Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 107 of 318
Found at i:34468221 original size:3 final size:3
Alignment explanation
Indices: 34468213--34468251 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
34468203 TGTATTTCTA
34468213 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
34468252 ATAGTAGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:34480793 original size:44 final size:44
Alignment explanation
Indices: 34480745--34480983 Score: 175
Period size: 44 Copynumber: 5.3 Consensus size: 44
34480735 GATCTTATCT
* *
34480745 CCCTAAGCAGTAGGGAAACATATCAAAGATGATAGGCTTTAACC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATAGGCTTTAACC
34480789 CCCTAAGCAGTAGGGAAACAGATCGAAG--GCA-ACGAGCTTTAACC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATG-ATA-G-GCTTTAACC
* * * * * * * *
34480833 CCCTAAGCAGTAGGGTAACA-AGCTGAAGTTTATA-GATCTCATCA
1 CCCTAAGCAGTAGGGAAACAGATC-GAAGATGATAGGCT-TTAACC
* * *
34480877 CCCTAAGCAGTAGGGAAACAGATCGAAGACGAATTTACAGATCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATG-A--TA-GGCT-TTAACC
* * * * *
34480926 CCCTAAGCAGTAGGGAAACATATCAAAGAGGATGGGCCTTAA-C
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATAGGCTTTAACC
*
34480969 CCCTAAGCAATAGGG
1 CCCTAAGCAGTAGGG
34480984 TAAAAGGTTG
Statistics
Matches: 156, Mismatches: 25, Indels: 29
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.01
43 21 0.13
44 88 0.56
45 5 0.03
46 2 0.01
47 2 0.01
48 1 0.01
49 35 0.22
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGAAACAGATCGAAGATGATAGGCTTTAACC
Found at i:34486766 original size:86 final size:87
Alignment explanation
Indices: 34486616--34486790 Score: 273
Period size: 86 Copynumber: 2.0 Consensus size: 87
34486606 GTTTTTTGTC
34486616 TTAAGAATGTATTGACCCTTTTGACGCGAAGAGGGATGACAACCCAAGCACCCCACCCCAGTTAC
1 TTAAGAATGTATTGACCCTTTTGACGCGAAGAGGGATGACAACCCAAGCACCCCACCCCAGTTAC
*
34486681 TCAGCCCAACACACTCTT-ATT
66 TCAACCCAACACACTCTTAATT
* * * * *
34486702 TTAAGAATTTTTTGGCCCTTTTGACGCGAAGTA-GGATGACAACCCAAGCACCCTACCCCGGTTA
1 TTAAGAATGTATTGACCCTTTTGACGCGAAG-AGGGATGACAACCCAAGCACCCCACCCCAGTTA
34486766 CTCAACCCAACACACTCTTAATT
65 CTCAACCCAACACACTCTTAATT
34486789 TT
1 TT
34486791 TTTTTGTTTA
Statistics
Matches: 81, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
86 75 0.93
87 6 0.07
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (87 bp):
TTAAGAATGTATTGACCCTTTTGACGCGAAGAGGGATGACAACCCAAGCACCCCACCCCAGTTAC
TCAACCCAACACACTCTTAATT
Found at i:34489221 original size:25 final size:23
Alignment explanation
Indices: 34489177--34489233 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 23
34489167 AATAAGTGAA
* *
34489177 TAAATAAAAATTAATAAAAAGTT
1 TAAATAATAATTAAAAAAAAGTT
34489200 TAAATAATAATATAAAAGAAAAGTT
1 TAAATAATAAT-TAAAA-AAAAGTT
34489225 TAAA-AATAA
1 TAAATAATAA
34489234 GCAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 10 0.33
24 9 0.30
25 11 0.37
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (23 bp):
TAAATAATAATTAAAAAAAAGTT
Found at i:34489282 original size:3 final size:3
Alignment explanation
Indices: 34489274--34489781 Score: 218
Period size: 3 Copynumber: 169.7 Consensus size: 3
34489264 AATAAAAGGG
*
34489274 TAA TAA TAA TAA AAA GGTAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA --TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
34489322 TAA TAA TATG TAA GTAAA TAC GAA -AA GAA -AA TATT TAA T-G TAA TAA
1 TAA TAA TA-A TAA -T-AA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* * * * *
34489368 TAA CAA T-A TAA -AA TTAA TTAG T-T TAA TAA T-A TGA TGA TAA TAA
1 TAA TAA TAA TAA TAA -TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
34489411 TAG TAA TAA T-A CAA TAA TAA TAA -AG TAGA AAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
** ** * * *
34489455 TAA TAA T-A TGT TAA TAA GGA TAA TAG GAA TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
34489502 AAA TAA -AA AAA TAGA -AA TGA TAA TAA TAA TAT TGA TAA TAAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
* * * *
34489547 TAA TAG TAA AAA TAA CAA TAA TAA TAA TAGA AAA TAA -AA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
* ** *
34489591 -AA -AA TGAA GAA TAA TAA TACA TTAA TAA TAA TAA -AA TCGG GAA TAA
1 TAA TAA T-AA TAA TAA TAA TA-A -TAA TAA TAA TAA TAA T-AA TAA TAA
* * *
34489637 TAA TAA TAA CAA CAA CAA T-A TAAA TAA TAA T-A TAA -AA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
* * * *
34489679 TAG TAA TAA TAA TAA T-A TAG TAA TAA TAA TAA TAGA AAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * **
34489724 TAA TAG TGAA -AA TAA TAA TAA TAG TAA TAA TGAA TTAA TTAA TTT TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA T-AA -TAA -TAA TAA TAA
34489772 TAA TAA -AA TA
1 TAA TAA TAA TA
34489782 GCAAAATAAC
Statistics
Matches: 382, Mismatches: 81, Indels: 84
0.70 0.15 0.15
Matches are distributed among these distances:
2 43 0.11
3 294 0.77
4 38 0.10
5 7 0.02
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:34489288 original size:18 final size:17
Alignment explanation
Indices: 34489259--34489318 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
34489249 AAAAAGATAA
*
34489259 AATAA-AATAAAAGGGT
1 AATAATAATAAAAAGGT
34489275 AATAATAATAAAAAGGT
1 AATAATAATAAAAAGGT
*
34489292 AATAAATAATAATAA--T
1 AAT-AATAATAAAAAGGT
34489308 AATAATAATAA
1 AATAATAATAA
34489319 TAATAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
15 8 0.20
16 9 0.22
17 13 0.32
18 10 0.25
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (17 bp):
AATAATAATAAAAAGGT
Found at i:34489766 original size:24 final size:24
Alignment explanation
Indices: 34489521--34489590 Score: 51
Period size: 25 Copynumber: 3.0 Consensus size: 24
34489511 AATAGAAATG
* * *
34489521 ATAATAATAATATTGATAATAAATA
1 ATAATAGTAATAATGAAAAT-AATA
*
34489546 ATAATAGTAAAAAT-AACAATAATA
1 ATAATAGTAATAATGAA-AATAATA
34489570 ATAATAG-AA-AAT-AAAA-AATA
1 ATAATAGTAATAATGAAAATAATA
34489590 A
1 A
34489591 AAAATGAAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
20 5 0.12
21 2 0.05
22 5 0.12
23 2 0.05
24 12 0.30
25 14 0.35
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.27
Consensus pattern (24 bp):
ATAATAGTAATAATGAAAATAATA
Found at i:34490488 original size:12 final size:11
Alignment explanation
Indices: 34490460--34490486 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
34490450 AAAATGTGAG
34490460 TTTTTGACTCT
1 TTTTTGACTCT
34490471 TTTTTGACTCT
1 TTTTTGACTCT
34490482 TTTTT
1 TTTTT
34490487 TGTTTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.15, G:0.07, T:0.70
Consensus pattern (11 bp):
TTTTTGACTCT
Found at i:34490762 original size:18 final size:18
Alignment explanation
Indices: 34490727--34490763 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
34490717 TGTTTTGTTG
*
34490727 TTGTCTCTTTTGTCCTTT
1 TTGTCTCTTTTGGCCTTT
*
34490745 TTGTCTCTTTTGGGCTTT
1 TTGTCTCTTTTGGCCTTT
34490763 T
1 T
34490764 AGGGTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.19, G:0.16, T:0.65
Consensus pattern (18 bp):
TTGTCTCTTTTGGCCTTT
Found at i:34491079 original size:31 final size:31
Alignment explanation
Indices: 34491043--34491110 Score: 136
Period size: 31 Copynumber: 2.2 Consensus size: 31
34491033 ATTTTCATAG
34491043 AAAAAGCCCATGTTAAGTGATTCATAAATAC
1 AAAAAGCCCATGTTAAGTGATTCATAAATAC
34491074 AAAAAGCCCATGTTAAGTGATTCATAAATAC
1 AAAAAGCCCATGTTAAGTGATTCATAAATAC
34491105 AAAAAG
1 AAAAAG
34491111 GCTACAACAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.49, C:0.15, G:0.13, T:0.24
Consensus pattern (31 bp):
AAAAAGCCCATGTTAAGTGATTCATAAATAC
Found at i:34507352 original size:96 final size:96
Alignment explanation
Indices: 34507236--34507428 Score: 377
Period size: 96 Copynumber: 2.0 Consensus size: 96
34507226 TAGGCCCATC
34507236 AGACTAAAAATTTTCATAGGGTTGCAGGGTCGTCCTAATCGACTGTGGGTCAACCGTAGGGTCAG
1 AGACTAAAAATTTTCATAGGGTTGCAGGGTCGTCCTAATCGACTGTGGGTCAACCGTAGGGTCAG
34507301 TAAAGGCTAACTAAACCCTAAAACCATGTGT
66 TAAAGGCTAACTAAACCCTAAAACCATGTGT
34507332 AGACTAAAAATTTTCATAGGGTTGCAGGGTCGTCCTAATCGACTGTGGGTCAACCGTAGGGTCAG
1 AGACTAAAAATTTTCATAGGGTTGCAGGGTCGTCCTAATCGACTGTGGGTCAACCGTAGGGTCAG
*
34507397 TAAAGGCTAACTAAACCCTGAAACCATGTGT
66 TAAAGGCTAACTAAACCCTAAAACCATGTGT
34507428 A
1 A
34507429 TTGTTAGACT
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (96 bp):
AGACTAAAAATTTTCATAGGGTTGCAGGGTCGTCCTAATCGACTGTGGGTCAACCGTAGGGTCAG
TAAAGGCTAACTAAACCCTAAAACCATGTGT
Found at i:34508091 original size:17 final size:18
Alignment explanation
Indices: 34508069--34508148 Score: 103
Period size: 19 Copynumber: 4.4 Consensus size: 18
34508059 ATGGAAATAT
*
34508069 AATCTTGA-AGGATATGC
1 AATCTTGATATGATATGC
34508086 AATCTTAGATATGATATGC
1 AATCTT-GATATGATATGC
34508105 AATCTTTGATATGATA--C
1 AATC-TTGATATGATATGC
34508122 AATCTTTGATATGATATGC
1 AATC-TTGATATGATATGC
34508141 AATCTTGA
1 AATCTTGA
34508149 AGATATGATC
Statistics
Matches: 57, Mismatches: 1, Indels: 9
0.85 0.01 0.13
Matches are distributed among these distances:
17 23 0.40
18 6 0.11
19 26 0.46
20 2 0.04
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (18 bp):
AATCTTGATATGATATGC
Found at i:34508103 original size:19 final size:19
Alignment explanation
Indices: 34508079--34508168 Score: 112
Period size: 19 Copynumber: 4.7 Consensus size: 19
34508069 AATCTTGAAG
34508079 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
34508098 GATATGCAATCTTTGATAT
1 GATATGCAATCTTAGATAT
*
34508117 GATA--CAATCTTTGATAT
1 GATATGCAATCTTAGATAT
34508134 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
*
34508155 GATCTTGCAATCTT
1 GAT-ATGCAATCTT
34508169 GGAGATTTAA
Statistics
Matches: 63, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
17 17 0.27
19 29 0.46
21 8 0.13
22 9 0.14
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:34508109 original size:36 final size:35
Alignment explanation
Indices: 34508069--34508155 Score: 115
Period size: 36 Copynumber: 2.4 Consensus size: 35
34508059 ATGGAAATAT
34508069 AATCTTGAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTGAA-GATATGCAATCTTAGATATGATATGC
*
34508105 AATCTTTGATATGATA--CAATCTTTGATATGATATGC
1 AATC-TTGA-A-GATATGCAATCTTAGATATGATATGC
34508141 AATCTTGAAGATATG
1 AATCTTGAAGATATG
34508156 ATCTTGCAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
33 4 0.09
34 1 0.02
35 4 0.09
36 27 0.60
37 4 0.09
38 5 0.11
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (35 bp):
AATCTTGAAGATATGCAATCTTAGATATGATATGC
Found at i:34511794 original size:14 final size:14
Alignment explanation
Indices: 34511775--34511804 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34511765 TAATTTCAAG
34511775 ATAGATTAACGCAT
1 ATAGATTAACGCAT
*
34511789 ATAGATTCACGCAT
1 ATAGATTAACGCAT
34511803 AT
1 AT
34511805 TTATAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (14 bp):
ATAGATTAACGCAT
Found at i:34519833 original size:43 final size:43
Alignment explanation
Indices: 34519584--34519824 Score: 410
Period size: 43 Copynumber: 5.6 Consensus size: 43
34519574 GCTGGTATTA
* *
34519584 TATTCGGGCCTTCGTGCCTAACAGGTTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
34519627 TATTCGGGCCTTCGTGCCTAGAAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
34519670 TATTCGGGCCTTCGTGCCTAGCAAGCTTCATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
34519713 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
34519756 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
34519799 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
34519825 GTAATGCCGG
Statistics
Matches: 185, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 185 1.00
ACGTcount: A:0.12, C:0.25, G:0.32, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:34526458 original size:14 final size:14
Alignment explanation
Indices: 34526434--34526468 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
34526424 TTAAATATTT
34526434 ATAAT-GTTTAATC
1 ATAATGGTTTAATC
*
34526447 ATAATGGTTTAATT
1 ATAATGGTTTAATC
34526461 ATAATGGT
1 ATAATGGT
34526469 ATATTCATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (14 bp):
ATAATGGTTTAATC
Found at i:34527252 original size:43 final size:43
Alignment explanation
Indices: 34527170--34527383 Score: 181
Period size: 43 Copynumber: 5.0 Consensus size: 43
34527160 TAAAACTAGT
* * *
34527170 GACGTTTTTGAGAAAAGCG-C-ATAAAGATCATGTTCTTTAGC
1 GACGTTTTAGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
**
34527211 GACGTTTTAGAGAAAAGCGTTGCTAAAGGTCATGTTCTTTAGC
1 GACGTTTTAGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
* ** *
34527254 -AGCGTTTGTA-TGAAAAGCATCGCTAAAGGTC-TCGTTCTTTTGC
1 GA-CGTTT-TAGAGAAAAGCGCCGCTAAAGGTCAT-GTTCTTTAGC
* * * *
34527297 GTCGTTTTTGAGAAAAGTGCCGCTAAAGGTCACGTTCTTTAGC
1 GACGTTTTAGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
* * * *
34527340 GGCATTTGT-GTA-AAAAGTGCCGCTAAAGGTCACGTTCTTTAGC
1 GACGTTT-TAG-AGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
34527383 G
1 G
34527384 GTGCTTTCTC
Statistics
Matches: 145, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
41 18 0.12
42 3 0.02
43 120 0.83
44 4 0.03
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
GACGTTTTAGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
Found at i:34527303 original size:86 final size:86
Alignment explanation
Indices: 34527191--34527383 Score: 233
Period size: 86 Copynumber: 2.2 Consensus size: 86
34527181 GAAAAGCGCA
* * ** *
34527191 TAAAGATCATGTTCTTTAGCGACGTTTTAGAGAAAAGCGTTGCTAAAGGTCATGTTCTTTAGCAG
1 TAAAGGTCACGTTCTTTAGCGACGTTTTAGAGAAAAGCGCCGCTAAAGGTCACGTTCTTTAGCAG
* * *
34527256 CGTTTGTATGAAAAGCATCGC
66 CATTTGTATAAAAAGCACCGC
* * * * * *
34527277 TAAAGGTCTCGTTCTTTTGCGTCGTTTTTGAGAAAAGTGCCGCTAAAGGTCACGTTCTTTAGCGG
1 TAAAGGTCACGTTCTTTAGCGACGTTTTAGAGAAAAGCGCCGCTAAAGGTCACGTTCTTTAGCAG
* **
34527342 CATTTGTGTAAAAAGTGCCGC
66 CATTTGTATAAAAAGCACCGC
34527363 TAAAGGTCACGTTCTTTAGCG
1 TAAAGGTCACGTTCTTTAGCG
34527384 GTGCTTTCTC
Statistics
Matches: 88, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
86 88 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (86 bp):
TAAAGGTCACGTTCTTTAGCGACGTTTTAGAGAAAAGCGCCGCTAAAGGTCACGTTCTTTAGCAG
CATTTGTATAAAAAGCACCGC
Found at i:34527384 original size:43 final size:43
Alignment explanation
Indices: 34527232--34527384 Score: 182
Period size: 43 Copynumber: 3.6 Consensus size: 43
34527222 GAAAAGCGTT
* * * * ***
34527232 GCTAAAGGTCATGTTCTTTAGCAGCGTTTGTATGAAAAGCATC
1 GCTAAAGGTCACGTTCTTTAGCGGCGTTTGTGTAAAAAGTGCC
* * * *
34527275 GCTAAAGGTCTCGTTCTTTTGCGTCGTTTTTG-AGAAAAGTGCC
1 GCTAAAGGTCACGTTCTTTAGCGGCGTTTGTGTA-AAAAGTGCC
*
34527318 GCTAAAGGTCACGTTCTTTAGCGGCATTTGTGTAAAAAGTGCC
1 GCTAAAGGTCACGTTCTTTAGCGGCGTTTGTGTAAAAAGTGCC
34527361 GCTAAAGGTCACGTTCTTTAGCGG
1 GCTAAAGGTCACGTTCTTTAGCGG
34527385 TGCTTTCTCA
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
43 91 0.99
44 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
GCTAAAGGTCACGTTCTTTAGCGGCGTTTGTGTAAAAAGTGCC
Found at i:34527398 original size:43 final size:43
Alignment explanation
Indices: 34527274--34527424 Score: 141
Period size: 43 Copynumber: 3.6 Consensus size: 43
34527264 TGAAAAGCAT
* * * * *
34527274 CGCTAAAGGTCTCGTTCTTTTGCGT-CGTTTTTGAGAAAAGTGC
1 CGCTAAAGGTCACGTTCTTTAGCGTGCATTTCTCA-AAAAGTGC
* *
34527317 CGCTAAAGGTCACGTTCTTTAGCG-GCATTTGTGTAAAAAGTGC
1 CGCTAAAGGTCACGTTCTTTAGCGTGCATTTCT-CAAAAAGTGC
*
34527360 CGCTAAAGGTCACGTTCTTTAGCGGTGC-TTTCTCAAAAA-CGC
1 CGCTAAAGGTCACGTTCTTTAGC-GTGCATTTCTCAAAAAGTGC
* * *
34527402 C-CTAAAAGTTATGTTCTTTAGCG
1 CGCTAAAGGTCACGTTCTTTAGCG
34527425 GTGTTTTTTT
Statistics
Matches: 93, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
40 1 0.01
41 18 0.19
42 3 0.03
43 63 0.68
44 6 0.06
45 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (43 bp):
CGCTAAAGGTCACGTTCTTTAGCGTGCATTTCTCAAAAAGTGC
Found at i:34535689 original size:18 final size:18
Alignment explanation
Indices: 34535668--34535718 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
34535658 CATGATTGCT
34535668 TAAATAATATATAAAACA
1 TAAATAATATATAAAACA
*
34535686 TAAAAGAATA-ATAAAACA
1 T-AAATAATATATAAAACA
* *
34535704 CATAATAAGATATAA
1 TA-AATAATATATAA
34535719 TGTATATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 1 0.04
18 14 0.54
19 11 0.42
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.24
Consensus pattern (18 bp):
TAAATAATATATAAAACA
Found at i:34536158 original size:35 final size:35
Alignment explanation
Indices: 34536112--34536180 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
34536102 TAAACTTAAT
34536112 GGAAACTATACATTCATTGAAAATTTTTACATAAC
1 GGAAACTATACATTCATTGAAAATTTTTACATAAC
34536147 GGAAACTATACATTCATTGAAAATTTTTACATAA
1 GGAAACTATACATTCATTGAAAATTTTTACATAA
34536181 AATAATGTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (35 bp):
GGAAACTATACATTCATTGAAAATTTTTACATAAC
Found at i:34537649 original size:22 final size:22
Alignment explanation
Indices: 34537622--34537672 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
34537612 ACTTTTATTG
34537622 GTTTTTATCTTA-ATTTATTTTT
1 GTTTTTAT-TTATATTTATTTTT
* *
34537644 GTTTTTGTTTATTTTTATTTTT
1 GTTTTTATTTATATTTATTTTT
34537666 GATTTTT
1 G-TTTTT
34537673 CTCTAACAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 3 0.12
22 17 0.68
23 5 0.20
ACGTcount: A:0.14, C:0.02, G:0.08, T:0.76
Consensus pattern (22 bp):
GTTTTTATTTATATTTATTTTT
Found at i:34537654 original size:16 final size:16
Alignment explanation
Indices: 34537635--34537666 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34537625 TTTATCTTAA
*
34537635 TTTATTTTTGTTTTTG
1 TTTATTTTTATTTTTG
34537651 TTTATTTTTATTTTTG
1 TTTATTTTTATTTTTG
34537667 ATTTTTCTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.81
Consensus pattern (16 bp):
TTTATTTTTATTTTTG
Found at i:34539044 original size:16 final size:14
Alignment explanation
Indices: 34539023--34539064 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 14
34539013 TGCAAATTGA
34539023 AATTAAATATATAAGT
1 AATTAAATA-ATAA-T
34539039 AATTAAATAATAAT
1 AATTAAATAATAAT
34539053 AA-T-AATAATAAT
1 AATTAAATAATAAT
34539065 GGAAAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 9 0.35
13 1 0.04
14 3 0.12
15 4 0.15
16 9 0.35
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (14 bp):
AATTAAATAATAAT
Found at i:34539196 original size:18 final size:18
Alignment explanation
Indices: 34539173--34539207 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
34539163 TTAAAAAATC
*
34539173 ATGATATTATTAATAATG
1 ATGATATTAATAATAATG
34539191 ATGATATTAATAATAAT
1 ATGATATTAATAATAAT
34539208 ATAATAAAAT
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:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (18 bp):
ATGATATTAATAATAATG
Found at i:34539348 original size:3 final size:3
Alignment explanation
Indices: 34539342--34539496 Score: 72
Period size: 3 Copynumber: 51.7 Consensus size: 3
34539332 CAAAACTGAT
* * *
34539342 TAA TAA T-A TGA TAA TAA TAA TAA CTAA TAG TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
* * * * *
34539387 TAA TAGA -AGA TAA TAA TAA TAA -GA TAAA GAA CAA CAA TAA TGCAT
1 TAA TA-A TA-A TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA T--AA
* * * *
34539432 TAA TAA TAA TAG TAA -AGA CAA TAA TGA TTA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
34539476 TAA -AA -AA TAA TGA TAT TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
34539497 CATATATATA
Statistics
Matches: 118, Mismatches: 22, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
2 10 0.08
3 99 0.84
4 7 0.06
5 2 0.02
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:34539384 original size:22 final size:22
Alignment explanation
Indices: 34539351--34539408 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
34539341 TTAATAATAT
*
34539351 GATAATAATAATAACTAATAGTA
1 GATAATAATAATAA-TAATAGAA
*
34539374 -ATAGTAATAATAATAATAGAA
1 GATAATAATAATAATAATAGAA
34539395 GATAATAATAATAA
1 GATAATAATAATAA
34539409 GATAAAGAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.23
22 24 0.77
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (22 bp):
GATAATAATAATAATAATAGAA
Found at i:34539400 original size:25 final size:26
Alignment explanation
Indices: 34539344--34539408 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 26
34539334 AAACTGATTA
34539344 ATAATATGATAATAATAATAACTAATAG
1 ATAATA-G-TAATAATAATAACTAATAG
34539372 -TAATAGTAATAATAATAA-TAGA-AG
1 ATAATAGTAATAATAATAACTA-ATAG
*
34539396 ATAATAATAATAA
1 ATAATAGTAATAA
34539409 GATAAAGAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
24 4 0.12
25 24 0.71
26 1 0.03
27 5 0.15
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.31
Consensus pattern (26 bp):
ATAATAGTAATAATAATAACTAATAG
Found at i:34539403 original size:28 final size:26
Alignment explanation
Indices: 34539342--34539475 Score: 76
Period size: 28 Copynumber: 4.8 Consensus size: 26
34539332 CAAAACTGAT
*
34539342 TAATAATATGATAATAATAATAACTAA
1 TAATAATATAATAATAATAATAAC-AA
*
34539369 TAGTAATAGTAATAATAATAATAGA-AGA
1 TAATAATA-TAATAATAATAATA-ACA-A
* * *
34539397 TAATAATAATAA-GATAAAGAACAACAA
1 TAATAAT-ATAATAAT-AATAATAACAA
* *
34539424 TAATGCAT-TAATAATAATAGTAAAGACAA
1 TAAT-AATATAATAATAATA--ATA-ACAA
*
34539453 TAATGATTATAATAATAATAATA
1 TAAT-AATATAATAATAATAATA
34539476 TAAAAAATAA
Statistics
Matches: 82, Mismatches: 13, Indels: 23
0.69 0.11 0.19
Matches are distributed among these distances:
26 6 0.07
27 18 0.22
28 35 0.43
29 12 0.15
30 11 0.13
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (26 bp):
TAATAATATAATAATAATAATAACAA
Found at i:34539468 original size:30 final size:29
Alignment explanation
Indices: 34539419--34539508 Score: 89
Period size: 30 Copynumber: 3.1 Consensus size: 29
34539409 GATAAAGAAC
*
34539419 AACAATAATGCA-TTAATAATAATAGTA-A
1 AACAATAATG-ATTTAATAATAATAATATA
34539447 AGACAATAATGATTATAATAATAATAATATA
1 A-ACAATAATGATT-TAATAATAATAATATA
*
34539478 AAAAATAATGATATTAATACAT-AT-ATATA
1 AACAATAATGAT-TTAATA-ATAATAATATA
34539507 AA
1 AA
34539509 TATAAATATA
Statistics
Matches: 54, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
28 2 0.04
29 17 0.31
30 30 0.56
31 5 0.09
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (29 bp):
AACAATAATGATTTAATAATAATAATATA
Found at i:34539495 original size:27 final size:29
Alignment explanation
Indices: 34539395--34539508 Score: 97
Period size: 32 Copynumber: 3.7 Consensus size: 29
34539385 AATAATAGAA
* * *
34539395 GATAATAATAATAAGATAAAGAACAACAAT
1 GATATTAATAATAATATAAAG-ACAATAAT
*
34539425 AATGCATTAATAATAATAGTAAAGACAATAAT
1 GAT--ATTAATAATAATA-TAAAGACAATAAT
34539457 GATTATAATAATAATAATATAAA-A-AATAAT
1 GA-TAT--TAATAATAATATAAAGACAATAAT
34539487 GATATTAATACATATATATAAA
1 GATATTAATA-ATA-ATATAAA
34539509 TATAAATATA
Statistics
Matches: 71, Mismatches: 5, Indels: 17
0.76 0.05 0.18
Matches are distributed among these distances:
27 5 0.07
28 3 0.04
29 10 0.14
30 10 0.14
31 3 0.04
32 23 0.32
33 17 0.24
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (29 bp):
GATATTAATAATAATATAAAGACAATAAT
Found at i:34539541 original size:6 final size:6
Alignment explanation
Indices: 34539502--34539528 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
34539492 TAATACATAT
34539502 ATATAA ATATAA ATATAA ATATAA ATA
1 ATATAA ATATAA ATATAA ATATAA ATA
34539529 GATAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:34539547 original size:15 final size:14
Alignment explanation
Indices: 34539504--34539558 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
34539494 ATACATATAT
*
34539504 ATAAATATAAAT--
1 ATAAATAAAAATAG
*
34539516 ATAAATATAAATAG
1 ATAAATAAAAATAG
34539530 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
* *
34539545 ATAAGTAATAATAG
1 ATAAATAAAAATAG
34539559 TGTTTGAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
12 12 0.32
14 13 0.35
15 12 0.32
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:34540425 original size:3 final size:3
Alignment explanation
Indices: 34540419--34540454 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
34540409 GGAACAAGAA
34540419 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
34540455 GAAAGAAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:34541363 original size:44 final size:45
Alignment explanation
Indices: 34541215--34541917 Score: 378
Period size: 44 Copynumber: 15.7 Consensus size: 45
34541205 AATTTCAACT
* * * *
34541215 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCGTATTTTTA-TCC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGC-TATCTTCAGT-C
** * * * * *
34541261 TGCTTTACTGCAACTTCAGAGAGATAAGGAT-T-ATGGT-TTCAATT
1 TGCTCCACTGCAACTTCAGGGAGATAA-GATCTGCT-ATCTTCAGTC
* * *
34541305 TTCTCCACTACAACTTTAGGGAGATAAGATCTGCTATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTATCTTCAGTC
*
34541350 TGCT-CACTGCAACTTCAGGGAGATAAGA-CTTGCTATCTTCAGTT
1 TGCTCCACTGCAACTTCAGGGAGATAAGATC-TGCTATCTTCAGTC
**
34541394 TGCTCCACTGCAACTTCAGGGAGATAAGA-CTTGCTA-CTTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATC-TGCTATCTTCAGTC
* * * * *
34541438 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTA-TCC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTG-CTATCTTCAGT-C
* * * *
34541484 TGCTCTACTGCAACTTCAGAGAGATAAGGAT-T-ATGGT-TTC-GATC
1 TGCTCCACTGCAACTTCAGGGAGATAA-GATCTGCT-ATCTTCAG-TC
* * * *
34541528 TGCTTCAGTGTAACTTCAGGGAGATAAGATCTGCTATCTTCAGAC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTATCTTCAGTC
* * **
34541573 TGCTCCACTGCAACTTCAAGGAGAGAAGA-CTTGCTA-CTTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATC-TGCTATCTTCAGTC
* * * *
34541617 TGCTCCACTACTACTTCAGGGAGATAA-AGTTTGCTA---TGA-TC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TCTGCTATCTTCAGTC
* * * *
34541658 TGCTCTACTGCAACTTCAGAGAGATAAGATCTGATTATTTATAGCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTG-----CTAT--CTTCAGTC
* * * * ** *
34541710 TGTTCTACTGCAACTTCAGGGAAATAAG-GCTAG-TGGCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCT-GCTATCTTCAGTC
* * * * * *
34541754 TGCTTCACTGAAACTTCAAGAAGATAAGATCTGCCAT-TTGCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTATCTT-CAGTC
* * * * * * * *
34541799 TACTCCACTAG-AATTTCAAGGA-AAAGAGATTTCCTGTCTTTAGTC
1 TGCTCCACT-GCAACTTCAGGGAGATA-AGATCTGCTATCTTCAGTC
* * ** *
34541844 TGCTCCGCTGCAACTTCAGGGAGATAAGATTTG-TGGCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTATCTTCAGTC
* *
34541888 TGCTCCACTGCAACTTTACGGAGATAAGAT
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT
34541918 TTTCCATGAT
Statistics
Matches: 507, Mismatches: 106, Indels: 90
0.72 0.15 0.13
Matches are distributed among these distances:
41 27 0.05
42 3 0.01
43 8 0.02
44 234 0.46
45 135 0.27
46 64 0.13
47 4 0.01
51 4 0.01
52 28 0.06
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (45 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTATCTTCAGTC
Found at i:34541480 original size:223 final size:222
Alignment explanation
Indices: 34541189--34541915 Score: 693
Period size: 223 Copynumber: 3.2 Consensus size: 222
34541179 GGAACTTAAA
* *
34541189 GGAGATAAGAATTGGTAATTTCAACTTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCGTATT
1 GGAGATAAGAATTGCT-A-TTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCGTATT
* * *
34541254 TTTATCCTGCTTTACTGCAACTTCAGAGAGATAAGGATTATGGTTTCAATTTTCTCCACTACAAC
64 TTTATCCTGCTCTACTGCAACTTCAGAGAGATAAGGATTATGGTTTCAATCTGCTCCACTACAAC
* * * *
34541319 TTTAGGGAGATAAGATCTGCTATCTTCAGTCTGCT-CACTGCAACTTCAGGGAGATAAGACTTGC
129 TTCAGGGAGATAAGATCTGCTATCTTCAGACTGCTCCACTGCAACTTCAAGGAGAGAAGACTTGC
*** *
34541383 TATCTTCAGTTTGCTCCACTGCAACTTCAG
194 TA-CTTCAACCTGCTCCACTACAACTTCAG
* *
34541413 GGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTT
1 GGAGATAAGAATTGCTA-TTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCGTATTT
* * * **
34541478 TTATCCTGCTCTACTGCAACTTCAGAGAGATAAGGATTATGGTTTCGATCTGCTTCAGTGTAACT
65 TTATCCTGCTCTACTGCAACTTCAGAGAGATAAGGATTATGGTTTCAATCTGCTCCACTACAACT
34541543 TCAGGGAGATAAGATCTGCTATCTTCAGACTGCTCCACTGCAACTTCAAGGAGAGAAGACTTGCT
130 TCAGGGAGATAAGATCTGCTATCTTCAGACTGCTCCACTGCAACTTCAAGGAGAGAAGACTTGCT
*
34541608 ACTTCAACCTGCTCCACTACTACTTCAG
195 ACTTCAACCTGCTCCACTACAACTTCAG
* * * * * * * **
34541636 GGAGATAA-AGTTTGCTA-T-GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGATTATTT
1 GGAGATAAGA-ATTGCTATTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCGTATTT
* * * * * * *
34541698 ATAGCTTCAATCTGTTCTACTGCAACTTCAGGGAAATAAGG-CTAGTGGCTTCAATCTGCTTCAC
65 TTA---TC---CTGCTCTACTGCAACTTCAGAGAGATAAGGATTA-TGGTTTCAATCTGCTCCAC
* * * * *
34541762 TGA-AACTTCAAGAAGATAAGATCTGCCAT-TTGCA-ATCTACTCCACTAG-AATTTCAAGGA-A
123 T-ACAACTTCAGGGAGATAAGATCTGCTATCTT-CAGA-CTGCTCCACT-GCAACTTCAAGGAGA
* * * * * ** * *
34541822 AAGAGATTTCCTGTCTTTAGTCTGCTCCGCTGCAACTTCAG
184 GA-AGACTTGCT-ACTTCAACCTGCTCCACTACAACTTCAG
* * * * *
34541863 GGAGATAAGATTTG-TGGCTTCAATCTGCTCCACTGCAACTTTACGGAGATAAG
1 GGAGATAAGAATTGCT--ATTCAACCTGCTCCACTGCAACTTCAGGGAGATAAG
34541916 ATTTTCCATG
Statistics
Matches: 422, Mismatches: 61, Indels: 34
0.82 0.12 0.07
Matches are distributed among these distances:
220 38 0.09
221 1 0.00
222 1 0.00
223 173 0.41
224 43 0.10
225 7 0.02
226 96 0.23
227 34 0.08
228 1 0.00
229 1 0.00
230 27 0.06
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (222 bp):
GGAGATAAGAATTGCTATTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCGTATTTT
TATCCTGCTCTACTGCAACTTCAGAGAGATAAGGATTATGGTTTCAATCTGCTCCACTACAACTT
CAGGGAGATAAGATCTGCTATCTTCAGACTGCTCCACTGCAACTTCAAGGAGAGAAGACTTGCTA
CTTCAACCTGCTCCACTACAACTTCAG
Found at i:34541510 original size:179 final size:179
Alignment explanation
Indices: 34541214--34541697 Score: 531
Period size: 179 Copynumber: 2.7 Consensus size: 179
34541204 TAATTTCAAC
** * * * **
34541214 TTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCGTATTTTTATCCTGCTTTACTGCAACTTCA
1 TTGCTCCACTGCAACTTCAGGGAGATAAGACTTGC-TA-CTTCAACCTGCTCCACTGCAACTTCA
* * * * * * * * * * * *
34541279 GAGAGATAAGGATTATG-GTTTCAATTTTCTCCACTACAACTTTAGGGAGATAAGATCTGCT-AT
64 GGGAGATAAGGTTTGTGTATTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGATGAT
*
34541342 CTTC-AGTCTGC-TCACTGCAACTTCAGGGAGATAAGA-CTTGCTATCTTCAGT
129 -TTCGA-TCTGCTTCACTGCAACTTCAGGGAGATAAGATC-TGCTATCTTCAGA
34541393 TTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAACTTCAGG
1 TTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAACTTCAGG
* *
34541458 GAGATAAGGTTTGTGTATTTTTATCCTGCTCTACTGCAACTTCAGAGAGATAAGGAT-T-ATGGT
66 GAGATAAGGTTTGTGTATTTTAAT-CTGCTCTACTGCAACTTCAGAGAGATAA-GATCTGATGAT
* *
34541521 TTCGATCTGCTTCAGTGTAACTTCAGGGAGATAAGATCTGCTATCTTCAGA
129 TTCGATCTGCTTCACTGCAACTTCAGGGAGATAAGATCTGCTATCTTCAGA
* * * * *
34541572 CTGCTCCACTGCAACTTCAAGGAGAGAAGACTTGCTACTTCAACCTGCTCCACTACTACTTCAGG
1 TTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAACTTCAGG
* * * *
34541637 GAGATAAAGTTTG-CTA---TGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGATTATTT
66 GAGATAAGGTTTGTGTATTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGATGATTT
34541698 ATAGCTTCAA
Statistics
Matches: 262, Mismatches: 34, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
173 3 0.01
174 29 0.11
175 8 0.03
177 35 0.13
178 18 0.07
179 165 0.63
180 4 0.02
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (179 bp):
TTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAACTTCAGG
GAGATAAGGTTTGTGTATTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGATGATTT
CGATCTGCTTCACTGCAACTTCAGGGAGATAAGATCTGCTATCTTCAGA
Found at i:34542462 original size:47 final size:46
Alignment explanation
Indices: 34542314--34542462 Score: 192
Period size: 46 Copynumber: 3.2 Consensus size: 46
34542304 AAAATTTGGT
*
34542314 TTCTTCCATCCATCCCACTACAATTCAGGGGTATAGGATTTGTATC
1 TTCTTCAATCCATCCCACTACAATTCAGGGGTATAGGATTTGTATC
* * * ** *
34542360 TTTTTCAATCCCTCCCGCTGTAATTCAGGGGTAAAGGATTTGTATC
1 TTCTTCAATCCATCCCACTACAATTCAGGGGTATAGGATTTGTATC
**
34542406 TTCTTCAATCCATCCCACTACAACTT-AGGGGTATAGGATTTTGTGGC
1 TTCTTCAATCCATCCCACTACAA-TTCAGGGGTATAGGA-TTTGTATC
34542453 TTCTTCAATC
1 TTCTTCAATC
34542463 AATTTGATCT
Statistics
Matches: 86, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
46 68 0.79
47 18 0.21
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (46 bp):
TTCTTCAATCCATCCCACTACAATTCAGGGGTATAGGATTTGTATC
Found at i:34543379 original size:4 final size:5
Alignment explanation
Indices: 34543342--34543380 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
34543332 TTTTTCCTTC
*
34543342 TTCTT TTCTT TTCTT TTCTT TTCTT TT-AT TTC-T TTCTT T
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT T
34543381 ATTTTGAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
4 7 0.23
5 24 0.77
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (5 bp):
TTCTT
Found at i:34548746 original size:18 final size:18
Alignment explanation
Indices: 34548723--34548757 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
34548713 TAAAAAAATC
*
34548723 ATGATATTATTAATAATG
1 ATGATATTAATAATAATG
34548741 ATGATATTAATAATAAT
1 ATGATATTAATAATAAT
34548758 ATAATAAAAT
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:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (18 bp):
ATGATATTAATAATAATG
Found at i:34548898 original size:3 final size:3
Alignment explanation
Indices: 34548892--34548958 Score: 66
Period size: 3 Copynumber: 22.0 Consensus size: 3
34548882 CAAAACTGAT
* * *
34548892 TAA TAA T-A TGA TAA TAA TAA TAA CTAA TAG TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
34548937 TAA TAGA -AGA TAA TAA TAA TAA
1 TAA TA-A TA-A TAA TAA TAA TAA
34548959 GATAAAGAAC
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
2 2 0.04
3 48 0.87
4 5 0.09
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:34548934 original size:22 final size:22
Alignment explanation
Indices: 34548901--34548958 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
34548891 TTAATAATAT
*
34548901 GATAATAATAATAACTAATAGTA
1 GATAATAATAATAA-TAATAGAA
*
34548924 -ATAGTAATAATAATAATAGAA
1 GATAATAATAATAATAATAGAA
34548945 GATAATAATAATAA
1 GATAATAATAATAA
34548959 GATAAAGAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.23
22 24 0.77
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (22 bp):
GATAATAATAATAATAATAGAA
Found at i:34548950 original size:25 final size:26
Alignment explanation
Indices: 34548894--34548958 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 26
34548884 AAACTGATTA
34548894 ATAATATGATAATAATAATAACTAATAG
1 ATAATA-G-TAATAATAATAACTAATAG
34548922 -TAATAGTAATAATAATAA-TAGA-AG
1 ATAATAGTAATAATAATAACTA-ATAG
*
34548946 ATAATAATAATAA
1 ATAATAGTAATAA
34548959 GATAAAGAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
24 4 0.12
25 24 0.71
26 1 0.03
27 5 0.15
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.31
Consensus pattern (26 bp):
ATAATAGTAATAATAATAACTAATAG
Found at i:34548953 original size:28 final size:26
Alignment explanation
Indices: 34548892--34549025 Score: 76
Period size: 28 Copynumber: 4.8 Consensus size: 26
34548882 CAAAACTGAT
*
34548892 TAATAATATGATAATAATAATAACTAA
1 TAATAATATAATAATAATAATAAC-AA
*
34548919 TAGTAATAGTAATAATAATAATAGA-AGA
1 TAATAATA-TAATAATAATAATA-ACA-A
* * *
34548947 TAATAATAATAA-GATAAAGAACAACAA
1 TAATAAT-ATAATAAT-AATAATAACAA
* *
34548974 TAATGCAT-TAATAATAATAGTAAAGGCAA
1 TAAT-AATATAATAATAATAAT-AA--CAA
*
34549003 TAATGATTATAATAATAATAATA
1 TAAT-AATATAATAATAATAATA
34549026 TAAAAAATAA
Statistics
Matches: 81, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
26 6 0.07
27 20 0.25
28 31 0.38
29 12 0.15
30 12 0.15
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.29
Consensus pattern (26 bp):
TAATAATATAATAATAATAATAACAA
Found at i:34549041 original size:15 final size:16
Alignment explanation
Indices: 34549001--34549041 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
34548991 TAGTAAAGGC
*
34549001 AATAATGAT-TATAAT
1 AATAATGATATATAAA
*
34549016 AATAATAATATA-AAA
1 AATAATGATATATAAA
34549031 AATAATGATAT
1 AATAATGATAT
34549042 TAATACATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (16 bp):
AATAATGATATATAAA
Found at i:34549045 original size:27 final size:28
Alignment explanation
Indices: 34548972--34549058 Score: 79
Period size: 29 Copynumber: 2.9 Consensus size: 28
34548962 AAAGAACAAC
* *
34548972 AATAATG-CATTAATAATAATAGTAAAGGC
1 AATAATGATATTAATAATAATA-TAAA-GA
34549001 AATAATGATTATAATAATAATAATATAAA-A
1 AATAATGA-TAT--TAATAATAATATAAAGA
34549031 AATAATGATATTAATACATATATATAAA
1 AATAATGATATTAATA-ATA-ATATAAA
34549059 TATAAATATA
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
27 5 0.10
28 3 0.06
29 17 0.34
30 8 0.16
31 2 0.04
32 4 0.08
33 11 0.22
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.32
Consensus pattern (28 bp):
AATAATGATATTAATAATAATATAAAGA
Found at i:34549091 original size:14 final size:13
Alignment explanation
Indices: 34549016--34549097 Score: 71
Period size: 12 Copynumber: 6.2 Consensus size: 13
34549006 TGATTATAAT
34549016 AATAAT-AATATA
1 AATAATAAATATA
* *
34549028 AAAAATAATGATATT
1 AATAATAA--ATATA
*
34549043 AATACATATATATA
1 AATA-ATAAATATA
34549057 AAT-ATAAATATA
1 AATAATAAATATA
34549069 AAT-ATAAATATA
1 AATAATAAATATA
*
34549081 AATAGATAAATAAA
1 AATA-ATAAATATA
34549095 AAT
1 AAT
34549098 TAGATAAGTA
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
12 28 0.49
13 1 0.02
14 18 0.32
15 7 0.12
16 3 0.05
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (13 bp):
AATAATAAATATA
Found at i:34549097 original size:6 final size:6
Alignment explanation
Indices: 34549052--34549084 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
34549042 TAATACATAT
34549052 ATATAA ATATAA ATATAA ATATAA ATATAA ATA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATA
34549085 GATAAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:34549103 original size:15 final size:14
Alignment explanation
Indices: 34549060--34549114 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
34549050 ATATATAAAT
*
34549060 ATAAATATAAAT--
1 ATAAATAAAAATAG
*
34549072 ATAAATATAAATAG
1 ATAAATAAAAATAG
34549086 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
* *
34549101 ATAAGTAATAATAG
1 ATAAATAAAAATAG
34549115 TGTTTGAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
12 12 0.32
14 13 0.35
15 12 0.32
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:34557281 original size:70 final size:70
Alignment explanation
Indices: 34557186--34557332 Score: 206
Period size: 70 Copynumber: 2.1 Consensus size: 70
34557176 ATTGCGGATG
* * * *
34557186 ACAACTATCATCAGTTATTCGACTAGCACTGAGTGCAATAATTTGTCTACTCGTTCGACTAGTGT
1 ACAACTAGCATCAGTTATTCGACTAGCACTGAGCGCAATAATTTGTCGACTCGTTCGACTAGTGC
34557251 TGGGC
66 TGGGC
* ** *
34557256 ACAACTAGCATCGGTTA-TCTGACTAGTGCTGGGCGCAATAATTTGTCGACTCGTTCGACTAGTG
1 ACAACTAGCATCAGTTATTC-GACTAGCACTGAGCGCAATAATTTGTCGACTCGTTCGACTAGTG
34557320 CTGGGC
65 CTGGGC
34557326 ACAACTA
1 ACAACTA
34557333 TCGTTGGTTA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
69 2 0.03
70 66 0.97
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (70 bp):
ACAACTAGCATCAGTTATTCGACTAGCACTGAGCGCAATAATTTGTCGACTCGTTCGACTAGTGC
TGGGC
Found at i:34557342 original size:70 final size:70
Alignment explanation
Indices: 34557220--34557394 Score: 224
Period size: 70 Copynumber: 2.5 Consensus size: 70
34557210 AGCACTGAGT
* * ** *
34557220 GCAATAATTTGTCTACTCGTTCGACTAGTGTTGGGCACAACTAGCATCGGTTATCTGACTAGTGC
1 GCAATAATTTGTCGACTCGTTCGACTAGTGTTGGGCACAACTAGCATCGGTTACCCAACTAGTAC
*
34557285 TGGGC
66 TAGGC
* * * *
34557290 GCAATAATTTGTCGACTCGTTCGACTAGTGCTGGGCACAACTATCGTTGGTTACCCAACTAGTAC
1 GCAATAATTTGTCGACTCGTTCGACTAGTGTTGGGCACAACTAGCATCGGTTACCCAACTAGTAC
34557355 TAGGC
66 TAGGC
* * * *
34557360 ACAATAATTTTTTGACTCGTTCAACTAGTGTTGGG
1 GCAATAATTTGTCGACTCGTTCGACTAGTGTTGGG
34557395 TACACCAAGA
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
70 90 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (70 bp):
GCAATAATTTGTCGACTCGTTCGACTAGTGTTGGGCACAACTAGCATCGGTTACCCAACTAGTAC
TAGGC
Found at i:34561869 original size:18 final size:19
Alignment explanation
Indices: 34561837--34561878 Score: 77
Period size: 18 Copynumber: 2.3 Consensus size: 19
34561827 TTACTTAATT
34561837 TAATATTATTTTATCTAAA
1 TAATATTATTTTATCTAAA
34561856 TAATATTA-TTTATCTAAA
1 TAATATTATTTTATCTAAA
34561874 TAATA
1 TAATA
34561879 ACAACATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATATTATTTTATCTAAA
Found at i:34568498 original size:18 final size:17
Alignment explanation
Indices: 34568467--34568500 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
34568457 CAACCAAAAT
*
34568467 AAAAATAAATTAAATAA
1 AAAAATAAAGTAAATAA
34568484 AAAAATAAAAGTAAATA
1 AAAAAT-AAAGTAAATA
34568501 TCTAACCCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAAATAAAGTAAATAA
Found at i:34568585 original size:55 final size:55
Alignment explanation
Indices: 34568521--34568631 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
34568511 TTAAAATAAA
*
34568521 AGGGTGCTGCTAAACCAAAATAATTCTTTCAAAGCACACTTGAGAACTTGAACTT
1 AGGGTGCTGCTAAACCAAAATAATTCCTTCAAAGCACACTTGAGAACTTGAACTT
34568576 AGGGTGCTGCTAAACCAAAATAATTCCTTCAAAGCACACTTGAGAACTTGAACTT
1 AGGGTGCTGCTAAACCAAAATAATTCCTTCAAAGCACACTTGAGAACTTGAACTT
34568631 A
1 A
34568632 AAACCCCAAG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (55 bp):
AGGGTGCTGCTAAACCAAAATAATTCCTTCAAAGCACACTTGAGAACTTGAACTT
Found at i:34571613 original size:22 final size:23
Alignment explanation
Indices: 34571566--34571615 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
34571556 AAAATCTAAA
*
34571566 TTTAACACAACAATCTTAATTGT
1 TTTAACACAACAAACTTAATTGT
*
34571589 TTTAACA-ATCAAACTTATATT-T
1 TTTAACACAACAAACTTA-ATTGT
34571611 TTTAA
1 TTTAA
34571616 TTTGAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.44
Consensus pattern (23 bp):
TTTAACACAACAAACTTAATTGT
Found at i:34571796 original size:14 final size:15
Alignment explanation
Indices: 34571777--34571809 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
34571767 AACTTAAAAG
*
34571777 TTTCCA-AAATCATT
1 TTTCCACAAAGCATT
34571791 TTTCCACAAAGCATT
1 TTTCCACAAAGCATT
34571806 TTTC
1 TTTC
34571810 AAACCTTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.30, C:0.24, G:0.03, T:0.42
Consensus pattern (15 bp):
TTTCCACAAAGCATT
Found at i:34572790 original size:11 final size:11
Alignment explanation
Indices: 34572774--34572809 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
34572764 GAATACTAAA
34572774 AAAAAAAAAAG
1 AAAAAAAAAAG
34572785 AAAAAAAAAAG
1 AAAAAAAAAAG
*
34572796 AAAAGAAAGAAG
1 AAAA-AAAAAAG
34572808 AA
1 AA
34572810 GCATAAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:34572792 original size:16 final size:16
Alignment explanation
Indices: 34572771--34572803 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
34572761 TAAGAATACT
34572771 AAAAAAAAAAAAAGAA
1 AAAAAAAAAAAAAGAA
*
34572787 AAAAAAAAGAAAAGAA
1 AAAAAAAAAAAAAGAA
34572803 A
1 A
34572804 GAAGAAGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAGAA
Found at i:34572927 original size:28 final size:28
Alignment explanation
Indices: 34572868--34572927 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
34572858 TGAGAAAATG
* * *
34572868 TTTTGGAAAAATATATATCAAATTTTTA
1 TTTTGGAAAAAAAAATATCAAATTCTTA
* * *
34572896 TTTTGGAAAAAAAAATTTTAAATTCTTC
1 TTTTGGAAAAAAAAATATCAAATTCTTA
34572924 TTTT
1 TTTT
34572928 TTTCTAAGGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (28 bp):
TTTTGGAAAAAAAAATATCAAATTCTTA
Found at i:34577513 original size:40 final size:40
Alignment explanation
Indices: 34577423--34577561 Score: 197
Period size: 41 Copynumber: 3.4 Consensus size: 40
34577413 CGTTTTACCA
* * * *
34577423 AAAATGCCGCTAAAAACATAGAGCAATAGCGGCGTTTTTTGTT
1 AAAACGCCGCTAAAAAC--AGAGCATTAGCGGCG-CTTTTGGT
34577466 AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGT
*
34577506 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAA-ACAGAGCATTAGCGGCGCTTTTGGT
34577547 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
34577562 GTCATATAAC
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
40 21 0.23
41 53 0.59
43 16 0.18
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.21
Consensus pattern (40 bp):
AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGT
Found at i:34577896 original size:14 final size:15
Alignment explanation
Indices: 34577864--34577899 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
34577854 TATTTTAACT
*
34577864 TTTATGGATTATAGG
1 TTTAGGGATTATAGG
34577879 TTTAGGGATTAT-GG
1 TTTAGGGATTATAGG
34577893 TTTAGGG
1 TTTAGGG
34577900 GTTAGGGGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (15 bp):
TTTAGGGATTATAGG
Found at i:34577976 original size:43 final size:42
Alignment explanation
Indices: 34577869--34577976 Score: 105
Period size: 43 Copynumber: 2.5 Consensus size: 42
34577859 TAACTTTTAT
* *
34577869 GGATTATAG-GTTTAGGGATTATGGTTTAGGGGTTAGGGGTCTA
1 GGATTA-AGAGTTTAGGGTTTA-GGTTTAGGGGTTAGGGATCTA
***
34577912 GGATTAAGAGTTTATATTTTAGGATTTA-GGGTCTAGGGAT-TAA
1 GGATTAAGAGTTTAGGGTTTAGG-TTTAGGGGT-TAGGGATCT-A
34577955 GGATTAAGAGTTTAGGGTTTAG
1 GGATTAAGAGTTTAGGGTTTAG
34577977 TTAATTAATG
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
42 9 0.17
43 44 0.83
ACGTcount: A:0.26, C:0.02, G:0.34, T:0.38
Consensus pattern (42 bp):
GGATTAAGAGTTTAGGGTTTAGGTTTAGGGGTTAGGGATCTA
Found at i:34578162 original size:22 final size:22
Alignment explanation
Indices: 34578109--34578159 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
34578099 ATGATTAAGG
34578109 GTTTAAGGTTTATGAGTTACTA
1 GTTTAAGGTTTATGAGTTACTA
*
34578131 TTTTAAGGTTTATGTA-TTA-TA
1 GTTTAAGGTTTATG-AGTTACTA
34578152 GTTTAAGG
1 GTTTAAGG
34578160 GTTAGGGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 9 0.35
22 16 0.62
23 1 0.04
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (22 bp):
GTTTAAGGTTTATGAGTTACTA
Found at i:34578251 original size:275 final size:272
Alignment explanation
Indices: 34577723--34578351 Score: 744
Period size: 275 Copynumber: 2.3 Consensus size: 272
34577713 GATGTACATC
* * * *
34577723 ATATGTTAAATATTTTCTTATATAATTGTAAAAGAGATAGTATTAATTTTAAAATATTGAATTAA
1 ATATGATAAATATTTTCTTATATAATTGTAAAAGAGATAATATTAATTTAAAAATATTGAATCAA
** * *
34577788 TTATCATTATAGTTTAAGGTTTATGATTTAGGGCATATGGTTAAGGGTTTAAGGTTTACGAGTTA
66 TTATCATTATAGTTTAAGGTTTACAATTTAGGACATATGATTAAGGGTTTAAGGTTTACGAGTTA
* *
34577853 CTATTTTAACTTTTATGGATTATAGGTTTAGGGATTATGGTTTAGGGGTTAGGGGTCTAGGATTA
131 CTATTTTAACGTTTATGGATTATAGGTTTAGGGATTATGGTTTAGGGGTTAGGGCTCTAGGATTA
* *
34577918 AGAGTTTATATTTTAGGATTTAGGGTCTAGGGATTAAGGATTAAGAGTTTAGGGTTTAG-TTAAT
196 AGAGTTTATATTTTAGGATTTAGAGTCTAGAGATTAAGGATTAAGA--TTA-GGTTTAGATTAAT
34577982 TAATGTTTTTAATTT
258 TAATGTTTTTAATTT
*
34577997 ATATGATAAATATTTTCTTATATAATTGTAAAAAAGATAATATTAATTTAAAAATATTGAATCAA
1 ATATGATAAATATTTTCTTATATAATTGTAAAAGAGATAATATTAATTTAAAAATATTGAATCAA
* * *
34578062 TTAATCATTATAGTTTAGGGTTTACAATTTAGGATATATGATTAAGGGTTTAAGGTTTATGAGTT
66 TT-ATCATTATAGTTTAAGGTTTACAATTTAGGACATATGATTAAGGGTTTAAGGTTTACGAGTT
* * *
34578127 ACTATTTTAAGGTTTATGTATTATA-GTTTAAGGGTTAGGGGTTATAGG-TTATGGGTTATGGGC
130 ACTATTTTAACGTTTATGGATTATAGGTTT-AGGG--A----TTAT-GGTTTAGGGGTTA-GGGC
* * * *
34578190 TC-AGGGTTAATG-GTTTATATTTTAGGATTTTAGAGTTTAGAGTTTAGGGATT-A-A-T-GGTT
186 TCTAGGATTAA-GAGTTTATATTTTAGGA-TTTAGAGTCTAGAGATTAAGGATTAAGATTAGGTT
*
34578249 TAGATTAATTAGTGTTTTTAATTT
249 TAGATTAATTAATGTTTTTAATTT
* * * * * *
34578273 ATAT-ATTAAATAATTTCTTATATGATTGTAAAAGAGATAATTTTAATTTTAATAT-TTTAA--A
1 ATATGA-TAAATATTTTCTTATATAATTGTAAAAGAGATAATATTAATTTAAAAATATTGAATCA
*
34578334 ATTATGATTATAGTTTAA
65 ATTATCATTATAGTTTAA
34578352 ATTATTTAAG
Statistics
Matches: 308, Mismatches: 33, Indels: 30
0.83 0.09 0.08
Matches are distributed among these distances:
272 13 0.04
273 4 0.01
274 66 0.21
275 93 0.30
276 66 0.21
277 2 0.01
280 1 0.00
281 36 0.12
282 27 0.09
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (272 bp):
ATATGATAAATATTTTCTTATATAATTGTAAAAGAGATAATATTAATTTAAAAATATTGAATCAA
TTATCATTATAGTTTAAGGTTTACAATTTAGGACATATGATTAAGGGTTTAAGGTTTACGAGTTA
CTATTTTAACGTTTATGGATTATAGGTTTAGGGATTATGGTTTAGGGGTTAGGGCTCTAGGATTA
AGAGTTTATATTTTAGGATTTAGAGTCTAGAGATTAAGGATTAAGATTAGGTTTAGATTAATTAA
TGTTTTTAATTT
Found at i:34578571 original size:7 final size:6
Alignment explanation
Indices: 34578546--34578590 Score: 54
Period size: 6 Copynumber: 7.0 Consensus size: 6
34578536 AACAACATTG
*
34578546 ATAATAA ATAAAA ATAAAA TACAAAA ATAAAA ATAAAA TATAAAA
1 ATAA-AA ATAAAA ATAAAA -ATAAAA ATAAAA ATAAAA -ATAAAA
34578591 TAGAGGTTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 19 0.56
7 15 0.44
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (6 bp):
ATAAAA
Found at i:34578571 original size:13 final size:12
Alignment explanation
Indices: 34578551--34578592 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
34578541 CATTGATAAT
34578551 AAAT-AAAAATA
1 AAATAAAAAATA
34578562 AAATACAAAAATAA
1 AAATA-AAAAAT-A
*
34578576 AAATAAAATATA
1 AAATAAAAAATA
34578588 AAATA
1 AAATA
34578593 GAGGTTAGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 4 0.15
12 6 0.22
13 11 0.41
14 6 0.22
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (12 bp):
AAATAAAAAATA
Found at i:34578573 original size:19 final size:19
Alignment explanation
Indices: 34578551--34578590 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
34578541 CATTGATAAT
34578551 AAATAAAAATAAAATACAA
1 AAATAAAAATAAAATACAA
*
34578570 AAATAAAAATAAAATATAA
1 AAATAAAAATAAAATACAA
34578589 AA
1 AA
34578591 TAGAGGTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (19 bp):
AAATAAAAATAAAATACAA
Found at i:34581472 original size:26 final size:26
Alignment explanation
Indices: 34581434--34581541 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
34581424 TGATACAAAT
*
34581434 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
34581460 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
34581486 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
34581512 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
34581538 TGAT
1 TGAT
34581542 GGGAATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:34586434 original size:43 final size:43
Alignment explanation
Indices: 34586386--34586522 Score: 215
Period size: 43 Copynumber: 3.2 Consensus size: 43
34586376 TTTCATGACT
* *
34586386 TTTAGCAGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCGTGATC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCGTGATC
34586429 TTTAGCGGCGTTTGT-AGGAAAAGCGCCGCTAAAGGTCGTGATC
1 TTTAGCGGCGTTTGTGA-GAAAAGCGCCGCTAAAGGTCGTGATC
*
34586472 TTTAGCGGCGTTTGTG-GAAAAAGCGCCGCTAAAGGTCATGATC
1 TTTAGCGGCGTTTGTGAG-AAAAGCGCCGCTAAAGGTCGTGATC
34586515 TTTAGCGG
1 TTTAGCGG
34586523 TATTTTTTCA
Statistics
Matches: 88, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
42 2 0.02
43 86 0.98
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCGTGATC
Found at i:34601518 original size:40 final size:40
Alignment explanation
Indices: 34601458--34601641 Score: 226
Period size: 40 Copynumber: 4.6 Consensus size: 40
34601448 TATTCGAATG
* * * *
34601458 ATATCGGGGCTAAGTCCCGAAAGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * *
34601498 ATATCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
* * *
34601538 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * *
34601578 ATATCCGGGCTAAGTCCTGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
34601618 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
34601642 CTTGTGCGAG
Statistics
Matches: 121, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 118 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:34601946 original size:22 final size:22
Alignment explanation
Indices: 34601904--34601947 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
34601894 AAAATATGCA
* *
34601904 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
34601926 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
34601948 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:34608672 original size:27 final size:27
Alignment explanation
Indices: 34608641--34608818 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34608631 TAAATTGTAC
34608641 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
34608668 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34608694 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
34608722 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
34608750 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34608777 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34608804 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34608819 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34608755 original size:82 final size:81
Alignment explanation
Indices: 34608642--34608797 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34608632 AAATTGTACA
* *
34608642 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
34608706 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
34608723 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
34608788 TGCGAGTTGA
65 TGCGAATTGA
34608798 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:34608809 original size:82 final size:81
Alignment explanation
Indices: 34608638--34608818 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
34608628 GATTAAATTG
* *
34608638 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
34608703 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
34608719 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
34608783 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
34608801 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
34608819 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:34613128 original size:39 final size:40
Alignment explanation
Indices: 34612924--34613146 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
34612914 TTGAATGCTG
* * * * * *
34612924 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
34612964 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
34613004 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
34613044 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
34613084 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
34613123 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
34613147 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:34613166 original size:79 final size:80
Alignment explanation
Indices: 34612999--34613181 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
34612989 GTGCGAGATA
* * *
34612999 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
34613064 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
34613079 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
34613143 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
34613158 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
34613182 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:34620950 original size:80 final size:79
Alignment explanation
Indices: 34620813--34621072 Score: 240
Period size: 80 Copynumber: 3.3 Consensus size: 79
34620803 TTGAATGCTG
* * * * * * * *
34620813 TCCGGGCTAAGTCCCGAAGGCT-TTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGG-TATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCAT
*
34620876 TTGTGCGAGATACTAAA
63 TTGTGCGAGATGCTAAA
* * * *
34620893 TCCGGGTTAAGTCCCGAAGGTATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGTATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTT
* *
34620958 GTGCGAGTTGTTAAA
65 GTGCGAGATGCTAAA
* * * *
34620973 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGTATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
** *
34621038 AACGAGGA-GCTATA
66 TGCGA-GATGCTAAA
*
34621052 TCC-GGTTAAATCCCGAAGGTA
1 TCCGGGTTAAGTCCCGAAGGTA
34621073 CGTGATTTGG
Statistics
Matches: 148, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
78 15 0.10
79 47 0.32
80 82 0.55
81 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGTATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATGCTAAA
Found at i:34621017 original size:39 final size:40
Alignment explanation
Indices: 34620813--34621035 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
34620803 TTGAATGCTG
* * * * * *
34620813 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
34620853 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
34620893 TCCGGGTTAAGTCCCGAAGGTATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
34620933 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
34620973 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
34621012 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
34621036 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 35 0.22
40 116 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:34621055 original size:79 final size:80
Alignment explanation
Indices: 34620888--34621070 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
34620878 GTGCGAGATA
* * * *
34620888 CTAAATCCGGGTTAAGTCCCGAAGGTATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
34620953 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
34620968 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
34621032 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
34621047 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
34621071 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 26 0.30
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:34621635 original size:21 final size:21
Alignment explanation
Indices: 34621609--34621653 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
34621599 TATGTGTTTA
34621609 AGTATAATGTTATAATCATTT
1 AGTATAATGTTATAATCATTT
34621630 AGTATAATGTTATAATCATTT
1 AGTATAATGTTATAATCATTT
34621651 AGT
1 AGT
34621654 GTGGATATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (21 bp):
AGTATAATGTTATAATCATTT
Found at i:34624027 original size:40 final size:40
Alignment explanation
Indices: 34623967--34624148 Score: 246
Period size: 40 Copynumber: 4.6 Consensus size: 40
34623957 TATTCGAATG
*
34623967 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
34624007 ATATCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
34624047 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
34624087 ATATCCGGGCTAAG-TCCGAAGGCATTTATGCTAGTGAC-
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
34624125 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
34624149 CTTGTGCGAG
Statistics
Matches: 126, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
38 14 0.11
39 30 0.24
40 79 0.63
41 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:34624168 original size:39 final size:39
Alignment explanation
Indices: 34623967--34624175 Score: 237
Period size: 40 Copynumber: 5.3 Consensus size: 39
34623957 TATTCGAATG
* * *
34623967 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTG-CT
* * *
34624007 ATATCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGCT
*
34624047 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTG-CT
* *
34624087 ATATCCGGGCTAAG-TCCGAAGGCATTTATGCTAGTGAC-
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTG-CT
* * *
34624125 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGT-GCT
34624164 ATATCC-GGCTAA
1 ATATCCGGGCTAA
34624176 ATTCCGAAGA
Statistics
Matches: 146, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
38 28 0.19
39 37 0.25
40 79 0.54
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGCT
Found at i:34624447 original size:22 final size:21
Alignment explanation
Indices: 34624406--34624448 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
34624396 GAAAATGTGA
*
34624406 TATATGAAGTTATTCATTAGC
1 TATATGAAGTTATACATTAGC
*
34624427 TATATGAATGTTATACCTTAGC
1 TATATGAA-GTTATACATTAGC
34624449 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.42
Consensus pattern (21 bp):
TATATGAAGTTATACATTAGC
Found at i:34635285 original size:30 final size:30
Alignment explanation
Indices: 34635251--34635317 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
34635241 TCCTTAACTC
34635251 AAACTTTGGAAAAATTACAATTTTACCCCT
1 AAACTTTGGAAAAATTACAATTTTACCCCT
* * * * * *
34635281 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTACCCCT
34635311 AAACTTT
1 AAACTTT
34635318 TGCATATTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTACCCCT
Found at i:34635304 original size:16 final size:16
Alignment explanation
Indices: 34635283--34635336 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
34635273 TTACCCCTAA
34635283 ACTTTTGCATATTTAC
1 ACTTTTGCATATTTAC
*** *
34635299 ACTTTTGC--CCCTAA
1 ACTTTTGCATATTTAC
34635313 ACTTTTGCATATTTAC
1 ACTTTTGCATATTTAC
34635329 ACTTTTGC
1 ACTTTTGC
34635337 CCCTAGGCTC
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
14 10 0.36
16 18 0.64
ACGTcount: A:0.22, C:0.24, G:0.07, T:0.46
Consensus pattern (16 bp):
ACTTTTGCATATTTAC
Found at i:34635318 original size:30 final size:30
Alignment explanation
Indices: 34635265--34635341 Score: 136
Period size: 30 Copynumber: 2.6 Consensus size: 30
34635255 TTTGGAAAAA
* *
34635265 TTACAATTTTACCCCTAAACTTTTGCATAT
1 TTACACTTTTGCCCCTAAACTTTTGCATAT
34635295 TTACACTTTTGCCCCTAAACTTTTGCATAT
1 TTACACTTTTGCCCCTAAACTTTTGCATAT
34635325 TTACACTTTTGCCCCTA
1 TTACACTTTTGCCCCTA
34635342 GGCTCGAGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.25, C:0.27, G:0.05, T:0.43
Consensus pattern (30 bp):
TTACACTTTTGCCCCTAAACTTTTGCATAT
Found at i:34638500 original size:34 final size:34
Alignment explanation
Indices: 34638453--34638520 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
34638443 TCAAACAATC
* *
34638453 TTGGGCCTAAGCCCTTTTCAGTATCAGTAACAGT
1 TTGGGCCTAAGCCCATCTCAGTATCAGTAACAGT
* *
34638487 TTGGGCCTTAGCCCATCTCAGTATCAGTATCAGT
1 TTGGGCCTAAGCCCATCTCAGTATCAGTAACAGT
34638521 CATACAGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (34 bp):
TTGGGCCTAAGCCCATCTCAGTATCAGTAACAGT
Found at i:34641555 original size:43 final size:43
Alignment explanation
Indices: 34641499--34641743 Score: 228
Period size: 43 Copynumber: 5.7 Consensus size: 43
34641489 TTTGCAGCGG
* * **
34641499 TTAGTGGCGCTTTCCCTACAAACGCCACTAAAGAACAAGACCT
1 TTAGCGGCGCTTTCCCTAAAAACGCCACTAAAGAACGTGACCT
* *
34641542 TTAGCGGTGCTTT-CCTAAAAAAAGCCACTAAAGAACGTGACCT
1 TTAGCGGCGCTTTCCCT-AAAAACGCCACTAAAGAACGTGACCT
* * *
34641585 TTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGAATGTGACCT
1 TTAGCGGCGCTTTCCCTAAAAACGCCACTAAAGAACGTGACCT
* * * ** * *
34641628 TTAGCGGCACTTTTCC-AAAAATGCTGCTAAATAACATGACCT
1 TTAGCGGCGCTTTCCCTAAAAACGCCACTAAAGAACGTGACCT
* * * * * *
34641670 TTAGCGGCACTCTCTCC-AGAAACGCCGCTAAAGAACCTGACTT
1 TTAGCGGCGCTTTC-CCTAAAAACGCCACTAAAGAACGTGACCT
* *
34641713 TTAACGACGCTTTCCC-AAAAACGCCACTAAA
1 TTAGCGGCGCTTTCCCTAAAAACGCCACTAAA
34641744 AGTCATGTTC
Statistics
Matches: 167, Mismatches: 32, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
42 51 0.31
43 114 0.68
44 2 0.01
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (43 bp):
TTAGCGGCGCTTTCCCTAAAAACGCCACTAAAGAACGTGACCT
Found at i:34641617 original size:86 final size:85
Alignment explanation
Indices: 34641499--34641786 Score: 231
Period size: 85 Copynumber: 3.4 Consensus size: 85
34641489 TTTGCAGCGG
* * * * **
34641499 TTAGTGGCGCTTTCCCTACAAACGCCACTAAAGAACAAGACCTTTAGCGGTGC-TTTCCTAAAAA
1 TTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGAACAAGACCTTTAGCGGCACTTTTCC--AAAA
*
34641563 AAGCCACTAAAGAACGTGACCT
64 AAGCCACTAAAGAACATGACCT
*** *
34641585 TTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGAATGTGACCTTTAGCGGCACTTTTCCAAAAAT
1 TTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGAACAAGACCTTTAGCGGCACTTTTCCAAAAAA
** *
34641650 GCTGCTAAATAACATGACCT
66 GCCACTAAAGAACATGACCT
* * * * ** * * * * * *
34641670 TTAGCGGCACTCTCTCCAGAAACGCCGCTAAAGAACCTGACTTTTAACGACGCTTTCCCAAAAAC
1 TTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGAACAAGACCTTTAGCGGCACTTTTCCAAAAAA
* **
34641735 GCCACTAAA-AGTCATGTTCT
66 GCCACTAAAGA-ACATGACCT
* * * *
34641755 TTAACAGCGCTTTTCCCAAAAA-GCCACTAAAG
1 TTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAG
34641787 GTCATGAAAA
Statistics
Matches: 161, Mismatches: 39, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
84 10 0.06
85 102 0.63
86 44 0.27
87 5 0.03
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (85 bp):
TTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGAACAAGACCTTTAGCGGCACTTTTCCAAAAAA
GCCACTAAAGAACATGACCT
Found at i:34641743 original size:85 final size:85
Alignment explanation
Indices: 34641518--34641743 Score: 245
Period size: 85 Copynumber: 2.6 Consensus size: 85
34641508 CTTTCCCTAC
* * * * *
34641518 AAACGCCACTAAAGAACAAGACCTTTAGCGGTGCTTTCCTAAAAAAAGCCACTAAAGAACGTGAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCC-CAAAAAAGCCACTAAAGAACATGAC
* *
34641583 CTTTAGCGGCGCTTTCCCCAA
65 CTTTAGCGGCACTCTCCCCAA
** * * * ** *
34641604 AAACGCCGCTAAAGAATGTGACCTTTAGCGGCACTTTTCCAAAAATGCTGCTAAATAACATGACC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCAAAAAAGCCACTAAAGAACATGACC
* *
34641669 TTTAGCGGCACTCTCTCCAG
66 TTTAGCGGCACTCTCCCCAA
* * * * *
34641689 AAACGCCGCTAAAGAACCTGACTTTTAACGACGCTTTCCCAAAAACGCCACTAAA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCAAAAAAGCCACTAAA
34641744 AGTCATGTTC
Statistics
Matches: 113, Mismatches: 27, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
85 81 0.72
86 32 0.28
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.21
Consensus pattern (85 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCAAAAAAGCCACTAAAGAACATGACC
TTTAGCGGCACTCTCCCCAA
Found at i:34642461 original size:23 final size:22
Alignment explanation
Indices: 34642430--34643312 Score: 464
Period size: 23 Copynumber: 38.5 Consensus size: 22
34642420 TCAACAACTA
* *
34642430 AACAATTCAATTTGCAGCACTTT
1 AACACTTCAATTTACAGCA-TTT
*
34642453 AACACTTCAATTTGCAGCACTTTT
1 AACACTTCAATTTACAGCA--TTT
*
34642477 AACACTTCAATTTATAGCATTT
1 AACACTTCAATTTACAGCATTT
*
34642499 AAACACTTCAATTTGCAGCACTTT
1 -AACACTTCAATTTACAGCA-TTT
* *
34642523 AACA-TCTCAATTAACAACATTT
1 AACACT-TCAATTTACAGCATTT
* * * *
34642545 ATACTCCTCAA-TTATAGCGA-TA
1 A-ACACTTCAATTTACAGC-ATTT
* * * *
34642567 AAAAATCTCAATTT-CTAGCAACTA
1 AACACT-TCAATTTAC-AGC-ATTT
* * * *
34642591 AACTCTTCAATTTGCAGTACTTA
1 AACACTTCAATTTACAGCA-TTT
**
34642614 AACACTTCAATTTACAAAAATTT
1 AACACTTCAATTTAC-AGCATTT
* * *
34642637 AAACACTTTAATTTACAACATTCA
1 -AACACTTCAATTTACAGCATT-T
*
34642661 AACACTTCAATTTGCAGCATTTT
1 AACACTTCAATTTACAGCA-TTT
*
34642684 AACACTTCAATTTACAACATTT
1 AACACTTCAATTTACAGCATTT
**
34642706 AAACACTTCAATTTGTAGCACTTT
1 -AACACTTCAATTTACAGCA-TTT
*
34642730 AACACTTCAATTTGCAGCACTTT
1 AACACTTCAATTTACAGCA-TTT
* *
34642753 AAACACTTCAATTTGCCGCACTTT
1 -AACACTTCAATTTACAGCA-TTT
* *
34642777 AACACTTCAATTAACAACATTT
1 AACACTTCAATTTACAGCATTT
**
34642799 ATACACCTT-AA-TTACAGCGATAA
1 A-ACA-CTTCAATTTACAGC-ATTT
* * *
34642822 AACA-TCTCAATTTCCAGCAACTA
1 AACACT-TCAATTTACAGC-ATTT
* * *
34642845 AACACTTCAATTTGCAGTACTTA
1 AACACTTCAATTTACAGCA-TTT
*
34642868 AACACTTCAATTTACAACATTT
1 AACACTTCAATTTACAGCATTT
*
34642890 AAGCACTTCAATTTACAACATTT
1 AA-CACTTCAATTTACAGCATTT
* **
34642913 AAACACTTCAATTTGCTTCACTTT
1 -AACACTTCAATTTACAGCA-TTT
*
34642937 AACA-TCTCAA-TTAGCAACATTT
1 AACACT-TCAATTTA-CAGCATTT
* * **
34642959 ATACACCTCAA-TTATAGCGATAA
1 A-ACACTTCAATTTACAGC-ATTT
* **
34642982 AACA-TCTCAATTTCCAGCAACT
1 AACACT-TCAATTTACAGCATTT
* * *
34643004 ATACACTTCAATTTGCAGTACTTA
1 A-ACACTTCAATTTACAGCA-TTT
*
34643028 AACACTTCAATTTACAACATTT
1 AACACTTCAATTTACAGCATTT
*
34643050 AAGCACTTCAATTTACAACATTT
1 AA-CACTTCAATTTACAGCATTT
* **
34643073 AAACACTTCAATTTGCTTCACTTT
1 -AACACTTCAATTTACAGCA-TTT
* *
34643097 AACA-TCTCAATTAACAACATTT
1 AACACT-TCAATTTACAGCATTT
* * **
34643119 ATACACCTCAA-TTATAGCGATAA
1 A-ACACTTCAATTTACAGC-ATTT
* **
34643142 AACA-TCTCAATTTCCAGCAACT
1 AACACT-TCAATTTACAGCATTT
* * *
34643164 ATACACTTCAATTTGCAGTACTTA
1 A-ACACTTCAATTTACAGCA-TTT
* *
34643188 AACACTTCAATTTACAACATAT
1 AACACTTCAATTTACAGCATTT
*
34643210 AAGCACTTCAATTTACAACATTT
1 AA-CACTTCAATTTACAGCATTT
*
34643233 AAACACTTCAATTTACAACATTT
1 -AACACTTCAATTTACAGCATTT
*
34643256 AAACACTTCAATTTGCAGCACTTT
1 -AACACTTCAATTTACAGCA-TTT
* *
34643280 AACA-TCTCAATTAACAACATTT
1 AACACT-TCAATTTACAGCATTT
34643302 GAACACTTCAA
1 -AACACTTCAA
34643313 GTTGTATTCA
Statistics
Matches: 676, Mismatches: 125, Indels: 118
0.74 0.14 0.13
Matches are distributed among these distances:
20 1 0.00
21 2 0.00
22 88 0.13
23 489 0.72
24 96 0.14
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (22 bp):
AACACTTCAATTTACAGCATTT
Found at i:34643290 original size:46 final size:46
Alignment explanation
Indices: 34642428--34643312 Score: 550
Period size: 46 Copynumber: 19.3 Consensus size: 46
34642418 TTTCAACAAC
* * *
34642428 TAAACAATTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACA-TT
* ** * *
34642475 TTAACACTTCAATTTATAGCA-TTTAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTACAACA-TT
** * * * * *
34642522 T-AACA-TCTCAATTAACAACA-TTTATACTCCTCAA-TTATAGCGA--
1 TAAACACT-TCAATTTGCAGCACTTTA-ACACTTCAATTTACAAC-ATT
* * * * * ** *
34642565 TAAAAAATCTCAATTT-CTAGCAAC-TAAACTCTTCAATTTGCAGTACT
1 TAAACACT-TCAATTTGC-AGC-ACTTTAACACTTCAATTTACAACATT
* ** * *
34642612 TAAACACTTCAATTTACAAAAATTTAAACACTTTAATTTACAACATT
1 TAAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTACAACATT
* *
34642659 CAAACACTTCAATTTGCAGCATTTTAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATT
* * *
34642705 TAAACACTTCAATTTGTAGCACTTTAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACA-TT
* *
34642752 TAAACACTTCAATTTGCCGCACTTTAACACTTCAATTAACAACATT
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATT
* * ** * * **
34642798 TATACACCTT-AA-TTACAGCGA-TAAAACA-TCTCAATTTCCAGCAAC
1 TAAACA-CTTCAATTTGCAGC-ACTTTAACACT-TCAATTTACAACATT
* *
34642843 TAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATT
* * * * **
34642889 TAAGCACTTCAATTTACAACA-TTTAAACACTTCAATTTGCTTCACTT
1 TAAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTACAACA-TT
* * * * *
34642936 T-AACA-TCTCAATTAGCAACA-TTTATACACCTCAA-TTATAGCGA-T
1 TAAACACT-TCAATTTGCAGCACTTTA-ACACTTCAATTTACAAC-ATT
* * * * ** *
34642980 AAAACA-TCTCAATTTCCAGCAACTAT-ACACTTCAATTTGCAGTACT
1 TAAACACT-TCAATTTGCAGC-ACTTTAACACTTCAATTTACAACATT
* *
34643026 TAAACACTTCAATTTACAACA-TTTAAGCACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCACTTTAA-CACTTCAATTTACAACATT
** *
34643072 TAAACACTTCAATTTGCTTCACTTTAACA-TCTCAATTAACAACATT
1 TAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTTACAACATT
* * ** * * **
34643118 TATACACCTCAATTAT--AGCGA-TAAAACA-TCTCAATTTCCAGCAAC
1 TAAACACTTCAATT-TGCAGC-ACTTTAACACT-TCAATTTACAACATT
* * * *
34643163 TATACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATA
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATT
* * *
34643209 TAAGCACTTCAATTTACAACA-TTTAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTACAACATT
*
34643255 TAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACATT
1 TAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTTACAACATT
*
34643301 TGAACACTTCAA
1 TAAACACTTCAA
34643313 GTTGTATTCA
Statistics
Matches: 659, Mismatches: 132, Indels: 95
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.00
44 12 0.02
45 124 0.19
46 379 0.58
47 143 0.22
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (46 bp):
TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATT
Found at i:34643292 original size:160 final size:160
Alignment explanation
Indices: 34642685--34643246 Score: 939
Period size: 160 Copynumber: 3.5 Consensus size: 160
34642675 CAGCATTTTA
* ** * ** * * *
34642685 ACACTTCAATTTACAACATTTAAACACTTCAATTTGTAGCACTTTAA-CACTTCAATTTGCAGCA
1 ACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACA-TTTAAGCACTTCAATTTACAACA
** *
34642749 CTTTAAACACTTCAATTTGCCGCACTTTAACA-CTTCAATTAACAACATTTATACACCTTAATTA
65 -TTTAAACACTTCAATTTGCTTCACTTTAACATC-TCAATTAACAACATTTATACACCTCAATTA
* *
34642813 CAGCGATAAAACATCTCAATTTCCAGCAACTAA
128 TAGCGATAAAACATCTCAATTTCCAGCAACTAT
34642846 ACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAGCACTTCAATTTACAACAT
1 ACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAGCACTTCAATTTACAACAT
*
34642911 TTAAACACTTCAATTTGCTTCACTTTAACATCTCAATTAGCAACATTTATACACCTCAATTATAG
66 TTAAACACTTCAATTTGCTTCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTATAG
34642976 CGATAAAACATCTCAATTTCCAGCAACTAT
131 CGATAAAACATCTCAATTTCCAGCAACTAT
34643006 ACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAGCACTTCAATTTACAACAT
1 ACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAGCACTTCAATTTACAACAT
34643071 TTAAACACTTCAATTTGCTTCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTATAG
66 TTAAACACTTCAATTTGCTTCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTATAG
34643136 CGATAAAACATCTCAATTTCCAGCAACTAT
131 CGATAAAACATCTCAATTTCCAGCAACTAT
*
34643166 ACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATATAAGCACTTCAATTTACAACAT
1 ACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAGCACTTCAATTTACAACAT
34643231 TTAAACACTTCAATTT
66 TTAAACACTTCAATTT
34643247 ACAACATTTA
Statistics
Matches: 382, Mismatches: 17, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
160 332 0.87
161 50 0.13
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (160 bp):
ACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAGCACTTCAATTTACAACAT
TTAAACACTTCAATTTGCTTCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTATAG
CGATAAAACATCTCAATTTCCAGCAACTAT
Found at i:34645943 original size:20 final size:19
Alignment explanation
Indices: 34645903--34645942 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
34645893 GGAAAAAAAA
34645903 TTAGGGATTTGGGGAAATT
1 TTAGGGATTTGGGGAAATT
* *
34645922 TTAGGTATTTGGGGGAATT
1 TTAGGGATTTGGGGAAATT
34645941 TT
1 TT
34645943 TTAGGAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (19 bp):
TTAGGGATTTGGGGAAATT
Found at i:34646407 original size:21 final size:21
Alignment explanation
Indices: 34646383--34646424 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
34646373 AAACAATAAC
*
34646383 AAAATATGAAAAAATGAAAAA
1 AAAATATCAAAAAATGAAAAA
* *
34646404 AAAATTTCAAAATATGAAAAA
1 AAAATATCAAAAAATGAAAAA
34646425 TAGTTATAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.19
Consensus pattern (21 bp):
AAAATATCAAAAAATGAAAAA
Found at i:34646781 original size:7 final size:7
Alignment explanation
Indices: 34646769--34646994 Score: 57
Period size: 7 Copynumber: 31.9 Consensus size: 7
34646759 ACTGATTAAT
34646769 CTAAACC
1 CTAAACC
34646776 CTAAACC
1 CTAAACC
* *
34646783 CTTAACT
1 CTAAACC
* * *
34646790 GTTATCC
1 CTAAACC
34646797 CTTAAACC
1 C-TAAACC
*
34646805 CTAAATC
1 CTAAACC
* **
34646812 ATAAAAT
1 CTAAACC
* *
34646819 ATAAACT
1 CTAAACC
34646826 CTAAACC
1 CTAAACC
*
34646833 CTTAACC
1 CTAAACC
*
34646840 CTTAACC
1 CTAAACC
*
34646847 CTTAACCC
1 C-TAAACC
34646855 CT-AACAC
1 CTAAAC-C
34646862 CTAAA-C
1 CTAAACC
**
34646868 CTTCACC
1 CTAAACC
*
34646875 C-CAACC
1 CTAAACC
34646881 CTTAAACC
1 C-TAAACC
* *
34646889 ATAAATC
1 CTAAACC
*
34646896 ATAAACC
1 CTAAACC
* *
34646903 ATAACCC
1 CTAAACC
34646910 CTAAACC
1 CTAAACC
* *
34646917 CATAATCT
1 C-TAAACC
*
34646925 ATAAACC
1 CTAAACC
*
34646932 TTAAA--
1 CTAAACC
34646937 CTAGTAACTC
1 CTA--AAC-C
34646947 CTAAACC
1 CTAAACC
*
34646954 TTAAACC
1 CTAAACC
*
34646961 CCAAACC
1 CTAAACC
* * *
34646968 ATATACT
1 CTAAACC
34646975 CTAAACC
1 CTAAACC
*
34646982 ATAAACC
1 CTAAACC
34646989 CTAAAC
1 CTAAAC
34646995 TATAATGATA
Statistics
Matches: 157, Mismatches: 49, Indels: 26
0.68 0.21 0.11
Matches are distributed among these distances:
5 2 0.01
6 10 0.06
7 119 0.76
8 23 0.15
10 3 0.02
ACGTcount: A:0.42, C:0.35, G:0.01, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:34646859 original size:21 final size:21
Alignment explanation
Indices: 34646820--34646888 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
34646810 TCATAAAATA
* *
34646820 TAAACTCTAAACCCTTAACCCT
1 TAAAC-CTTAACCCCTAACCCT
*
34646842 TAACCCTTAACCCCTAACACC-
1 TAAACCTTAACCCCTAAC-CCT
*
34646863 TAAACCTTCACCCC-AACCCT
1 TAAACCTTAACCCCTAACCCT
34646883 TAAACC
1 TAAACC
34646889 ATAAATCATA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 2 0.05
20 9 0.22
21 23 0.57
22 6 0.15
ACGTcount: A:0.35, C:0.43, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAACCTTAACCCCTAACCCT
Found at i:34646921 original size:29 final size:28
Alignment explanation
Indices: 34646877--34646931 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
34646867 CCTTCACCCC
*
34646877 AACCCTTAAACCATAAATC-ATAAACCAT
1 AACCCCTAAACCAT-AATCTATAAACCAT
34646905 AACCCCTAAACCCATAATCTATAAACC
1 AACCCCTAAA-CCATAATCTATAAACC
34646932 TTAAACTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (28 bp):
AACCCCTAAACCATAATCTATAAACCAT
Found at i:34646980 original size:14 final size:14
Alignment explanation
Indices: 34646883--34646999 Score: 74
Period size: 14 Copynumber: 8.2 Consensus size: 14
34646873 CCCCAACCCT
* *
34646883 TAAACCATAAATCA
1 TAAACCCTAAACCA
* * *
34646897 TAAACCATAACCCC
1 TAAACCCTAAACCA
* *
34646911 TAAACCCATAATCTA
1 TAAACCC-TAAACCA
* *
34646926 TAAACCTTAAACTA
1 TAAACCCTAAACCA
*
34646940 GT-AACTCCTAAACCT
1 -TAAAC-CCTAAACCA
*
34646955 TAAACCCCAAACCA
1 TAAACCCTAAACCA
* *
34646969 TATACTCTAAACCA
1 TAAACCCTAAACCA
*
34646983 TAAACCCTAAACTA
1 TAAACCCTAAACCA
34646997 TAA
1 TAA
34647000 TGATAATTAA
Statistics
Matches: 79, Mismatches: 20, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
14 59 0.75
15 20 0.25
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:34647379 original size:40 final size:40
Alignment explanation
Indices: 34647304--34647389 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
34647294 TGTTTGTGGG
* ** * *
34647304 GTTTTTCAAAAAGCGCCACTAATGCTTTATTTATAGTAGC
1 GTTTTTCAAAAACCGCCACTAATGCTCGATCTATAGCAGC
* * *
34647344 GTTTTTCAAAAACCGCCGCTACTGCTCGATCTATAGCGGC
1 GTTTTTCAAAAACCGCCACTAATGCTCGATCTATAGCAGC
34647384 GTTTTT
1 GTTTTT
34647390 TGAAAAACAC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.36
Consensus pattern (40 bp):
GTTTTTCAAAAACCGCCACTAATGCTCGATCTATAGCAGC
Found at i:34647534 original size:40 final size:40
Alignment explanation
Indices: 34647490--34647568 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
34647480 ATAGTTGACC
* *
34647490 TATAGC-AGCGTTTTTCAAAAAGCGCTGCTAATGCTCGATT
1 TATAGCGA-CGTTTTTCAAAAAGCACCGCTAATGCTCGATT
*
34647530 TATAGCGACGTTTTTCAAAAAGCACCGTTAATGCTCGAT
1 TATAGCGACGTTTTTCAAAAAGCACCGCTAATGCTCGAT
34647569 CTACAGTGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
40 34 0.97
41 1 0.03
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (40 bp):
TATAGCGACGTTTTTCAAAAAGCACCGCTAATGCTCGATT
Found at i:34647584 original size:40 final size:40
Alignment explanation
Indices: 34647500--34647584 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
34647490 TATAGCAGCG
* * * * *
34647500 TTTTTCAAAAAGCGCTGCTAATGCTCGATTTATAGCGACG
1 TTTTTCAAAAAGCACCGCTAATGCTCGATCTACAGCGACA
* * *
34647540 TTTTTCAAAAAGCACCGTTAATGCTCGATCTACAGTGGCA
1 TTTTTCAAAAAGCACCGCTAATGCTCGATCTACAGCGACA
34647580 TTTTT
1 TTTTT
34647585 TTATCTAAAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (40 bp):
TTTTTCAAAAAGCACCGCTAATGCTCGATCTACAGCGACA
Found at i:34652945 original size:44 final size:41
Alignment explanation
Indices: 34652892--34653042 Score: 135
Period size: 43 Copynumber: 3.5 Consensus size: 41
34652882 TCTGATATGC
* *
34652892 GATTTCGTGTAAGACCACGTTTAAGACATTGGCATCGATTT
1 GATTTCATGTAAGACCACGTCTAAGACATTGGCATCGATTT
* * * *
34652933 GAGATTTACGTGTAAGACCATGTCTGAGAC-TTCAGCATCGTATTT
1 --GATTT-CATGTAAGACCACGTCTAAGACATT-GGCATCG-ATTT
* *
34652978 GATTTCATGTAAGACC-CTGTCTAGGACAGTGGCATCGATATTT
1 GATTTCATGTAAGACCAC-GTCTAAGACATTGGCATCG--ATTT
*
34653021 GATTACATGTAAGACCACGTCT
1 GATTTCATGTAAGACCACGTCT
34653043 GGGACGTTGC
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
42 23 0.26
43 37 0.41
44 26 0.29
45 4 0.04
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (41 bp):
GATTTCATGTAAGACCACGTCTAAGACATTGGCATCGATTT
Found at i:34657770 original size:57 final size:57
Alignment explanation
Indices: 34657682--34657792 Score: 222
Period size: 57 Copynumber: 1.9 Consensus size: 57
34657672 GGTAGTATGA
34657682 AAATGTATAATGATCTGAAACATCATTACTGGTGGTCTGGAATGAAAAGAGATACGG
1 AAATGTATAATGATCTGAAACATCATTACTGGTGGTCTGGAATGAAAAGAGATACGG
34657739 AAATGTATAATGATCTGAAACATCATTACTGGTGGTCTGGAATGAAAAGAGATA
1 AAATGTATAATGATCTGAAACATCATTACTGGTGGTCTGGAATGAAAAGAGATA
34657793 TCTCTGACTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (57 bp):
AAATGTATAATGATCTGAAACATCATTACTGGTGGTCTGGAATGAAAAGAGATACGG
Found at i:34659006 original size:170 final size:170
Alignment explanation
Indices: 34658549--34659106 Score: 728
Period size: 170 Copynumber: 3.2 Consensus size: 170
34658539 AAGTAGCAAG
* * *
34658549 AGTCTTATCTTTCTAAGGTAGCAAGAAAG-TAGACTGAAGATCTTATCTCCGTGAAGTTGCAATG
1 AGTCTTATCTTTCTGAGGTAGCAAGAAAGCT-GACTGAAGATCTTATCTCCTTGAAGTTGCAGTG
* * * *
34658613 GAGTAGATCAAAGATGGTGAATCTTATCTCCATGTATCGAAAATGGAG-TAGATTT-TACCACCA
65 GAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGAAAATGGAGCT-GATTTAAACCACCA
* * *
34658676 GCCTTATCTCTTTGAGGTAGCAAGAGAGTAGGTTGAAGAATG
129 GCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATA
*
34658718 AGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGATTGATGATTGAAGATCTTATCTCCTTGAAGTT
1 AGTCTTATCTTTCTGAGGTAGCAAGAAAGC-------TGACTGAAGATCTTATCTCCTTGAAGTT
* *
34658783 GCAGCGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGACAATGGAGCTGATTTAAAC
59 GCAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGAAAATGGAGCTGATTTAAAC
* * *
34658848 CACCAACCTTATCTCTCTGAGGTAGAAAGAGAGCATGTTGAAGAATA
124 CACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATA
*
34658895 AGTCTTATCTTTCTGAGGTAGAAAGAAAGCTGACTGAAGATCTTATCTCCTTGAAGTTGCAGTGG
1 AGTCTTATCTTTCTGAGGTAGCAAGAAAGCTGACTGAAGATCTTATCTCCTTGAAGTTGCAGTGG
** * *
34658960 AGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGGAATGGAGCAGATTTAAGCCACCAGC
66 AGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGAAAATGGAGCTGATTTAAACCACCAGC
* * *
34659025 CTTATCTCTCTGCGATAGCAAGAGAGCAGGTTGAAGAATTG
131 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAA-TA
* * * **
34659066 AGTTTTATC-TTCTTGAGGAAGCAAGGAAGCAAACTGAAGAT
1 AGTCTTATCTTTC-TGAGGTAGCAAGAAAGCTGACTGAAGAT
34659107 TAAAGATTTT
Statistics
Matches: 342, Mismatches: 35, Indels: 22
0.86 0.09 0.06
Matches are distributed among these distances:
169 28 0.08
170 130 0.38
171 32 0.09
176 78 0.23
177 74 0.22
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (170 bp):
AGTCTTATCTTTCTGAGGTAGCAAGAAAGCTGACTGAAGATCTTATCTCCTTGAAGTTGCAGTGG
AGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGAAAATGGAGCTGATTTAAACCACCAGC
CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATA
Found at i:34659230 original size:175 final size:177
Alignment explanation
Indices: 34658617--34659277 Score: 416
Period size: 170 Copynumber: 3.8 Consensus size: 177
34658607 GCAATGGAGT
* * * * *
34658617 AGATCAAAGATGGTGAATCTTATCTCCATGTATCGAA--AATGGAGTAGATTTTA-CCACCAGCC
1 AGATCGAAGATGGCGAATCTTATCTCCATGTAT--AAGCAATGGAGCAGATTTAAGCCACCAGAC
* * * * * * * * *
34658679 TTATCTCTTTGAGGTAGCAAGAGAGTAGGTTGAAG-AA-TG-AGTCTTATCTTTCTGAGGTAGCA
64 TTATCTCTCTGCGATAGCAAGAAAGCAGGTTG--GCAATTGTAGTCTCATCTTCCTGAAGAAGCA
* * * * * * * ** * *
34658741 AGAAAGCAGATTGATGATTGAAGATCTTATCTCCTTGAAGTTGCAGCGGAGC
127 AGGAAGCAAACTGAAGATTAAAGATTTTATCTCCCT-AAGCAGTAGCGAAGC
* * *
34658793 AGATCGAAGATGGCGAATCTTATCTCCATGTAT-CGACAATGGAGCTGATTTAAACCACCA-ACC
1 AGATCGAAGATGGCGAATCTTATCTCCATGTATAAG-CAATGGAGCAGATTTAAGCCACCAGA-C
* * * * * * * * *
34658856 TTATCTCTCTGAGGTAGAAAGAGAGCATGTTGAAG-AA-T-AAGTCTTATCTTTCTG-AG--G-T
64 TTATCTCTCTGCGATAGCAAGAAAGCAGGTTG--GCAATTGTAGTCTCATCTTCCTGAAGAAGCA
* * * * * ** * * *
34658914 AGAAAG-AAAGCT---GACTGAAGATCTTATCTCCTTGAAGTTGCAGTGGAGC
127 AGGAAGCAAA-CTGAAGATTAAAGATTTTATCTCCCT-AAGCAGTAGCGAAGC
** * *
34658963 AGATCGAAGATGGCGAATCTTATCTCCATGTATCGGGAATGGAGCAGATTTAAGCCACCAGCCTT
1 AGATCGAAGATGGCGAATCTTATCTCCATGTATAAGCAATGGAGCAGATTTAAGCCACCAGACTT
* * * * *
34659028 ATCTCTCTGCGATAGCAAGAGAGCAGGTTGAAG-AATTG-AGTTTTATCTTCTTGAGGAAGCAAG
66 ATCTCTCTGCGATAGCAAGAAAGCAGGTTG--GCAATTGTAGTCTCATCTTCCTGAAGAAGCAAG
34659091 GAAGCAAACTGAAGATTAAAGATTTTATCTCCCTAAGCAGTAGCGAAGC
129 GAAGCAAACTGAAGATTAAAGATTTTATCTCCCTAAGCAGTAGCGAAGC
* * * * * *
34659140 AGATTGAA-A-GGCGGATCTTATGTCCATGTATAAGCAATGGAGCAGATTTTAGCCACTAGATTT
1 AGATCGAAGATGGCGAATCTTATCTCCATGTATAAGCAATGGAGCAGATTTAAGCCACCAGACTT
* * * * *
34659203 ATCTTTTTGAGGA-AGTAAGAAAGCAGGTTGGCAATTGTAGTCTCATCTTCCTGAAGTAGCAAGG
66 ATCTCTCTG-CGATAGCAAGAAAGCAGGTTGGCAATTGTAGTCTCATCTTCCTGAAGAAGCAAGG
*
34659267 AAGCAGACTGA
130 AAGCAAACTGA
34659278 TTGTTATCTC
Statistics
Matches: 401, Mismatches: 62, Indels: 45
0.79 0.12 0.09
Matches are distributed among these distances:
170 123 0.31
171 14 0.03
172 3 0.01
173 8 0.02
174 7 0.02
175 105 0.26
176 51 0.13
177 73 0.18
178 17 0.04
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (177 bp):
AGATCGAAGATGGCGAATCTTATCTCCATGTATAAGCAATGGAGCAGATTTAAGCCACCAGACTT
ATCTCTCTGCGATAGCAAGAAAGCAGGTTGGCAATTGTAGTCTCATCTTCCTGAAGAAGCAAGGA
AGCAAACTGAAGATTAAAGATTTTATCTCCCTAAGCAGTAGCGAAGC
Found at i:34659551 original size:14 final size:15
Alignment explanation
Indices: 34659519--34659551 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
34659509 CAATAAAACC
34659519 AAAA-AAATAAATTA
1 AAAATAAATAAATTA
34659533 AAAATAAATAAA-TA
1 AAAATAAATAAATTA
34659547 AAAAT
1 AAAAT
34659552 TCTTTAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAATAAATAAATTA
Found at i:34661969 original size:24 final size:24
Alignment explanation
Indices: 34661942--34661988 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
34661932 CAAAAACAAC
*
34661942 GCAATGTTCAGTATTTAGAAATTG
1 GCAATGTTCAATATTTAGAAATTG
34661966 GCAATGTTCAATATTTAGAAATT
1 GCAATGTTCAATATTTAGAAATT
34661989 CGAGAAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (24 bp):
GCAATGTTCAATATTTAGAAATTG
Found at i:34668956 original size:24 final size:25
Alignment explanation
Indices: 34668916--34669022 Score: 130
Period size: 25 Copynumber: 4.4 Consensus size: 25
34668906 CTAGAGGCCT
34668916 AGCCTCTTTT-AAT-AACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAA
*
34668940 AGCCCTTTT-GATAAACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
*
34668964 AGCCCTTTTCAATAAACCGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
* ** *
34668989 AGTCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTTCAATAAACTGGGGCAA
34669014 AGCCCTTTT
1 AGCCCTTTT
34669023 ATCACTTCCT
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
23 7 0.10
24 24 0.33
25 41 0.57
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Found at i:34669018 original size:50 final size:47
Alignment explanation
Indices: 34668915--34669023 Score: 146
Period size: 50 Copynumber: 2.2 Consensus size: 47
34668905 ACTAGAGGCC
*
34668915 TAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTTGATAAACTGGGGCA
1 TAGCC-CTTTTAATAACCGGGGCAAAGCCCTTTTGATAAACTGGGGCA
* * *
34668963 AAGCCCTTTTCAATAAACCGGGGCAAAGTCCTTTTCGGTAAACTGGGGCA
1 TAGCCCTTTT-AAT-AACCGGGGCAAAGCCCTTTT-GATAAACTGGGGCA
34669013 TAGCCCTTTTA
1 TAGCCCTTTTA
34669024 TCACTTCCTC
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
47 5 0.09
48 7 0.13
49 19 0.36
50 22 0.42
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (47 bp):
TAGCCCTTTTAATAACCGGGGCAAAGCCCTTTTGATAAACTGGGGCA
Found at i:34669255 original size:27 final size:27
Alignment explanation
Indices: 34669225--34669467 Score: 315
Period size: 27 Copynumber: 9.0 Consensus size: 27
34669215 GGGGCAAAAT
* * * *
34669225 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
34669252 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
34669279 GGTATTTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
34669306 GGTAATTCTACGCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * ** *
34669333 AGTAATTCAAATCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
34669360 GGTAATTCTACCCTATAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
34669387 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34669414 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
34669441 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
34669468 AATATTTTAC
Statistics
Matches: 187, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 187 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:34669554 original size:54 final size:52
Alignment explanation
Indices: 34669471--34669670 Score: 202
Period size: 54 Copynumber: 3.7 Consensus size: 52
34669461 GTATTTCAAT
* * * * *
34669471 ATTTTACAAATCGAGAGTATTTCGATAATTTCACAAATTAGGGGTATTTTGGTA
1 ATTTTACAAA-CCAGGGTATTTTGGTAATTTTACAAA-TAGGGGTATTTTGGTA
* *
34669525 ATTTTACAAGCCAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTA
1 ATTTTACAAACCAG-GGTATTTTGGTAATTTTACAAA-TAGGGGTATTTTGGTA
* ** *
34669579 ATTTTACAAACTAGGGGTATTTTGGTAATTTTACTGATCGGAGGTATTTTGGTA
1 ATTTTACAAACCA-GGGTATTTTGGTAATTTTACAAATAGG-GGTATTTTGGTA
** * *
34669633 ATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAAT
1 ATTTTACAAACC-AGGGTATTTTGGTAATTTTACAAAT
34669671 CGAGGGTAAA
Statistics
Matches: 121, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
53 6 0.05
54 113 0.93
55 2 0.02
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (52 bp):
ATTTTACAAACCAGGGTATTTTGGTAATTTTACAAATAGGGGTATTTTGGTA
Found at i:34669588 original size:81 final size:81
Alignment explanation
Indices: 34669496--34669670 Score: 235
Period size: 81 Copynumber: 2.2 Consensus size: 81
34669486 AGTATTTCGA
* *
34669496 TAATTTCACAAATTAGGGGTATTTTGGTAATTTTACA-AGCCAGTGGTATTTTGGTAATTTTACA
1 TAATTTTACAAATTAGGGGTATTTTGGTAATTTTACAGA-CCAGAGGTATTTTGGTAATTTTACA
* *
34669560 AACTAGGGGTATTTTAG
65 AACCAAGGGTATTTTAG
* * * * **
34669577 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTACTGATCGGAGGTATTTTGGTAATTTTGTAA
1 TAATTTTACAAATTAGGGGTATTTTGGTAATTTTACAGACCAGAGGTATTTTGGTAATTTTACAA
34669642 ACCAAGGGTATTTTAG
66 ACCAAGGGTATTTTAG
*
34669658 TAATTTTATAAAT
1 TAATTTTACAAAT
34669671 CGAGGGTAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 80 0.99
82 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.42
Consensus pattern (81 bp):
TAATTTTACAAATTAGGGGTATTTTGGTAATTTTACAGACCAGAGGTATTTTGGTAATTTTACAA
ACCAAGGGTATTTTAG
Found at i:34669669 original size:27 final size:27
Alignment explanation
Indices: 34669471--34669665 Score: 160
Period size: 27 Copynumber: 7.2 Consensus size: 27
34669461 GTATTTCAAT
* * * * *
34669471 ATTTTACAAATCGAGAGTATTTCGATA
1 ATTTTACAAACCAAGGGTATTTTGGTA
* ** *
34669498 ATTTCACAAATTAGGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
*
34669525 ATTTTACAAGCC-AGTGGTATTTTGGTA
1 ATTTTACAAACCAAG-GGTATTTTGGTA
* * *
34669552 ATTTTACAAACTAGGGGTATTTTAGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
* *
34669579 ATTTTACAAACTAGGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
** * *
34669606 ATTTTACTGATC-GGAGGTATTTTGGTA
1 ATTTTACAAACCAAG-GGTATTTTGGTA
** *
34669633 ATTTTGTAAACCAAGGGTATTTTAGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
34669660 ATTTTA
1 ATTTTA
34669666 TAAATCGAGG
Statistics
Matches: 135, Mismatches: 29, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
26 3 0.02
27 130 0.96
28 2 0.01
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
ATTTTACAAACCAAGGGTATTTTGGTA
Found at i:34669689 original size:81 final size:81
Alignment explanation
Indices: 34669540--34669689 Score: 185
Period size: 81 Copynumber: 1.9 Consensus size: 81
34669530 ACAAGCCAGT
* * * **** *
34669540 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACGAGGGGTAAAACGAT
34669605 AATTTTACTGATCGGA
66 AATTTTACTGATCGGA
** *
34669621 GGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAATCGA-GGGTAAAACGA
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAA-CGAGGGGTAAAACGA
34669685 TAATT
65 TAATT
34669690 CTGTAAATCG
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
81 55 0.96
82 2 0.04
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACGAGGGGTAAAACGAT
AATTTTACTGATCGGA
Found at i:34669716 original size:81 final size:81
Alignment explanation
Indices: 34669657--34669921 Score: 386
Period size: 81 Copynumber: 3.3 Consensus size: 81
34669647 GGGTATTTTA
* * *
34669657 GTAATTTTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
1 GTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGATAATTCTGTA
*
34669722 AGTCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* *
34669738 GTAATTCTACAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGATAATTTTGTA
1 GTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGATAATTCTGTA
* * *
34669803 AATCTAGAGTAAAACG
66 AATCGAGGGTAAAATG
* * * * *
34669819 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTGTA
1 GTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGATAATTCTGTA
34669884 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* *
34669900 GTAATTCTGTAAATCGATGGTA
1 GTAATTCTATAAATCGAGGGTA
34669922 CTTTGGTAAT
Statistics
Matches: 163, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 163 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (81 bp):
GTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGATAATTCTGTA
AATCGAGGGTAAAATG
Found at i:34669932 original size:27 final size:27
Alignment explanation
Indices: 34669657--34669921 Score: 341
Period size: 27 Copynumber: 9.8 Consensus size: 27
34669647 GGGTATTTTA
* *
34669657 GTAATTTTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
34669684 ATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
34669711 ATAATTCTATAAGTCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
34669738 GTAATTCTACAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
34669765 ATAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * * * * *
34669792 ATAATTTTGTAAATCTAGAGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
34669819 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
34669846 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
34669873 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
34669900 GTAATTCTGTAAATCGATGGTA
1 GTAATTCTATAAATCGAGGGTA
34669922 CTTTGGTAAT
Statistics
Matches: 210, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 210 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:34673944 original size:27 final size:27
Alignment explanation
Indices: 34673914--34673972 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
34673904 CAAATTGTAA
*
34673914 AATTACCAAAGTACCCTCGATTTATAG
1 AATTACCAAAGTACCCTCGATTTACAG
****
34673941 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCTCGATTTACAG
34673968 AATTA
1 AATTA
34673973 TTGTAGAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (27 bp):
AATTACCAAAGTACCCTCGATTTACAG
Done.