAAATTTATGAAAAACGATATTA
1 ATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAA--TATGAAAAACGATATTA
* * * * * *
73 GAAGCGTAAAAAATCCTGCAATCTTTTTTTTTTGCGTCT-AATTATATGTTTTTTTTAAGAATAT
64 GAAGCGTGAAAAATCATGCAATC----TTTTTGGCGT-TGAATTATAT-ATTTTTATGAG-A-AT
* * *
137 TGTGGCAAAAAATTGAGAAAAAAAAATTCCGGGTTAGTTTTTAGCCGAAATCGTATACTAACCAT
121 TGTGGCAAAAAATTGAG-AAAAAAATTTTCGGGTTAGTTTTTAGCCGAAATCGTGTACTAACCAT
* * * *
202 CACGATTTTTGACTAGAAACGCGTTTCATGGCCTCGACTGAGTTTTGCATGGTTTTTGACATAAA
185 CACGGTTTTTGACTAAAAACGCGTTTCA-GGCCACGACTCAGTTTTGCATGGTTTTTGACATAAA
* * *
267 AACTCCTTGAAATATCTATATTCATCCAACTAAATCGT-AGCCACAATTGATT-TAAGGAATTGT
249 AACTCCTTGAAATATCTATATTCATACAACCAAATC-TCAGCCACAATTGATTCT-AGGAATTAT
*
330 TTTTACAAGC
312 TTTTACAACC
*
340 ATCTGAATGTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAATATGAAAAACGATATTAGA
1 ATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAATATGAAAAACGATATTAGA
*
405 AGCGTGAAAAATCTTGCAATCTTTTTGGCGTTGAATTATATATTTTTATGAGAATTGTGGCAAAA
66 AGCGTGAAAAATCATGCAATCTTTTTGGCGTTGAATTATATATTTTTATGAGAATTGTGGCAAAA
* *
470 AATTGAGAAAAAACTTTTCGGGTCAGATTTTT-GCCGAAATCGTGTACTAACCATCACGGTTTTT
131 AATTGAGAAAAAAATTTTCGGGTTAG-TTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTT
* * *
534 -AGCTAAAAACGCGTTTCAGGACCACGACTCAGTTTTGCATGGTTTTTGATATAAATACTCTTTG
195 GA-CTAAAAACGCGTTTCAGG-CCACGACTCAGTTTTGCATGGTTTTTGACATAAAAACTCCTTG
* * * * * *
598 AAATATTTATATTCATATAACCAGATCTCTGCCACAATTGATTCTAGGATTTATTTTTACGACC
258 AAATATCTATATTCATACAACCAAATCTCAGCCACAATTGATTCTAGGAATTATTTTTACAACC
* *
662 ATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGAAATAAAAATATGAAAAAAGATATTAG
1 ATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAA-AAAAATATGAAAAACGATATTAG
* * * *** *
727 AAGCGTGAAAAATCATGCAATCTTTTTGTCATTGAATTATAGATTTTTTATGAGTGCTGTGACAA
65 AAGCGTGAAAAATCATGCAATCTTTTTGGCGTTGAATTATATA-TTTTTATGAGAATTGTGGC--
* * *
792 AAAAAATTGAG-AAAAATTTTTCGGGTTAGTTTTTAGCCGAAATTGTGTACTAATCATCACGGTT
127 AAAAAATTGAGAAAAAAATTTTCGGGTTAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTT
* *
856 TTTGACTAAAAATGCGTTTCAGGGTCACGACT
192 TTTGACTAAAAACGCGTTTCA-GGCCACGACT
888 ATAATAGTAC
Statistics
Matches: 487, Mismatches: 48, Indels: 33
0.86 0.08 0.06
Matches are distributed among these distances:
321 4 0.01
322 187 0.38
323 86 0.18
324 21 0.04
325 77 0.16
326 31 0.06
330 38 0.08
332 43 0.09
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (321 bp):
ATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAATATGAAAAACGATATTAGA
AGCGTGAAAAATCATGCAATCTTTTTGGCGTTGAATTATATATTTTTATGAGAATTGTGGCAAAA
AATTGAGAAAAAAATTTTCGGGTTAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTG
ACTAAAAACGCGTTTCAGGCCACGACTCAGTTTTGCATGGTTTTTGACATAAAAACTCCTTGAAA
TATCTATATTCATACAACCAAATCTCAGCCACAATTGATTCTAGGAATTATTTTTACAACC
Found at i:1056 original size:15 final size:15
Alignment explanation
Indices: 1036--1066 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1026 CCAGTAAGGA
*
1036 ACGGGATGGGATGGG
1 ACGGGACGGGATGGG
1051 ACGGGACGGGATGGG
1 ACGGGACGGGATGGG
1066 A
1 A
1067 AGTCTTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.10, G:0.58, T:0.10
Consensus pattern (15 bp):
ACGGGACGGGATGGG
Found at i:9976 original size:41 final size:41
Alignment explanation
Indices: 9919--10000 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
9909 CCATCAAACC
9919 AAGAAAATTAATGCTAGTATATGACATAACCTGAGTAAATA
1 AAGAAAATTAATGCTAGTATATGACATAACCTGAGTAAATA
9960 AAGAAAATTAATGCTAGTATATGACATAACCTGAGTAAATA
1 AAGAAAATTAATGCTAGTATATGACATAACCTGAGTAAATA
10001 GTATATGTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.27
Consensus pattern (41 bp):
AAGAAAATTAATGCTAGTATATGACATAACCTGAGTAAATA
Found at i:14052 original size:115 final size:115
Alignment explanation
Indices: 13849--14070 Score: 338
Period size: 115 Copynumber: 1.9 Consensus size: 115
13839 TATCGGTTAC
* * * *
13849 GATGCCAAAAATGTGCCCAAATGATACATCTTGTCAATCATTCAGTGTAATAGAAAGTGACTACA
1 GATGCCAAAAATGTCCCCAAATGATACATCTTGTCAATAATTCAGTGTAATAGAAAGTCAATACA
*
13914 TGGTGCAACATAATACGGGGTAGCATAGCTACGTGCAAGACAGGGCTTAT
66 TGGTGCAACATAATACGGAGTAGCATAGCTACGTGCAAGACAGGGCTTAT
* * *
13964 GATGCCAAAAATGTCCCCAAATGATACATCTTTTCAATAATTCAGTGTTATAGAAAGTCAATACT
1 GATGCCAAAAATGTCCCCAAATGATACATCTTGTCAATAATTCAGTGTAATAGAAAGTCAATACA
* *
14029 TGGTGCAACATAA-ACCTGAGTAGCATAGCTACGTGTAAGACA
66 TGGTGCAACATAATA-CGGAGTAGCATAGCTACGTGCAAGACA
14071 TGATTCAAAT
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
114 1 0.01
115 95 0.99
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (115 bp):
GATGCCAAAAATGTCCCCAAATGATACATCTTGTCAATAATTCAGTGTAATAGAAAGTCAATACA
TGGTGCAACATAATACGGAGTAGCATAGCTACGTGCAAGACAGGGCTTAT
Found at i:18761 original size:239 final size:237
Alignment explanation
Indices: 18203--18913 Score: 1019
Period size: 230 Copynumber: 3.0 Consensus size: 237
18193 ATCTTAGGCA
* *
18203 CATCAACCGGGTGTGGCTGCTGAGTATGTTCAACTTCCTTTGGTGATACTATCTGGTCTAGTGAG
1 CATCAACCGGGTGTGGCTGCTGAGTATGTTCAACTTCCTTAGGTGATACTATCTGGTCCAGTGAG
* * *
18268 TCCTACAAAGTGCAGGAAATATTATTGAAGAAAAAAGAAAGCAAATTTTGACATCACATAATTCA
66 TCCTACAAAG-ACAGGAAATATTATTGAAGAAAAAAGAAAGCAAATTTTGACATCAGAGAATTCA
* * *
18333 TTTATAAAAATCAAAGACAAGGAACAGACCATTACCTCATTGTTCTCAGGAAGCAGCT-TT----
130 TTTATAAAAATCAAAGACAAGGAACAGACAATAACCTCATTGTTCTCACGAAGCAGCTGTTCACC
*
18393 T--T-GACAGATACACTGCTGTCATTACCTGAACTGCAGACTG
195 TGCTGGACAGATACACTGCTGTCATTACCTGAAGTGCAGACTG
18433 CATCAACCGGGTGTGGCTGCTGAGTATGTTCAACTTCCTTAGGTGATACTATCTGGTCCAGTGAG
1 CATCAACCGGGTGTGGCTGCTGAGTATGTTCAACTTCCTTAGGTGATACTATCTGGTCCAGTGAG
* *
18498 TCCTACAAAGAGCAGGAAATATTATTGAAGAAAAGAGAAAGCAAATTTTGACATTAGAGAATTCA
66 TCCTACAAAGA-CAGGAAATATTATTGAAGAAAAAAGAAAGCAAATTTTGACATCAGAGAATTCA
18563 TTTATAAAAATCAAAGACAAGGAACAGACAATAACCTCATTGTTCTCACGAAGCAGCTGTTCACC
130 TTTATAAAAATCAAAGACAAGGAACAGACAATAACCTCATTGTTCTCACGAAGCAGCTGTTCACC
* *
18628 TAGCTGGACAGATACAGTGCTGTCATCACCTGAAGTGCAGACTG
195 T-GCTGGACAGATACACTGCTGTCATTACCTGAAGTGCAGACTG
* * * * * * *
18672 CATCAACTGGGTCTGGCTGCTGAGTACGTGCAGCTTCCTTAGGTGAAACTATCCGGTCCAGTGAG
1 CATCAACCGGGTGTGGCTGCTGAGTATGTTCAACTTCCTTAGGTGATACTATCTGGTCCAGTGAG
* * * *
18737 TCCTACAAAGCACAAGAAATATTATTGAAGAAAAAAGATAGCAAATTTTTTACATCGGAGAATTC
66 TCCTACAAAG-ACAGGAAATATTATTGAAGAAAAAAGAAAGCAAA-TTTTGACATCAGAGAATTC
** *
18802 ATTCCT--AAATCAAAGACATGGAACAGACAATAACCTCATTGTTCTCACGAAGCAGCTGTTCAC
129 ATTTATAAAAATCAAAGACAAGGAACAGACAATAACCTCATTGTTCTCACGAAGCAGCTGTTCAC
* * * *
18865 CTGGCTGGACAGATGCACTGCTATCATTACCTGATGTGCTGACTG
194 CT-GCTGGACAGATACACTGCTGTCATTACCTGAAGTGCAGACTG
18910 CATC
1 CATC
18914 TGAAAGAAAT
Statistics
Matches: 433, Mismatches: 36, Indels: 16
0.89 0.07 0.03
Matches are distributed among these distances:
230 177 0.41
231 2 0.00
235 1 0.00
238 99 0.23
239 133 0.31
240 21 0.05
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (237 bp):
CATCAACCGGGTGTGGCTGCTGAGTATGTTCAACTTCCTTAGGTGATACTATCTGGTCCAGTGAG
TCCTACAAAGACAGGAAATATTATTGAAGAAAAAAGAAAGCAAATTTTGACATCAGAGAATTCAT
TTATAAAAATCAAAGACAAGGAACAGACAATAACCTCATTGTTCTCACGAAGCAGCTGTTCACCT
GCTGGACAGATACACTGCTGTCATTACCTGAAGTGCAGACTG
Found at i:38518 original size:2 final size:2
Alignment explanation
Indices: 38511--38536 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
38501 GAAAAAGTTA
38511 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
38537 TTTGTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42255 original size:2 final size:2
Alignment explanation
Indices: 42248--42276 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
42238 AGTTGAAAAC
42248 TA TA 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 TA TA T
42277 GGTGTTTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43505 original size:16 final size:16
Alignment explanation
Indices: 43483--43528 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
43473 AATAAATACT
*
43483 ATAACCCGAAACCGAT
1 ATAACCCGAAACCGAG
* *
43499 TTAACCCG-AATCGAG
1 ATAACCCGAAACCGAG
43514 ATAACCCGAAACCGA
1 ATAACCCGAAACCGA
43529 CAAAATCCGA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.41, C:0.30, G:0.15, T:0.13
Consensus pattern (16 bp):
ATAACCCGAAACCGAG
Found at i:50011 original size:45 final size:44
Alignment explanation
Indices: 49943--50033 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 44
49933 AGATTTTGAA
*
49943 GTTCTTTCCACAAGGATTCAAATTAAGGAATAGAGTAAACAGACC
1 GTTCTTTCCACAAGGATTCAAATTAAGAAATAGAGTAAAC-GACC
* *
49988 GTTCTTTCCACACGGATTTAAATTAAGAAATAGAGTAAACGACC
1 GTTCTTTCCACAAGGATTCAAATTAAGAAATAGAGTAAACGACC
50032 GT
1 GT
50034 GCATTAATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
44 6 0.14
45 37 0.86
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (44 bp):
GTTCTTTCCACAAGGATTCAAATTAAGAAATAGAGTAAACGACC
Found at i:61603 original size:2 final size:2
Alignment explanation
Indices: 61596--61628 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
61586 CACGACTTAG
61596 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61629 CACAAACAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:79526 original size:17 final size:17
Alignment explanation
Indices: 79504--79536 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
79494 GTACACGGTT
79504 TAAAAAAGAAGTTGAAA
1 TAAAAAAGAAGTTGAAA
*
79521 TAAAAATGAAGTTGAA
1 TAAAAAAGAAGTTGAA
79537 TCTCTCGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.21
Consensus pattern (17 bp):
TAAAAAAGAAGTTGAAA
Found at i:79913 original size:12 final size:12
Alignment explanation
Indices: 79896--79922 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
79886 CATCGTCATC
79896 CTGATTCTCCAA
1 CTGATTCTCCAA
79908 CTGATTCTCCAA
1 CTGATTCTCCAA
79920 CTG
1 CTG
79923 GAGAGGAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.33, G:0.11, T:0.33
Consensus pattern (12 bp):
CTGATTCTCCAA
Found at i:80393 original size:21 final size:21
Alignment explanation
Indices: 80367--80409 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
80357 CCTTTTCCTC
*
80367 TTGTTGTTGTTCTGGGAGCCA
1 TTGTTGCTGTTCTGGGAGCCA
* *
80388 TTGTTGCTGTTTTGGGTGCCA
1 TTGTTGCTGTTCTGGGAGCCA
80409 T
1 T
80410 CAGACAGGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.07, C:0.14, G:0.33, T:0.47
Consensus pattern (21 bp):
TTGTTGCTGTTCTGGGAGCCA
Found at i:80578 original size:18 final size:17
Alignment explanation
Indices: 80544--80581 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
80534 CTTTTCTTTT
80544 CTTTCCTTCTTATTCTC
1 CTTTCCTTCTTATTCTC
80561 CTTTACCTTCCTTA-TCTC
1 CTTT-CCTT-CTTATTCTC
80579 CTT
1 CTT
80582 CTCCCCCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 11 0.58
19 4 0.21
ACGTcount: A:0.08, C:0.37, G:0.00, T:0.55
Consensus pattern (17 bp):
CTTTCCTTCTTATTCTC
Found at i:86791 original size:23 final size:23
Alignment explanation
Indices: 86748--86793 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
86738 GTATGTGACG
** *
86748 TTTTCTCTCTTTTTTTGTTGTTT
1 TTTTCTCTCTTTCGTTCTTGTTT
86771 TTTTCTCTCTTTCGTTCTTGTTT
1 TTTTCTCTCTTTCGTTCTTGTTT
86794 GCCTGGCTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.00, C:0.17, G:0.09, T:0.74
Consensus pattern (23 bp):
TTTTCTCTCTTTCGTTCTTGTTT
Found at i:91978 original size:88 final size:88
Alignment explanation
Indices: 91860--92037 Score: 293
Period size: 88 Copynumber: 2.0 Consensus size: 88
91850 CTAGTGCATA
* *
91860 TGTATATCTCTACTCTCTAGTCCCCTTATCTATTAATTGAGTACTTTGAACTTATTATTTAACTT
1 TGTATATCTCTACTCTCTAGTCCCCTTATCTATTAATTGAGTACTTTGAACTTATGATATAACTT
*
91925 GATTTTCTGTTGTCAGGTCGGTT
66 GATTTTCTGTTGTCAGATCGGTT
* * *
91948 TGTATGTCTCTACTCTTTAGTCCCCTTATCTATTAATTGAGTACTTTGACCTTATGATATAACTT
1 TGTATATCTCTACTCTCTAGTCCCCTTATCTATTAATTGAGTACTTTGAACTTATGATATAACTT
*
92013 GATTTTCTGTTGTTAGATCGGTT
66 GATTTTCTGTTGTCAGATCGGTT
92036 TG
1 TG
92038 GACGGGATTC
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 83 1.00
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (88 bp):
TGTATATCTCTACTCTCTAGTCCCCTTATCTATTAATTGAGTACTTTGAACTTATGATATAACTT
GATTTTCTGTTGTCAGATCGGTT
Found at i:96027 original size:15 final size:15
Alignment explanation
Indices: 96007--96040 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
95997 GTTGTTGTTG
*
96007 TTTTTTTTTT-TTCC
1 TTTTTTTTTTGTTCA
96021 TTTTTTTTTTGTTCA
1 TTTTTTTTTTGTTCA
96036 TTTTT
1 TTTTT
96041 GTGATGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.03, C:0.09, G:0.03, T:0.85
Consensus pattern (15 bp):
TTTTTTTTTTGTTCA
Found at i:102270 original size:2 final size:2
Alignment explanation
Indices: 102263--102299 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
102253 TTTGTTAAGG
102263 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
102300 TGAAATAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:105412 original size:3 final size:3
Alignment explanation
Indices: 105404--105452 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
105394 AAATACCCTG
105404 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
105452 T
1 T
105453 CCTTGGTGCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:107665 original size:19 final size:19
Alignment explanation
Indices: 107641--107680 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
107631 TTGGAAACAC
107641 TTCATCTCAGATATATTTA
1 TTCATCTCAGATATATTTA
107660 TTCATCTCAGATATATTTA
1 TTCATCTCAGATATATTTA
107679 TT
1 TT
107681 GGACGTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.15, G:0.05, T:0.50
Consensus pattern (19 bp):
TTCATCTCAGATATATTTA
Found at i:110253 original size:52 final size:53
Alignment explanation
Indices: 110160--110261 Score: 134
Period size: 52 Copynumber: 1.9 Consensus size: 53
110150 GACGTGGCAC
* ** *
110160 GCCACGTGTACCAAAAAGTGACATGTGGCACGCCACATGTACCAAAAAGTCGT
1 GCCACATGTACCAAAAAGTGACACATAGCACGCCACATGTACCAAAAAGTCGT
* * *
110213 GCCACATGTA-CAAAAAGTGACACATATCACGTCACGTGTACCAAAAAGT
1 GCCACATGTACCAAAAAGTGACACATAGCACGCCACATGTACCAAAAAGT
110262 GACACGTGGC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
52 33 0.79
53 9 0.21
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.18
Consensus pattern (53 bp):
GCCACATGTACCAAAAAGTGACACATAGCACGCCACATGTACCAAAAAGTCGT
Found at i:110280 original size:31 final size:30
Alignment explanation
Indices: 110212--110288 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
110202 CAAAAAGTCG
* *
110212 TGCCACATGTACAAAAAGTGACACATATCA
1 TGCCACGTGTACAAAAAGTGACACATAGCA
* * * *
110242 CGTCACGTGTACCAAAAAGTGACACGTGGCA
1 TGCCACGTGTA-CAAAAAGTGACACATAGCA
*
110273 TGCCACGTGCACAAAA
1 TGCCACGTGTACAAAA
110289 GGATACATGC
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
30 13 0.35
31 24 0.65
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (30 bp):
TGCCACGTGTACAAAAAGTGACACATAGCA
Found at i:111060 original size:26 final size:26
Alignment explanation
Indices: 111031--111096 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
111021 CTTAGTTTAT
111031 TAGTTTATGTTTAATTAGTATATAAG
1 TAGTTTATGTTTAATTAGTATATAAG
* *
111057 TAGTTTAT-TATTAATTAGTATTTAAT
1 TAGTTTATGT-TTAATTAGTATATAAG
*
111083 TAGTTTATGATTAA
1 TAGTTTATGTTTAA
111097 AATGAAGGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.03
26 34 0.97
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (26 bp):
TAGTTTATGTTTAATTAGTATATAAG
Found at i:111170 original size:23 final size:23
Alignment explanation
Indices: 111105--111158 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
111095 AAAATGAAGG
111105 AAAATGAATTTGAAGATTTGTTA
1 AAAATGAATTTGAAGATTTGTTA
111128 AAAATGAATTTGAAGATTTGTTA
1 AAAATGAATTTGAAGATTTGTTA
111151 AAAATGAA
1 AAAATGAA
111159 GTTTAGGGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (23 bp):
AAAATGAATTTGAAGATTTGTTA
Found at i:116543 original size:54 final size:54
Alignment explanation
Indices: 116442--116879 Score: 336
Period size: 54 Copynumber: 8.5 Consensus size: 54
116432 AGCACCACCG
* * *
116442 TGTCTTCTCGTGTAGCTTCGTGTGTGTCATGTGTCTTCTCGTCTCACTGCGGAGAGCCTC
1 TGTCTTCTCGTGTACCTTCGTGTCTG-C-TG-G-C--CTCGCCTCACTGCGGAGAGCCTC
116502 TGTCTTCTCGTGTACCTTCGTGTCTGCTGGCCTCGCCTCACTGCGGAGAGCCTC
1 TGTCTTCTCGTGTACCTTCGTGTCTGCTGGCCTCGCCTCACTGCGGAGAGCCTC
* ** *
116556 TGTCTTCTCGTGTACCTTCGTGTCTG-T---CT----TCA-TGTGTG-TTG--TG
1 TGTCTTCTCGTGTACCTTCGTGTCTGCTGGCCTCGCCTCACTGCG-GAGAGCCTC
* * *
116599 TGTCTTCTCGTGTACC-TCGTGTCTGCTGGCCTTGCCTCACTGCGGAGAACCTT
1 TGTCTTCTCGTGTACCTTCGTGTCTGCTGGCCTCGCCTCACTGCGGAGAGCCTC
* * * * * * *
116652 TGTCTTCTCGTGTACTTTTGTGTCTGCAGGCCTCGCCTTACTGCGAAGAGCTTT
1 TGTCTTCTCGTGTACCTTCGTGTCTGCTGGCCTCGCCTCACTGCGGAGAGCCTC
* * * *
116706 TGTATTCTCGTGTACCTTCGTGTCTGTTGGCCTAGCCTCATTGCGGAGAG----
1 TGTCTTCTCGTGTACCTTCGTGTCTGCTGGCCTCGCCTCACTGCGGAGAGCCTC
* * * *
116756 -G-C-TCT-ATGTGCCTTCAG-G--T-CTGGCCTCACCTTACTGCGGAGAGCCTC
1 TGTCTTCTCGTGTACCTTC-GTGTCTGCTGGCCTCGCCTCACTGCGGAGAGCCTC
* * * * * *
116803 TGTCTTCTCGTGTACCTTCGTGTCTACTGACCTCGCCTTATTGC--AGAGTCTT
1 TGTCTTCTCGTGTACCTTCGTGTCTGCTGGCCTCGCCTCACTGCGGAGAGCCTC
116855 TGTCTTCTCGTGTACCTTCGTGTCT
1 TGTCTTCTCGTGTACCTTCGTGTCT
116880 TTGCGTGTTC
Statistics
Matches: 307, Mismatches: 44, Indels: 62
0.74 0.11 0.15
Matches are distributed among these distances:
42 9 0.03
43 37 0.12
44 1 0.00
45 4 0.01
46 15 0.05
47 4 0.01
48 1 0.00
49 2 0.01
50 10 0.03
51 12 0.04
52 31 0.10
53 18 0.06
54 134 0.44
56 1 0.00
57 1 0.00
58 2 0.01
59 1 0.00
60 24 0.08
ACGTcount: A:0.09, C:0.29, G:0.25, T:0.37
Consensus pattern (54 bp):
TGTCTTCTCGTGTACCTTCGTGTCTGCTGGCCTCGCCTCACTGCGGAGAGCCTC
Found at i:116675 original size:96 final size:97
Alignment explanation
Indices: 116502--116677 Score: 300
Period size: 96 Copynumber: 1.8 Consensus size: 97
116492 GGAGAGCCTC
*
116502 TGTCTTCTCGTGTACCTTCGTGTCTGCTGGCCTCGCCTCACTGCGGAGAGCCTCTGTCTTCTCGT
1 TGTCTTCTCGTGTACCTTCGTGTCTGCTGGCCTCGCCTCACTGCGGAGAACCTCTGTCTTCTCGT
116567 GTACCTTCGTGTCTGTCTTCATGTGTGTTGTG
66 GTACCTTCGTGTCTGTCTTCATGTGTGTTGTG
* *
116599 TGTCTTCTCGTGTACC-TCGTGTCTGCTGGCCTTGCCTCACTGCGGAGAACCTTTGTCTTCTCGT
1 TGTCTTCTCGTGTACCTTCGTGTCTGCTGGCCTCGCCTCACTGCGGAGAACCTCTGTCTTCTCGT
* *
116663 GTACTTTTGTGTCTG
66 GTACCTTCGTGTCTG
116678 CAGGCCTCGC
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
96 58 0.78
97 16 0.22
ACGTcount: A:0.07, C:0.28, G:0.25, T:0.40
Consensus pattern (97 bp):
TGTCTTCTCGTGTACCTTCGTGTCTGCTGGCCTCGCCTCACTGCGGAGAACCTCTGTCTTCTCGT
GTACCTTCGTGTCTGTCTTCATGTGTGTTGTG
Found at i:117197 original size:37 final size:37
Alignment explanation
Indices: 117154--117230 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
117144 GTGTGTGAAT
117154 CATGTTTTTGTGTGTACTAGTAATTTGCCACATGTTC
1 CATGTTTTTGTGTGTACTAGTAATTTGCCACATGTTC
117191 CATGTTTTTGTGTGTACTAGTAATTTGCCACATGTTC
1 CATGTTTTTGTGTGTACTAGTAATTTGCCACATGTTC
117228 CAT
1 CAT
117231 ACGTGGGGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.19, C:0.17, G:0.18, T:0.45
Consensus pattern (37 bp):
CATGTTTTTGTGTGTACTAGTAATTTGCCACATGTTC
Found at i:119454 original size:332 final size:327
Alignment explanation
Indices: 118196--124470 Score: 4418
Period size: 332 Copynumber: 19.2 Consensus size: 327
118186 AAAAACTAAA
* * *
118196 TCAACGCCAAAAAAATTGAAGGGCATTTCACGCTACTAATATCAAATTTACAATTTTTTTCG-AA
1 TCAACGCCAAAAAAATTGAAGTGCATTTCACGCTTCTAATATC--ATTTACCATTTTTTTCGAAA
* * * *
118260 TTAATTTC-AAATCAA---AACGAGATTC--AAATGCTCGTAAAAACAAATCTTTAAAT-CATAT
64 TTAATTTCTAATTAAATCGAACCAGTTTCTGAAA--CTCGTAAAAACAAATCTTTAAATCCA-AT
* * * *
118318 GTGACTGAGATTTGGTTAGATGAATATAGAAATTTCAAGGAGTCTTTGTGCCAAAAATCATGCAA
126 GTGGCTGAGATTTGGTTAGATGAATATTGATATTTCAAGGAGTCTTGGTGCCAAAAATCATGCAA
* * *
118383 AACTGAGCCGGGGCTCTGGAACGCGTTTTTAACCAAATACCGTGATGGTTACTACACGATTT---
191 AACTGAGTCGGGGCTC-GGAACGCGTTTTTAACCAAAAACCGTGATGGTTAGTACACGATTTCGG
* * * *
118445 C----A---C-C-AAAATTGACCCGAAAATTTTTTTGCTCAATTTTTTACCACAATACT--TAAA
255 CTAAAATTTCGCAAAAACTGACCCGAAAA--CTTTTCCTCAA-TTTTTGCCACAATACTCATAAA
*
118499 AATATATATAAA
317 AA-ATATATAAT
** ** * * * * *
118511 TCAATACCAAAAAGGTTGAAGGGCTTTTCACGCTTCTAATATCATTT-TCTTTTTTTTCAAAATT
1 TCAACGCCAAAAAAATTGAAGTGCATTTCACGCTTCTAATATCATTTACCATTTTTTTCGAAATT
* * * *
118575 AATTTCTAATTAAATCAAACC-GATTT-TTAATGCTTGTAAAAACAAATCCTTT-AATCCAATGT
66 AATTTCTAATTAAATCGAACCAG-TTTCTGAA-ACTCGTAAAAACAAAT-CTTTAAATCCAATGT
* * * * * * ** *
118637 GGCTGAGATTTGGTTAGATAAAAATGGTTATTTCAAGGAATCTTGCTGGAAAAAAATCATACAAA
128 GGCTGAGATTTGGTTAGATGAATATTGATATTTCAAGGAGTCTTGGT-GCCAAAAATCATGCAAA
* * * * * ** * * ** *
118702 AATGACGCCGGGCCTCTGAAGGCG-TTTTAGGCAAAAACCGTGATGATTAATACATAATTTGGGC
192 ACTGA-GTCGGGGCTCGGAACGCGTTTTTAACCAAAAACCGTGATGGTTAGTACACGATTTCGGC
** * *
118766 TAAAATTTTACAAAAACTGACCCGAAGAACTTTTCCTCAATTTTTTG-CACAACAC-GAGTAAAG
256 TAAAATTTCGCAAAAACTGACCCGAA-AACTTTTCCTCAA-TTTTTGCCACAATACTCA-TAAA-
*
118829 AAA-AAACTAAT
317 AAATATA-TAAT
* * * * *
118840 TCAACGCCAAAGAAATTGAAGGGCATTTCACGATACTAATATCAATTTTA-CAATTTTTTCG-AA
1 TCAACGCCAAAAAAATTGAAGTGCATTTCACGCTTCTAATATC-A-TTTACCATTTTTTTCGAAA
* * * * *
118903 TTAATTTCAAATCAAATCAAAACGAGATTC--AAATGCTCGTAAAAACAAATCCTTT-AATCCAA
64 TTAATTTCTAATTAAATC-GAACCAGTTTCTGAAA--CTCGTAAAAACAAAT-CTTTAAATCCAA
* * * * * * *** ** *
118965 TATGACTGAGATTTGGTTAGATAAAAATGGATATTTCAAGGAATCTTACCGAAAAAAAATCATAC
125 TGTGGCTGAGATTTGGTTAGATGAATATTGATATTTCAAGGAGTCTTGGTG-CCAAAAATCATGC
* * * * ** * ** * * *
119030 AAAAATGACG-CCGAGCAACTAAAGGCG-TTTTAGGCAAAAACCGTGATGATTAATACATGATTT
189 AAAACTGA-GTCGGGGC-TCGGAACGCGTTTTTAACCAAAAACCGTGATGGTTAGTACACGATTT
* * * * *
119093 AGCCGAAAATTTTGCAAAAACTGACCCGAAGAACTTTTCCTCAATTATTGCCACAATACTCATAA
252 CGGCTAAAATTTCGCAAAAACTGACCCGAA-AACTTTTCCTCAATTTTTGCCACAATACTCATAA
119158 AAAATATATAAT
316 AAAATATATAAT
*
119170 TCAACGCCAAAAAAAATTGAAGTGCATGTCACGCTT-TCAATATCATTCTACCATTTTTTTTCGA
1 TCAACGCC-AAAAAAATTGAAGTGCATTTCACGCTTCT-AATATCATT-TACCA-TTTTTTTCGA
* * * *
119234 AACTAGTTTCTAATTAAAACGAACCAGTTTCTGAAACTCGTAGAAACAAATCTTTAAATCCAATG
62 AATTAATTTCTAATTAAATCGAACCAGTTTCTGAAACTCGTAAAAACAAATCTTTAAATCCAATG
* * * *
119299 T-ACTTGAGATTTGATTAGATGAATATTGATATTTCAACGAGTCTTGGTGCCGAAAATCATGCAA
127 TGGC-TGAGATTTGGTTAGATGAATATTGATATTTCAAGGAGTCTTGGTGCCAAAAATCATGCAA
* *
119363 AACTGAGTCGGGGACTCGGAACGCGTTTTTAA-CAAAGAACCGTAATGGTTAGTAGACGATTTCG
191 AACTGAGTCGGGG-CTCGGAACGCGTTTTTAACCAAA-AACCGTGATGGTTAGTACACGATTTCG
* * * * *
119427 GCTAAAATTTCGCAAAAACTTACCCGAAAAACTTTATCCTCAACTTTTGGCACAACAC-GAGTAA
254 GCTAAAATTTCGCAAAAACTGACCCG-AAAACTTT-TCCTCAATTTTTGCCACAATACTCA-TAA
*
119491 AGAAA-AAACTAAT
316 A-AAATATA-TAAT
* * * * *
119504 TAAACGCCAAAAAAATTGAAGGGCATTTCACACTACTAATATCAATTTTA-CAATTTTTTCG-AA
1 TCAACGCCAAAAAAATTGAAGTGCATTTCACGCTTCTAATATC-A-TTTACCATTTTTTTCGAAA
* * * * * *
119567 TTAATTTCAAATCAAATCAAAACGAGATTC--AAATGCTCGTAAAAACGAATCTTTAAAT-CATA
64 TTAATTTCTAATTAAATC-GAACCAGTTTCTGAAA--CTCGTAAAAACAAATCTTTAAATCCA-A
* * * *
119629 TTTGACTGAGATTTGGTTAGATGAATATAGAAATTTCAAGGAGTCTTGGTGCCAAAAATCATGCA
125 TGTGGCTGAGATTTGGTTAGATGAATATTGATATTTCAAGGAGTCTTGGTGCCAAAAATCATGCA
* * * * *
119694 AAACTGAGCCGGGACTCTGGAACGCGTTTTTAACCAAATATCGTGATGGTTACTACACGATTTC-
190 AAACTGAGTCGGGGCTC-GGAACGCGTTTTTAACCAAAAACCGTGATGGTTAGTACACGATTTCG
* * * *
119758 G---------C-C-AAAATTGACCCGAAAATTTTTTTGCTCAATTTTTGACCACAATACT-TTAA
254 GCTAAAATTTCGCAAAAACTGACCCGAAAA--CTTTTCCTCAATTTTTG-CCACAATACTCATAA
*
119811 AAAATATATAAA
316 AAAATATATAAT
* ** * * * ** *
119823 TCAATGCCAAAAAGGTTGAAGGGCTTTTCACGCTTCTAGTATCATTT-CTTTTTTTTTTTCAAAA
1 TCAACGCCAAAAAAATTGAAGTGCATTTCACGCTTCTAATATCATTTAC--CATTTTTTTCGAAA
* * *
119887 TTAATTTCTAATTAAATCGAA-AACGATTTCT-AATGCTTGTAAAAACAAATCCTTT-AATCCAA
64 TTAATTTCTAATTAAATCGAACCA-G-TTTCTGAA-ACTCGTAAAAACAAAT-CTTTAAATCCAA
* * * * ** * *
119949 TGTGGCTGAGATTTGGTTAGATAAAAATGGATATTTCAAGGAATCTTGCCG-AAAAAAGTCATAC
125 TGTGGCTGAGATTTGGTTAGATGAATATTGATATTTCAAGGAGTCTTGGTGCCAAAAA-TCATGC
** * * * * * ** * * *
120013 AAAAAGGACGCCGAGCCTCTGAAGGCG-TTTTAGGCAAAAACCGGGATGATTAATACACGATTT-
189 AAAACTGA-GTCGGGGCTCGGAACGCGTTTTTAACCAAAAACCGTGATGGTTAGTACACGATTTC
* * * *
120076 GGCCTAAAATTTTGCAAAAACTGACTCGAAGAACTTTTCCTCGATTTTTGCCACAATACTCGT-A
253 GG-CTAAAATTTCGCAAAAACTGACCCGAA-AACTTTTCCTCAATTTTTGCCACAATACTCATAA
120140 AAAATATATAAT
316 AAAATATATAAT
*
120152 TCAACGTCAAAAAAAAATTGAAGTGCATTTCACGCTT-TCAATATCATTCTACCATTTTTTTCGA
1 TCAACG-C-CAAAAAAATTGAAGTGCATTTCACGCTTCT-AATATCATT-TACCATTTTTTTCGA
* * ** *
120216 AATTAGTTTCTAATTAAAACGAACCAGTTTCTGAAACTCGTAGGAACAAATCCTTAAATCCAATG
62 AATTAATTTCTAATTAAATCGAACCAGTTTCTGAAACTCGTAAAAACAAATCTTTAAATCCAATG
* * *
120281 T-TCTTGAGATTTGATTAGATGAATATTGATATTTCAACGAGTCTTGGTGCCAAAAATCATGCAA
127 TGGC-TGAGATTTGGTTAGATGAATATTGATATTTCAAGGAGTCTTGGTGCCAAAAATCATGCAA
* * *
120345 AACTGAGTCGGGGCCTCGGAACGCGTTTTTAACCAAAAACCGTGATGATAAGTATACGATTTCGG
191 AACTGAGTCGGGG-CTCGGAACGCGTTTTTAACCAAAAACCGTGATGGTTAGTACACGATTTCGG
* * *
120410 CTAAAATTTCGCAAAAACTGACCCGAAAAATTTTATCCTCAATTTTTTG-CACAACAC-GAGTAA
255 CTAAAATTTCGCAAAAACTGACCCG-AAAACTTT-TCCTCAA-TTTTTGCCACAATACTCA-TAA
*
120473 AGAAA-AAACTAAT
316 A-AAATATA-TAAT
* * * * *
120486 TCAATGCCAAAAAAATTGAAGGGCATTTCACGCTACTAATATCAAATTTA-AAATTTTTTCG-AA
1 TCAACGCCAAAAAAATTGAAGTGCATTTCACGCTTCTAATATC--ATTTACCATTTTTTTCGAAA
* * * * * *
120549 TTAATTTCAAATCAAATCAAAACGAGATTC--AAATGCTCGTAAAAACAAATCCTTAAAT-CATA
64 TTAATTTCTAATTAAATC-GAACCAGTTTCTGAAA--CTCGTAAAAACAAATCTTTAAATCCA-A
* * * *
120611 TTTGACTGAGATTTGGTTAGATGAATATAGAAATTTCAAGGAGTCTTGGTGCCAAAAATCATGCA
125 TGTGGCTGAGATTTGGTTAGATGAATATTGATATTTCAAGGAGTCTTGGTGCCAAAAATCATGCA
* * * * * *
120676 AAACTGAGCCGGGGCTCTGTAACGCGTTTTTAACCAAATACCGTGACGGTTACTACACAATTTC-
190 AAACTGAGTCGGGGCTC-GGAACGCGTTTTTAACCAAAAACCGTGATGGTTAGTACACGATTTCG
* ** ** *
120740 G--------T--C-AAAAGTGACCCG-AAA--TTT--T---TTTTTG-CA-AATTTTTTTTTTTA
254 GCTAAAATTTCGCAAAAACTGACCCGAAAACTTTTCCTCAATTTTTGCCACAA---TACTCATAA
120784 AAAATATA-AA-
316 AAAATATATAAT
* *** * * * * ** *
120794 TCAATGCCAAAATGGTTGGAG-GACTTTTCACACTTCTAATATCATTTTCTTTTTTTTTCAAAAT
1 TCAACGCCAAAAAAATTGAAGTG-CATTTCACGCTTCTAATATCATTTACCATTTTTTTCGAAAT
* * * * *
120858 TAATTTCTAATTAAATCGAAAACGGTTT-TTAATGCTTGTAAAAACAAATCCTTT-AATCCAATG
65 TAATTTCTAATTAAATCG-AACCAGTTTCTGAA-ACTCGTAAAAACAAAT-CTTTAAATCCAATG
* * * * * * * *** ** * *
120921 TGGCTGAGAATTAGTCAGATAAAAATGGATATTTCAAGGAATCTTACCGAAAAAAAACATACAAA
127 TGGCTGAGATTTGGTTAGATGAATATTGATATTTCAAGGAGTCTTGGTGCCAAAAATCATGCAAA
* * * * * * ** * *
120986 AATGACGCCGAGCCTCTGAAGGCG-TTTTAGGCAAAAACCGTGATGATTAATACACGATTT-GGC
192 ACTGA-GTCGGGGCTCGGAACGCGTTTTTAACCAAAAACCGTGATGGTTAGTACACGATTTCGG-
* * * * *
121049 CGAAAATTTTGCAAAATCTGACCCGAAGAACTTTTCCTCAATTATTGCCACAGTACTCATAAAAA
255 CTAAAATTTCGCAAAAACTGACCCGAA-AACTTTTCCTCAATTTTTGCCACAATACTCAT-AAAA
121114 AATATATAAT
318 AATATATAAT
*
121124 TCAACGCCAAAAAAAATTGAAGTGCATGTCACGCTT-TCAATATCATTCTACCATTTTTTTTCGA
1 TCAACGCC-AAAAAAATTGAAGTGCATTTCACGCTTCT-AATATCATT-TACCA-TTTTTTTCGA
* * * *
121188 AATTAGA-TTCTAATTAAAACAAACCAGTTTCTGAAACTCGTAGAAACAAATCCTTAAATCCAAT
62 AATTA-ATTTCTAATTAAATCGAACCAGTTTCTGAAACTCGTAAAAACAAATCTTTAAATCCAAT
* * * *
121252 GT-GCTTGAGATTTGATTGGATGAATATTGATATTTCAACGAGTCTTGGTGCCGAAAATCATGCA
126 GTGGC-TGAGATTTGGTTAGATGAATATTGATATTTCAAGGAGTCTTGGTGCCAAAAATCATGCA
* *
121316 AAACTGAGTCGGGGCTTCGGAACGCGTTTTTAACCAAAAACCGTGATGGTAAGTACATGATTTCG
190 AAACTGAGTCGGGGC-TCGGAACGCGTTTTTAACCAAAAACCGTGATGGTTAGTACACGATTTCG
* * *
121381 GCTAAAATTTCGCAAAAACTGACCCGAAAAATTTTATCCTCAATTTTTAG-CACAACAC-GAGTA
254 GCTAAAATTTCGCAAAAACTGACCCG-AAAACTTT-TCCTCAATTTTT-GCCACAATACTCA-TA
*
121444 AAGAAA-AAACTAAT
315 AA-AAATATA-TAAT
* * * *
121458 TCAATGCCAAAAAAATTGAAGGGCATTTCACGCTACTAATATCAAATTTA-CAATTTTTTCG-AA
1 TCAACGCCAAAAAAATTGAAGTGCATTTCACGCTTCTAATATC--ATTTACCATTTTTTTCGAAA
* * * * *
121521 TTAATTTC-AAATCAA---AACGAGATTC--AAATGCTCGTAAAAACAAATCTTTAAAT-CATTT
64 TTAATTTCTAATTAAATCGAACCAGTTTCTGAAA--CTCGTAAAAACAAATCTTTAAATCCA-AT
* * * * * *
121579 TTGACTGAGATTTGGTTATATAAATATAGAAATTTCAAGGAGTCTTGGTGCCAAAAATCATGCAA
126 GTGGCTGAGATTTGGTTAGATGAATATTGATATTTCAAGGAGTCTTGGTGCCAAAAATCATGCAA
* *
121644 AACTGAGTCGGGGCTCTGGAACGCGTTTTTAACCAAATACCGTGATGGTTACTACACGATTTC-G
191 AACTGAGTCGGGGCTC-GGAACGCGTTTTTAACCAAAAACCGTGATGGTTAGTACACGATTTCGG
* * * * * *
121708 ---------C-C-AAAATTGACCCGAAAATTTTTTTTCTCAATTTTTTACCACAATACTTAAAAA
255 CTAAAATTTCGCAAAAACTGACCCGAAAA--CTTTTCCTCAA-TTTTTGCCACAATACTCATAAA
*
121762 AAATATATAAA
317 AAATATATAAT
* * * * * *
121773 TCAATG-CAAAAAAGGTTGAAGTGCTTTTCACGCTTCTAATATCATTTTCCCTTTTTTTTTCAAA
1 TCAACGCCAAAAAA-ATTGAAGTGCATTTCACGCTTCTAATATCA-TTTACC-ATTTTTTTCGAA
* * * * *
121837 ATTAATTTCTTATTAAATCGAACCGGTTT-TTAATGCTTGTAAAAACAAATCCTTT-AATCCAAT
63 ATTAATTTCTAATTAAATCGAACCAGTTTCTGAA-ACTCGTAAAAACAAAT-CTTTAAATCCAAT
* * * * ***** * *
121900 GTGGCTGAGATTTGGTTAGATAAAAATGGATATTTCAAGGAATCTTACCGAAAAAAAAAAACATA
126 GTGGCTGAGATTTGGTTAGATGAATATTGATATTTCAAGGAGTCTT---GGTGCCAAAAATCATG
* * ** * * ** * *
121965 CAAAAATGACGCCAAGCCTCTGAA-GTCG-TTTTAGGCAAAAACCGTGATGATTAATACACGATT
188 CAAAACTGA-GTCGGGGCTCGGAACG-CGTTTTTAACCAAAAACCGTGATGGTTAGTACACGATT
* * *
122028 T-GGCCGAAAATTTTGCAAAAACTGACCCGAAGAACTTTTCCTCAATTATTGCCACAATACTCAT
251 TCGG-CTAAAATTTCGCAAAAACTGACCCGAA-AACTTTTCCTCAATTTTTGCCACAATACTCAT
122092 AAAAAATATATAAT
314 AAAAAATATATAAT
*
122106 TCAACGCCAAAAAAATTGAAGTGCATGTCACGCTT-TCAATATCATTCTACCATTTTTTTCGAAA
1 TCAACGCCAAAAAAATTGAAGTGCATTTCACGCTTCT-AATATCATT-TACCATTTTTTTCGAAA
* * * * * *
122170 TTAGTTTCCAATTAAAACAAACCAGTTTCTGAAACTCGTAGAAACAAATCCTTAAATCCAATGT-
64 TTAATTTCTAATTAAATCGAACCAGTTTCTGAAACTCGTAAAAACAAATCTTTAAATCCAATGTG
* * * *
122234 GCTTGAGATTTGATTGGATGAATATTGATATTTCAACGAGTCTTGGTGCCGAAAATCATGCAAAA
129 GC-TGAGATTTGGTTAGATGAATATTGATATTTCAAGGAGTCTTGGTGCCAAAAATCATGCAAAA
* * * *
122299 CTGAGTCGGAGCTTCGGAACGCGTTTTTAACCAAAAACCGTGATGGTAAGTACACTATTTCGGTT
193 CTGAGTCGGGGC-TCGGAACGCGTTTTTAACCAAAAACCGTGATGGTTAGTACACGATTTCGGCT
* * *
122364 AAAACTTCGCAAAAA-T-----------TTTATCCTCAATTTTTTG-CACAACAC-GAGTAAAGA
257 AAAATTTCGCAAAAACTGACCCGAAAACTTT-TCCTCAA-TTTTTGCCACAATACTCA-TAAA-A
*
122415 AA-AAACTAAT
318 AATATA-TAAT
* * * *
122425 TAAACGCCAAAAAAATTGAAGGGCATTTCACGCTACTAATATCAAATTTA-CAATTTTTTCG-AA
1 TCAACGCCAAAAAAATTGAAGTGCATTTCACGCTTCTAATATC--ATTTACCATTTTTTTCGAAA
* * * * *
122488 TTAATTTCAAATCAAATCAAAACGAGATTC--AAATGCTCGTAAAAACAAATCTTTAAAT-CATA
64 TTAATTTCTAATTAAATC-GAACCAGTTTCTGAAA--CTCGTAAAAACAAATCTTTAAATCCA-A
* * * * *
122550 TTTGACTGAGATTTGGTTAGATGAATATAGAAATTTCAAGGAGTCTTGATGCCAAAAATCATGCA
125 TGTGGCTGAGATTTGGTTAGATGAATATTGATATTTCAAGGAGTCTTGGTGCCAAAAATCATGCA
* * * *
122615 AAACTGAGCCGGGACTCTGGAACGCGTTTTTAACCAAATACGGT-AT-G---GT-CAC----T--
190 AAACTGAGTCGGGGCTC-GGAACGCGTTTTTAACCAAAAACCGTGATGGTTAGTACACGATTTCG
* * * * ** * * *
122668 AC-ACAATTTCGCCAAAATTGACCCGAAATTTTTTTTGCTCAATTTTTTACCACAATACTTA-AA
254 GCTAAAATTTCGCAAAAACTGACCCGAAA--ACTTTTCCTCAA-TTTTTGCCACAATACTCATAA
*
122731 AAAATATATAAA
316 AAAATATATAAT
** ** * * * * ** *
122743 TCAATTCCAAAAAGGTTAAAG-GAATTTTCACACATCTAATATCATTTTATTTTATTTTTTTCAA
1 TCAACGCCAAAAAAATTGAAGTGCA-TTTCACGCTTCTAATATCA-TTTA--CCATTTTTTTCGA
* * * * ** * *
122807 AATTAATTTCTAATTAAATCGAAAACGGTTT-TTAATGCTTTTAAAAACAAATCCTTT-AGTCCG
62 AATTAATTTCTAATTAAATCG-AACCAGTTTCTGAA-ACTCGTAAAAACAAAT-CTTTAAATCCA
* * * ** ** * *
122870 ATGTGGCTGAGATTTGGTTAGATAAAAATTGATATTTCAAGGAATCTTGCCGAAAAAAATCTTAC
124 ATGTGGCTGAGATTTGGTTAGATGAATATTGATATTTCAAGGAGTCTTGGTGCCAAAAATCATGC
** * * * * * ** * *
122935 AAAAAGGACGCCGAGTCTCTGAAGGCG-TTTTAGGCAAAAACCGTGATGATTAATACACGATTT-
189 AAAACTGA-GTCGGGGCTCGGAACGCGTTTTTAACCAAAAACCGTGATGGTTAGTACACGATTTC
* * * *
122998 GGCCTAAAATTTTGCAAAAACTGACCCGAAGAACTTGTCCTCAATTATTGCCACAATACTCGTAA
253 GG-CTAAAATTTCGCAAAAACTGACCCGAA-AACTTTTCCTCAATTTTTGCCACAATACTCATAA
123063 AAAATATATAAT
316 AAAATATATAAT
123075 TCAACGCCAAAAAAAATTGAAGTGCATTTCACGCTT-TCAATATCATTCTACCATTTTTTTCGAA
1 TCAACGCC-AAAAAAATTGAAGTGCATTTCACGCTTCT-AATATCATT-TACCATTTTTTTCGAA
* * * *
123139 ATTAGTTTCTAATTAAAACAAACCAGTTTCTGAAACTCGTAGAAACAAAT-TCTTAAATCCAATG
63 ATTAATTTCTAATTAAATCGAACCAGTTTCTGAAACTCGTAAAAACAAATCT-TTAAATCCAATG
* * * *
123203 T-GCTTGAGATTTGATTGGATGAATATTGATATTTCAACGAGTCTTGGTGCCGAAAATCATGCAA
127 TGGC-TGAGATTTGGTTAGATGAATATTGATATTTCAAGGAGTCTTGGTGCCAAAAATCATGCAA
*
123267 AACTGAGTCGAGGCTTCGGAACGCGTTTTTAACCAAAAACCGTGATGGTTAGTACACGATTTCGG
191 AACTGAGTCGGGGC-TCGGAACGCGTTTTTAACCAAAAACCGTGATGGTTAGTACACGATTTCGG
* * **
123332 CTAAAATTTCGCAAAAACTGACCTGAAAAACTTTATCCTCAATTTTTTG-CACAACACGAATAAA
255 CTAAAATTTCGCAAAAACTGACCCG-AAAACTTT-TCCTCAA-TTTTTGCCACAATACTCATAAA
*
123396 GAAA-AAACTAAT
317 -AAATATA-TAAT
* * *
123408 TCAACGCCAAAAAAATTGAAGGGCATTTCACGCTACTAATATCAAATTTA-CAATTTTTTCG-AA
1 TCAACGCCAAAAAAATTGAAGTGCATTTCACGCTTCTAATATC--ATTTACCATTTTTTTCGAAA
* * * * * *
123471 TTAATTTCAAATCAAATCAAAACGAGATTC--AAATGCTCGTAAAAACAAATCTTTGAAT-CATA
64 TTAATTTCTAATTAAATC-GAACCAGTTTCTGAAA--CTCGTAAAAACAAATCTTTAAATCCA-A
* * * * *
123533 TTTGACTGAGATTTGGTTAGATGAATATAGAAATTTCAAGGAGTCTTTGTGCCAAAAATCATGCA
125 TGTGGCTGAGATTTGGTTAGATGAATATTGATATTTCAAGGAGTCTTGGTGCCAAAAATCATGCA
* * * ** * * *
123598 AAACTGAGCCGTGGCTCTGGAACGTGTTTTTTTCCAAATACCATGATGGTTACTACACGATTTC-
190 AAACTGAGTCGGGGCTC-GGAACGCGTTTTTAACCAAAAACCGTGATGGTTAGTACACGATTTCG
* ** *
123662 G---------C-C-AAAATTGACCCGAAATTTTTTTTGCTCAATTTTTGACCACAATACT--TGA
254 GCTAAAATTTCGCAAAAACTGACCCGAAA--ACTTTTCCTCAATTTTTG-CCACAATACTCAT-A
123714 AAATAATATATAGA-
315 AAA-AATATATA-AT
* ** * * * * *
123728 TCAATGCCAAAAAGGTTGAAG-GACTTTTCACACTTCTAATATCGTTTTCCTTCTTTTTTTC-AA
1 TCAACGCCAAAAAAATTGAAGTG-CATTTCACGCTTCTAATATCATTTACC--ATTTTTTTCGAA
* * * ** * * *
123791 TATTAATTTCCAATTAAATCGAACCGGTTTTTGATGCTTGTAAAAACTAATCCTTT-AATTCAAT
63 -ATTAATTTCTAATTAAATCGAACCAGTTTCTGAAACTCGTAAAAACAAAT-CTTTAAATCCAAT
* * * * * * ** *
123855 GTGGCTGAGATTTGGTTAGATAAAAATGGTTATTTCAAGGAATCTTGCT-AAAAAAATCATACAA
126 GTGGCTGAGATTTGGTTAGATGAATATTGATATTTCAAGGAGTCTTGGTGCCAAAAATCATGCAA
* * * * * ** * * ** *
123919 AAATGACGGCGGGTCTCTGAAGGCG-TTTTAGGCAAAAACCGTGATGATTAATACATAATTTAGG
191 AACTGA-GTCGGGGCTCGGAACGCGTTTTTAACCAAAAACCGTGATGGTTAGTACACGATTTCGG
** * * *
123983 CTAAAATTTTACAAAAACTGACCCAAAGAACTTTTCCTCAATTATTGCCACAATACTCGTAAAAA
255 CTAAAATTTCGCAAAAACTGACCCGAA-AACTTTTCCTCAATTTTTGCCACAATACTCATAAAAA
124048 ATATATAAT
319 ATATATAAT
124057 TCAACGCCAAAAAAAATTGAAGTGCATTTCACGCTT-TCAATATCATTCTACCATTTTTTTCGAA
1 TCAACGCC-AAAAAAATTGAAGTGCATTTCACGCTTCT-AATATCATT-TACCATTTTTTTCGAA
* * * * *
124121 ATTAGTTCCTAATTAAAACGAACCAGTTTCTGAAACTCGTAGAAACAAATCCTTAAATCCAATGT
63 ATTAATTTCTAATTAAATCGAACCAGTTTCTGAAACTCGTAAAAACAAATCTTTAAATCCAATGT
** * * *
124186 GTTTGAGATTTGATTAGATGAATATTGATATTTCAACGAGTCTTGGTGCCGAAAATCATGCAAAA
128 GGCTGAGATTTGGTTAGATGAATATTGATATTTCAAGGAGTCTTGGTGCCAAAAATCATGCAAAA
* * * *
124251 TTGAGTCAGGCCTCGGAACGCGTTTTTTTACCAAAAACCGTGATGGTTAGTACACGATTTCGGCT
193 CTGAGTCGGGGCTCGGAACGCG-TTTTTAACCAAAAACCGTGATGGTTAGTACACGATTTCGGCT
** * * *
124316 AAAATTTCGCAAAAA-TCGAGCCAAAAAACTTTATCCTCAATTTTTTG-CTCAACAC-GAGTAAA
257 AAAATTTCGCAAAAACT-GA-CCCGAAAACTTT-TCCTCAA-TTTTTGCCACAATACTCA-TAAA
*
124378 GAAA-AAACTAAT
317 -AAATATA-TAAT
* * * *
124390 TCAATGCCAAAAAAATTGAAGGGCATTTCACGCTACTAATATCAATTTTA-CAATTTTTTCG-AA
1 TCAACGCCAAAAAAATTGAAGTGCATTTCACGCTTCTAATATC-A-TTTACCATTTTTTTCGAAA
* *
124453 TTAATTTCAAATCAAATC
64 TTAATTTCTAATTAAATC
124471 AAAACGAGTA
Statistics
Matches: 4676, Mismatches: 893, Indels: 766
0.74 0.14 0.12
Matches are distributed among these distances:
306 16 0.00
307 39 0.01
308 136 0.03
309 26 0.01
310 3 0.00
311 5 0.00
312 8 0.00
313 19 0.00
314 21 0.00
315 93 0.02
316 34 0.01
317 122 0.03
318 123 0.03
319 346 0.07
320 253 0.05
321 293 0.06
322 48 0.01
323 38 0.01
324 23 0.00
325 11 0.00
326 8 0.00
327 149 0.03
328 41 0.01
329 263 0.06
330 378 0.08
331 718 0.15
332 962 0.21
333 378 0.08
334 101 0.02
335 19 0.00
336 2 0.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (327 bp):
TCAACGCCAAAAAAATTGAAGTGCATTTCACGCTTCTAATATCATTTACCATTTTTTTCGAAATT
AATTTCTAATTAAATCGAACCAGTTTCTGAAACTCGTAAAAACAAATCTTTAAATCCAATGTGGC
TGAGATTTGGTTAGATGAATATTGATATTTCAAGGAGTCTTGGTGCCAAAAATCATGCAAAACTG
AGTCGGGGCTCGGAACGCGTTTTTAACCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAA
TTTCGCAAAAACTGACCCGAAAACTTTTCCTCAATTTTTGCCACAATACTCATAAAAAATATATA
AT
Found at i:120087 original size:983 final size:982
Alignment explanation
Indices: 118893--124478 Score: 9043
Period size: 982 Copynumber: 5.7 Consensus size: 982
118883 AATTTTACAA
* * * * ** *
118893 TTTTTTC-GAATTAATTTCAAATCAAATC-AAAACGAGATTCAAATGCTCGTAAAAACAAATCCT
1 TTTTTTCAAAATTAATTTCTAATTAAATCGAAAACG-GTTTTTAATGCTTGTAAAAACAAATCCT
* *
118956 TTAATCCAATATGACTGAGATTTGGTTAGATAAAAATGGATATTTCAAGGAATCTTACCGAAAAA
65 TTAATCCAATGTGGCTGAGATTTGGTTAGATAAAAATGGATATTTCAAGGAATCTTACCG-AAAA
** *
119021 AAATCATACAAAAATGACGCCGAGCAACTAAAGGCGTTTTAGGCAAAAACCGTGATGATTAATAC
129 AAATCATACAAAAATGACGCCGAGCCTCTGAAGGCGTTTTAGGCAAAAACCGTGATGATTAATAC
* *
119086 ATGATTTAGCCGAAAATTTTGCAAAAACTGACCCGAAGAACTTTTCCTCAATTATTGCCACAATA
194 ACGATTTGGCCGAAAATTTTGCAAAAACTGACCCGAAGAACTTTTCCTCAATTATTGCCACAATA
119151 CTCATAAAAAATATATAATTCAACGCCAAAAAAAATTGAAGTGCATGTCACGCTTTCAATATCAT
259 CTCATAAAAAATATATAATTCAACGCCAAAAAAAATTGAAGTGCATGTCACGCTTTCAATATCAT
* *
119216 TCTACCATTTTTTTTCGAAACTAGTTTCTAATTAAAACGAACCAGTTTCTGAAACTCGTAGAAAC
324 TCTACCA-TTTTTTTCGAAATTAGTTTCTAATTAAAACAAACCAGTTTCTGAAACTCGTAGAAAC
* *
119281 AAATCTTTAAATCCAATGTACTTGAGATTTGATTAGATGAATATTGATATTTCAACGAGTCTTGG
388 AAATCCTTAAATCCAATGTGCTTGAGATTTGATTAGATGAATATTGATATTTCAACGAGTCTTGG
*
119346 TGCCGAAAATCATGCAAAACTGAGTCGGGGAC-TCGGAACGCGTTTTTAA-CAAAGAACCGTAAT
453 TGCCGAAAATCATGCAAAACTGAGTCGGGG-CTTCGGAACGCGTTTTTAACCAAA-AACCGTGAT
* * * *
119409 GGTTAGTAGACGATTTCGGCTAAAATTTCGCAAAAACTTACCCGAAAAACTTTATCCTCAACTTT
516 GGTAAGTACACGATTTCGGCTAAAATTTCGCAAAAACTGACCCGAAAAACTTTATCCTCAATTTT
* * *
119474 TGGCACAACACGAGTAAAGAAAAAACTAATTAAACGCCAAAAAAATTGAAGGGCATTTCACACTA
581 TTGCACAACACGAGTAAAGAAAAAACTAATTCAACGCCAAAAAAATTGAAGGGCATTTCACGCTA
*
119539 CTAATATCAATTTTACAATTTTTTCGAATTAATTTCAAATCAAATCAAAACGAGATTCAAATGCT
646 CTAATATCAAATTTACAATTTTTTCGAATTAATTTCAAATCAAATCAAAACGAGATTCAAATGCT
*
119604 CGTAAAAACGAATCTTTAAATCATATTTGACTGAGATTTGGTTAGATGAATATAGAAATTTCAAG
711 CGTAAAAACAAATCTTTAAATCATATTTGACTGAGATTTGGTTAGATGAATATAGAAATTTCAAG
119669 GAGTCTTGGTGCCAAAAATCATGCAAAACTGAGCCGGGACTCTGGAACGCGTTTTTAACCAAATA
776 GAGTCTTGGTGCCAAAAATCATGCAAAACTGAGCCGGGACTCTGGAACGCGTTTTTAACCAAATA
* *
119734 TCGTGATGGTTACTACACGATTTCGCCAAAATTGACCCGAAAATTTTTTTGCTCAATTTTTGACC
841 CCGTGATGGTTACTACACGATTTCGCCAAAATTGACCCGAAATTTTTTTTGCTCAATTTTTGACC
* * * *
119799 ACAATACTTTAAAAAATATATAAATCAATGCCAAAAAGGTTGAAGGGCTTTTCACGCTTCTAGTA
906 ACAATACTTAAAAAAATATATAAATCAATGCCAAAAAGGTTGAAGGACTTTTCACACTTCTAATA
119864 TCATTTCTTTTT
971 TCATTTCTTTTT
* *
119876 TTTTTTCAAAATTAATTTCTAATTAAATCGAAAACGATTTCTAATGCTTGTAAAAACAAATCCTT
1 TTTTTTCAAAATTAATTTCTAATTAAATCGAAAACGGTTTTTAATGCTTGTAAAAACAAATCCTT
*
119941 TAATCCAATGTGGCTGAGATTTGGTTAGATAAAAATGGATATTTCAAGGAATCTTGCCGAAAAAA
66 TAATCCAATGTGGCTGAGATTTGGTTAGATAAAAATGGATATTTCAAGGAATCTTACCGAAAAAA
* * *
120006 GTCATACAAAAAGGACGCCGAGCCTCTGAAGGCGTTTTAGGCAAAAACCGGGATGATTAATACAC
131 ATCATACAAAAATGACGCCGAGCCTCTGAAGGCGTTTTAGGCAAAAACCGTGATGATTAATACAC
* * * *
120071 GATTTGGCCTAAAATTTTGCAAAAACTGACTCGAAGAACTTTTCCTCGATTTTTGCCACAATACT
196 GATTTGGCCGAAAATTTTGCAAAAACTGACCCGAAGAACTTTTCCTCAATTATTGCCACAATACT
* * *
120136 CGT-AAAAATATATAATTCAACGTCAAAAAAAAATTGAAGTGCATTTCACGCTTTCAATATCATT
261 CATAAAAAATATATAATTCAACG-CCAAAAAAAATTGAAGTGCATGTCACGCTTTCAATATCATT
* *
120200 CTACCATTTTTTTCGAAATTAGTTTCTAATTAAAACGAACCAGTTTCTGAAACTCGTAGGAACAA
325 CTACCATTTTTTTCGAAATTAGTTTCTAATTAAAACAAACCAGTTTCTGAAACTCGTAGAAACAA
*
120265 ATCCTTAAATCCAATGTTCTTGAGATTTGATTAGATGAATATTGATATTTCAACGAGTCTTGGTG
390 ATCCTTAAATCCAATGTGCTTGAGATTTGATTAGATGAATATTGATATTTCAACGAGTCTTGGTG
* * *
120330 CCAAAAATCATGCAAAACTGAGTCGGGGCCTCGGAACGCGTTTTTAACCAAAAACCGTGATGATA
455 CCGAAAATCATGCAAAACTGAGTCGGGGCTTCGGAACGCGTTTTTAACCAAAAACCGTGATGGTA
* *
120395 AGTATACGATTTCGGCTAAAATTTCGCAAAAACTGACCCGAAAAATTTTATCCTCAATTTTTTGC
520 AGTACACGATTTCGGCTAAAATTTCGCAAAAACTGACCCGAAAAACTTTATCCTCAATTTTTTGC
*
120460 ACAACACGAGTAAAGAAAAAACTAATTCAATGCCAAAAAAATTGAAGGGCATTTCACGCTACTAA
585 ACAACACGAGTAAAGAAAAAACTAATTCAACGCCAAAAAAATTGAAGGGCATTTCACGCTACTAA
*
120525 TATCAAATTTAAAATTTTTTCGAATTAATTTCAAATCAAATCAAAACGAGATTCAAATGCTCGTA
650 TATCAAATTTACAATTTTTTCGAATTAATTTCAAATCAAATCAAAACGAGATTCAAATGCTCGTA
*
120590 AAAACAAATCCTTAAATCATATTTGACTGAGATTTGGTTAGATGAATATAGAAATTTCAAGGAGT
715 AAAACAAATCTTTAAATCATATTTGACTGAGATTTGGTTAGATGAATATAGAAATTTCAAGGAGT
* *
120655 CTTGGTGCCAAAAATCATGCAAAACTGAGCCGGGGCTCTGTAACGCGTTTTTAACCAAATACCGT
780 CTTGGTGCCAAAAATCATGCAAAACTGAGCCGGGACTCTGGAACGCGTTTTTAACCAAATACCGT
* * * * *
120720 GACGGTTACTACACAATTTCGTCAAAAGTGACCCGAAATTTTTTTTTGC-AAATTTTT-------
845 GATGGTTACTACACGATTTCGCCAAAATTGACCCGAAA-TTTTTTTTGCTCAATTTTTGACCACA
*** * *
120777 -T--TTTTTAAAA-ATATAAATCAATGCCAAAATGGTTGGAGGACTTTTCACACTTCTAATATCA
909 ATACTTAAAAAAATATATAAATCAATGCCAAAAAGGTTGAAGGACTTTTCACACTTCTAATATCA
*
120838 TTT-TCTTT
974 TTTCTTTTT
120846 TTTTTTCAAAATTAATTTCTAATTAAATCGAAAACGGTTTTTAATGCTTGTAAAAACAAATCCTT
1 TTTTTTCAAAATTAATTTCTAATTAAATCGAAAACGGTTTTTAATGCTTGTAAAAACAAATCCTT
* * *
120911 TAATCCAATGTGGCTGAGAATTAGTCAGATAAAAATGGATATTTCAAGGAATCTTACCGAAAAAA
66 TAATCCAATGTGGCTGAGATTTGGTTAGATAAAAATGGATATTTCAAGGAATCTTACCGAAAAAA
*
120976 AACATACAAAAATGACGCCGAGCCTCTGAAGGCGTTTTAGGCAAAAACCGTGATGATTAATACAC
131 ATCATACAAAAATGACGCCGAGCCTCTGAAGGCGTTTTAGGCAAAAACCGTGATGATTAATACAC
* *
121041 GATTTGGCCGAAAATTTTGCAAAATCTGACCCGAAGAACTTTTCCTCAATTATTGCCACAGTACT
196 GATTTGGCCGAAAATTTTGCAAAAACTGACCCGAAGAACTTTTCCTCAATTATTGCCACAATACT
121106 CATAAAAAAATATATAATTCAACGCCAAAAAAAATTGAAGTGCATGTCACGCTTTCAATATCATT
261 CAT-AAAAAATATATAATTCAACGCCAAAAAAAATTGAAGTGCATGTCACGCTTTCAATATCATT
*
121171 CTACCATTTTTTTTCGAAATTAGATTCTAATTAAAACAAACCAGTTTCTGAAACTCGTAGAAACA
325 CTACCA-TTTTTTTCGAAATTAGTTTCTAATTAAAACAAACCAGTTTCTGAAACTCGTAGAAACA
*
121236 AATCCTTAAATCCAATGTGCTTGAGATTTGATTGGATGAATATTGATATTTCAACGAGTCTTGGT
389 AATCCTTAAATCCAATGTGCTTGAGATTTGATTAGATGAATATTGATATTTCAACGAGTCTTGGT
121301 GCCGAAAATCATGCAAAACTGAGTCGGGGCTTCGGAACGCGTTTTTAACCAAAAACCGTGATGGT
454 GCCGAAAATCATGCAAAACTGAGTCGGGGCTTCGGAACGCGTTTTTAACCAAAAACCGTGATGGT
* * *
121366 AAGTACATGATTTCGGCTAAAATTTCGCAAAAACTGACCCGAAAAATTTTATCCTCAATTTTTAG
519 AAGTACACGATTTCGGCTAAAATTTCGCAAAAACTGACCCGAAAAACTTTATCCTCAATTTTTTG
*
121431 CACAACACGAGTAAAGAAAAAACTAATTCAATGCCAAAAAAATTGAAGGGCATTTCACGCTACTA
584 CACAACACGAGTAAAGAAAAAACTAATTCAACGCCAAAAAAATTGAAGGGCATTTCACGCTACTA
121496 ATATCAAATTTACAATTTTTTCGAATTAA-TT----TCAAATCAAAACGAGATTCAAATGCTCGT
649 ATATCAAATTTACAATTTTTTCGAATTAATTTCAAATCAAATCAAAACGAGATTCAAATGCTCGT
* * *
121556 AAAAACAAATCTTTAAATCATTTTTGACTGAGATTTGGTTATATAAATATAGAAATTTCAAGGAG
714 AAAAACAAATCTTTAAATCATATTTGACTGAGATTTGGTTAGATGAATATAGAAATTTCAAGGAG
* *
121621 TCTTGGTGCCAAAAATCATGCAAAACTGAGTCGGGGCTCTGGAACGCGTTTTTAACCAAATACCG
779 TCTTGGTGCCAAAAATCATGCAAAACTGAGCCGGGACTCTGGAACGCGTTTTTAACCAAATACCG
*
121686 TGATGGTTACTACACGATTTCGCCAAAATTGACCCGAAAATTTTTTTT-CTCAATTTTTTACCAC
844 TGATGGTTACTACACGATTTCGCCAAAATTGACCCG-AAATTTTTTTTGCTCAATTTTTGACCAC
* *
121750 AATACTTAAAAAAAATATATAAATCAATGCAAAAAAGGTTGAAGTG-CTTTTCACGCTTCTAATA
908 AATACTT-AAAAAAATATATAAATCAATGCCAAAAAGGTTGAAG-GACTTTTCACACTTCTAATA
**
121814 TCATTTTCCCTTT
971 TCA-TTTCTTTTT
* *
121827 TTTTTTCAAAATTAATTTCTTATTAAATCG-AACCGGTTTTTAATGCTTGTAAAAACAAATCCTT
1 TTTTTTCAAAATTAATTTCTAATTAAATCGAAAACGGTTTTTAATGCTTGTAAAAACAAATCCTT
121891 TAATCCAATGTGGCTGAGATTTGGTTAGATAAAAATGGATATTTCAAGGAATCTTACCGAAAAAA
66 TAATCCAATGTGGCTGAGATTTGGTTAGATAAAAATGGATATTTCAAGGAATCTTACCG---AAA
* * *
121956 AAAAACATACAAAAATGACGCCAAGCCTCTGAAGTCGTTTTAGGCAAAAACCGTGATGATTAATA
128 AAAATCATACAAAAATGACGCCGAGCCTCTGAAGGCGTTTTAGGCAAAAACCGTGATGATTAATA
122021 CACGATTTGGCCGAAAATTTTGCAAAAACTGACCCGAAGAACTTTTCCTCAATTATTGCCACAAT
193 CACGATTTGGCCGAAAATTTTGCAAAAACTGACCCGAAGAACTTTTCCTCAATTATTGCCACAAT
122086 ACTCATAAAAAATATATAATTCAACGCC-AAAAAAATTGAAGTGCATGTCACGCTTTCAATATCA
258 ACTCATAAAAAATATATAATTCAACGCCAAAAAAAATTGAAGTGCATGTCACGCTTTCAATATCA
*
122150 TTCTACCATTTTTTTCGAAATTAGTTTCCAATTAAAACAAACCAGTTTCTGAAACTCGTAGAAAC
323 TTCTACCATTTTTTTCGAAATTAGTTTCTAATTAAAACAAACCAGTTTCTGAAACTCGTAGAAAC
*
122215 AAATCCTTAAATCCAATGTGCTTGAGATTTGATTGGATGAATATTGATATTTCAACGAGTCTTGG
388 AAATCCTTAAATCCAATGTGCTTGAGATTTGATTAGATGAATATTGATATTTCAACGAGTCTTGG
*
122280 TGCCGAAAATCATGCAAAACTGAGTCGGAGCTTCGGAACGCGTTTTTAACCAAAAACCGTGATGG
453 TGCCGAAAATCATGCAAAACTGAGTCGGGGCTTCGGAACGCGTTTTTAACCAAAAACCGTGATGG
* * *
122345 TAAGTACACTATTTCGGTTAAAACTTCGCAAAAA-T------------TTTATCCTCAATTTTTT
518 TAAGTACACGATTTCGGCTAAAATTTCGCAAAAACTGACCCGAAAAACTTTATCCTCAATTTTTT
*
122397 GCACAACACGAGTAAAGAAAAAACTAATTAAACGCCAAAAAAATTGAAGGGCATTTCACGCTACT
583 GCACAACACGAGTAAAGAAAAAACTAATTCAACGCCAAAAAAATTGAAGGGCATTTCACGCTACT
122462 AATATCAAATTTACAATTTTTTCGAATTAATTTCAAATCAAATCAAAACGAGATTCAAATGCTCG
648 AATATCAAATTTACAATTTTTTCGAATTAATTTCAAATCAAATCAAAACGAGATTCAAATGCTCG
122527 TAAAAACAAATCTTTAAATCATATTTGACTGAGATTTGGTTAGATGAATATAGAAATTTCAAGGA
713 TAAAAACAAATCTTTAAATCATATTTGACTGAGATTTGGTTAGATGAATATAGAAATTTCAAGGA
* *
122592 GTCTTGATGCCAAAAATCATGCAAAACTGAGCCGGGACTCTGGAACGCGTTTTTAACCAAATACG
778 GTCTTGGTGCCAAAAATCATGCAAAACTGAGCCGGGACTCTGGAACGCGTTTTTAACCAAATACC
* * *
122657 GT-ATGGTCACTACACAATTTCGCCAAAATTGACCCGAAATTTTTTTTGCTCAATTTTTTACCAC
843 GTGATGGTTACTACACGATTTCGCCAAAATTGACCCGAAATTTTTTTTGCTCAATTTTTGACCAC
* * * *
122721 AATACTTAAAAAAATATATAAATCAATTCCAAAAAGGTTAAAGGAATTTTCACACATCTAATATC
908 AATACTTAAAAAAATATATAAATCAATGCCAAAAAGGTTGAAGGACTTTTCACACTTCTAATATC
*
122786 ATTTTATTTTAT
973 A-TTTCTTTT-T
*
122798 TTTTTTCAAAATTAATTTCTAATTAAATCGAAAACGGTTTTTAATGCTTTTAAAAACAAATCCTT
1 TTTTTTCAAAATTAATTTCTAATTAAATCGAAAACGGTTTTTAATGCTTGTAAAAACAAATCCTT
* * * *
122863 TAGTCCGATGTGGCTGAGATTTGGTTAGATAAAAATTGATATTTCAAGGAATCTTGCCGAAAAAA
66 TAATCCAATGTGGCTGAGATTTGGTTAGATAAAAATGGATATTTCAAGGAATCTTACCGAAAAAA
* * *
122928 ATCTTACAAAAAGGACGCCGAGTCTCTGAAGGCGTTTTAGGCAAAAACCGTGATGATTAATACAC
131 ATCATACAAAAATGACGCCGAGCCTCTGAAGGCGTTTTAGGCAAAAACCGTGATGATTAATACAC
* *
122993 GATTTGGCCTAAAATTTTGCAAAAACTGACCCGAAGAACTTGTCCTCAATTATTGCCACAATACT
196 GATTTGGCCGAAAATTTTGCAAAAACTGACCCGAAGAACTTTTCCTCAATTATTGCCACAATACT
* *
123058 CGTAAAAAATATATAATTCAACGCCAAAAAAAATTGAAGTGCATTTCACGCTTTCAATATCATTC
261 CATAAAAAATATATAATTCAACGCCAAAAAAAATTGAAGTGCATGTCACGCTTTCAATATCATTC
123123 TACCATTTTTTTCGAAATTAGTTTCTAATTAAAACAAACCAGTTTCTGAAACTCGTAGAAACAAA
326 TACCATTTTTTTCGAAATTAGTTTCTAATTAAAACAAACCAGTTTCTGAAACTCGTAGAAACAAA
* *
123188 TTCTTAAATCCAATGTGCTTGAGATTTGATTGGATGAATATTGATATTTCAACGAGTCTTGGTGC
391 TCCTTAAATCCAATGTGCTTGAGATTTGATTAGATGAATATTGATATTTCAACGAGTCTTGGTGC
* *
123253 CGAAAATCATGCAAAACTGAGTCGAGGCTTCGGAACGCGTTTTTAACCAAAAACCGTGATGGTTA
456 CGAAAATCATGCAAAACTGAGTCGGGGCTTCGGAACGCGTTTTTAACCAAAAACCGTGATGGTAA
*
123318 GTACACGATTTCGGCTAAAATTTCGCAAAAACTGACCTGAAAAACTTTATCCTCAATTTTTTGCA
521 GTACACGATTTCGGCTAAAATTTCGCAAAAACTGACCCGAAAAACTTTATCCTCAATTTTTTGCA
*
123383 CAACACGAATAAAGAAAAAACTAATTCAACGCCAAAAAAATTGAAGGGCATTTCACGCTACTAAT
586 CAACACGAGTAAAGAAAAAACTAATTCAACGCCAAAAAAATTGAAGGGCATTTCACGCTACTAAT
123448 ATCAAATTTACAATTTTTTCGAATTAATTTCAAATCAAATCAAAACGAGATTCAAATGCTCGTAA
651 ATCAAATTTACAATTTTTTCGAATTAATTTCAAATCAAATCAAAACGAGATTCAAATGCTCGTAA
*
123513 AAACAAATCTTTGAATCATATTTGACTGAGATTTGGTTAGATGAATATAGAAATTTCAAGGAGTC
716 AAACAAATCTTTAAATCATATTTGACTGAGATTTGGTTAGATGAATATAGAAATTTCAAGGAGTC
* * ** *
123578 TTTGTGCCAAAAATCATGCAAAACTGAGCCGTGG-CTCTGGAACGTGTTTTTTTCCAAATACCAT
781 TTGGTGCCAAAAATCATGCAAAACTGAGCCG-GGACTCTGGAACGCGTTTTTAACCAAATACCGT
123642 GATGGTTACTACACGATTTCGCCAAAATTGACCCGAAATTTTTTTTGCTCAATTTTTGACCACAA
845 GATGGTTACTACACGATTTCGCCAAAATTGACCCGAAATTTTTTTTGCTCAATTTTTGACCACAA
* *
123707 TACTTGAAAATAATATATAGATCAATGCCAAAAAGGTTGAAGGACTTTTCACACTTCTAATATCG
910 TACTT-AAAAAAATATATAAATCAATGCCAAAAAGGTTGAAGGACTTTTCACACTTCTAATATC-
* * *
123772 TTTTCCTTCT
973 ATTTCTTTTT
* * * * *
123782 TTTTTTCAATATTAATTTCCAATTAAATCG-AACCGGTTTTTGATGCTTGTAAAAACTAATCCTT
1 TTTTTTCAAAATTAATTTCTAATTAAATCGAAAACGGTTTTTAATGCTTGTAAAAACAAATCCTT
* * * *
123846 TAATTCAATGTGGCTGAGATTTGGTTAGATAAAAATGGTTATTTCAAGGAATCTT-GCTAAAAAA
66 TAATCCAATGTGGCTGAGATTTGGTTAGATAAAAATGGATATTTCAAGGAATCTTACCGAAAAAA
* * * *
123910 ATCATACAAAAATGACGGCGGGTCTCTGAAGGCGTTTTAGGCAAAAACCGTGATGATTAATACAT
131 ATCATACAAAAATGACGCCGAGCCTCTGAAGGCGTTTTAGGCAAAAACCGTGATGATTAATACAC
* * * *
123975 AATTTAGG-CTAAAATTTTACAAAAACTGACCCAAAGAACTTTTCCTCAATTATTGCCACAATAC
196 GATTT-GGCCGAAAATTTTGCAAAAACTGACCCGAAGAACTTTTCCTCAATTATTGCCACAATAC
* *
124039 TCGTAAAAAATATATAATTCAACGCCAAAAAAAATTGAAGTGCATTTCACGCTTTCAATATCATT
260 TCATAAAAAATATATAATTCAACGCCAAAAAAAATTGAAGTGCATGTCACGCTTTCAATATCATT
* *
124104 CTACCATTTTTTTCGAAATTAGTTCCTAATTAAAACGAACCAGTTTCTGAAACTCGTAGAAACAA
325 CTACCATTTTTTTCGAAATTAGTTTCTAATTAAAACAAACCAGTTTCTGAAACTCGTAGAAACAA
*
124169 ATCCTTAAATCCAATGTGTTTGAGATTTGATTAGATGAATATTGATATTTCAACGAGTCTTGGTG
390 ATCCTTAAATCCAATGTGCTTGAGATTTGATTAGATGAATATTGATATTTCAACGAGTCTTGGTG
* * * *
124234 CCGAAAATCATGCAAAATTGAGTC-AGGCCTCGGAACGCGTTTTTTTACCAAAAACCGTGATGGT
455 CCGAAAATCATGCAAAACTGAGTCGGGGCTTCGGAACGCG-TTTTTAACCAAAAACCGTGATGGT
* * *
124298 TAGTACACGATTTCGGCTAAAATTTCGCAAAAA-TCGAGCCAAAAAACTTTATCCTCAATTTTTT
519 AAGTACACGATTTCGGCTAAAATTTCGCAAAAACT-GACCCGAAAAACTTTATCCTCAATTTTTT
* *
124362 GCTCAACACGAGTAAAGAAAAAACTAATTCAATGCCAAAAAAATTGAAGGGCATTTCACGCTACT
583 GCACAACACGAGTAAAGAAAAAACTAATTCAACGCCAAAAAAATTGAAGGGCATTTCACGCTACT
*
124427 AATATCAATTTTACAATTTTTTCGAATTAATTTCAAATCAAATCAAAACGAG
648 AATATCAAATTTACAATTTTTTCGAATTAATTTCAAATCAAATCAAAACGAG
124479 TAAAAAGCAA
Statistics
Matches: 4310, Mismatches: 234, Indels: 119
0.92 0.05 0.03
Matches are distributed among these distances:
966 1 0.00
967 309 0.07
968 5 0.00
969 153 0.04
970 574 0.13
971 182 0.04
972 601 0.14
974 1 0.00
975 1 0.00
977 2 0.00
978 4 0.00
979 46 0.01
980 307 0.07
981 93 0.02
982 1098 0.25
983 674 0.16
984 196 0.05
985 63 0.01
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (982 bp):
TTTTTTCAAAATTAATTTCTAATTAAATCGAAAACGGTTTTTAATGCTTGTAAAAACAAATCCTT
TAATCCAATGTGGCTGAGATTTGGTTAGATAAAAATGGATATTTCAAGGAATCTTACCGAAAAAA
ATCATACAAAAATGACGCCGAGCCTCTGAAGGCGTTTTAGGCAAAAACCGTGATGATTAATACAC
GATTTGGCCGAAAATTTTGCAAAAACTGACCCGAAGAACTTTTCCTCAATTATTGCCACAATACT
CATAAAAAATATATAATTCAACGCCAAAAAAAATTGAAGTGCATGTCACGCTTTCAATATCATTC
TACCATTTTTTTCGAAATTAGTTTCTAATTAAAACAAACCAGTTTCTGAAACTCGTAGAAACAAA
TCCTTAAATCCAATGTGCTTGAGATTTGATTAGATGAATATTGATATTTCAACGAGTCTTGGTGC
CGAAAATCATGCAAAACTGAGTCGGGGCTTCGGAACGCGTTTTTAACCAAAAACCGTGATGGTAA
GTACACGATTTCGGCTAAAATTTCGCAAAAACTGACCCGAAAAACTTTATCCTCAATTTTTTGCA
CAACACGAGTAAAGAAAAAACTAATTCAACGCCAAAAAAATTGAAGGGCATTTCACGCTACTAAT
ATCAAATTTACAATTTTTTCGAATTAATTTCAAATCAAATCAAAACGAGATTCAAATGCTCGTAA
AAACAAATCTTTAAATCATATTTGACTGAGATTTGGTTAGATGAATATAGAAATTTCAAGGAGTC
TTGGTGCCAAAAATCATGCAAAACTGAGCCGGGACTCTGGAACGCGTTTTTAACCAAATACCGTG
ATGGTTACTACACGATTTCGCCAAAATTGACCCGAAATTTTTTTTGCTCAATTTTTGACCACAAT
ACTTAAAAAAATATATAAATCAATGCCAAAAAGGTTGAAGGACTTTTCACACTTCTAATATCATT
TCTTTTT
Found at i:124966 original size:25 final size:25
Alignment explanation
Indices: 124932--125324 Score: 325
Period size: 26 Copynumber: 14.8 Consensus size: 25
124922 AAAGTTTCAA
* *
124932 GCAACTATATGGCCCTATTAAATAT
1 GCAACTATATGGCCCTACTGAATAT
124957 GCAACTATATGGTCCCTACAT-AATAT
1 GCAACTATATGG-CCCTAC-TGAATAT
124983 ---A-TATTAT---CCTACTGAATAT
1 GCAACTA-TATGGCCCTACTGAATAT
*
125002 GCAACTATATGATGCCCAACTGAATAT
1 GCAACTATATG--GCCCTACTGAATAT
*
125029 GCAACTAAATGGCCCTACTGAATAT
1 GCAACTATATGGCCCTACTGAATAT
125054 GCAACTATATGGACCCTACTGAATAT
1 GCAACTATATGG-CCCTACTGAATAT
*
125080 GCAACTAAATGGCCCTACTGAATAT
1 GCAACTATATGGCCCTACTGAATAT
125105 GCAACTATATGGACCCTACTGAATAT
1 GCAACTATATGG-CCCTACTGAATAT
* * *
125131 GCAACTATATAATGTCCTACTAAATAT
1 GCAACTATAT--GGCCCTACTGAATAT
*
125158 GCAACTATATAATTATGCCCCTACTGAATAT
1 GCAAC----T-A-TATGGCCCTACTGAATAT
*
125189 GCAACTATATGATTATGACCCTACTGGATAT
1 GCAACTATATG-----G-CCCTACTGAATAT
* *
125220 GCAACTATATGAACCCTATTGAATAT
1 GCAACTATATG-GCCCTACTGAATAT
* *
125246 GCAACTATATGAACCCTATTGAATAT
1 GCAACTATATG-GCCCTACTGAATAT
*
125272 GCAACTATATGATTATGACCCTATTGAATAT
1 GCAACTATATG-----G-CCCTACTGAATAT
125303 GCAACTATATGAGCCCTACTGA
1 GCAACTATATG-GCCCTACTGA
125325 GCCCTACTGA
Statistics
Matches: 310, Mismatches: 24, Indels: 67
0.77 0.06 0.17
Matches are distributed among these distances:
18 1 0.00
19 10 0.03
22 6 0.02
23 6 0.02
25 64 0.21
26 114 0.37
27 40 0.13
28 1 0.00
31 64 0.21
32 1 0.00
33 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (25 bp):
GCAACTATATGGCCCTACTGAATAT
Found at i:125093 original size:51 final size:51
Alignment explanation
Indices: 124990--125324 Score: 323
Period size: 51 Copynumber: 6.2 Consensus size: 51
124980 TATATATTAT
*
124990 CCTACTGAATATGCAACTATAT-GATGCCCAACTGAATATGCAACTAAATGGC
1 CCTACTGAATATGCAACTATATGGA--CCCTACTGAATATGCAACTAAATGGC
125042 CCTACTGAATATGCAACTATATGGACCCTACTGAATATGCAACTAAATGGC
1 CCTACTGAATATGCAACTATATGGACCCTACTGAATATGCAACTAAATGGC
*
125093 CCTACTGAATATGCAACTATATGGACCCTACTGAATATGCAACTATATAAT-GT
1 CCTACTGAATATGCAACTATATGGACCCTACTGAATATGCAAC--TA-AATGGC
* * * *
125146 CCTACTAAATATGCAACTATATAATTATGCCCCTACTGAATATGCAACTATATGATTATGAC
1 CCTACTGAATATGCAAC--TAT-A-T-GGACCCTACTGAATATGCAAC--TA--A--ATGGC
* * * * *
125208 CCTACTGGATATGCAACTATATGAACCCTATTGAATATGCAACTATATGAAC
1 CCTACTGAATATGCAACTATATGGACCCTACTGAATATGCAACTAAATG-GC
* * *
125260 CCTATTGAATATGCAACTATATGATTATGACCCTATTGAATATGCAACTATATGAGC
1 CCTACTGAATATGCAACTATATG-----GACCCTACTGAATATGCAACTAAATG-GC
125317 CCTACTGA
1 CCTACTGA
125325 GCCCTACTGA
Statistics
Matches: 244, Mismatches: 20, Indels: 33
0.82 0.07 0.11
Matches are distributed among these distances:
51 71 0.29
52 45 0.18
53 21 0.09
54 3 0.01
55 5 0.02
56 1 0.00
57 52 0.21
58 24 0.10
59 2 0.01
60 3 0.01
61 2 0.01
62 15 0.06
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.29
Consensus pattern (51 bp):
CCTACTGAATATGCAACTATATGGACCCTACTGAATATGCAACTAAATGGC
Found at i:125181 original size:31 final size:28
Alignment explanation
Indices: 124990--125324 Score: 355
Period size: 26 Copynumber: 12.3 Consensus size: 28
124980 TATATATTAT
124990 CCTACTGAATATGCAACTATATG-ATGC
1 CCTACTGAATATGCAACTATATGAATGC
* *
125017 CCAACTGAATATGCAACTAAATG---GC
1 CCTACTGAATATGCAACTATATGAATGC
*
125042 CCTACTGAATATGCAACTATATGGA--C
1 CCTACTGAATATGCAACTATATGAATGC
*
125068 CCTACTGAATATGCAACTAAATG---GC
1 CCTACTGAATATGCAACTATATGAATGC
*
125093 CCTACTGAATATGCAACTATATGGA--C
1 CCTACTGAATATGCAACTATATGAATGC
*
125119 CCTACTGAATATGCAACTATAT-AATGT
1 CCTACTGAATATGCAACTATATGAATGC
* *
125146 CCTACTAAATATGCAACTATATAATTATGCC
1 CCTACTGAATATGCAACTATATGA--ATG-C
125177 CCTACTGAATATGCAACTATATGATTATGAC
1 CCTACTGAATATGCAACTATATGA--ATG-C
*
125208 CCTACTGGATATGCAACTATATGAA--C
1 CCTACTGAATATGCAACTATATGAATGC
*
125234 CCTATTGAATATGCAACTATATGAA--C
1 CCTACTGAATATGCAACTATATGAATGC
*
125260 CCTATTGAATATGCAACTATATGATTATGAC
1 CCTACTGAATATGCAACTATATGA--ATG-C
*
125291 CCTATTGAATATGCAACTATATG-A-GC
1 CCTACTGAATATGCAACTATATGAATGC
125317 CCTACTGA
1 CCTACTGA
125325 GCCCTACTGA
Statistics
Matches: 275, Mismatches: 17, Indels: 33
0.85 0.05 0.10
Matches are distributed among these distances:
25 47 0.17
26 103 0.37
27 43 0.16
28 3 0.01
29 1 0.00
30 3 0.01
31 75 0.27
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.29
Consensus pattern (28 bp):
CCTACTGAATATGCAACTATATGAATGC
Found at i:125310 original size:15 final size:15
Alignment explanation
Indices: 125261--125310 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
125251 TATATGAACC
125261 CTATTGAATATGCAA
1 CTATTGAATATGCAA
* *
125276 CTATATGATTATG-ACC
1 CTAT-TGAATATGCA-A
125292 CTATTGAATATGCAA
1 CTATTGAATATGCAA
125307 CTAT
1 CTAT
125311 ATGAGCCCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (15 bp):
CTATTGAATATGCAA
Found at i:125339 original size:83 final size:83
Alignment explanation
Indices: 124990--125324 Score: 309
Period size: 83 Copynumber: 4.1 Consensus size: 83
124980 TATATATTAT
** * * *
124990 CCTACTGAATATGCAACTATATGATGCCCAACTGAATATGCAAC--TA--A--ATGGCCCTACTG
1 CCTACTGAATACCCAACTATATGA-ACCCTACTGAATATGCAACTATATGATTATGACCCTACTG
*
125049 AATATGCAACTATATGGAC
65 AATATGCAACTATATGAAC
** * *
125068 CCTACTGAATATGCAACTAAATG-GCCCTACTGAATATGCAACTATATG-----GACCCTACTGA
1 CCTACTGAATACCCAACTATATGAACCCTACTGAATATGCAACTATATGATTATGACCCTACTGA
*
125127 ATATGCAACTATAT-AATGT
66 ATATGCAACTATATGAA--C
* ** *
125146 CCTACTAAATATGCAACTATATAATTATGCCCCTACTGAATATGCAACTATATGATTATGACCCT
1 CCTACTGAATACCCAACTATATGA--A---CCCTACTGAATATGCAACTATATGATTATGACCCT
*
125211 ACTGGATATGCAACTATATGAAC
61 ACTGAATATGCAACTATATGAAC
* ** * *
125234 CCTATTGAATATGCAACTATATGAACCCTATTGAATATGCAACTATATGATTATGACCCTATTGA
1 CCTACTGAATACCCAACTATATGAACCCTACTGAATATGCAACTATATGATTATGACCCTACTGA
*
125299 ATATGCAACTATATGAGC
66 ATATGCAACTATATGAAC
125317 CCTACTGA
1 CCTACTGA
125325 GCCCTACTGA
Statistics
Matches: 220, Mismatches: 19, Indels: 31
0.81 0.07 0.11
Matches are distributed among these distances:
76 19 0.09
77 24 0.11
78 44 0.20
83 61 0.28
84 24 0.11
86 1 0.00
88 21 0.10
89 24 0.11
90 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.29
Consensus pattern (83 bp):
CCTACTGAATACCCAACTATATGAACCCTACTGAATATGCAACTATATGATTATGACCCTACTGA
ATATGCAACTATATGAAC
Found at i:125350 original size:36 final size:31
Alignment explanation
Indices: 125092--125350 Score: 214
Period size: 31 Copynumber: 8.8 Consensus size: 31
125082 AACTAAATGG
*
125092 CCCTACTGAATATGCAACTATATG-----GA
1 CCCTATTGAATATGCAACTATATGACTATGA
*
125118 CCCTACTGAATATGCAACTATAT-A--ATG-
1 CCCTATTGAATATGCAACTATATGACTATGA
* * * * * *
125145 TCCTACTAAATATGCAACTATATAATTATGC
1 CCCTATTGAATATGCAACTATATGACTATGA
* *
125176 CCCTACTGAATATGCAACTATATGATTATGA
1 CCCTATTGAATATGCAACTATATGACTATGA
* *
125207 CCCTACTGGATATGCAACTATATG---A--A
1 CCCTATTGAATATGCAACTATATGACTATGA
125233 CCCTATTGAATATGCAACTATATG---A--A
1 CCCTATTGAATATGCAACTATATGACTATGA
*
125259 CCCTATTGAATATGCAACTATATGATTATGA
1 CCCTATTGAATATGCAACTATATGACTATGA
125290 CCCTATTGAATATGCAACTATATGAGCCCTACTGA
1 CCCTATTGAATATGCAACTATATGA---CTA-TGA
*
125325 GCCCTACTGAATATGCAACTATATGA
1 -CCCTATTGAATATGCAACTATATGA
125351 TACAAATGAC
Statistics
Matches: 205, Mismatches: 11, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
26 72 0.35
27 21 0.10
28 3 0.01
29 1 0.00
30 3 0.01
31 76 0.37
34 2 0.01
35 3 0.01
36 24 0.12
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.31
Consensus pattern (31 bp):
CCCTATTGAATATGCAACTATATGACTATGA
Found at i:125412 original size:33 final size:33
Alignment explanation
Indices: 125326--125448 Score: 113
Period size: 34 Copynumber: 3.6 Consensus size: 33
125316 CCCTACTGAG
* *
125326 CCCTACT-GAATATGCAACTATATGATACAAATGA
1 CCCTACTGGAA-ATG-AACTATATGATGCAGATGA
** * *
125360 CTTTACCGGAAAATGAACTATATGATGGAGATGA
1 CCCTACTGG-AAATGAACTATATGATGCAGATGA
* *
125394 CCCTACTGGAAATGAACTAAAAGATGCAGATGA
1 CCCTACTGGAAATGAACTATATGATGCAGATGA
* *
125427 CCCCACTGAAAAATGAACTATA
1 CCCTACTG-GAAATGAACTATA
125449 GAAAGAGAAG
Statistics
Matches: 71, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
33 28 0.39
34 37 0.52
35 4 0.06
36 2 0.03
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (33 bp):
CCCTACTGGAAATGAACTATATGATGCAGATGA
Found at i:133001 original size:31 final size:32
Alignment explanation
Indices: 132947--133006 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
132937 ATATTTTCTG
132947 ATTGTACCCTTATTAATTAAAACATATTTCCA
1 ATTGTACCCTTATTAATTAAAACATATTTCCA
**
132979 ATTGTACCC-TATTCTTTAAAACATATTT
1 ATTGTACCCTTATTAATTAAAACATATTT
133007 TTAAATTACC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.35, C:0.18, G:0.03, T:0.43
Consensus pattern (32 bp):
ATTGTACCCTTATTAATTAAAACATATTTCCA
Found at i:133349 original size:19 final size:21
Alignment explanation
Indices: 133317--133359 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 21
133307 TTCTTTGCTA
133317 TTACTTTTTGAATTT-AATATT
1 TTACTTTTTGAATTTCAAT-TT
133338 TTAC-TTTT-AATTTCAATTT
1 TTACTTTTTGAATTTCAATTT
133357 TTA
1 TTA
133360 AATGTCAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 10 0.48
20 7 0.33
21 4 0.19
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (21 bp):
TTACTTTTTGAATTTCAATTT
Found at i:133553 original size:22 final size:22
Alignment explanation
Indices: 133525--133627 Score: 84
Period size: 22 Copynumber: 4.6 Consensus size: 22
133515 TGTCTCTATC
133525 TGGTTATCAAAATTTCATAAGA
1 TGGTTATCAAAATTTCATAAGA
* * *
133547 TGGTTATTATAATTTCATGAGGA
1 TGGTTATCAAAATTTCAT-AAGA
* *
133570 -GGTTATCAAAATTCCAT-AGTG
1 TGGTTATCAAAATTTCATAAG-A
* *
133591 TGGTTACCAAAATTTCATAGGA
1 TGGTTATCAAAATTTCATAAGA
*
133613 TCAGGTTATTAAAAT
1 T--GGTTATCAAAAT
133628 CTATTAGGTT
Statistics
Matches: 61, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
20 1 0.02
22 46 0.75
23 4 0.07
24 10 0.16
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (22 bp):
TGGTTATCAAAATTTCATAAGA
Found at i:133605 original size:44 final size:43
Alignment explanation
Indices: 133526--133612 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 43
133516 GTCTCTATCT
* ** *
133526 GGTTATCAAAATTTCATAAGATGGTTATTATAATTTCATGAGGA
1 GGTTATCAAAATTCCATAAGATGGTTACCAAAATTTCAT-AGGA
*
133570 GGTTATCAAAATTCCAT-AGTGTGGTTACCAAAATTTCATAGGA
1 GGTTATCAAAATTCCATAAG-ATGGTTACCAAAATTTCATAGGA
133613 TCAGGTTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
43 6 0.16
44 31 0.84
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (43 bp):
GGTTATCAAAATTCCATAAGATGGTTACCAAAATTTCATAGGA
Found at i:133823 original size:22 final size:22
Alignment explanation
Indices: 133764--134081 Score: 110
Period size: 22 Copynumber: 14.3 Consensus size: 22
133754 TTCATTAAAT
* *
133764 ATTTCATGGGGAGGTTATCAAA
1 ATTTCATAGTGAGGTTATCAAA
* *
133786 ATTTTATAGTGTGGTTATCAAA
1 ATTTCATAGTGAGGTTATCAAA
*
133808 ATTTCGTA-TGAAGGTTAT-AAA
1 ATTTCATAGTG-AGGTTATCAAA
* * * *
133829 AGTCTCAATTTCA-TAAGGAGTACCAAA
1 A-TTTC-A--T-AGTGAGG-TTATCAAA
** *
133856 ATTGGATAG-AAGGTTATC-AA
1 ATTTCATAGTGAGGTTATCAAA
* * * * *
133876 ATCTCATAGAGTGATTATCGAA
1 ATTTCATAGTGAGGTTATCAAA
* *
133898 ATTTCATAGAGATCAGATTATCAAA
1 ATTTCAT--AG-TGAGGTTATCAAA
** *
133923 ATTT-ATAGAAAGATTATCAAA
1 ATTTCATAGTGAGGTTATCAAA
**
133944 ATTTCATAGTGTTGTTATCAAA
1 ATTTCATAGTGAGGTTATCAAA
* **
133966 ATTTCAAAGCAAGGTTATCAAA
1 ATTTCATAGTGAGGTTATCAAA
* * * * *
133988 ATTACATAAT-ATGATTATTAGA
1 ATTTCATAGTGA-GGTTATCAAA
* * * *
134010 ATTTCATAGAGGGGTCAACAAA
1 ATTTCATAGTGAGGTTATCAAA
* **
134032 ATTTTATAAAGAGGTTATCAAA
1 ATTTCATAGTGAGGTTATCAAA
**
134054 ATTTCATAAAGAGGTTATCAAA
1 ATTTCATAGTGAGGTTATCAAA
*
134076 TTTTCA
1 ATTTCA
134082 AAATGTGATT
Statistics
Matches: 216, Mismatches: 63, Indels: 34
0.69 0.20 0.11
Matches are distributed among these distances:
20 8 0.04
21 31 0.14
22 145 0.67
23 1 0.00
24 4 0.02
25 18 0.08
26 5 0.02
27 4 0.02
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.34
Consensus pattern (22 bp):
ATTTCATAGTGAGGTTATCAAA
Found at i:133893 original size:21 final size:23
Alignment explanation
Indices: 133869--134081 Score: 133
Period size: 22 Copynumber: 9.6 Consensus size: 23
133859 GGATAGAAGG
*
133869 TTATC-AAATCTCATAGAG-TGA
1 TTATCAAAATTTCATAGAGATGA
*
133890 TTATCGAAATTTCATAGAGATCAGA
1 TTATCAAAATTTCATAGAGAT--GA
*
133915 TTATCAAAATTT-ATAGA-AAGA
1 TTATCAAAATTTCATAGAGATGA
* *
133936 TTATCAAAATTTCATAGTGTTG-
1 TTATCAAAATTTCATAGAGATGA
* *
133958 TTATCAAAATTTCA-A-AGCAAGG
1 TTATCAAAATTTCATAGAG-ATGA
* *
133980 TTATCAAAATTACATA-ATATGA
1 TTATCAAAATTTCATAGAGATGA
* * * *
134002 TTATTAGAATTTCATAGAG-GGG
1 TTATCAAAATTTCATAGAGATGA
* * * * *
134024 TCAACAAAATTTTATAAAGA-GG
1 TTATCAAAATTTCATAGAGATGA
* *
134046 TTATCAAAATTTCATAAAGA-GG
1 TTATCAAAATTTCATAGAGATGA
*
134068 TTATCAAATTTTCA
1 TTATCAAAATTTCA
134082 AAATGTGATT
Statistics
Matches: 152, Mismatches: 29, Indels: 21
0.75 0.14 0.10
Matches are distributed among these distances:
20 1 0.01
21 21 0.14
22 106 0.70
23 6 0.04
24 5 0.03
25 13 0.09
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (23 bp):
TTATCAAAATTTCATAGAGATGA
Found at i:134226 original size:19 final size:20
Alignment explanation
Indices: 134187--134259 Score: 76
Period size: 19 Copynumber: 3.6 Consensus size: 20
134177 TTATGGAGTA
*
134187 ATCAAAATTTCAAGTAGGAT
1 ATCAAAATTTCAAGGAGGAT
*
134207 ATCAAAATTT-AGGGAGGAT
1 ATCAAAATTTCAAGGAGGAT
* * *
134226 ATCAAATTTTCATATGAAGGTT
1 ATCAAAATTTCA-A-GGAGGAT
134248 ATCAAAATTTCA
1 ATCAAAATTTCA
134260 TAGTTTAGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 16 0.37
20 11 0.26
22 16 0.37
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (20 bp):
ATCAAAATTTCAAGGAGGAT
Found at i:134253 original size:22 final size:22
Alignment explanation
Indices: 134225--134761 Score: 157
Period size: 22 Copynumber: 24.7 Consensus size: 22
134215 TTAGGGAGGA
*
134225 TATCAAATTTTCATATGAAGGT
1 TATCAAAATTTCATATGAAGGT
**
134247 TATCAAAATTTCATAGTTTA-GT
1 TATCAAAATTTCATA-TGAAGGT
* * * *
134269 TTTCAAAATTTCACAAGAGGGT
1 TATCAAAATTTCATATGAAGGT
* *
134291 TATCAAAATTTCATA-GTATGT
1 TATCAAAATTTCATATGAAGGT
* * *
134312 AGATCAAAATTTCATAGGGAA-AT
1 -TATCAAAATTTCATA-TGAAGGT
* * *
134335 TAACAAAATTTCATAAGGAGGT
1 TATCAAAATTTCATATGAAGGT
* ** * *
134357 TATAAAAAAATCATAAGGAGGT
1 TATCAAAATTTCATATGAAGGT
*
134379 TATCAAAA--T--T-TGTA-GT
1 TATCAAAATTTCATATGAAGGT
** *
134395 TATCAAAATTTCATAAAAAAGT
1 TATCAAAATTTCATATGAAGGT
* * * *
134417 TGTCAAAATTTTATAGGAAGATT
1 TATCAAAATTTCATATGAAG-GT
* *
134440 TATCAAGATTTCATA-GCGAGGT
1 TATCAAAATTTCATATG-AAGGT
* *
134462 TATCAAAATTTCATAGTG-TGAT
1 TATCAAAATTTCATA-TGAAGGT
* * *
134484 TATCAAAATTTCAGAGTG-TGAT
1 TATCAAAATTTCATA-TGAAGGT
*
134506 TA-CTAACAA-TTCATATGGAGGT
1 TATC-AA-AATTTCATATGAAGGT
** * * * *
134528 T-TTTAATTTTTATAACG-TGGT
1 TATCAAAATTTCAT-ATGAAGGT
* * *
134549 TATCAATATATCATATGGAGGT
1 TATCAAAATTTCATATGAAGGT
* **
134571 TATCAACATTTCATAGTGTTGGT
1 TATCAAAATTTCATA-TGAAGGT
134594 TATCAAAATTTCAT-TGGGAA-GT
1 TATCAAAATTTCATAT--GAAGGT
134616 TATCAAAATTTCATATCG-AGGT
1 TATCAAAATTTCATAT-GAAGGT
** * * *
134638 CT-TCAAAA-ACCTTAGGGAGGT
1 -TATCAAAATTTCATATGAAGGT
* * *
134659 TAACCAAATTTCATAAGAAGGT
1 TATCAAAATTTCATATGAAGGT
** **
134681 TAAAAAAAATTT-ATAAAAAGGT
1 T-ATCAAAATTTCATATGAAGGT
* * * **
134703 TCTCGAAATTACATA-GTATCGT
1 TATCAAAATTTCATATG-AAGGT
* *
134725 TATTAAAATTTCATATGAATGT
1 TATCAAAATTTCATATGAAGGT
134747 TATCAAAATTTCATA
1 TATCAAAATTTCATA
134762 ATGGAATTAT
Statistics
Matches: 377, Mismatches: 101, Indels: 74
0.68 0.18 0.13
Matches are distributed among these distances:
16 10 0.03
17 2 0.01
18 2 0.01
20 5 0.01
21 38 0.10
22 267 0.71
23 50 0.13
24 3 0.01
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (22 bp):
TATCAAAATTTCATATGAAGGT
Found at i:134771 original size:22 final size:21
Alignment explanation
Indices: 134723--134776 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
134713 ACATAGTATC
*
134723 GTTATTAAAATTTCATATGAA
1 GTTATAAAAATTTCATATGAA
*
134744 TGTTATCAAAATTTCATAATGGAA
1 -GTTATAAAAATTTCAT-AT-GAA
134768 -TTATAAAAA
1 GTTATAAAAA
134777 ATACTGTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 23 0.82
23 2 0.07
24 3 0.11
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (21 bp):
GTTATAAAAATTTCATATGAA
Found at i:134892 original size:60 final size:54
Alignment explanation
Indices: 134785--134899 Score: 158
Period size: 54 Copynumber: 2.0 Consensus size: 54
134775 AAATACTGTA
* *
134785 ATTATCATAATTTAATAGAGAGATTATCGTAATTTCAAGAGCTCGGACGGCGAG
1 ATTATCATAATTTAATAGAGAGATTATCGAAATCTCAAGAGCTCGGACGGCGAG
134839 ATTATCATAATTTAATAGAGAGATTATCGCAAAATCACGCTCAAGAGCTCGGACGGCGAG
1 ATTATCATAATTTAATAGAGAGATTATCG--AAAT----CTCAAGAGCTCGGACGGCGAG
134899 A
1 A
134900 ACTTCGAGGT
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
54 29 0.55
56 3 0.06
60 21 0.40
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (54 bp):
ATTATCATAATTTAATAGAGAGATTATCGAAATCTCAAGAGCTCGGACGGCGAG
Found at i:136024 original size:51 final size:51
Alignment explanation
Indices: 135962--136065 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
135952 ACTTCTGACC
*
135962 ATTTCTCGTGAATTGCAGTTTGTCTGGGACCACTTGAACATCTAGGCCTGA
1 ATTTCTCGTGAATTGCAGTTTGTCTGGGACCACTTGAACATATAGGCCTGA
* *
136013 ATTTCTTGTGAATTGCAGTTTGTCTGGGACCACTTGAACATATAGGTCTGA
1 ATTTCTCGTGAATTGCAGTTTGTCTGGGACCACTTGAACATATAGGCCTGA
136064 AT
1 AT
136066 ATACATCGAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (51 bp):
ATTTCTCGTGAATTGCAGTTTGTCTGGGACCACTTGAACATATAGGCCTGA
Found at i:143020 original size:15 final size:16
Alignment explanation
Indices: 142993--143027 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
142983 ATAGGAGAAA
142993 TTTTATAAATTTAGTC
1 TTTTATAAATTTAGTC
143009 TTTTAT-AATTTAGTC
1 TTTTATAAATTTAGTC
143024 TTTT
1 TTTT
143028 CTTTGCCCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.63
Consensus pattern (16 bp):
TTTTATAAATTTAGTC
Found at i:145624 original size:25 final size:24
Alignment explanation
Indices: 145596--145650 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
145586 TTAGTTCCAT
*
145596 ATTAAGATATAGATTTGTTTCGCA
1 ATTAAGATACAGATTTGTTTCGCA
** *
145620 GATTACATCTACAGATTTGTTTTGCA
1 -ATTA-AGATACAGATTTGTTTCGCA
145646 ATTAA
1 ATTAA
145651 ACCTGACAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 1 0.04
25 8 0.32
26 16 0.64
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (24 bp):
ATTAAGATACAGATTTGTTTCGCA
Found at i:145659 original size:26 final size:26
Alignment explanation
Indices: 145606--145668 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
145596 ATTAAGATAT
* * *
145606 AGATTTGTTTCGCAGATTACATCTAC
1 AGATTTGTTTTGCAGATTAAACCTAC
145632 AGATTTGTTTTGCA-ATTAAACCTGAC
1 AGATTTGTTTTGCAGATTAAACCT-AC
145658 AG-TTCTGTTTT
1 AGATT-TGTTTT
145669 TGCTTCTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 9 0.28
26 23 0.72
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (26 bp):
AGATTTGTTTTGCAGATTAAACCTAC
Found at i:146157 original size:48 final size:48
Alignment explanation
Indices: 146091--146184 Score: 161
Period size: 48 Copynumber: 2.0 Consensus size: 48
146081 TGAAATTTTA
*
146091 TTGTGAAATGATAACAAAACAAAACAATGGAGTACAATTGAAGTATTG
1 TTGTGAAATGATAACAAAACAAAACAATGGAGTAAAATTGAAGTATTG
* *
146139 TTGTGAAATGATAACAAAACAAAGCAATGTAGTAAAATTGAAGTAT
1 TTGTGAAATGATAACAAAACAAAACAATGGAGTAAAATTGAAGTAT
146185 GGAAAAGACG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.26
Consensus pattern (48 bp):
TTGTGAAATGATAACAAAACAAAACAATGGAGTAAAATTGAAGTATTG
Found at i:146453 original size:11 final size:11
Alignment explanation
Indices: 146439--146476 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
146429 ATTCATAACA
146439 AATTTATAATT
1 AATTTATAATT
146450 AATTTATAATT
1 AATTTATAATT
146461 -ATTTGATAATT
1 AATTT-ATAATT
*
146472 TATTT
1 AATTT
146477 TATATAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 4 0.16
11 17 0.68
12 4 0.16
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (11 bp):
AATTTATAATT
Done.