Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 285 of 438
Found at i:89168476 original size:81 final size:81
Alignment explanation
Indices: 89168391--89168585 Score: 207
Period size: 81 Copynumber: 2.4 Consensus size: 81
89168381 GTATTTCGGA
* * * * *
89168391 AATTTTTCAAATCAAGAGTATTTTGGTAATTTTACAAAT-TGAGGGTATTTCGGTAATTTTA-GA
1 AATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATCAG-GGGTATTTCGGGAATTTTACAA
* *
89168454 AGTTGAGGGTATTTT-AGT
65 ACTAG-GGGTATTTTGA-T
* * * *
89168472 AATTTTACAAGTCAAGGGTTTTTTGATAATTTTACAAATCAGGGGTATTTTGGGAATTTTACAAA
1 AATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTCGGGAATTTTACAAA
89168537 CTAGGGGTATTTTGAT
66 CTAGGGGTATTTTGAT
* * * *
89168553 AATTTTGCTAATCGAGGGTATTTTGGTATTTTT
1 AATTTTACAAATCAAGGGTATTTTGGTAATTTT
89168586 CTAGACCAAG
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
81 87 0.94
82 6 0.06
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (81 bp):
AATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTCGGGAATTTTACAAA
CTAGGGGTATTTTGAT
Found at i:89168599 original size:54 final size:53
Alignment explanation
Indices: 89168377--89168612 Score: 165
Period size: 54 Copynumber: 4.4 Consensus size: 53
89168367 TTTGAAAGTG
* * * * * **
89168377 AAGGGTATTTCGGA-AATTTTTCAAATCAAGAGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTT-TGATAATTTTACAAATCGAGGGTATTTTGGT-ATTTTACAGACC
* * * * * * * *
89168431 GAGGGTATTTCGGTAATTTTAGAAGTTGAGGGTATTTTAGTAATTTTACA-AGTC
1 AAGGGTATTTTGATAATTTTACAAATCGAGGGTATTTTGGT-ATTTTACAGA-CC
* * * *
89168485 AAGGGTTTTTTGATAATTTTACAAATC-AGGGGTATTTTGGGAATTTTACAAACT
1 AAGGGTATTTTGATAATTTTACAAATCGA-GGGTATTTT-GGTATTTTACAGACC
* * * *
89168539 AGGGGTATTTTGATAATTTTGCTAATCGAGGGTATTTTGGTATTTTTCTAGACC
1 AAGGGTATTTTGATAATTTTACAAATCGAGGGTATTTTGGTATTTTAC-AGACC
*
89168593 AAGGGTA-TTCGATAATTTTA
1 AAGGGTATTTTGATAATTTTA
89168613 TAAACCCAGG
Statistics
Matches: 142, Mismatches: 33, Indels: 15
0.75 0.17 0.08
Matches are distributed among these distances:
53 22 0.15
54 117 0.82
55 3 0.02
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.42
Consensus pattern (53 bp):
AAGGGTATTTTGATAATTTTACAAATCGAGGGTATTTTGGTATTTTACAGACC
Found at i:89170884 original size:22 final size:22
Alignment explanation
Indices: 89170859--89170912 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
89170849 TGGAACACAA
*
89170859 CCATAATCAGGTTGGCACAGAG
1 CCATAATCAGGTTGGCACAAAG
**
89170881 CCATATAT-AGGTTGGTGCAAAG
1 CCATA-ATCAGGTTGGCACAAAG
89170903 CCATAATCAG
1 CCATAATCAG
89170913 AATAATTGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 2 0.07
22 23 0.85
23 2 0.07
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.22
Consensus pattern (22 bp):
CCATAATCAGGTTGGCACAAAG
Found at i:89171122 original size:41 final size:41
Alignment explanation
Indices: 89171061--89171182 Score: 208
Period size: 41 Copynumber: 3.0 Consensus size: 41
89171051 AAAAGCCACT
* *
89171061 GGTGGATCCACAGTCATCAAGCAACCATGCGATCCTTAATC
1 GGTGGATCCACAGTCGTCAAGCAACCATGCGATCCTCAATC
*
89171102 GGTGGATCCACAGTCGTCAAGCAACCATGTGATCCTCAATC
1 GGTGGATCCACAGTCGTCAAGCAACCATGCGATCCTCAATC
*
89171143 GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
1 GGTGGATCCACAGTCGTCAAGCAACCATGCGATCCTCAAT
89171183 TTCTTCCTCC
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (41 bp):
GGTGGATCCACAGTCGTCAAGCAACCATGCGATCCTCAATC
Found at i:89171562 original size:27 final size:27
Alignment explanation
Indices: 89171478--89171762 Score: 135
Period size: 27 Copynumber: 10.6 Consensus size: 27
89171468 GAAAACTCAT
* *
89171478 GGTATTTCTATAATTTT-TGAAAGTCAAA
1 GGTATTTCTGTAATTTTAT-AAA-TCAGA
* *
89171506 GGTAATTCTGTAA-TTTATAAATCAGG
1 GGTATTTCTGTAATTTTATAAATCAGA
*
89171532 GGTATTTCTGTAATTTTATAAATTAGA
1 GGTATTTCTGTAATTTTATAAATCAGA
* * ** *
89171559 GGTATTTTTATAATTTTCCAAATCAAA
1 GGTATTTCTGTAATTTTATAAATCAGA
** *
89171586 GGTATTT-TGGTAATTTTCCAAATTAG-
1 GGTATTTCT-GTAATTTTATAAATCAGA
* **
89171612 GGTATTTCGGTAATTTTGCAAATC-GA
1 GGTATTTCTGTAATTTTATAAATCAGA
* * **
89171638 GGGTATTT-AGTTAATTTTACAGGTCA-A
1 -GGTATTTCTG-TAATTTTATAAATCAGA
* * **
89171665 GGGTATTTC-GTATTTTTACAGGTC-GA
1 -GGTATTTCTGTAATTTTATAAATCAGA
* * * *
89171691 GAGTATTTCAGTAATTTCACAAATCAGG
1 G-GTATTTCTGTAATTTTATAAATCAGA
*
89171719 GGTATTT-TGGTAATTTTACAAA-CTAGA
1 GGTATTTCT-GTAATTTTATAAATC-AGA
89171746 GGTATTT-TGGTAATTTT
1 GGTATTTCT-GTAATTTT
89171763 GCTAATCGAG
Statistics
Matches: 210, Mismatches: 32, Indels: 31
0.77 0.12 0.11
Matches are distributed among these distances:
25 2 0.01
26 59 0.28
27 135 0.64
28 14 0.07
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
GGTATTTCTGTAATTTTATAAATCAGA
Found at i:89171582 original size:54 final size:53
Alignment explanation
Indices: 89171524--89171762 Score: 146
Period size: 53 Copynumber: 4.5 Consensus size: 53
89171514 TGTAATTTAT
* **
89171524 AAATCAGGGGTATTTCT-GTAATTTTATAAATTAGAGGTATTTTTATAATTTTCC
1 AAATCAGGGGTATTT-TGGTAATTTTACAAATTAG-GGTATTTCGATAATTTTCC
** * * *
89171578 AAATCAAAGGTATTTTGGTAATTTTCCAAATTAGGGTATTTCGGTAATTTTGC
1 AAATCAGGGGTATTTTGGTAATTTTACAAATTAGGGTATTTCGATAATTTTCC
* * ** * * *
89171631 AAATC-GAGGGTATTTAGTTAATTTTACAGGTCAAGGGTATTTCG-TATTTTTAC
1 AAATCAG-GGGTATTTTGGTAATTTTACAAAT-TAGGGTATTTCGATAATTTTCC
** * ** * * * * *
89171684 AGGTC-GAGAGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTAC
1 AAATCAG-GGGTATTTTGGTAATTTTACAAATTA-GGGTATTTCGATAATTTTCC
*
89171738 AAA-CTAGAGGTATTTTGGTAATTTT
1 AAATC-AGGGGTATTTTGGTAATTTT
89171763 GCTAATCGAG
Statistics
Matches: 141, Mismatches: 37, Indels: 14
0.73 0.19 0.07
Matches are distributed among these distances:
52 1 0.01
53 78 0.55
54 61 0.43
55 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (53 bp):
AAATCAGGGGTATTTTGGTAATTTTACAAATTAGGGTATTTCGATAATTTTCC
Found at i:89171643 original size:80 final size:79
Alignment explanation
Indices: 89171478--89171789 Score: 224
Period size: 80 Copynumber: 3.9 Consensus size: 79
89171468 GAAAACTCAT
* ** *
89171478 GGTATTTCTATAATTTTTGAAAGTCAAAGGTAATTCT-GTAATTTAT-AAATC-AGGGGTATTTC
1 GGTATTTTTATAATTTTACAAA-TCAAAGGT-ATTTTGGTAATTT-TCAAATCGA-GGGTATTTC
* * *
89171540 TGTAATTTTATAAATTAG
62 GGTAATTTTACAAATCAG
* *
89171558 AGGTATTTTTATAATTTTCCAAATCAAAGGTATTTTGGTAATTTTCCAAAT-TAGGGTATTTCGG
1 -GGTATTTTTATAATTTTACAAATCAAAGGTATTTTGGTAATTTT-CAAATCGAGGGTATTTCGG
*
89171622 TAATTTTGCAAATCGAG
64 TAATTTTACAAATC-AG
* ** * * * ** * *
89171639 GGTATTTAGT-TAATTTTACAGGTCAAGGGTA-TTTCGTATTTTTACAGGTCGAGAGTATTTCAG
1 GGTATTT-TTATAATTTTACAAATCAAAGGTATTTTGGTAATTTT-CAAATCGAGGGTATTTCGG
*
89171702 TAATTTCACAAATCAGG
64 TAATTTTACAAATCA-G
** * * *
89171719 GGTATTTTGGTAATTTTACAAA-CTAGAGGTATTTTGGTAATTTTGCTAATCGAGGGTATTTTGG
1 GGTATTTTTATAATTTTACAAATC-AAAGGTATTTTGGTAATTTT-CAAATCGAGGGTATTTCGG
*
89171783 AAATTTT
64 TAATTTT
89171790 GTAAACCAAG
Statistics
Matches: 180, Mismatches: 40, Indels: 22
0.74 0.17 0.09
Matches are distributed among these distances:
79 20 0.11
80 105 0.58
81 55 0.31
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.42
Consensus pattern (79 bp):
GGTATTTTTATAATTTTACAAATCAAAGGTATTTTGGTAATTTTCAAATCGAGGGTATTTCGGTA
ATTTTACAAATCAG
Found at i:89171776 original size:27 final size:27
Alignment explanation
Indices: 89171515--89171789 Score: 188
Period size: 27 Copynumber: 10.3 Consensus size: 27
89171505 AGGTAATTCT
*
89171515 GTAA-TTTATAAATC-AGGGGTATTTCT-
1 GTAATTTTACAAATCGA-GGGTATTT-TG
* * *
89171541 GTAATTTTATAAAT-TAGAGGTATTTTT
1 GTAATTTTACAAATCGAG-GGTATTTTG
* * * *
89171568 ATAATTTTCCAAATCAAAGGTATTTTG
1 GTAATTTTACAAATCGAGGGTATTTTG
* * *
89171595 GTAATTTTCCAAAT-TAGGGTATTTCG
1 GTAATTTTACAAATCGAGGGTATTTTG
* *
89171621 GTAATTTTGCAAATCGAGGGTATTTAG
1 GTAATTTTACAAATCGAGGGTATTTTG
* ** * *
89171648 TTAATTTTACAGGTCAAGGGTA-TTTC
1 GTAATTTTACAAATCGAGGGTATTTTG
* ** * **
89171674 GTATTTTTACAGGTCGAGAGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTTG
*
89171701 GTAATTTCACAAATC-AGGGGTATTTTG
1 GTAATTTTACAAATCGA-GGGTATTTTG
*
89171728 GTAATTTTACAAA-CTAGAGGTATTTTG
1 GTAATTTTACAAATCGAG-GGTATTTTG
* *
89171755 GTAATTTTGCTAATCGAGGGTATTTTG
1 GTAATTTTACAAATCGAGGGTATTTTG
*
89171782 GAAATTTT
1 GTAATTTT
89171790 GTAAACCAAG
Statistics
Matches: 200, Mismatches: 38, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
26 51 0.25
27 145 0.73
28 4 0.02
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
GTAATTTTACAAATCGAGGGTATTTTG
Found at i:89171820 original size:26 final size:26
Alignment explanation
Indices: 89171787--89171839 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
89171777 TTTTGGAAAT
89171787 TTTGTAAACCAAGGGTA-TTCAGTAA
1 TTTGTAAACCAAGGGTATTTCAGTAA
89171812 TTTGATAAACCAAGGGTATTTCAGTAA
1 TTTG-TAAACCAAGGGTATTTCAGTAA
89171839 T
1 T
89171840 ACTATCCTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 4 0.15
26 13 0.50
27 9 0.35
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (26 bp):
TTTGTAAACCAAGGGTATTTCAGTAA
Found at i:89176157 original size:21 final size:21
Alignment explanation
Indices: 89176131--89176177 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
89176121 GGTCATATTG
89176131 AGAGAACAAATATTATCTCAA
1 AGAGAACAAATATTATCTCAA
89176152 AGAGAACAAATATTATCTCAA
1 AGAGAACAAATATTATCTCAA
89176173 AGAGA
1 AGAGA
89176178 TCAAGGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.21
Consensus pattern (21 bp):
AGAGAACAAATATTATCTCAA
Found at i:89178836 original size:48 final size:48
Alignment explanation
Indices: 89178784--89178878 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
89178774 TCATGTTAGT
* * *
89178784 GCTGATGCTATGTCCCAAACATGGTCTTATACTA-GCACACATATCATC
1 GCTGATGCCATGTCCCAAACATGGTCTTACA-TAGGCACAAATATCATC
*
89178832 GCTGATGCCATGTCCCAGACATGGTCTTACATAGGCACAAATATCAT
1 GCTGATGCCATGTCCCAAACATGGTCTTACATAGGCACAAATATCAT
89178879 TAATCATAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (48 bp):
GCTGATGCCATGTCCCAAACATGGTCTTACATAGGCACAAATATCATC
Found at i:89179411 original size:17 final size:19
Alignment explanation
Indices: 89179369--89179412 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
89179359 ATGAAATTTT
*
89179369 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
89179388 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
89179406 AA-TATTA
1 AATTATTA
89179413 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:89179522 original size:15 final size:15
Alignment explanation
Indices: 89179504--89179532 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
89179494 ATATTTATAA
89179504 AATTATTATTATTAT
1 AATTATTATTATTAT
89179519 AATTATTATTATTA
1 AATTATTATTATTA
89179533 GATAGGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:89180593 original size:52 final size:54
Alignment explanation
Indices: 89180497--89180603 Score: 146
Period size: 57 Copynumber: 2.0 Consensus size: 54
89180487 TCTTCTTCTA
*
89180497 TTTTCTTTTCTTTTCTCCTCTCTTCATCTACTTCCTTTCTTCTTCTTCTTTTCCTTC
1 TTTTCTTTTATTTTCTCCTCTCTTCATCTA---CCTTTCTTCTTCTTCTTTTCCTTC
**
89180554 TTTTCTTTTATTTTCTTTTCTCTTCATCTA-CTTTC-TCTTCTTCTTTTCCT
1 TTTTCTTTTATTTTCTCCTCTCTTCATCTACCTTTCTTCTTCTTCTTTTCCT
89180604 CCATAGCCGA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
52 15 0.32
53 5 0.11
57 27 0.57
ACGTcount: A:0.05, C:0.30, G:0.00, T:0.65
Consensus pattern (54 bp):
TTTTCTTTTATTTTCTCCTCTCTTCATCTACCTTTCTTCTTCTTCTTTTCCTTC
Found at i:89184089 original size:39 final size:40
Alignment explanation
Indices: 89183989--89184155 Score: 171
Period size: 40 Copynumber: 4.2 Consensus size: 40
89183979 TCGAATGATG
* * *
89183989 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
89184029 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
*
89184069 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * *
89184108 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
89184149 -CCGGGCT
1 TCCGGGCT
89184156 TGTAACACCC
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
39 33 0.32
40 62 0.60
41 9 0.09
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:89184129 original size:79 final size:80
Alignment explanation
Indices: 89183989--89184140 Score: 211
Period size: 79 Copynumber: 1.9 Consensus size: 80
89183979 TCGAATGATG
* * *
89183989 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
89184054 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
89184069 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
89184131 TCGTGCGAGT
64 TCGTGCGAGT
89184141 CACTATAACC
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
78 1 0.02
79 45 0.70
80 18 0.28
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:89185553 original size:40 final size:40
Alignment explanation
Indices: 89185508--89185675 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
89185498 CGGAATATAA
89185508 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
89185548 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
89185588 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
89185628 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
89185668 CCGGATAT
1 CCGGATAT
89185676 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 105 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:89191823 original size:29 final size:28
Alignment explanation
Indices: 89191781--89191888 Score: 101
Period size: 29 Copynumber: 3.8 Consensus size: 28
89191771 CTAATGGTGA
*
89191781 CTATCGAATATGAAAAGGGATAGCTTCAG
1 CTATCGATTATGAAAAGGGATAGCTT-AG
* * *
89191810 CTATCGATTATGAAACGAGATAG-TGACG
1 CTATCGATTATGAAAAGGGATAGCTTA-G
* * * *
89191838 ACCATCAACTATGAAAAGGGATAGACTTGG
1 -CTATCGATTATGAAAAGGGATAG-CTTAG
89191868 CTATCGATTATGAAAAGGGAT
1 CTATCGATTATGAAAAGGGAT
89191889 GGTGACGACC
Statistics
Matches: 61, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
27 1 0.02
28 2 0.03
29 56 0.92
30 1 0.02
31 1 0.02
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (28 bp):
CTATCGATTATGAAAAGGGATAGCTTAG
Found at i:89191879 original size:58 final size:57
Alignment explanation
Indices: 89191789--89192033 Score: 278
Period size: 58 Copynumber: 4.2 Consensus size: 57
89191779 GACTATCGAA
* * *
89191789 TATGAAAAGGGATAGCTTCAGCTATCGATTATGAAACGAGATAGTGACGACCATCAAC
1 TATGAAAAGGGATAGCTT-GGCTATCGATTATGAAAAGGGATAGTGACGACCATCAAC
* *
89191847 TATGAAAAGGGATAGACTTGGCTATCGATTATGAAAAGGGATGGTGACGACCATTAAC
1 TATGAAAAGGGATAG-CTTGGCTATCGATTATGAAAAGGGATAGTGACGACCATCAAC
* * * * * * * * *
89191905 TATGAAAAGGGAT-GGTGATGACCATCAACTATAAAAAGGGATGGTGACAACCATTGAA-
1 TATGAAAAGGGATAGCT--TGGCTATCGATTATGAAAAGGGATAGTGACGACCA-TCAAC
* *
89191963 TATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGAATAGTGATGACCATCAAC
1 TATGAAAAGGGATAGC-TTGGCTATCGATTATGAAAAGGGATAGTGACGACCATCAAC
89192021 TATGAAAAGGGAT
1 TATGAAAAGGGAT
89192034 GGTGACGACC
Statistics
Matches: 156, Mismatches: 24, Indels: 14
0.80 0.12 0.07
Matches are distributed among these distances:
56 1 0.01
57 4 0.03
58 143 0.92
59 7 0.04
60 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.23
Consensus pattern (57 bp):
TATGAAAAGGGATAGCTTGGCTATCGATTATGAAAAGGGATAGTGACGACCATCAAC
Found at i:89191908 original size:29 final size:29
Alignment explanation
Indices: 89191818--89192046 Score: 187
Period size: 29 Copynumber: 7.9 Consensus size: 29
89191808 AGCTATCGAT
* * *
89191818 TATGAAACGAGATAGTGACGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* * * * *
89191847 TATGAAAAGGGAT--AGACTTGGCTATCGAT
1 TATGAAAAGGGATGGTGAC--GACCATCAAC
*
89191876 TATGAAAAGGGATGGTGACGACCATTAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
*
89191905 TATGAAAAGGGATGGTGATGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* * *
89191934 TATAAAAAGGGATGGTGACAACCATTGAA-
1 TATGAAAAGGGATGGTGACGACCA-TCAAC
* ** * * * *
89191963 TATGAAAAGGGATAGCT-TTGGCTATCGAT
1 TATGAAAAGGGAT-GGTGACGACCATCAAC
* * *
89191992 TATGAAAAGGAATAGTGATGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
89192021 TATGAAAAGGGATGGTGACGACCATC
1 TATGAAAAGGGATGGTGACGACCATC
89192047 GTGATTCCAC
Statistics
Matches: 153, Mismatches: 39, Indels: 16
0.74 0.19 0.08
Matches are distributed among these distances:
27 3 0.02
28 3 0.02
29 139 0.91
30 5 0.03
31 3 0.02
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAC
Found at i:89191967 original size:87 final size:87
Alignment explanation
Indices: 89191876--89192045 Score: 216
Period size: 87 Copynumber: 2.0 Consensus size: 87
89191866 GGCTATCGAT
* * * *
89191876 TATGAAAAGGGAT-GGTGACGACCATTAACTATGAAAAGGGATGGTGATGACCATCAACTATAAA
1 TATGAAAAGGGATAGCT-ACGACCATCAACTATGAAAAGGAATAGTGATGACCATCAACTATAAA
89191940 AAGGGATGGTGACAACCATTGAA
65 AAGGGATGGTGACAACCATTGAA
** * * * * *
89191963 TATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGAATAGTGATGACCATCAACTATGAAA
1 TATGAAAAGGGATAGCTACGACCATCAACTATGAAAAGGAATAGTGATGACCATCAACTATAAAA
*
89192028 AGGGATGGTGACGACCAT
66 AGGGATGGTGACAACCAT
89192046 CGTGATTCCA
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
87 68 0.97
88 2 0.03
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.22
Consensus pattern (87 bp):
TATGAAAAGGGATAGCTACGACCATCAACTATGAAAAGGAATAGTGATGACCATCAACTATAAAA
AGGGATGGTGACAACCATTGAA
Found at i:89198346 original size:44 final size:47
Alignment explanation
Indices: 89198286--89198410 Score: 150
Period size: 44 Copynumber: 2.7 Consensus size: 47
89198276 GATGTTAGCC
* * *
89198286 AGTGTAAGACATGTCTGGGACATGCATCGGCTATGT-T-TC-A-TGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-ACGTATAACGAGAGCT
*
89198330 AGTGTAAGACATGTCTGGGACATGCATCAGCACGTATACACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCACGTATA-ACGAGAGCT
89198378 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
89198411 CTCGATGGAG
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
43 3 0.04
44 31 0.45
46 1 0.01
47 1 0.01
48 12 0.17
49 14 0.20
50 7 0.10
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCACGTATAACGAGAGCT
Found at i:89200340 original size:29 final size:28
Alignment explanation
Indices: 89200306--89200408 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
89200296 TACTCAATCA
*
89200306 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
89200335 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
89200364 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
89200393 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
89200409 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:89211033 original size:40 final size:39
Alignment explanation
Indices: 89210938--89211144 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 39
89210928 CGGAATACAA
* *
89210938 CCGGATATAACCACATGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
* *
89210977 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* *
89211017 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
89211057 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACACTTGCACAAATGCCTTCGGGTCTTAGC
* * * *
89211097 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
89211137 CCGGATAT
1 CCGGATAT
89211145 CATTCAATTG
Statistics
Matches: 142, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
38 1 0.01
39 25 0.18
40 115 0.81
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:89216803 original size:40 final size:40
Alignment explanation
Indices: 89216766--89216949 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
89216756 GCTACTCGTT
*
89216766 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
89216806 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
89216846 CAAATGGCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
89216886 CGAATGCCTTC-TGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
89216927 CAAA-GCCTTCGGGACATAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
89216950 TGTAACACCC
Statistics
Matches: 123, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 3 0.02
40 109 0.89
41 11 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:89218387 original size:27 final size:28
Alignment explanation
Indices: 89218357--89218426 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
89218347 ATAGTGAATC
*
89218357 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
89218384 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
89218412 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
89218427 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:89218498 original size:42 final size:42
Alignment explanation
Indices: 89218434--89218540 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
89218424 GCTGTACAAT
* *
89218434 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
89218476 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
89218518 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
89218541 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:89225619 original size:27 final size:28
Alignment explanation
Indices: 89225589--89225658 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
89225579 ATAGTGAATC
*
89225589 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
89225616 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
89225644 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
89225659 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:89225730 original size:42 final size:42
Alignment explanation
Indices: 89225666--89225772 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
89225656 GCTGTACAAT
* *
89225666 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
89225708 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
89225750 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
89225773 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:89235160 original size:40 final size:40
Alignment explanation
Indices: 89235123--89235307 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
89235113 GCTACTCGTT
*
89235123 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
89235163 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
89235203 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
89235243 CGAATGCCTTC--GATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
89235283 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
89235308 CATCATTCGA
Statistics
Matches: 128, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
39 30 0.23
40 94 0.73
41 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:89251225 original size:14 final size:14
Alignment explanation
Indices: 89251206--89251233 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
89251196 CTTTTCGAGA
89251206 TTCAGAACACCTAG
1 TTCAGAACACCTAG
89251220 TTCAGAACACCTAG
1 TTCAGAACACCTAG
89251234 AGCAATTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (14 bp):
TTCAGAACACCTAG
Found at i:89255305 original size:14 final size:13
Alignment explanation
Indices: 89255284--89255316 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
89255274 AGATATTTAA
89255284 CTTGTTCTTAATT
1 CTTGTTCTTAATT
89255297 CTATGTTCTTAATT
1 CT-TGTTCTTAATT
89255311 CTTGTT
1 CTTGTT
89255317 TTGATATCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.15, C:0.15, G:0.09, T:0.61
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:89267334 original size:96 final size:94
Alignment explanation
Indices: 89267213--89267672 Score: 695
Period size: 96 Copynumber: 4.8 Consensus size: 94
89267203 TATTAAAATT
* *
89267213 TGTGCAAGTGTATGTATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAAAGTGTA--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
89267278 TGTGATAAGGCCTAATGGCCGATGTGATGAA
64 TGTGATAAGGCCTAATGGCCGATGTGATGAA
*
89267309 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATTTGTGAAAGTGTATA
1 TGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA--TGTGAAAGTGTATA
89267374 TATACGTGATAAGGCCTAATGGCCGATGTGATGAA
62 TAT--GTGATAAGGCCTAATGGCCGATGTGATGAA
*
89267409 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
89267474 TGTGATAAGGCCTAATGGCCGATGTGATGAA
64 TGTGATAAGGCCTAATGGCCGATGTGATGAA
*
89267505 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
*
89267570 TGTGATAAGGCCTAATGGCCAATGTGATGAA
64 TGTGATAAGGCCTAATGGCCGATGTGATGAA
* * * * * * *
89267601 TGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGGATGTGGAAGTGTATAAATG
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
89267666 TGATAAG
66 TGATAAG
89267673 TCCCGAAGGG
Statistics
Matches: 342, Mismatches: 14, Indels: 18
0.91 0.04 0.05
Matches are distributed among these distances:
94 14 0.04
96 226 0.66
98 63 0.18
100 39 0.11
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (94 bp):
TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
TGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:89267344 original size:49 final size:49
Alignment explanation
Indices: 89267213--89267672 Score: 706
Period size: 47 Copynumber: 9.6 Consensus size: 49
89267203 TATTAAAATT
* * *
89267213 TGTGCAAGTGTATGTATACGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
89267262 TGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
89267309 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
89267358 TTTGTGAAAGTGTATATATACGTGATAAGGCCTAATGGCCGATGTGATGAA
1 --TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
89267409 TGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
89267456 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
89267505 TGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
89267552 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * * * *
89267601 TGTGAAAGTG--TATATATGTGATAAGGCCGAGTGGCCAACGTGATGGA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
89267648 TGTGGAAGTGTATA-A-ATGTGATAAG
1 TGTGAAAGTGTATATATATGTGATAAG
89267673 TCCCGAAGGG
Statistics
Matches: 384, Mismatches: 17, Indels: 22
0.91 0.04 0.05
Matches are distributed among these distances:
47 187 0.49
48 1 0.00
49 149 0.39
51 47 0.12
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (49 bp):
TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:89271909 original size:29 final size:28
Alignment explanation
Indices: 89271821--89271923 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 28
89271811 TACTCAATCA
* *
89271821 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATA-CATTCAAGCT
* * * * *
89271850 CACACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATACA-TTCAAGCT
*
89271879 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATACATT-CAAGCT
*
89271908 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
89271924 ATTCGTCACC
Statistics
Matches: 58, Mismatches: 14, Indels: 4
0.76 0.18 0.05
Matches are distributed among these distances:
28 2 0.03
29 56 0.97
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATACATTCAAGCT
Found at i:89273645 original size:40 final size:40
Alignment explanation
Indices: 89273556--89273650 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
89273546 GGCTGTCACA
* *
89273556 GTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTT
1 GTTAAATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG
*** * **
89273596 ACCAAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTG
1 GTTAAATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG
*
89273636 GTTATATCC-GGCTAA
1 GTTAAATCCGGGCTAA
89273651 ATTCCGAAGA
Statistics
Matches: 42, Mismatches: 13, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
39 5 0.12
40 37 0.88
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
GTTAAATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG
Found at i:89275631 original size:40 final size:40
Alignment explanation
Indices: 89275546--89275696 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
89275536 AATTGAATGA
* * *
89275546 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
89275586 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
89275627 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
89275666 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
89275697 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:89275710 original size:40 final size:40
Alignment explanation
Indices: 89275583--89275712 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
89275573 ATGCTGGAAA
* * * *
89275583 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
89275623 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
89275663 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
89275703 TTATATCCGG
1 TTATATCCGG
89275713 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:89283639 original size:40 final size:40
Alignment explanation
Indices: 89283554--89283704 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
89283544 AATTGAATGA
* * *
89283554 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
89283594 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
89283635 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
89283674 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
89283705 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:89283718 original size:40 final size:40
Alignment explanation
Indices: 89283591--89283720 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
89283581 ATGCTGGAAA
* * * *
89283591 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
89283631 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
89283671 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
89283711 TTATATCCGG
1 TTATATCCGG
89283721 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:89291454 original size:40 final size:40
Alignment explanation
Indices: 89291388--89291536 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
89291378 AAATTGAATG
* *
89291388 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * *
89291427 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCT---AGTGG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAAT-T
* *
89291465 CTATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
89291505 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
89291537 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
37 5 0.05
38 26 0.29
39 13 0.14
40 44 0.48
41 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:89291511 original size:78 final size:77
Alignment explanation
Indices: 89291389--89291536 Score: 201
Period size: 78 Copynumber: 1.9 Consensus size: 77
89291379 AATTGAATGA
*
89291389 TATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 TATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
89291454 TGTGCTAGTGGC
66 TGTGCTAGTGGC
* * * *
89291466 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGGC
1 TATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
89291529 ATTTGTGC
63 AATTGTGC
89291537 ACATGGTTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
77 17 0.27
78 45 0.73
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (77 bp):
TATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCTAGTGGC
Found at i:89300542 original size:40 final size:40
Alignment explanation
Indices: 89300485--89300652 Score: 180
Period size: 40 Copynumber: 4.2 Consensus size: 40
89300475 TGAATGATAC
* *
89300485 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
89300525 CTGGGCTAAGACCCGAAGGCATTCGTG-TGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCT-AG-TGATTATAT
* * ** *
89300565 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
89300605 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
89300645 CC-GGCTAA
1 CCGGGCTAA
89300653 ATTCTGAAGA
Statistics
Matches: 103, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
39 7 0.07
40 94 0.91
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:89307467 original size:13 final size:13
Alignment explanation
Indices: 89307445--89307477 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
89307435 AAGGGTTTGT
89307445 TTAT-TAAACTAA
1 TTATCTAAACTAA
89307457 TTATCTAAACTAA
1 TTATCTAAACTAA
*
89307470 TTAACTAA
1 TTATCTAA
89307478 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:89310403 original size:6 final size:6
Alignment explanation
Indices: 89310387--89310446 Score: 74
Period size: 6 Copynumber: 10.7 Consensus size: 6
89310377 AAGAAAATTG
* *
89310387 AAAAAT CAAAAT AAAAAT AAAAAT AAGAAT -AAAAT -AAAAT -AAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
89310432 -AAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAA
89310447 TAGGAGGATT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
5 19 0.39
6 30 0.61
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:89310408 original size:5 final size:5
Alignment explanation
Indices: 89310388--89310448 Score: 77
Period size: 5 Copynumber: 11.2 Consensus size: 5
89310378 AGAAAATTGA
89310388 AAAAT CAAAAT AAAAAT AAAAAT AAGAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT -AAAAT -AAAAT -AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT
89310437 AAAAAT AAAAT A
1 -AAAAT AAAAT A
89310449 GGAGGATTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 5
0.90 0.02 0.09
Matches are distributed among these distances:
5 26 0.50
6 26 0.50
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:89310408 original size:11 final size:11
Alignment explanation
Indices: 89310388--89310448 Score: 81
Period size: 11 Copynumber: 5.5 Consensus size: 11
89310378 AGAAAATTGA
*
89310388 AAAATCAAAAT
1 AAAATAAAAAT
89310399 AAAAATAAAAAT
1 -AAAATAAAAAT
89310411 AAGAAT-AAAAT
1 AA-AATAAAAAT
89310422 AAAAT-AAAAT
1 AAAATAAAAAT
89310432 AAAATAAAAAT
1 AAAATAAAAAT
89310443 AAAATA
1 AAAATA
89310449 GGAGGATTCA
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
10 13 0.28
11 20 0.43
12 13 0.28
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:89313125 original size:50 final size:49
Alignment explanation
Indices: 89312958--89313182 Score: 281
Period size: 49 Copynumber: 4.5 Consensus size: 49
89312948 CTGGTACGCA
* * * *
89312958 TAGTAGCCTGCACATGGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
*
89313007 TAGTAGCCTGCACTTAGTACTACACACGAGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * *
89313056 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * *
89313106 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTT-TTCGCGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCG-GTACACG
*
89313157 TAGTAGCCTACACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
89313183 TGCGACCTCA
Statistics
Matches: 154, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
49 77 0.50
50 45 0.29
51 31 0.20
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:89313127 original size:99 final size:100
Alignment explanation
Indices: 89312951--89313189 Score: 295
Period size: 99 Copynumber: 2.4 Consensus size: 100
89312941 AAGCTATCTG
* * * * ** *
89312951 GTACGCATAGTAGCCTGCACATGGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAGTAGCCT
89313016 GCACTTAGTACTACACACGAGA-C-CAATTATCCG-
66 GCACTTAGTACTACACACGAGATCACAATT-TCCGC
* * *
89313049 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCC
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCGATACACGTAGTAGCC
* * *
89313114 TGCACTTAGTACTACACACGTGATCACAGTTTTCGC
65 TGCACTTAGTACTACACACGAGATCACAATTTCCGC
* * *
89313150 GTACGCATAGTAGCCTACACTTAGTACTACACATGCGACC
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
89313190 TCACAATAGA
Statistics
Matches: 119, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
98 34 0.29
99 42 0.35
100 4 0.03
101 39 0.33
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (100 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAGTAGCCT
GCACTTAGTACTACACACGAGATCACAATTTCCGC
Found at i:89316545 original size:50 final size:50
Alignment explanation
Indices: 89316468--89316697 Score: 225
Period size: 50 Copynumber: 4.6 Consensus size: 50
89316458 ATTGTGAATA
* *
89316468 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTATTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGT
* * **
89316518 CGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTCAATGACT-TCGA-T
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GACTGTTAAGT
* * * *
89316569 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTAAGT
** * * * * *
89316619 CATGTGTGTAGTACTAAGTGCAGGTTACTACATGTACCGGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGT
* *
89316668 CGCATGAGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
89316698 TGCATATCAG
Statistics
Matches: 150, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 30 0.20
50 75 0.50
51 36 0.24
52 3 0.02
53 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGT
Found at i:89316655 original size:101 final size:101
Alignment explanation
Indices: 89316472--89316655 Score: 253
Period size: 101 Copynumber: 1.8 Consensus size: 101
89316462 TGAATACACA
* * *
89316472 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTATTAAGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATGAAGTCACATGTGTAGTACTAAGT
**
89316537 GCAGGCTACTATGTGTACTCAATGACTTCGATCACG
66 GCAGGCTACTACATGTACTCAATGACTTCGATCACG
* * * **
89316573 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGTCATGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-ATGAAGTCACATGTGTAGTACTAAG
*
89316637 TGCAGGTTACTACATGTAC
65 TGCAGGCTACTACATGTAC
89316656 CGGATTGTTG
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
100 1 0.01
101 70 0.99
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATGAAGTCACATGTGTAGTACTAAGT
GCAGGCTACTACATGTACTCAATGACTTCGATCACG
Found at i:89324136 original size:49 final size:50
Alignment explanation
Indices: 89323923--89324145 Score: 157
Period size: 50 Copynumber: 4.5 Consensus size: 50
89323913 ATACACGTGT
* ** * * * *
89323923 GTAGTACTAAGTGCAGGCTACTACATACACCATACTG-TTAAGTCGCATGTA
1 GTAGTACTAAGTGCAGGCTACTACGTGTACCA-AATGATGAGGTCACATG-A
* * * * ** * * *
89323974 -TAGTACTAAGTACAAGCTACTATGCGTACTC-AATGACTTCGATCACGTGT
1 GTAGTACTAAGTGCAGGCTACTACGTGTAC-CAAATGA-TGAGGTCACATGA
* * * * *
89324024 GTAGTACTAAGTGCAAGCTACTACGTGTATCAAATGGTGAGGTCACGTGT
1 GTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGATGAGGTCACATGA
** * *
89324074 GTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTAT-TGGTCACATGA
1 GTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGATGAGGTCACATGA
89324123 GTAGTACTAAGTGCAGGCTACTA
1 GTAGTACTAAGTGCAGGCTACTA
89324146 TGCGTATCAG
Statistics
Matches: 136, Mismatches: 31, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
49 34 0.25
50 65 0.48
51 37 0.27
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (50 bp):
GTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGATGAGGTCACATGA
Found at i:89328415 original size:13 final size:13
Alignment explanation
Indices: 89328393--89328425 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
89328383 AAGGGTTTGT
89328393 TTAT-TAAACTAA
1 TTATCTAAACTAA
89328405 TTATCTAAACTAA
1 TTATCTAAACTAA
*
89328418 TTAACTAA
1 TTATCTAA
89328426 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:89335940 original size:93 final size:93
Alignment explanation
Indices: 89335828--89335998 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
89335818 GCCCATAAGT
* *
89335828 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
89335893 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
89335921 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
89335986 CGAGTTCGGATGC
66 CGAGTTCGGATGC
89335999 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:89335995 original size:46 final size:46
Alignment explanation
Indices: 89335820--89336000 Score: 224
Period size: 46 Copynumber: 3.9 Consensus size: 46
89335810 TGTAACCCGC
* * **
89335820 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
89335866 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
89335916 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
89335959 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
89336001 AACCATCCTA
Statistics
Matches: 115, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 71 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:89338438 original size:15 final size:15
Alignment explanation
Indices: 89338370--89338448 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
89338360 CAAAGATAAC
*
89338370 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
89338384 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* * *
89338399 GAGAAACCCGGAATA
1 AAGAAATCCAGAATA
89338414 AA-AAATCCAGAATA
1 AAGAAATCCAGAATA
* *
89338428 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
89338443 AAGAAA
1 AAGAAA
89338449 CCCAAGATAC
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
14 21 0.41
15 29 0.57
16 1 0.02
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:89338457 original size:15 final size:15
Alignment explanation
Indices: 89338381--89338457 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
89338371 AGAAAACCGA
89338381 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
89338396 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
89338410 AATAAA-AAATCC-AG
1 -ATAAAGAAATCCAAG
* *
89338424 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
89338440 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
89338455 ATA
1 ATA
89338458 CGATACTATC
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
14 13 0.27
15 34 0.71
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:89341455 original size:46 final size:45
Alignment explanation
Indices: 89341388--89341559 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
89341378 TGTAACCCGC
*
89341388 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCAT
*
89341434 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCAT
* *
89341484 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-GGCG--GACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTG-CAT
89341524 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
89341560 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
40 3 0.03
41 2 0.02
42 2 0.02
43 27 0.25
44 2 0.02
46 36 0.33
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.20
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCAT
Found at i:89341552 original size:90 final size:91
Alignment explanation
Indices: 89341396--89341563 Score: 286
Period size: 90 Copynumber: 1.8 Consensus size: 91
89341386 GCCCATAAGT
89341396 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGGCG-T-GCATCCATAAGTGAACTCGGACTCAACTCAA
89341461 CGAGTTCGGATGCCTAGTTACATCTCAC
64 CGAGTTCGGATGCCTAGTTACATCTCAC
*
89341489 GAACTCGGACTCAACTCAACGAGTTC-GGCG-GACATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGGCGTG-CATCCATAAGTGAACTCGGACTCAACTCAAC
89341552 GAGTTCGGATGC
65 GAGTTCGGATGC
89341564 TCAACCATCC
Statistics
Matches: 73, Mismatches: 1, Indels: 5
0.92 0.01 0.06
Matches are distributed among these distances:
89 1 0.01
90 43 0.59
92 4 0.05
93 25 0.34
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAGCTCGGGCGTGCATCCATAAGTGAACTCGGACTCAACTCAACG
AGTTCGGATGCCTAGTTACATCTCAC
Found at i:89349295 original size:40 final size:40
Alignment explanation
Indices: 89349236--89349428 Score: 224
Period size: 40 Copynumber: 4.8 Consensus size: 40
89349226 CAATTGAATG
* * *
89349236 ATATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
89349276 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
89349316 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
89349356 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* *
89349396 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
89349429 TGTGGTTATA
Statistics
Matches: 131, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 131 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:89354000 original size:14 final size:15
Alignment explanation
Indices: 89353983--89354011 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
89353973 TCACGAAAAT
89353983 TTCACACAT-ATAAA
1 TTCACACATAATAAA
89353997 TTCACACATAATAAA
1 TTCACACATAATAAA
89354012 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:89355072 original size:77 final size:77
Alignment explanation
Indices: 89354942--89355094 Score: 261
Period size: 77 Copynumber: 2.0 Consensus size: 77
89354932 TTAGCATAAC
* *
89354942 TTAGGGATTTTCATAGATTAAGATACCAAGTGAATAAATTGTTTAAATCAGATTCATAATAATAA
1 TTAGGGATTTTCATAGATCAAGATACCAAGTGAATAAATTGTTTAAATCAGATTCATAATAACAA
89355007 ATGAAGTCTAGT
66 ATGAAGTCTAGT
* * *
89355019 TTAGGGATTTTCATGGATCAAGATACCAAGTGAATAAATTGTTTAAATTAGATTCATAATAACAT
1 TTAGGGATTTTCATAGATCAAGATACCAAGTGAATAAATTGTTTAAATCAGATTCATAATAACAA
89355084 ATGAAGTCTAG
66 ATGAAGTCTAG
89355095 GTGGATTCTT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
77 71 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (77 bp):
TTAGGGATTTTCATAGATCAAGATACCAAGTGAATAAATTGTTTAAATCAGATTCATAATAACAA
ATGAAGTCTAGT
Found at i:89360317 original size:45 final size:45
Alignment explanation
Indices: 89360219--89360373 Score: 138
Period size: 45 Copynumber: 3.5 Consensus size: 45
89360209 ATAAACTTGA
* * * * *
89360219 ACCAATTCAACAAGCTCAGATGCTCGCATC-CATA--ATGAGCTCAG
1 ACCAACTCAACAAGCTCAGAT-CTCTCA-CACATATCACGAACTCGG
* * * * *
89360263 ACCAACTCAACGAGCTCGGATGCT-TCACATATATCATGAACTTGG
1 ACCAACTCAACAAGCTCAGAT-CTCTCACACATATCACGAACTCGG
* * *
89360308 ACCAACTCAACAAGTTCAGATTTCTCACACATATTACGAACTCGG
1 ACCAACTCAACAAGCTCAGATCTCTCACACATATCACGAACTCGG
89360353 ACCAACTCAACAAGCTCAGAT
1 ACCAACTCAACAAGCTCAGAT
89360374 ATCTAAATTC
Statistics
Matches: 90, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
42 1 0.01
43 5 0.06
44 22 0.24
45 62 0.69
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.22
Consensus pattern (45 bp):
ACCAACTCAACAAGCTCAGATCTCTCACACATATCACGAACTCGG
Found at i:89363339 original size:135 final size:134
Alignment explanation
Indices: 89363098--89363375 Score: 445
Period size: 135 Copynumber: 2.1 Consensus size: 134
89363088 ATATGCCAAC
* * *
89363098 ACCATAAAAAAACAAAAGTCCTAGTGATTATCTTAAGTGATAGAGAAGATGAAAGTGAGTAGTAG
1 ACCATAAAAAAACAAAAGTCATAGTGATTATATTAAATGATAGAGAAGATGAAAGTGAGTAGTAG
89363163 ACTCAGATGAAGAATTAAGCAATTATATGGCTTTCATAGTGTTTGTTCAACCATTTGTTTAGACA
66 ACTCAGATGAAGAATTAAGCAATTATATGGCTTTCATAGTGTTTGTTCAACCATTTGTTTAGACA
*
89363228 GATA
131 GACA
* * *
89363232 ACCATAAAGAAACAAAAGTCTATAGTGGTTATATTAAATGAT-GAAGAAGATGAAAGTGAGTACT
1 ACCATAAAAAAACAAAAGTC-ATAGTGATTATATTAAATGATAG-AGAAGATGAAAGTGAGTA-G
89363296 TAGACTCAGAT-AAGAATTAAGCAATTATATGGCTTTCATAGTGTTTGTTCAACCATTTGTTTAG
63 TAGACTCAGATGAAGAATTAAGCAATTATATGGCTTTCATAGTGTTTGTTCAACCATTTGTTTAG
89363360 ACAGACA
128 ACAGACA
89363367 ACCA-AAAAA
1 ACCATAAAAA
89363376 TCTGTGAATT
Statistics
Matches: 133, Mismatches: 8, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
134 24 0.18
135 98 0.74
136 11 0.08
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (134 bp):
ACCATAAAAAAACAAAAGTCATAGTGATTATATTAAATGATAGAGAAGATGAAAGTGAGTAGTAG
ACTCAGATGAAGAATTAAGCAATTATATGGCTTTCATAGTGTTTGTTCAACCATTTGTTTAGACA
GACA
Found at i:89381039 original size:16 final size:16
Alignment explanation
Indices: 89381018--89381062 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
89381008 ATGTATCGGC
*
89381018 AAAAGCCGAAATGCCA
1 AAAAGCCGAAAAGCCA
89381034 AAAAGCCGAAAAGCCA
1 AAAAGCCGAAAAGCCA
*
89381050 AAATGCCGAAAAG
1 AAAAGCCGAAAAG
89381063 TCGAAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.53, C:0.22, G:0.20, T:0.04
Consensus pattern (16 bp):
AAAAGCCGAAAAGCCA
Found at i:89381047 original size:8 final size:8
Alignment explanation
Indices: 89381018--89381068 Score: 59
Period size: 8 Copynumber: 6.4 Consensus size: 8
89381008 ATGTATCGGC
89381018 AAAAGCCG
1 AAAAGCCG
* *
89381026 AAATGCCA
1 AAAAGCCG
89381034 AAAAGCCG
1 AAAAGCCG
89381042 AAAAGCC-
1 AAAAGCCG
89381049 AAAATGCCG
1 AAAA-GCCG
*
89381058 AAAAGTCG
1 AAAAGCCG
89381066 AAA
1 AAA
89381069 GTTTGGCTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
7 4 0.11
8 28 0.78
9 4 0.11
ACGTcount: A:0.53, C:0.22, G:0.20, T:0.06
Consensus pattern (8 bp):
AAAAGCCG
Found at i:89381053 original size:24 final size:24
Alignment explanation
Indices: 89381018--89381068 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
89381008 ATGTATCGGC
*
89381018 AAAAGCCGAAATGCCAAAAAGCCG
1 AAAAGCCAAAATGCCAAAAAGCCG
* *
89381042 AAAAGCCAAAATGCCGAAAAGTCG
1 AAAAGCCAAAATGCCAAAAAGCCG
89381066 AAA
1 AAA
89381069 GTTTGGCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.22, G:0.20, T:0.06
Consensus pattern (24 bp):
AAAAGCCAAAATGCCAAAAAGCCG
Found at i:89382383 original size:2 final size:2
Alignment explanation
Indices: 89382376--89382405 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
89382366 TGATTTGTGC
89382376 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
89382406 AGTTAAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:89390634 original size:58 final size:57
Alignment explanation
Indices: 89390562--89390672 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 57
89390552 TGAATGTGAC
* *
89390562 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGA-TTGGGCCTAATGGGCCAGATACAGGTGATT
* * * *
89390620 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCTAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGGT
89390673 ATGTGAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 23 0.49
58 24 0.51
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:89390659 original size:28 final size:29
Alignment explanation
Indices: 89390549--89390661 Score: 142
Period size: 29 Copynumber: 4.0 Consensus size: 29
89390539 GTGAGCATGA
* *
89390549 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
89390577 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
89390606 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
89390635 ATATGAATATGA-TTGGGCTTAATGGGC
1 ATATGAATGTGATTTGGGCCTAATGGGC
89390662 TAGATACAGG
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
28 26 0.35
29 48 0.64
30 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:89391546 original size:3 final size:3
Alignment explanation
Indices: 89391540--89391592 Score: 79
Period size: 3 Copynumber: 16.7 Consensus size: 3
89391530 TTTTATTATG
89391540 TTA TTA TTA CTTGAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA -TT--A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
89391588 TTA TT
1 TTA TT
89391593 TTCATTGTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
3 42 0.89
4 2 0.04
5 2 0.04
6 1 0.02
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:89397835 original size:28 final size:28
Alignment explanation
Indices: 89397745--89397835 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
89397735 AGCTCGCACC
* *
89397745 AGTGCCGTATTTTTCCAGCTTGCACACTT
1 AGTGCCATA-TTTTCCAGCATGCACACTT
89397774 AGTG-CATATATTTCCAGCATGCACACTT
1 AGTGCCATAT-TTTCCAGCATGCACACTT
*
89397802 AGTGCCATATTTTCCAGCACGCACACTT
1 AGTGCCATATTTTCCAGCATGCACACTT
89397830 AGTGCC
1 AGTGCC
89397836 GATCTCGTCA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
27 1 0.02
28 47 0.82
29 9 0.16
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (28 bp):
AGTGCCATATTTTCCAGCATGCACACTT
Found at i:89401034 original size:40 final size:40
Alignment explanation
Indices: 89400979--89401140 Score: 279
Period size: 40 Copynumber: 4.0 Consensus size: 40
89400969 GGATTTAGCT
* * *
89400979 GGATATAACAACTCGCACAAATGCCTTCAGGTCCTAGCCC
1 GGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCC
* *
89401019 GGATACAGCAACTCGCACAAATGTCTTCGGGTCTTAGCCC
1 GGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCC
89401059 GGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCC
89401099 GGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCC
89401139 GG
1 GG
89401141 TTATCACCGA
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (40 bp):
GGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCC
Found at i:89405322 original size:46 final size:46
Alignment explanation
Indices: 89405285--89405389 Score: 140
Period size: 46 Copynumber: 2.3 Consensus size: 46
89405275 AAGATGTGTA
*
89405285 TGGGACATGCATCAG-CTTCGAGATGTAAGTCGGTGTAAGACATGTC
1 TGGGACATGCATCAGCCTT-GAGATGTAAGTCAGTGTAAGACATGTC
* * * * *
89405331 TGGAATACGTATCGGCCTTGAGATGTAAGTCAGTGTAAGACATGTC
1 TGGGACATGCATCAGCCTTGAGATGTAAGTCAGTGTAAGACATGTC
89405377 TGGGACATGCATC
1 TGGGACATGCATC
89405390 GAAAATATGT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
46 45 0.94
47 3 0.06
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (46 bp):
TGGGACATGCATCAGCCTTGAGATGTAAGTCAGTGTAAGACATGTC
Found at i:89407519 original size:13 final size:13
Alignment explanation
Indices: 89407501--89407525 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89407491 TCGGCAGGGA
89407501 CACGCCCGTGTGG
1 CACGCCCGTGTGG
89407514 CACGCCCGTGTG
1 CACGCCCGTGTG
89407526 CGATTACCTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.40, G:0.36, T:0.16
Consensus pattern (13 bp):
CACGCCCGTGTGG
Found at i:89410906 original size:21 final size:21
Alignment explanation
Indices: 89410881--89410920 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
89410871 TGGAGAATTC
* *
89410881 ACCACATATTTGCCAATAATG
1 ACCACATAATTGCAAATAATG
89410902 ACCACATAATTGCAAATAA
1 ACCACATAATTGCAAATAA
89410921 ACTGTCACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.23, G:0.07, T:0.25
Consensus pattern (21 bp):
ACCACATAATTGCAAATAATG
Found at i:89413361 original size:23 final size:23
Alignment explanation
Indices: 89413331--89413376 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
89413321 CCTAAGGGGG
89413331 AGAGAGTTGTAACAGCTCATTTT
1 AGAGAGTTGTAACAGCTCATTTT
*
89413354 AGAGAGTTGTAACAGCTCGTTTT
1 AGAGAGTTGTAACAGCTCATTTT
89413377 TAGTTCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (23 bp):
AGAGAGTTGTAACAGCTCATTTT
Found at i:89422770 original size:2 final size:2
Alignment explanation
Indices: 89422763--89422812 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
89422753 TTAATTCTTT
*
89422763 TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
89422804 TA TA TA TA T
1 TA TA TA TA T
89422813 TATTCTACTC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:89424600 original size:40 final size:40
Alignment explanation
Indices: 89424492--89424661 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
89424482 CGGGATTTAA
* * * * *
89424492 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
89424532 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89424572 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89424612 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89424652 CCGGATATAT
1 CCGGATATAT
89424662 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:89432693 original size:40 final size:40
Alignment explanation
Indices: 89432585--89432754 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
89432575 CGGGATTTAA
* * * * *
89432585 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
89432625 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89432665 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89432705 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89432745 CCGGATATAT
1 CCGGATATAT
89432755 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:89435786 original size:15 final size:15
Alignment explanation
Indices: 89435763--89435823 Score: 70
Period size: 15 Copynumber: 4.1 Consensus size: 15
89435753 ACAGGGTTCG
*
89435763 TATATAGGGTTTGCA
1 TATACAGGGTTTGCA
*
89435778 TATACAGGGTTCGCA
1 TATACAGGGTTTGCA
*
89435793 TTTACAGGAG-TTGCA
1 TATACAGG-GTTTGCA
*
89435808 CATACAGGGTTTGCA
1 TATACAGGGTTTGCA
89435823 T
1 T
89435824 GTAGGGTTCG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (15 bp):
TATACAGGGTTTGCA
Found at i:89435876 original size:23 final size:24
Alignment explanation
Indices: 89435826--89435889 Score: 103
Period size: 23 Copynumber: 2.7 Consensus size: 24
89435816 GTTTGCATGT
89435826 AGGGTTCGCATAATAAATCACATA
1 AGGGTTCGCATAATAAATCACATA
*
89435850 AGGGTTCGCATATTAAATC-CATA
1 AGGGTTCGCATAATAAATCACATA
*
89435873 AGGGTTTGCATAATAAA
1 AGGGTTCGCATAATAAA
89435890 ACATATAGGG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
23 19 0.51
24 18 0.49
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (24 bp):
AGGGTTCGCATAATAAATCACATA
Found at i:89435949 original size:24 final size:24
Alignment explanation
Indices: 89435922--89436004 Score: 87
Period size: 24 Copynumber: 3.5 Consensus size: 24
89435912 AAATTCAAAA
89435922 AGGTTTGCATAATAAAACATATGG
1 AGGTTTGCATAATAAAACATATGG
* * *
89435946 AGGTTTGCATACTAAATCATAT-T
1 AGGTTTGCATAATAAAACATATGG
* * *
89435969 AGAGTTTTCATATTAAAACATAAGG
1 AG-GTTTGCATAATAAAACATATGG
*
89435994 GGGTTTGCATA
1 AGGTTTGCATA
89436005 CCAAATCCAT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
23 2 0.04
24 44 0.94
25 1 0.02
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (24 bp):
AGGTTTGCATAATAAAACATATGG
Found at i:89436022 original size:95 final size:94
Alignment explanation
Indices: 89435826--89436023 Score: 204
Period size: 95 Copynumber: 2.1 Consensus size: 94
89435816 GTTTGCATGT
* * *
89435826 AGGGTTCGCATAATAAATCACATAAGGGTTCGCATATTAAATCCATAAGGGTTTGCATAATAAAA
1 AGGGTTTGCATAATAAA-CACATAAGGGTTCGCATACTAAATCCATAAGAGTTTGCATAATAAAA
* * *
89435891 CATATAGGGGGTTCACATTCTAAATTCAAA
65 CATATAGGGGGTTCACATACCAAATCCAAA
* * * * *
89435921 AAGGTTTGCATAATAAA-ACATATGGAGGTTTGCATACTAAAT-CATATTAGAGTTTTCATATTA
1 AGGGTTTGCATAATAAACACATA-AG-GGTTCGCATACTAAATCCATA--AGAGTTTGCATAATA
** *
89435984 AAACATA-AGGGGGTTTGCATACCAAATCCATA
62 AAACATATAGGGGGTTCACATACCAAATCCAAA
89436016 AGGGTTTG
1 AGGGTTTG
89436024 TATGTAGGTT
Statistics
Matches: 84, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
93 5 0.06
94 5 0.06
95 55 0.65
96 19 0.23
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (94 bp):
AGGGTTTGCATAATAAACACATAAGGGTTCGCATACTAAATCCATAAGAGTTTGCATAATAAAAC
ATATAGGGGGTTCACATACCAAATCCAAA
Found at i:89437079 original size:12 final size:12
Alignment explanation
Indices: 89437044--89437075 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
89437034 TCCTTCCCCC
89437044 TCCCTTCTCTC-
1 TCCCTTCTCTCT
89437055 TCCCTTCTCTCT
1 TCCCTTCTCTCT
89437067 TCCC-TCTCT
1 TCCCTTCTCT
89437076 TCTTTTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (12 bp):
TCCCTTCTCTCT
Found at i:89437528 original size:16 final size:16
Alignment explanation
Indices: 89437504--89437537 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
89437494 TTTAATCCTT
*
89437504 TTTAGTTATTTTACTA
1 TTTAATTATTTTACTA
*
89437520 TTTAATTATTTTAGTA
1 TTTAATTATTTTACTA
89437536 TT
1 TT
89437538 ATTATTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTAATTATTTTACTA
Found at i:89437770 original size:3 final size:3
Alignment explanation
Indices: 89437762--89437826 Score: 87
Period size: 3 Copynumber: 21.7 Consensus size: 3
89437752 ATTGTGTATA
** *
89437762 TAT TAT TAT TAAT TAT TAT TAT TGC TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
89437808 TAT TAT TAT TAT TA- TAT TA
1 TAT TAT TAT TAT TAT TAT TA
89437827 GTGTATATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.04
3 50 0.91
4 3 0.05
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:89438387 original size:2 final size:2
Alignment explanation
Indices: 89438380--89438424 Score: 65
Period size: 2 Copynumber: 22.0 Consensus size: 2
89438370 TATTATATGC
89438380 AT AT AT AT GAGT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT -A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89438423 AT
1 AT
89438425 TTAATATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
1 1 0.03
2 36 0.90
3 2 0.05
4 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:89443421 original size:17 final size:18
Alignment explanation
Indices: 89443408--89443567 Score: 104
Period size: 18 Copynumber: 8.9 Consensus size: 18
89443398 TAATCTTCAA
89443408 TGATATGCAATCTTAGATG
1 TGATATGCAATCTTAGA-G
89443427 TGATATGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
89443444 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
*
89443463 TGAT-TGCAATCTTTGA-
1 TGATATGCAATCTTAGAG
* *
89443479 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
89443498 TGAT-TGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
89443514 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
*
89443533 TGAT-TGCAATCTTAGATA
1 TGATATGCAATCTTAGA-G
*
89443551 TGATATACAATCTTAGA
1 TGATATGCAATCTTAGA
89443568 AGATATGATT
Statistics
Matches: 117, Mismatches: 9, Indels: 30
0.75 0.06 0.19
Matches are distributed among these distances:
15 4 0.03
16 4 0.03
17 34 0.29
18 38 0.32
19 31 0.26
20 6 0.05
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (18 bp):
TGATATGCAATCTTAGAG
Found at i:89443481 original size:35 final size:35
Alignment explanation
Indices: 89443415--89443567 Score: 261
Period size: 35 Copynumber: 4.3 Consensus size: 35
89443405 CAATGATATG
*
89443415 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
*
89443451 CAATCTTAGATATGATTGCAATCTTTGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
89443486 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
89443521 CAATCTTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
89443558 CAATCTTAGA
1 CAATCTTAGA
89443568 AGATATGATT
Statistics
Matches: 112, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
35 84 0.75
36 15 0.13
37 13 0.12
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:89449800 original size:43 final size:41
Alignment explanation
Indices: 89449753--89449946 Score: 135
Period size: 43 Copynumber: 4.6 Consensus size: 41
89449743 AACCTTAATC
89449753 CCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGG-TAAAATTAC-GATCTTATCT
* * * **
89449796 CCCTAAGCAGTAGGGGAACAGAT-CAACGACGACTCGCCTTAATC-
1 CCCTAAGCAGTAGGGTAACAGGTAAAATTACGA-T---CTT-ATCT
*
89449840 CCCTAAGCAGTAGGGTAACAGGTCAAAATTGCGGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGT-AAAATTAC-GATCTTATCT
* * * * * * * *
89449883 CCCTAAGTAGTAGTGG-AGCAGATAAAAAATGCG-CCTTAACC
1 CCCTAAGCAGTAG-GGTAACAGGT-AAAATTACGATCTTATCT
89449924 CCCTAAGCAGTAGGGTAACAGGT
1 CCCTAAGCAGTAGGGTAACAGGT
89449947 TAAAGTATAG
Statistics
Matches: 118, Mismatches: 22, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
40 4 0.03
41 27 0.23
42 5 0.04
43 47 0.40
44 26 0.22
45 3 0.03
46 4 0.03
47 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (41 bp):
CCCTAAGCAGTAGGGTAACAGGTAAAATTACGATCTTATCT
Found at i:89449895 original size:87 final size:85
Alignment explanation
Indices: 89449745--89449950 Score: 276
Period size: 87 Copynumber: 2.4 Consensus size: 85
89449735 AAATTCAGAA
89449745 CCTTAATCCCCTAAGCAGTAGGGTAACAGG-CTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
* *
89449809 GGGAACAGATCAACGACGACT-CG
66 GGGAACAGAT-AA--A-AAATGCG
* * *
89449832 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTC-AAAATTGCGGATCTTATCTCCCTAAGTAGTAG
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
* *
89449896 TGGAGCAGATAAAAAATGCG
66 GGGAACAGATAAAAAATGCG
*
89449916 CCTTAACCCCCTAAGCAGTAGGGTAACAGGT-TAAA
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAA
89449951 GTATAGCAGA
Statistics
Matches: 108, Mismatches: 8, Indels: 9
0.86 0.06 0.07
Matches are distributed among these distances:
83 2 0.02
84 36 0.33
86 2 0.02
87 67 0.62
88 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.22
Consensus pattern (85 bp):
CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
GGGAACAGATAAAAAATGCG
Found at i:89450637 original size:207 final size:207
Alignment explanation
Indices: 89450079--89450774 Score: 1081
Period size: 208 Copynumber: 3.4 Consensus size: 207
89450069 GAGCAGATCG
* ** * *
89450079 AAGACATAGTTGATTTGGCTTTCACGTACTTATGATGAAGCAAATCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTC
* * *
89450144 TGTATTGTTAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGTAGACACATAGCA
* *
89450209 GATCTAGCCTTCAGATGTTTATACTGAAGCAATATCCAAGATGGTTTGGCATCCTTATGCTTACA
131 GATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
*
89450274 AGGAACAAATCG
196 AGGAACAAATCA
* * * *
89450286 AAGACATAGTTGATTTGGCTTTTCACGTGTTTACATTGAAGCAAGTCTAAGATGATTTGGTATCT
1 AAGACATAGCTGATTTGGC-TTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCT
* *
89450351 CTGTATTGTCAGAGAACAAATTGAAGTTTGGCGTCTCCATATTCGACGAAGGGTAGACACATAGC
65 CTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGTAGACACATAGC
* *
89450416 AAATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTAC
130 AGATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTAC
89450481 AAGGAACAAATCA
195 AAGGAACAAATCA
*
89450494 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTC
* * *
89450559 TGTATTGTCAGAGAACAAATCGAAGTTTGGAGTCTCCATATTCGACGGAGGATAGACATATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGTAGACACATAGCA
* * * *
89450624 GATCTAACCTTCAGATGATTAGACTGAAGC-AGATCCAAGATGGTTTGGTATCCTTGTGCTTACA
131 GATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
* *
89450688 AAGAGCAAATCGA
196 AGGAACAAATC-A
* *
89450701 AA-ACATAGCTGATTTGGCTTTCGCGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTC
89450765 TGTATTGTCA
66 TGTATTGTCA
89450775 AGGACCAAAT
Statistics
Matches: 451, Mismatches: 36, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
206 111 0.25
207 151 0.33
208 189 0.42
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (207 bp):
AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTC
TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGTAGACACATAGCA
GATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
AGGAACAAATCA
Found at i:89451163 original size:18 final size:18
Alignment explanation
Indices: 89451115--89451258 Score: 193
Period size: 18 Copynumber: 7.9 Consensus size: 18
89451105 ATAATCTTCA
89451115 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
89451134 GTGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
89451153 ATGATTGCAATATTAGAT
1 ATGATTGCAATCTTAGAT
* *
89451171 ATGA-TACAATCATAGAT
1 ATGATTGCAATCTTAGAT
89451188 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
89451206 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
89451223 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
89451241 ATGATATACAATCTTAGA
1 ATGAT-TGCAATCTTAGA
89451259 AGATATGATT
Statistics
Matches: 111, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
17 30 0.27
18 48 0.43
19 33 0.30
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:89451188 original size:35 final size:35
Alignment explanation
Indices: 89451115--89451258 Score: 216
Period size: 35 Copynumber: 4.0 Consensus size: 35
89451105 ATAATCTTCA
*
89451115 ATGATATGCAATCTTAGATGTGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATA--CAATCTTAGAT
* *
89451153 ATGATTGCAATATTAGATATGATACAATCATAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
89451188 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
89451223 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
89451259 AGATATGATT
Statistics
Matches: 99, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
35 64 0.65
37 30 0.30
38 5 0.05
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:89454706 original size:40 final size:40
Alignment explanation
Indices: 89454622--89454744 Score: 135
Period size: 40 Copynumber: 3.1 Consensus size: 40
89454612 GAATCACGTA
* * ** * *
89454622 CCTTCGGGATTTA-ACCGGATATAACCACTCGCAC-AAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
89454660 CCTTCGGGTCTTAGCCCGGATAT-GATCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TCACTAGCACAAATG
*
89454700 CCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
89454740 CCTTC
1 CCTTC
89454745 ATAAATTTCC
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
38 11 0.16
39 15 0.21
40 43 0.61
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:89462971 original size:28 final size:27
Alignment explanation
Indices: 89462912--89462967 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
89462902 AGATTAAAAT
89462912 ATAAATTGTTAAAAAATAGTTTTTAAC
1 ATAAATTGTTAAAAAATAGTTTTTAAC
*
89462939 ATAAATTGTTAAAAATTAGTTTTTAAC
1 ATAAATTGTTAAAAAATAGTTTTTAAC
89462966 AT
1 AT
89462968 TAAAGTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (27 bp):
ATAAATTGTTAAAAAATAGTTTTTAAC
Found at i:89463440 original size:9 final size:9
Alignment explanation
Indices: 89463426--89463508 Score: 71
Period size: 9 Copynumber: 9.0 Consensus size: 9
89463416 ACACCGCTCA
*
89463426 AAATCATTT
1 AAATAATTT
*
89463435 AAATCATTTT
1 AAAT-AATTT
*
89463445 AATTAATTT
1 AAATAATTT
89463454 AAATAATTTT
1 AAATAA-TTT
* *
89463464 AATTAGCTTT
1 AAATA-ATTT
89463474 --ATAATTT
1 AAATAATTT
89463481 AAATAATTT
1 AAATAATTT
89463490 AAATAATTT
1 AAATAATTT
89463499 AAATTAATTT
1 AAA-TAATTT
89463509 TCTTGTCCTG
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
7 3 0.05
8 2 0.03
9 32 0.54
10 22 0.37
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (9 bp):
AAATAATTT
Found at i:89468850 original size:46 final size:46
Alignment explanation
Indices: 89468730--89468898 Score: 178
Period size: 48 Copynumber: 3.6 Consensus size: 46
89468720 TGATATGTGT
* *
89468730 GCTAGTGTAAGACATGTCTGGGGCATGCATCGGCCTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATA--TAA
* *
89468778 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGATA-AGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATATA-A
* * * * * *
89468824 GCTAGTGTAAGACATGTCTAGAACATGCATCAGCCTCGCGATGGACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAT--ATAA
* *
89468872 GCTAGTGTAAGACCTGTTTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
89468899 GCGTCAGCTT
Statistics
Matches: 102, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
45 1 0.01
46 36 0.35
48 64 0.63
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATATAA
Found at i:89471616 original size:39 final size:40
Alignment explanation
Indices: 89471484--89471622 Score: 151
Period size: 40 Copynumber: 3.5 Consensus size: 40
89471474 GGATATAACG
* * * *
89471484 ACTCGCTCAAATGCCTTCGGGAC-GAAGCCC-GGTTATAGTG
1 ACTCGCACGAATGCCTTCGGGACTTAA-CCCGGGTT-TAGTA
89471524 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
* * * *
89471564 ACTTGCACAAATGCCTTCGGG-CTT-AGCCGGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGG-TTTAGTA
89471603 ACTCGCACGAATGCCTTCGG
1 ACTCGCACGAATGCCTTCGG
89471623 ATCCTAGTCC
Statistics
Matches: 86, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
38 6 0.07
39 27 0.31
40 47 0.55
41 6 0.07
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.25
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
Found at i:89471659 original size:79 final size:80
Alignment explanation
Indices: 89471491--89471671 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 80
89471481 ACGACTCGCT
** * * * *
89471491 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCGGGATT-TATTAACTCGCACGAATGCCTTCGGGACCTAACCCG
* *
89471555 GGTTTAGTAACTTGCA
65 GATATAGTAACTTGCA
**
89471571 CAAATGCCTTCGGG-CTTAGCCGGGATTTATTAACTCGCACGAATGCCTTC-GGATCCTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCGGGATTTATTAACTCGCACGAATGCCTTCGGGA-CCTAACCCG
*
89471634 GATATAGTCACTTAGCA
65 GATATAGTAACTT-GCA
*
89471651 TAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
89471672 CGGACATCAT
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.04
79 53 0.62
80 29 0.34
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCGGGATTTATTAACTCGCACGAATGCCTTCGGGACCTAACCCGG
ATATAGTAACTTGCA
Found at i:89471675 original size:40 final size:40
Alignment explanation
Indices: 89471496--89471675 Score: 143
Period size: 40 Copynumber: 4.5 Consensus size: 40
89471486 TCGCTCAAAT
** * * *
89471496 GCCTTCGGGACGAAGCCCGGTTATAGTGACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAAA
* * * *
89471536 GCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC-AAA
1 GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAAA
* * * *
89471575 TGCCTTCGGG-CTTAGCCGGGATTTATTAACTCGCACGAAT
1 -GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAAA
* * * * *
89471615 GCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCA-TAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCACGAAA
89471655 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAGCCCGGA
89471676 CATCATTCGA
Statistics
Matches: 109, Mismatches: 25, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
38 2 0.02
39 29 0.27
40 71 0.65
41 7 0.06
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAAA
Found at i:89479256 original size:48 final size:46
Alignment explanation
Indices: 89479194--89479362 Score: 169
Period size: 48 Copynumber: 3.6 Consensus size: 46
89479184 TGATATGTGT
* *
89479194 GCTAGTGTAAGACATGTCTGGGGCATGTATCCGCCTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGTATCAGCCTCGAGATA--TAA
** * * * *
89479242 GCTAGTGTAAGACATGTCTGGGACATGTATTGGCATTGAGACGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGTATCAGCCTCGAGA-TATAA
* * * *
89479288 GCTAGTGTAAGACATGTCTAGAACATGCATCAGCCTCGCGATGAATAA
1 GCTAGTGTAAGACATGTCTGGGACATGTATCAGCCTCGAGAT--ATAA
*
89479336 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
89479363 GCATCGACAC
Statistics
Matches: 97, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
46 34 0.35
47 1 0.01
48 61 0.63
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGTATCAGCCTCGAGATATAA
Found at i:89483392 original size:42 final size:43
Alignment explanation
Indices: 89483282--89483396 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
89483272 AAAGTAAATA
* * * *
89483282 CAATGCCAATGTCCCAGACGTGGTCTTACATGTAATTAAACAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAACAT
* * * * *
89483325 CAATGCCACTGTCCCAGATAGGGTCTTACACGAAATCATATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAACAT
*
89483368 GAA-GCCAATGTCCCAGACATGGTCTTACA
1 CAATGCCAATGTCCCAGACATGGTCTTACA
89483397 TGTAAAACAG
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 23 0.39
43 36 0.61
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAACAT
Found at i:89489677 original size:28 final size:28
Alignment explanation
Indices: 89489645--89489728 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
89489635 AACTATGATC
89489645 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
89489673 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
89489695 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
89489723 ACGTGT
1 ACGTGT
89489729 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:89489768 original size:49 final size:49
Alignment explanation
Indices: 89489597--89489821 Score: 306
Period size: 49 Copynumber: 4.5 Consensus size: 49
89489587 TGAGGTTGCA
* * * * *
89489597 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTATGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * **
89489648 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
89489698 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* * *
89489747 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
89489796 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
89489822 TGCGTACCAG
Statistics
Matches: 156, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
49 78 0.50
50 45 0.29
51 33 0.21
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:89489773 original size:99 final size:100
Alignment explanation
Indices: 89489595--89489829 Score: 321
Period size: 99 Copynumber: 2.4 Consensus size: 100
89489585 TGTGAGGTTG
*
89489595 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTATGATCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTATGATCACGTGTGTAGTACTA
* **
89489660 AGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCA
66 AGTGCAGGCTACTACGTGTACCAGATAATT-GGTCA
* * * * *
89489696 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTATGATCACGTGTGTAGTACTA
* * *
89489759 AGTGTAGGCTACTACGTGTACCGGATAATTGGTCG
66 AGTGCAGGCTACTACGTGTACCAGATAATTGGTCA
* *
89489794 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
89489830 AGATAGCTTT
Statistics
Matches: 118, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 36 0.31
99 44 0.37
100 1 0.01
101 37 0.31
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (100 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTATGATCACGTGTGTAGTACTA
AGTGCAGGCTACTACGTGTACCAGATAATTGGTCA
Found at i:89492988 original size:71 final size:71
Alignment explanation
Indices: 89492872--89493012 Score: 273
Period size: 71 Copynumber: 2.0 Consensus size: 71
89492862 TTTTTTACTA
*
89492872 GGATTTTGTGTGAAGGTTCATCAAGAAGTGTTTTCTGGCTCAAATATATATGCTAAGGATGAATA
1 GGATTTTGTGTGAAGGTTCATCAAGAAATGTTTTCTGGCTCAAATATATATGCTAAGGATGAATA
89492937 AATGGC
66 AATGGC
89492943 GGATTTTGTGTGAAGGTTCATCAAGAAATGTTTTCTGGCTCAAATATATATGCTAAGGATGAATA
1 GGATTTTGTGTGAAGGTTCATCAAGAAATGTTTTCTGGCTCAAATATATATGCTAAGGATGAATA
89493008 AATGG
66 AATGG
89493013 GGTTAGCTTT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.34
Consensus pattern (71 bp):
GGATTTTGTGTGAAGGTTCATCAAGAAATGTTTTCTGGCTCAAATATATATGCTAAGGATGAATA
AATGGC
Found at i:89505035 original size:31 final size:31
Alignment explanation
Indices: 89504988--89505133 Score: 213
Period size: 31 Copynumber: 4.7 Consensus size: 31
89504978 TTAGTCTTGA
*
89504988 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
89505018 CATATCACTGGGTCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
** *
89505049 CATATCACTAAGTCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
**
89505080 CATATCACTAAGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
89505111 CATATCACTGGGCCGAAGTCTTT
1 CATATCACTGGGCCGAAGCCTTT
89505134 ACTGTAAATG
Statistics
Matches: 107, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
30 5 0.05
31 102 0.95
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:89505204 original size:42 final size:42
Alignment explanation
Indices: 89505158--89505248 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
89505148 GGCCCTTAGC
* * * *
89505158 CCCATTTCAATTTTACATGTAATGTCAATGGATGTATGCAAG
1 CCCATTTCAATATCACATATAATGTCAATGAATGTATGCAAG
89505200 CCCATTTCAATATCACATATAATGTCAATGAATGTATGCAAG
1 CCCATTTCAATATCACATATAATGTCAATGAATGTATGCAAG
89505242 CCCATTT
1 CCCATTT
89505249 AGGGAGACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (42 bp):
CCCATTTCAATATCACATATAATGTCAATGAATGTATGCAAG
Found at i:89505431 original size:25 final size:25
Alignment explanation
Indices: 89505399--89505465 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
89505389 TTTTAATAGT
*
89505399 TGGGGCAAAGCCCTTTTTGATAAAC
1 TGGGGCAAAGCCCTTTTCGATAAAC
*
89505424 TGGGGCAAAGCCCTTTTCGGTAAAC
1 TGGGGCAAAGCCCTTTTCGATAAAC
*
89505449 TGGGGCAGAGCCCTTTT
1 TGGGGCAAAGCCCTTTT
89505466 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (25 bp):
TGGGGCAAAGCCCTTTTCGATAAAC
Found at i:89506341 original size:26 final size:28
Alignment explanation
Indices: 89506297--89506348 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
89506287 TACAAGGGTA
89506297 TTACGGTCACTTTACCCTA-TAGGGGCT
1 TTACGGTCACTTTACCCTATTAGGGGCT
**
89506324 TTACGGTCTTTTTA-CCTATTAGGGG
1 TTACGGTCACTTTACCCTATTAGGGG
89506349 TATTTTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (28 bp):
TTACGGTCACTTTACCCTATTAGGGGCT
Found at i:89506423 original size:27 final size:27
Alignment explanation
Indices: 89506370--89506852 Score: 157
Period size: 27 Copynumber: 17.8 Consensus size: 27
89506360 TTTCATCCTA
* * * *
89506370 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
89506397 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* ** * *
89506424 CAATGGTATTTCT-ACAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTATAAA-C
* * *
89506453 CAAGGGTATTTCT-ATAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAC
* * * *
89506480 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * *
89506507 TGAGGGTATTTTGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
89506533 CTAGTGGTATTTTGGTAATTTTATAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* * * *
89506561 TAGGGGTATTTTGGTAATATTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * **
89506588 TAGGGGTATTTTGGTAATTCTATCCTA-
1 CAAGGGTATTTTGGTAATTTTAT-AAAC
* * * *
89506615 CAAGGGGTATTTTAGTAATTTCA-CAAT
1 CAA-GGGTATTTTGGTAATTTTATAAAC
* *****
89506642 CGAGGGTAAAACAGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
** *** * *
89506669 TGAGGGTAAAATGGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* **** * * **
89506696 CGAGGGTAAAACGATAATTCTATAAGT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * * **
89506723 CGAGGGTACTTTGATAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** **
89506750 CAAGGGTATTTCAGTAATTTTGCAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * * *
89506777 TGAGGGTATTTCGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
89506804 CGAGGATATTTGGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
** *
89506831 CGGGGGTACTTTGGTAATTTTA
1 CAAGGGTATTTTGGTAATTTTA
89506853 CAATTGGGGG
Statistics
Matches: 355, Mismatches: 91, Indels: 20
0.76 0.20 0.04
Matches are distributed among these distances:
26 19 0.05
27 288 0.81
28 33 0.09
29 15 0.04
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:89506542 original size:54 final size:54
Alignment explanation
Indices: 89506480--89506633 Score: 195
Period size: 54 Copynumber: 2.8 Consensus size: 54
89506470 TTTTGTAAAT
*
89506480 TAGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTTGGTAAT-TTCACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATATT-ACAAAC
* *
89506534 TAGTGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGGTAATATTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATATTACAAAC
* ** * *
89506588 TAGGGGTATTTTGGTAATTCTATCCTACAAGGGGTATTTTAGTAAT
1 TAGGGGTATTTTGGTAATTTTA-CAAACTAGGGGTATTTTGGTAAT
89506634 TTCACAATCG
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
54 65 0.75
55 22 0.25
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (54 bp):
TAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATATTACAAAC
Found at i:89506649 original size:81 final size:81
Alignment explanation
Indices: 89506481--89506647 Score: 194
Period size: 81 Copynumber: 2.0 Consensus size: 81
89506471 TTTGTAAATT
* * * *
89506481 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACTAGTGGTATTTT
1 AGGGGTATTTTGGTAATATTACAAATAGAGGGTATTTTGGTAATTTCACAAACAAGGGGTATTTT
* * * *
89506546 GGTAATTTTATAAACT
66 AGTAATTTCACAAACG
**
89506562 AGGGGTATTTTGGTAATATTACAAACTAG-GGGTATTTTGGTAA-TTCTATCCTACAAGGGGTAT
1 AGGGGTATTTTGGTAATATTACAAA-TAGAGGGTATTTTGGTAATTTC-A-CAAACAAGGGGTAT
*
89506625 TTTAGTAATTTCACAATCG
63 TTTAGTAATTTCACAAACG
89506644 AGGG
1 AGGG
89506648 TAAAACAGTA
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
80 3 0.04
81 39 0.54
82 30 0.42
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATATTACAAATAGAGGGTATTTTGGTAATTTCACAAACAAGGGGTATTTT
AGTAATTTCACAAACG
Found at i:89519532 original size:33 final size:32
Alignment explanation
Indices: 89519495--89519558 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 32
89519485 CTATAGGCCA
89519495 TACTGT-TATCTAAAAAGGAGCTAAGGCCCAGTT
1 TACTGTAT-TCTAAAAAGG-GCTAAGGCCCAGTT
* **
89519528 TACTGTATTCTGAAAAGGGCTTCGGCCCAGT
1 TACTGTATTCTAAAAAGGGCTAAGGCCCAGT
89519559 ACCCGCTGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 11 0.41
33 15 0.56
34 1 0.04
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (32 bp):
TACTGTATTCTAAAAAGGGCTAAGGCCCAGTT
Found at i:89524854 original size:29 final size:29
Alignment explanation
Indices: 89524805--89524941 Score: 161
Period size: 29 Copynumber: 4.8 Consensus size: 29
89524795 ATGCATATAA
* * *
89524805 CCCACTAGGCCCAA-TCTTATTCAAATGG
1 CCCATTAGGCCCAATTCATATTCATATGG
* *
89524833 TCCATCTA-GCCCAATTCATATTCTTATGG
1 CCCAT-TAGGCCCAATTCATATTCATATGG
*
89524862 CCCATTAGGCCCAATTCATATTCTTATGG
1 CCCATTAGGCCCAATTCATATTCATATGG
* **
89524891 CCCACTAGGCCCAATTCACCTTCATATGG
1 CCCATTAGGCCCAATTCATATTCATATGG
*
89524920 CCCATTAGGCCCAAATCATATT
1 CCCATTAGGCCCAATTCATATT
89524942 ATACTCATGC
Statistics
Matches: 92, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
28 11 0.12
29 81 0.88
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.30
Consensus pattern (29 bp):
CCCATTAGGCCCAATTCATATTCATATGG
Found at i:89525192 original size:24 final size:24
Alignment explanation
Indices: 89525155--89525216 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
89525145 CCATAGCCCA
*
89525155 ACTTTT-GGTTTTTC-GACATTTC-
1 ACTTTTCGGCTTTTCAG-CATTTCG
89525177 AGCTTTTCGGCTTTTCAGCATTTCG
1 A-CTTTTCGGCTTTTCAGCATTTCG
89525202 ACTTTTCGGCATTTT
1 ACTTTTCGGC-TTTT
89525217 GGTTTTTTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
22 1 0.03
23 5 0.15
24 22 0.65
25 6 0.18
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (24 bp):
ACTTTTCGGCTTTTCAGCATTTCG
Found at i:89525213 original size:16 final size:16
Alignment explanation
Indices: 89525165--89525215 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
89525155 ACTTTTGGTT
* *
89525165 TTTCGACATTTCAGCT
1 TTTCGACTTTTCAGCA
*
89525181 TTTCGGCTTTTCAGCA
1 TTTCGACTTTTCAGCA
*
89525197 TTTCGACTTTTCGGCA
1 TTTCGACTTTTCAGCA
89525213 TTT
1 TTT
89525216 TGGTTTTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.14, C:0.24, G:0.16, T:0.47
Consensus pattern (16 bp):
TTTCGACTTTTCAGCA
Found at i:89529475 original size:93 final size:93
Alignment explanation
Indices: 89529316--89529488 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
89529306 CGCCCATAAG
* * *
89529316 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
89529381 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * * * *
89529409 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCTCATTCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
89529474 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
89529489 CAAACATCCT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Done.