Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 194 of 356
Found at i:63305376 original size:61 final size:62
Alignment explanation
Indices: 63305281--63305459 Score: 270
Period size: 61 Copynumber: 2.9 Consensus size: 62
63305271 CTTGTCACTT
* * * *
63305281 GTAGCCGAAGCTACCACTATTCATTGATCAGGTAGCTGGAGCTACCATTTTTCACTGATCA-
1 GTAGCCGGAGCTACCACTTTTCACTGATCAGGTAGCTGGAGCTACCAATTTTCACTGATCAG
* *
63305342 GTAGCCGGAGCTACCACTTTTCACTGATCAGGTAGCCGGAACTACCAATTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAGGTAGCTGGAGCTACCAATTTTCACTGATCAG
* * *
63305404 GTAGCCGGAACTACCACTTTTCACTGATCAGGTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGGAGCTACCACTTTTCACTGATCAGGTAGCTGGAGCTACCAATTTTCACT
63305460 TGTCATTTGT
Statistics
Matches: 106, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
61 55 0.52
62 51 0.48
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (62 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAGGTAGCTGGAGCTACCAATTTTCACTGATCAG
Found at i:63305539 original size:50 final size:51
Alignment explanation
Indices: 63305435--63305563 Score: 181
Period size: 50 Copynumber: 2.5 Consensus size: 51
63305425 CACTGATCAG
* * *
63305435 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
* *
63305486 GTAGTCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
*
63305536 GTAGCCGAAGCTGTCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
63305564 TGCCATGGTC
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
50 43 0.62
51 26 0.38
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:63307722 original size:88 final size:88
Alignment explanation
Indices: 63307569--63307940 Score: 482
Period size: 88 Copynumber: 4.2 Consensus size: 88
63307559 TTACAACAGC
* * *
63307569 AGTGGAGCAGATTGAAGACGGTGAGCCTTAACGCCCTAAGCAGTAAGGCAACAGGCTGGAAATTA
1 AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAAGGCAACAGGCTGGAAATTA
63307634 CAGATCTTATC-CCCTTAAGCAGT
66 CAGATCTTATCTCCC-TAAGCAGT
* *
63307657 AGTGGAGCAGATAGAAGACAGTGAGCCTTAACCCCCTAAGCAATAAGGCAACAGGCT-GAAGATT
1 AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAAGGCAACAGGCTGGAA-ATT
* *
63307721 ACAGATCTTATCTCCCTAAGAAAAT
65 ACAGATCTTATCTCCCTAAG-CAGT
* * * *
63307746 AGTGGAGTAGATCGAAGACAGTGAGCCTTAACCCCCCAAGTAGTAGGGCAACAGGCT-GAAAGTT
1 AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAAGGCAACAGGCTGGAAA-TT
* **
63307810 ACAGATCTGATCTCCCTAATTAGT
65 ACAGATCTTATCTCCCTAAGCAGT
* * * * * *
63307834 AGTGGAGCAGATCGAAGACAATAAACTTTAACCCCCTAAGTAGT-GGGACAACAGGCTGGAAATT
1 AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAAGG-CAACAGGCTGGAAATT
*
63307898 ACAGATCCTATCTCCCTAAGCAGT
65 ACAGATCTTATCTCCCTAAGCAGT
63307922 AGTGGAGCAGATCGAAGAC
1 AGTGGAGCAGATCGAAGAC
63307941 GGTAAGCAGT
Statistics
Matches: 252, Mismatches: 26, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
87 6 0.02
88 163 0.65
89 83 0.33
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (88 bp):
AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAAGGCAACAGGCTGGAAATTA
CAGATCTTATCTCCCTAAGCAGT
Found at i:63307867 original size:177 final size:176
Alignment explanation
Indices: 63307569--63307940 Score: 482
Period size: 177 Copynumber: 2.1 Consensus size: 176
63307559 TTACAACAGC
* * * *
63307569 AGTGGAGCAGATTGAAGACGGTGAGCCTTAACGCCCTAAGCAGTAAGGCAACAGGCTGGAAATTA
1 AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCCAAGCAGTAAGGCAACAGGCTGGAAATTA
* * * *
63307634 CAGATCTTATCCCCTTAAGCAGTAGTGGAGCAGATAGAAGACAGTGAGCCTTAACCCCCTAAGCA
66 CAGATCTGATCCCCTTAAGCAGTAGTGGAGCAGATAGAAGACAATAAACCTTAACCCCCTAAGCA
*
63307699 ATAAGG-CAACAGGCT-GAAGATTACAGATCTTATCTCCCTAAGAAAAT
131 AT-AGGACAACAGGCTGGAA-ATTACAGATCCTATCTCCCTAAG-AAAT
* * *
63307746 AGTGGAGTAGATCGAAGACAGTGAGCCTTAACCCCCCAAGTAGTAGGGCAACAGGCT-GAAAGTT
1 AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCCAAGCAGTAAGGCAACAGGCTGGAAA-TT
** * *
63307810 ACAGATCTGATCTCCC-TAATTAGTAGTGGAGCAGATCGAAGACAATAAACTTTAACCCCCTAAG
65 ACAGATCTGATC-CCCTTAAGCAGTAGTGGAGCAGATAGAAGACAATAAACCTTAACCCCCTAAG
* * * * *
63307874 TAGTGGGACAACAGGCTGGAAATTACAGATCCTATCTCCCTAAGCAGT
129 CAATAGGACAACAGGCTGGAAATTACAGATCCTATCTCCCTAAGAAAT
63307922 AGTGGAGCAGATCGAAGAC
1 AGTGGAGCAGATCGAAGAC
63307941 GGTAAGCAGT
Statistics
Matches: 169, Mismatches: 22, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
176 26 0.15
177 137 0.81
178 6 0.04
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (176 bp):
AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCCAAGCAGTAAGGCAACAGGCTGGAAATTA
CAGATCTGATCCCCTTAAGCAGTAGTGGAGCAGATAGAAGACAATAAACCTTAACCCCCTAAGCA
ATAGGACAACAGGCTGGAAATTACAGATCCTATCTCCCTAAGAAAT
Found at i:63309559 original size:3 final size:3
Alignment explanation
Indices: 63309535--63309701 Score: 97
Period size: 3 Copynumber: 54.7 Consensus size: 3
63309525 TGGATTGCTA
* * * * *
63309535 ATT AAT ATT ATC ATT GTT ATT ATT ATT CTT ACT ATT ATAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
* * * * * *
63309581 GTT ATT ATT CTT ACT ATT ATAT GTT ATT ATT ATT ATCG A-T ACT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT AT-T ATT ATT ATT
* * * * *
63309627 TTT ATT ACT ATT ATT -TAT ATAC ATT ATT ATT ATT ACT ATT ATT TTT
1 ATT ATT ATT ATT ATT AT-T AT-T ATT ATT ATT ATT ATT ATT ATT ATT
* *
63309673 CATT ATT ATT ATT -TT ACT ATT ATT TTT AT
1 -ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
63309702 ATACTATAGT
Statistics
Matches: 121, Mismatches: 35, Indels: 16
0.70 0.20 0.09
Matches are distributed among these distances:
2 4 0.03
3 105 0.87
4 12 0.10
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:63309593 original size:28 final size:28
Alignment explanation
Indices: 63309551--63309696 Score: 119
Period size: 28 Copynumber: 5.4 Consensus size: 28
63309541 ATTATCATTG
63309551 TTATTATTATTCTTACTATTATATATTA
1 TTATTATTATTCTTACTATTATATATTA
* *
63309579 TTGTTATTATTCTTACTATTATATGTTA
1 TTATTATTATTCTTACTATTATATATTA
* *
63309607 TTATTATTA-TCGATACTATT-TTTATTA
1 TTATTATTATTC-TTACTATTATATATTA
* *
63309634 CTATTATT-TAT-ATAC-ATTAT-TATTA
1 TTATTATTAT-TCTTACTATTATATATTA
* * *
63309659 TTACTATTATTTTTCATTATTAT-TATT-
1 TTATTATTATTCTT-ACTATTATATATTA
*
63309686 TTACTATTATT
1 TTATTATTATT
63309697 TTTATATACT
Statistics
Matches: 99, Mismatches: 11, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
25 15 0.15
26 7 0.07
27 26 0.26
28 51 0.52
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (28 bp):
TTATTATTATTCTTACTATTATATATTA
Found at i:63309612 original size:68 final size:68
Alignment explanation
Indices: 63309540--63309696 Score: 176
Period size: 68 Copynumber: 2.3 Consensus size: 68
63309530 TGCTAATTAA
* * * ** *
63309540 TATTATCATTGTTATTATTATTCTTACTATTATATAT-TATTGTTATTATTCTTACTATTATATG
1 TATTATTATTGTTACTATTATTATTACTATTATATATATA-CATTATTATTATTACTATTAT-TG
63309604 TT-AT
64 TTCAT
* * * * *
63309608 TATTATTATCGATACTATTTTTATTACTATTATTTATATACATTATTATTATTACTATTATTTTT
1 TATTATTATTGTTACTATTATTATTACTATTATATATATACATTATTATTATTACTATTATTGTT
63309673 CAT
66 CAT
63309676 TATTATTATT-TTACTATTATT
1 TATTATTATTGTTACTATTATT
63309697 TTTATATACT
Statistics
Matches: 73, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
67 12 0.16
68 59 0.81
69 2 0.03
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.61
Consensus pattern (68 bp):
TATTATTATTGTTACTATTATTATTACTATTATATATATACATTATTATTATTACTATTATTGTT
CAT
Found at i:63309652 original size:13 final size:13
Alignment explanation
Indices: 63309620--63309697 Score: 72
Period size: 13 Copynumber: 5.8 Consensus size: 13
63309610 TTATTATCGA
63309620 TACTATT-TTTAT
1 TACTATTATTTAT
63309632 TACTATTATTTAT
1 TACTATTATTTAT
63309645 ATAC-ATTATTATTAT
1 -TACTATTA-T-TTAT
63309660 TACTATTATTT-T
1 TACTATTATTTAT
* *
63309672 TCATTATTATTATTT
1 T-ACTATTATT-TAT
63309687 TACTATTATTT
1 TACTATTATTT
63309698 TTATATACTA
Statistics
Matches: 56, Mismatches: 2, Indels: 15
0.77 0.03 0.21
Matches are distributed among these distances:
12 9 0.16
13 20 0.36
14 17 0.30
15 10 0.18
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (13 bp):
TACTATTATTTAT
Found at i:63310959 original size:26 final size:26
Alignment explanation
Indices: 63310929--63310987 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
63310919 CAAAAATCAT
* *
63310929 ATTAAGAGAAATTATTTTATTAAAAG
1 ATTAAAAGAAACTATTTTATTAAAAG
**
63310955 ATTAAAATTAACTATTTTATTAAAAG
1 ATTAAAAGAAACTATTTTATTAAAAG
*
63310981 ATCAAAA
1 ATTAAAA
63310988 TTTTTAGGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (26 bp):
ATTAAAAGAAACTATTTTATTAAAAG
Found at i:63315055 original size:12 final size:12
Alignment explanation
Indices: 63315027--63315065 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
63315017 AGATTTAAAT
63315027 AATAAATATATCAA
1 AATAAATAT-TC-A
*
63315041 AATTAATATTCA
1 AATAAATATTCA
63315053 AATAAATATTCA
1 AATAAATATTCA
63315065 A
1 A
63315066 TCTGTTGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 13 0.57
13 2 0.09
14 8 0.35
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (12 bp):
AATAAATATTCA
Found at i:63317498 original size:13 final size:14
Alignment explanation
Indices: 63317475--63317503 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
63317465 AAGTTACAGT
63317475 AAGAGAAAAAAGAA
1 AAGAGAAAAAAGAA
63317489 AAGA-AAAAAAGAA
1 AAGAGAAAAAAGAA
63317502 AA
1 AA
63317504 CAATGGGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAGAGAAAAAAGAA
Found at i:63325559 original size:2 final size:2
Alignment explanation
Indices: 63325552--63325578 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
63325542 AATCTTAAGG
63325552 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
63325579 CACAAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:63340803 original size:3 final size:3
Alignment explanation
Indices: 63340795--63340847 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
63340785 TTTCTAAGTT
63340795 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
63340843 TTC TT
1 TTC TT
63340848 TGTTTGTCAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:63341475 original size:25 final size:24
Alignment explanation
Indices: 63341429--63341476 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
63341419 AAGTTATAAA
63341429 TAAAAAATATCTCTAGAAAATTTC
1 TAAAAAATATCTCTAGAAAATTTC
* * *
63341453 TAAAATAATTTCTTTAGAGAATTT
1 TAAAA-AATATCTCTAGAAAATTT
63341477 TCTCTCTACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (24 bp):
TAAAAAATATCTCTAGAAAATTTC
Found at i:63342523 original size:45 final size:45
Alignment explanation
Indices: 63342459--63342550 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
63342449 GGATTCAATC
63342459 CACATGAAGTATCATGATTGAAAACTCCCTATTGTATACTCTTTA
1 CACATGAAGTATCATGATTGAAAACTCCCTATTGTATACTCTTTA
63342504 CACATGAAGTATCATGATTGAAAACTCCCTATTGTATACTCTTTA
1 CACATGAAGTATCATGATTGAAAACTCCCTATTGTATACTCTTTA
63342549 CA
1 CA
63342551 AAAGCAATTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.35
Consensus pattern (45 bp):
CACATGAAGTATCATGATTGAAAACTCCCTATTGTATACTCTTTA
Found at i:63347813 original size:22 final size:20
Alignment explanation
Indices: 63347781--63347821 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
63347771 AAATGATCTC
63347781 TTAAATATAAGAACATGAAT
1 TTAAATATAAGAACATGAAT
*
63347801 TTAAAGTATTAAGAGCATGAA
1 TTAAA-TA-TAAGAACATGAA
63347822 AGTCACTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.51, C:0.05, G:0.15, T:0.29
Consensus pattern (20 bp):
TTAAATATAAGAACATGAAT
Found at i:63347866 original size:26 final size:26
Alignment explanation
Indices: 63347832--63347883 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
63347822 AGTCACTATT
63347832 TTACATCAAATAATCATCTAAAAATA
1 TTACATCAAATAATCATCTAAAAATA
63347858 TTACATCAAATAATCATCTAAAAATA
1 TTACATCAAATAATCATCTAAAAATA
63347884 CTTTAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (26 bp):
TTACATCAAATAATCATCTAAAAATA
Found at i:63354902 original size:31 final size:31
Alignment explanation
Indices: 63354866--63354924 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
63354856 TCGTGCTTTT
63354866 TAGGATTATGAGAATTGATTTTAATGTATTG
1 TAGGATTATGAGAATTGATTTTAATGTATTG
63354897 TAGGATTATGAGAATTGATTTTAATGTA
1 TAGGATTATGAGAATTGATTTTAATGTA
63354925 ATGTTAATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (31 bp):
TAGGATTATGAGAATTGATTTTAATGTATTG
Found at i:63366876 original size:13 final size:13
Alignment explanation
Indices: 63366858--63366884 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
63366848 ATTAATTATT
63366858 ATAAAAAATAAAA
1 ATAAAAAATAAAA
63366871 ATAAAAAATAAAA
1 ATAAAAAATAAAA
63366884 A
1 A
63366885 AACATGGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
ATAAAAAATAAAA
Found at i:63367493 original size:24 final size:25
Alignment explanation
Indices: 63367465--63367511 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
63367455 ATATTCGTAA
*
63367465 TTAAATTAAAA-TTAATCTTATTCT
1 TTAAATTAAAATTTAATATTATTCT
63367489 TTAAATTAAAATTTAATATTATT
1 TTAAATTAAAATTTAATATTATT
63367512 TTGATAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (25 bp):
TTAAATTAAAATTTAATATTATTCT
Found at i:63376727 original size:22 final size:22
Alignment explanation
Indices: 63376702--63376749 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
63376692 GTGTAAGGTG
63376702 ATAATA-ATATACAAATGAAATA
1 ATAATATATATACAAATGAAA-A
* *
63376724 ATAATATCTATACAATTGAAAA
1 ATAATATATATACAAATGAAAA
63376746 ATAA
1 ATAA
63376750 ATAAATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.29
Consensus pattern (22 bp):
ATAATATATATACAAATGAAAA
Found at i:63383138 original size:12 final size:12
Alignment explanation
Indices: 63383121--63383145 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63383111 CCCAACTCTC
63383121 CCTAAAATCACT
1 CCTAAAATCACT
63383133 CCTAAAATCACT
1 CCTAAAATCACT
63383145 C
1 C
63383146 AACCAAATCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.24
Consensus pattern (12 bp):
CCTAAAATCACT
Found at i:63385143 original size:24 final size:24
Alignment explanation
Indices: 63385116--63385183 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
63385106 TACAAAGTAG
63385116 TTTAAACTACATGATATATGAA-AA
1 TTTAAACTACATGATATAT-AAGAA
* * *
63385140 TTTAAAGTCCATGATATGTAAGAA
1 TTTAAACTACATGATATATAAGAA
* * *
63385164 TTTAAAATAAATAATATATA
1 TTTAAACTACATGATATATA
63385184 CATAAAAACG
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
23 2 0.06
24 33 0.94
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (24 bp):
TTTAAACTACATGATATATAAGAA
Found at i:63387146 original size:25 final size:27
Alignment explanation
Indices: 63387105--63387154 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
63387095 TAGTCCTAAT
63387105 TAGTTTAAGATTAAATTGAAAATAAAC
1 TAGTTTAAGATTAAATTGAAAATAAAC
*
63387132 TAGTTT-AG-TTAAATTTAAAATAA
1 TAGTTTAAGATTAAATTGAAAATAA
63387155 TTGAAGAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.64
26 2 0.09
27 6 0.27
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (27 bp):
TAGTTTAAGATTAAATTGAAAATAAAC
Found at i:63398787 original size:35 final size:34
Alignment explanation
Indices: 63398741--63398877 Score: 132
Period size: 35 Copynumber: 3.9 Consensus size: 34
63398731 GTCAAATGCG
* *
63398741 ACCTTACAAAGGTTGAGATAGACCTTTTTAAGGCA
1 ACCTTAAAAAGGTTGAGATAGACC-GTTTAAGGCA
* * *
63398776 ACCTTAAAAAGGTT-AGGATAAACCCGTATAAGTCA
1 ACCTTAAAAAGGTTGA-GATAGA-CCGTTTAAGGCA
* * *
63398811 ACCTTAAAAATGTTGGGATAGACACGTCTAAGGCA
1 ACCTTAAAAAGGTTGAGATAGAC-CGTTTAAGGCA
* * *
63398846 ACCTTAAAAATGTTGGGATAGACCATTTAAGG
1 ACCTTAAAAAGGTTGAGATAGACCGTTTAAGG
63398878 GAAAAAAAAT
Statistics
Matches: 86, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
34 9 0.10
35 75 0.87
36 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (34 bp):
ACCTTAAAAAGGTTGAGATAGACCGTTTAAGGCA
Found at i:63402536 original size:15 final size:15
Alignment explanation
Indices: 63402516--63402554 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
63402506 GAGAAACCCG
63402516 GAATAAAGAGATCCA
1 GAATAAAGAGATCCA
63402531 GAATAAAGAGATCCA
1 GAATAAAGAGATCCA
*
63402546 GGATAAAGA
1 GAATAAAGA
63402555 AACCCAAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.54, C:0.10, G:0.23, T:0.13
Consensus pattern (15 bp):
GAATAAAGAGATCCA
Found at i:63402565 original size:15 final size:15
Alignment explanation
Indices: 63402488--63402565 Score: 52
Period size: 15 Copynumber: 5.2 Consensus size: 15
63402478 AGAAAACCGA
*
63402488 ATAAAGAAATACAAG
1 ATAAAGAAATCCAAG
* **
63402503 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
*
63402517 AATAAAGAGATCC-AG
1 -ATAAAGAAATCCAAG
* *
63402532 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
63402548 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
63402563 ATA
1 ATA
63402566 CAATACTATG
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
14 2 0.04
15 44 0.90
16 3 0.06
ACGTcount: A:0.55, C:0.14, G:0.19, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:63406833 original size:30 final size:30
Alignment explanation
Indices: 63406758--63406846 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 30
63406748 CAAAGATAAT
*
63406758 AAGAAAACC-GAATAAAGAAATACAAGATA
1 AAGAAACCCGGAATAAAGAAATACAAGATA
* *
63406787 GAGAAACCCGGAATAAAGAAAT-CCAGAATA
1 AAGAAACCCGGAATAAAGAAATACAAG-ATA
* **
63406817 AAGAGACCCAGG-ATAAAGAAACCCAAGATA
1 AAGAAACCC-GGAATAAAGAAATACAAGATA
63406847 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
29 10 0.20
30 34 0.69
31 5 0.10
ACGTcount: A:0.57, C:0.16, G:0.18, T:0.09
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATACAAGATA
Found at i:63406841 original size:15 final size:15
Alignment explanation
Indices: 63406769--63406846 Score: 68
Period size: 15 Copynumber: 5.2 Consensus size: 15
63406759 AGAAAACCGA
** *
63406769 ATAAAGAAATACAAG
1 ATAAAGAAACCCAGG
*
63406784 ATAGAGAAACCC-GG
1 ATAAAGAAACCCAGG
* *
63406798 AATAAAGAAATCCAGA
1 -ATAAAGAAACCCAGG
*
63406814 ATAAAGAGACCCAGG
1 ATAAAGAAACCCAGG
*
63406829 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAGG
63406844 ATA
1 ATA
63406847 CGATACTATG
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
14 1 0.02
15 47 0.96
16 1 0.02
ACGTcount: A:0.56, C:0.15, G:0.18, T:0.10
Consensus pattern (15 bp):
ATAAAGAAACCCAGG
Found at i:63414199 original size:40 final size:39
Alignment explanation
Indices: 63414136--63414221 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 39
63414126 TAACGACTTA
**
63414136 TCGGCTAAAATGACACTTAGTGTGCGGTTTGAAATAGCT
1 TCGGCTAAAATGACACTTAGTGTGCAATTTGAAATAGCT
* * * *
63414175 TCGGTTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGACACTTAGTGTGCAATTTGAAATAGCT
63414215 TCGGCTA
1 TCGGCTA
63414222 TATATATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 9 0.23
40 30 0.77
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (39 bp):
TCGGCTAAAATGACACTTAGTGTGCAATTTGAAATAGCT
Found at i:63414304 original size:28 final size:29
Alignment explanation
Indices: 63414236--63414306 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 29
63414226 TATATAAATG
* * *
63414236 GCACTTAGTGTGC-AAAGTATCGAGAATG
1 GCACTTAGTGTGCGAAAGCATCCAGAATA
*
63414264 GCACTTAATGTGCGAAA-CATCCAGAATA
1 GCACTTAGTGTGCGAAAGCATCCAGAATA
*
63414292 GCACTTAGCGTGCGA
1 GCACTTAGTGTGCGA
63414307 GGTATCGAGT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
28 33 0.92
29 3 0.08
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (29 bp):
GCACTTAGTGTGCGAAAGCATCCAGAATA
Found at i:63419658 original size:129 final size:126
Alignment explanation
Indices: 63419470--63419799 Score: 399
Period size: 129 Copynumber: 2.6 Consensus size: 126
63419460 AAAATCCCTT
* * *
63419470 AAAACGAAGGCAATGTTTGATGTTTGGAAATTCGGAAAATTGTGTCCTACCGTGCTGGGTTTCGA
1 AAAAC-AAGGCAATGTTTGATGTTTGGAAATTCGG-GAATCGTGCCCTACCGTGCTGGGTTTCGA
* * * * * *
63419535 TTTCCCGTTTGTTCAAAATAATCGAACCTTCCTTTAGAATTTCATTGGTGTTTTTTCTAAATTCC
64 TTTCCCGTTTGTTCAAAATAATCAAACATTCCTTTAGAATTCCATTCGT-ATTCTT-TAAATTCC
* * * *
63419600 AAAACAAGGCAATGTTTGATGCTTGGAAATTCAGGGAACCGTGCCCTATCGTGTTGGGTTTCGAT
1 AAAACAAGGCAATGTTTGATGTTTGGAAATTC-GGGAATCGTGCCCTACCGTGCTGGGTTTCGAT
* * *
63419665 TTCTCGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTCCATTCGTATTCTTTAAATTCT
65 TTCCCGTTTGTTCAAAATAATCAAACATTCCTTTAGAATTCCATTCGTATTCTTTAAATTCC
* ** * * *
63419727 AAAACGAGGCAATGTTCAATGTTTGGAAGTTCGAGGAATCGTGCTCTACCGTGCTGGGTTTCGGT
1 AAAACAAGGCAATGTTTGATGTTTGGAAATTCG-GGAATCGTGCCCTACCGTGCTGGGTTTCGAT
*
63419792 TTTCCGTT
65 TTCCCGTT
63419800 GGACTAAATA
Statistics
Matches: 170, Mismatches: 28, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
126 1 0.01
127 66 0.39
128 4 0.02
129 92 0.54
130 7 0.04
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (126 bp):
AAAACAAGGCAATGTTTGATGTTTGGAAATTCGGGAATCGTGCCCTACCGTGCTGGGTTTCGATT
TCCCGTTTGTTCAAAATAATCAAACATTCCTTTAGAATTCCATTCGTATTCTTTAAATTCC
Found at i:63424936 original size:17 final size:17
Alignment explanation
Indices: 63424914--63424946 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
63424904 TTGTATAAAA
63424914 TTTCTT-TTATTGTTAAT
1 TTTCTTATTATT-TTAAT
63424931 TTTCTTATTATTTTAA
1 TTTCTTATTATTTTAA
63424947 AGGCATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTCTTATTATTTTAAT
Found at i:63424957 original size:30 final size:30
Alignment explanation
Indices: 63424923--63424985 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
63424913 ATTTCTTTTA
63424923 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
*
63424953 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
63424983 TTG
1 TTG
63424986 CTTCTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:63425123 original size:10 final size:11
Alignment explanation
Indices: 63425107--63425139 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
63425097 TATATATATG
63425107 TAAAAATAATA
1 TAAAAATAATA
63425118 -AAAAATAATA
1 TAAAAATAATA
63425128 TAAAAATTAATA
1 TAAAAA-TAATA
63425140 CGGGCGGGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 5 0.25
12 5 0.25
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:63426680 original size:33 final size:32
Alignment explanation
Indices: 63426605--63426680 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
63426595 ATTTATATGC
*
63426605 GTAAGACCATAGATGGGTTATGACATCCTGAA
1 GTAAGACCATAGATGGGTTATGACATCATGAA
* * *
63426637 GATAATACCATAGTTGGGTTATGGCA-CTATGAA
1 G-TAAGACCATAGATGGGTTATGACATC-ATGAA
63426670 TGTAAGACCAT
1 -GTAAGACCAT
63426681 GGTAGGGCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
32 2 0.06
33 33 0.92
34 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (32 bp):
GTAAGACCATAGATGGGTTATGACATCATGAA
Found at i:63430233 original size:23 final size:23
Alignment explanation
Indices: 63430180--63430292 Score: 99
Period size: 23 Copynumber: 4.9 Consensus size: 23
63430170 AAGCTCTTCA
* *
63430180 TGAGCTAATAAACAGTAGGCTCTAT
1 TGAGCTGA-AAACAGTAAGCTC-AT
*
63430205 TGAGCTGAAAACGGTAAGCTCAT
1 TGAGCTGAAAACAGTAAGCTCAT
*
63430228 TGAGCTG--AACAGTAAGCTCTTT
1 TGAGCTGAAAACAGTAAGCTC-AT
* * *
63430250 TGAGCTG-AATCGGTAAGCTCCAA
1 TGAGCTGAAAACAGTAAGCT-CAT
63430273 TGAGCT-AAAACAGTAAGCTC
1 TGAGCTGAAAACAGTAAGCTC
63430293 TTACTAGCTA
Statistics
Matches: 73, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
21 11 0.15
22 9 0.12
23 34 0.47
24 12 0.16
25 7 0.10
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (23 bp):
TGAGCTGAAAACAGTAAGCTCAT
Found at i:63430247 original size:45 final size:46
Alignment explanation
Indices: 63430166--63430293 Score: 145
Period size: 45 Copynumber: 2.7 Consensus size: 46
63430156 AAGACATGGT
*
63430166 CGGTAAGCTCTTC-ATGAGCTAATAAACAGTAGGCTCTATTGAGCTGAAAA
1 CGGTAAGCTC--CAATGAGCT-A-AAACAGTAAGCTCTATTGAGCTG-AAA
* * * *
63430216 CGGTAAGCT-CATTGAGCT-GAACAGTAAGCTCTTTTGAGCTGAAT
1 CGGTAAGCTCCAATGAGCTAAAACAGTAAGCTCTATTGAGCTGAAA
63430260 CGGTAAGCTCCAATGAGCTAAAACAGTAAGCTCT
1 CGGTAAGCTCCAATGAGCTAAAACAGTAAGCTCT
63430294 TACTAGCTAT
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
44 11 0.16
45 28 0.41
46 13 0.19
47 1 0.01
48 6 0.09
50 9 0.13
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (46 bp):
CGGTAAGCTCCAATGAGCTAAAACAGTAAGCTCTATTGAGCTGAAA
Found at i:63431016 original size:26 final size:26
Alignment explanation
Indices: 63430979--63431087 Score: 200
Period size: 26 Copynumber: 4.2 Consensus size: 26
63430969 TGATACAAAT
63430979 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
63431005 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
63431031 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
63431057 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
63431083 TGATA
1 TGATA
63431088 GGAATTTCAT
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:63432839 original size:21 final size:21
Alignment explanation
Indices: 63432813--63432861 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
63432803 TATTCCCCAC
63432813 GTGGAGTGTAG-GGCTGGTAGG
1 GTGGAGTGTAGTGGCTGGT-GG
*
63432834 GTGGAGTGTAGTGGTTGGTGG
1 GTGGAGTGTAGTGGCTGGTGG
*
63432855 GTTGAGT
1 GTGGAGT
63432862 AGTCTCCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.12, C:0.02, G:0.55, T:0.31
Consensus pattern (21 bp):
GTGGAGTGTAGTGGCTGGTGG
Found at i:63440170 original size:24 final size:24
Alignment explanation
Indices: 63440138--63440189 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
63440128 AATCAAAGTC
* *
63440138 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
63440162 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
63440186 AAAT
1 AAAT
63440190 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:63441758 original size:22 final size:23
Alignment explanation
Indices: 63441733--63441792 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
63441723 TGGACTGAAT
63441733 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
63441755 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
63441777 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
63441793 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:63441760 original size:4 final size:4
Alignment explanation
Indices: 63441742--63441775 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
63441732 TATAAAAATT
63441742 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
63441776 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:63443181 original size:23 final size:22
Alignment explanation
Indices: 63443130--63443181 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
63443120 CCTCGTCTTT
*
63443130 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
63443152 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
63443175 TTCTTTT
1 TTCTTTT
63443182 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:63443196 original size:18 final size:18
Alignment explanation
Indices: 63443175--63443213 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
63443165 TTTCTTCAAC
* *
63443175 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
63443193 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
63443211 TTC
1 TTC
63443214 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:63445572 original size:22 final size:23
Alignment explanation
Indices: 63445547--63445606 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
63445537 TGGACTGAAT
63445547 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
63445569 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
63445591 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
63445607 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:63445574 original size:4 final size:4
Alignment explanation
Indices: 63445556--63445589 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
63445546 TATAAAAATT
63445556 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
63445590 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:63446102 original size:39 final size:39
Alignment explanation
Indices: 63446059--63446186 Score: 184
Period size: 39 Copynumber: 3.3 Consensus size: 39
63446049 GGTCTTTAAC
** *
63446059 CCAGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCAGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
63446098 CCAGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCAGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
63446137 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCAGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
63446176 CCGGATATTTT
1 CCAGATATTTT
63446187 CAATCTCATA
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (39 bp):
CCAGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:63454299 original size:39 final size:39
Alignment explanation
Indices: 63454256--63454380 Score: 187
Period size: 39 Copynumber: 3.2 Consensus size: 39
63454246 CTTTAACCCA
** *
63454256 GATATTTTTCCAGCACGTAGCATGCGGACCTCAAGTCCG
1 GATATTTTTCCAGCATATAGCATGCGGACCTCATGTCCG
* * *
63454295 GATATATTTCTAGCATATAGCATGCGGATCTCATGTCCG
1 GATATTTTTCCAGCATATAGCATGCGGACCTCATGTCCG
*
63454334 GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
1 GATATTTTTCCAGCATATAGCATGCGGACCTCATGTCCG
63454373 GATATTTT
1 GATATTTT
63454381 CAATCTCATA
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (39 bp):
GATATTTTTCCAGCATATAGCATGCGGACCTCATGTCCG
Found at i:63458000 original size:21 final size:21
Alignment explanation
Indices: 63457976--63458114 Score: 61
Period size: 21 Copynumber: 6.3 Consensus size: 21
63457966 TCTATAGTCG
63457976 TAAATCATAAACTATAAACCT
1 TAAATCATAAACTATAAACCT
* *
63457997 TAAACCCTAAA-TATTAAACCT
1 TAAATCATAAACTA-TAAACCT
* * * *
63458018 TGAATCCTAAACCATAATACCC
1 TAAATCATAAACTATAA-ACCT
63458040 TAAA-CTATAAACAGTACTAAACCTT
1 TAAATC-ATAAAC--TA-TAAACC-T
* * **
63458065 TAAACCCTTAAA-TATAGATTCT
1 TAAA-TCATAAACTATA-AACCT
*
63458087 TAAATCATAAAACTGTAAACC-
1 TAAATCAT-AAACTATAAACCT
63458108 TAAATCA
1 TAAATCA
63458115 GTAGACCTTA
Statistics
Matches: 87, Mismatches: 18, Indels: 26
0.66 0.14 0.20
Matches are distributed among these distances:
20 2 0.02
21 38 0.44
22 24 0.28
23 7 0.08
24 4 0.05
25 7 0.08
26 4 0.05
27 1 0.01
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.28
Consensus pattern (21 bp):
TAAATCATAAACTATAAACCT
Found at i:63458171 original size:21 final size:21
Alignment explanation
Indices: 63458137--63458193 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
63458127 TTATAAAACG
* *
63458137 TCTTAAAACTATAAATCCTAAA
1 TCTT-AAACCATAAACCCTAAA
63458159 TCTTAAACCATAAACCCTAAA
1 TCTTAAACCATAAACCCTAAA
**
63458180 TCCAAAACCATAAA
1 TCTTAAACCATAAA
63458194 ACCTTAAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.25
Consensus pattern (21 bp):
TCTTAAACCATAAACCCTAAA
Found at i:63462540 original size:19 final size:19
Alignment explanation
Indices: 63462516--63462615 Score: 75
Period size: 19 Copynumber: 5.3 Consensus size: 19
63462506 CAATCTTATT
63462516 TTAATTAATATAATTTGGA
1 TTAATTAATATAATTTGGA
* *
63462535 TTAATTTATTTAA-TT--A
1 TTAATTAATATAATTTGGA
* *
63462551 TTTACTTAATATAAATTGGA
1 -TTAATTAATATAATTTGGA
* *
63462571 TTAATTTATTTAAATATT--A
1 TTAATTAATAT-AAT-TTGGA
63462590 TTTAATTAATATAATTTGGA
1 -TTAATTAATATAATTTGGA
63462610 TTAATT
1 TTAATT
63462616 TATTTAAATA
Statistics
Matches: 61, Mismatches: 11, Indels: 18
0.68 0.12 0.20
Matches are distributed among these distances:
16 1 0.02
17 10 0.16
18 6 0.10
19 29 0.48
20 13 0.21
21 2 0.03
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (19 bp):
TTAATTAATATAATTTGGA
Found at i:63462597 original size:24 final size:23
Alignment explanation
Indices: 63462535--63462599 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 23
63462525 ATAATTTGGA
63462535 TTAAT-TTATTTAATT-ATTTAC
1 TTAATATTATTTAATTAATTTAC
* ** *
63462556 TTAATATAAATTGGATTAATTTAT
1 TTAATAT-TATTTAATTAATTTAC
63462580 TTAAATATTATTTAATTAAT
1 TT-AATATTATTTAATTAAT
63462600 ATAATTTGGA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
21 5 0.15
22 1 0.03
23 6 0.18
24 16 0.48
25 5 0.15
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (23 bp):
TTAATATTATTTAATTAATTTAC
Found at i:63462601 original size:39 final size:39
Alignment explanation
Indices: 63462515--63462645 Score: 207
Period size: 39 Copynumber: 3.4 Consensus size: 39
63462505 TCAATCTTAT
63462515 TTTAATTAATATAATTTGGATTAATTTATTT--A-ATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
* *
63462551 TTTACTTAATATAAATTGGATTAATTTATTTAAATATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
63462590 TTTAATTAATATAATTTGGATTAATTTATTTAAATATT-
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
63462628 TTTAAATTAATATAATTT
1 TTT-AATTAATATAATTT
63462646 TTATAAATAT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
36 29 0.33
38 4 0.05
39 54 0.62
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (39 bp):
TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
Found at i:63462632 original size:19 final size:20
Alignment explanation
Indices: 63462571--63462632 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 20
63462561 ATAAATTGGA
*
63462571 TTAATTTATTTAAATATTAT
1 TTAATTTATTTAAATATTGT
* * *
63462591 TTAATTAATAT-AAT-TTGGA
1 TTAATTTATTTAAATATT-GT
63462610 TTAATTTATTTAAATATT-T
1 TTAATTTATTTAAATATTGT
63462629 TTAA
1 TTAA
63462633 ATTAATATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
18 2 0.06
19 16 0.50
20 12 0.38
21 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
TTAATTTATTTAAATATTGT
Found at i:63462653 original size:29 final size:29
Alignment explanation
Indices: 63462611--63462671 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
63462601 TAATTTGGAT
*
63462611 TAATTTATTTAAATATT-TTTAAATTAATA
1 TAATTTATTTAAATATTATTT-AATTAAAA
63462640 TAATTT-TTATAAATATTATTTAATTAAAA
1 TAATTTATT-TAAATATTATTTAATTAAAA
63462669 TAA
1 TAA
63462672 AATTTTTTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 2 0.07
29 24 0.83
30 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
TAATTTATTTAAATATTATTTAATTAAAA
Found at i:63462676 original size:31 final size:28
Alignment explanation
Indices: 63462612--63462679 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 28
63462602 AATTTGGATT
*
63462612 AATTTATTTAAATATTTTTAAATTAATAT
1 AATTT-TTTAAATATTTTTAAATTAATAA
63462641 AATTTTTATAAATATTATTT-AATTAAAATAA
1 AATTTTT-TAAATATT-TTTAAATT--AATAA
63462672 AATTTTTT
1 AATTTTTT
63462680 CCATGTGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
28 2 0.06
29 17 0.50
30 4 0.12
31 11 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
AATTTTTTAAATATTTTTAAATTAATAA
Found at i:63462955 original size:9 final size:9
Alignment explanation
Indices: 63462937--63463183 Score: 311
Period size: 9 Copynumber: 27.7 Consensus size: 9
63462927 TATATACTTG
*
63462937 AACTTCCAT
1 AACTTACAT
*
63462946 AACTCACAT
1 AACTTACAT
63462955 AACTTACAT
1 AACTTACAT
* *
63462964 AACCTATAT
1 AACTTACAT
63462973 AACTTACAT
1 AACTTACAT
*
63462982 AACTCACAT
1 AACTTACAT
63462991 AACTTACAT
1 AACTTACAT
*
63463000 AACTTATAT
1 AACTTACAT
63463009 AACTTACAT
1 AACTTACAT
63463018 AACTTACAT
1 AACTTACAT
63463027 AACTTACAT
1 AACTTACAT
*
63463036 AACTCACAT
1 AACTTACAT
63463045 AACTTACAT
1 AACTTACAT
*
63463054 AACTTATAT
1 AACTTACAT
63463063 AACTTACAT
1 AACTTACAT
*
63463072 AACTTGCAT
1 AACTTACAT
*
63463081 AACTCACAT
1 AACTTACAT
63463090 AACTTACAT
1 AACTTACAT
*
63463099 AACTCACAT
1 AACTTACAT
*
63463108 AACTTACAG
1 AACTTACAT
63463117 AACTTACAT
1 AACTTACAT
*
63463126 AATTTACAT
1 AACTTACAT
63463135 AACTTACAT
1 AACTTACAT
63463144 AA--TACAT
1 AACTTACAT
* *
63463151 AA-ATATAT
1 AACTTACAT
* *
63463159 ATCATATCAT
1 AACTTA-CAT
63463169 AACTTACAT
1 AACTTACAT
63463178 AACTTA
1 AACTTA
63463184 ATTAGAGTTA
Statistics
Matches: 205, Mismatches: 30, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
7 7 0.03
8 5 0.02
9 187 0.91
10 6 0.03
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:63469723 original size:21 final size:21
Alignment explanation
Indices: 63469698--63469740 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
63469688 TTAGAGCGGA
*
63469698 GGCAGCAGAGAGGGAGGCAGC
1 GGCAGCAGAGAGAGAGGCAGC
*
63469719 GGCAGCAGCGAGAGAGGCAGC
1 GGCAGCAGAGAGAGAGGCAGC
63469740 G
1 G
63469741 ATAATAGCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.51, T:0.00
Consensus pattern (21 bp):
GGCAGCAGAGAGAGAGGCAGC
Found at i:63471499 original size:40 final size:39
Alignment explanation
Indices: 63471455--63471655 Score: 167
Period size: 40 Copynumber: 5.1 Consensus size: 39
63471445 AGTCCAGTCA
* * *
63471455 CCAGCACAAACCCTTCGGAACTTTAAGCCCGGATATATTT
1 CCAGCACAAA-CCTGCGGAACCTTAAGTCCGGATATATTT
* **
63471495 CCAGCACGTAACCTGC-GAACCTTAAGTCCGGATTATAACT
1 CCAGCAC-AAACCTGCGGAACCTTAAGTCCGGA-TATATTT
* * *
63471535 CCAGCATATAGCATGCGG-ACCTTAAGTCCGGATATATTT
1 CCAGCACA-AACCTGCGGAACCTTAAGTCCGGATATATTT
* * **
63471574 CCAGCATATAGCCTGCGG-ACCTTAAGTCCGGATTATAACT
1 CCAGCACA-AACCTGCGGAACCTTAAGTCCGGA-TATATTT
* * *
63471614 CCAGCATATAGCTTGCGG-ACCTTAAGTCCGGATATATTT
1 CCAGCACA-AACCTGCGGAACCTTAAGTCCGGATATATTT
63471653 CCA
1 CCA
63471656 AATATCATGC
Statistics
Matches: 138, Mismatches: 18, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
39 58 0.42
40 77 0.56
41 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (39 bp):
CCAGCACAAACCTGCGGAACCTTAAGTCCGGATATATTT
Found at i:63471526 original size:39 final size:39
Alignment explanation
Indices: 63471477--63471655 Score: 241
Period size: 40 Copynumber: 4.5 Consensus size: 39
63471467 CTTCGGAACT
* ** * *
63471477 TTAAGCCCGGATATATTTCCAGCACGTAACCTGCGAACC
1 TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
** *
63471516 TTAAGTCCGGATTATAACTCCAGCATATAGCATGCGGACC
1 TTAAGTCCGGA-TATATTTCCAGCATATAGCCTGCGGACC
63471556 TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
1 TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
** *
63471595 TTAAGTCCGGATTATAACTCCAGCATATAGCTTGCGGACC
1 TTAAGTCCGGA-TATATTTCCAGCATATAGCCTGCGGACC
63471635 TTAAGTCCGGATATATTTCCA
1 TTAAGTCCGGATATATTTCCA
63471656 AATATCATGC
Statistics
Matches: 122, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 54 0.44
40 68 0.56
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (39 bp):
TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
Found at i:63471573 original size:79 final size:79
Alignment explanation
Indices: 63471477--63471655 Score: 304
Period size: 79 Copynumber: 2.3 Consensus size: 79
63471467 CTTCGGAACT
* *
63471477 TTAAGCCCGGATATATTTCCAGCACGTAACCTGCGAACCTTAAGTCCGGATTATAACTCCAGCAT
1 TTAAGTCCGGATATATTTCCAGCACATAACCTGCGAACCTTAAGTCCGGATTATAACTCCAGCAT
63471542 ATAGCATGCGGACC
66 ATAGCATGCGGACC
* * *
63471556 TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACCTTAAGTCCGGATTATAACTCCAGCAT
1 TTAAGTCCGGATATATTTCCAGCACATAACCTGCGAACCTTAAGTCCGGATTATAACTCCAGCAT
*
63471621 ATAGCTTGCGGACC
66 ATAGCATGCGGACC
63471635 TTAAGTCCGGATATATTTCCA
1 TTAAGTCCGGATATATTTCCA
63471656 AATATCATGC
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 94 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (79 bp):
TTAAGTCCGGATATATTTCCAGCACATAACCTGCGAACCTTAAGTCCGGATTATAACTCCAGCAT
ATAGCATGCGGACC
Found at i:63478231 original size:39 final size:39
Alignment explanation
Indices: 63478188--63478405 Score: 312
Period size: 39 Copynumber: 5.5 Consensus size: 39
63478178 CTTCTGAACT
** * *
63478188 TTAAG-CCTGGATATATTTCCAGCACGTAACCTGCGAACC
1 TTAAGTCC-GGATATATTTCCAGCATATAGCCTGCGGACC
** *
63478227 TTAAGTCCGGACTATAACTCCAGCATATAGCTTGCGGACC
1 TTAAGTCCGGA-TATATTTCCAGCATATAGCCTGCGGACC
63478267 TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
1 TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
63478306 TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
1 TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
** *
63478345 TTAAGTCCGGATTATAACTCCAGCATATAGCCTACGGACC
1 TTAAGTCCGGA-TATATTTCCAGCATATAGCCTGCGGACC
63478385 TTAAGTCCGGATATATTTCCA
1 TTAAGTCCGGATATATTTCCA
63478406 AATATCATGC
Statistics
Matches: 161, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
39 91 0.57
40 70 0.43
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (39 bp):
TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
Found at i:63478367 original size:79 final size:78
Alignment explanation
Indices: 63478217--63478405 Score: 297
Period size: 79 Copynumber: 2.4 Consensus size: 78
63478207 CAGCACGTAA
* ** *
63478217 CCTGCGAACCTTAAGTCCGGACTATAACTCCAGCATATAGCTTGCGGACCTTAAGTCCGGATATA
1 CCTGCGGACCTTAAGTCCGGA-TATATTTCCAGCATATAGCCTGCGGACCTTAAGTCCGGATATA
**
63478282 TTTCCAGCATATAG
65 ACTCCAGCATATAG
63478296 CCTGCGGACCTTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACCTTAAGTCCGGATTATA
1 CCTGCGGACCTTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACCTTAAGTCCGGA-TATA
63478361 ACTCCAGCATATAG
65 ACTCCAGCATATAG
*
63478375 CCTACGGACCTTAAGTCCGGATATATTTCCA
1 CCTGCGGACCTTAAGTCCGGATATATTTCCA
63478406 AATATCATGC
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
78 36 0.35
79 66 0.65
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (78 bp):
CCTGCGGACCTTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACCTTAAGTCCGGATATAA
CTCCAGCATATAG
Found at i:63478396 original size:118 final size:118
Alignment explanation
Indices: 63478188--63478405 Score: 357
Period size: 118 Copynumber: 1.8 Consensus size: 118
63478178 CTTCTGAACT
*
63478188 TTAAGCCTGGATATATTTCCAGCACGTAACCTGCGAACCTTAAGTCCGGACTATAACTCCAGCAT
1 TTAAGCCTGGATATATTTCCAGCACATAACCTGCGAACCTTAAGTCCGGACTATAACTCCAGCAT
* *
63478253 ATAGCTTGCGGACCTTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
66 ATAGCCTACGGACCTTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
* * * *
63478306 TTAAGTCC-GGATATATTTCCAGCATATAGCCTGCGGACCTTAAGTCCGGATTATAACTCCAGCA
1 TTAAG-CCTGGATATATTTCCAGCACATAACCTGCGAACCTTAAGTCCGGACTATAACTCCAGCA
63478370 TATAGCCTACGGACCTTAAGTCCGGATATATTTCCA
65 TATAGCCTACGGACCTTAAGTCCGGATATATTTCCA
63478406 AATATCATGC
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
118 90 0.98
119 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (118 bp):
TTAAGCCTGGATATATTTCCAGCACATAACCTGCGAACCTTAAGTCCGGACTATAACTCCAGCAT
ATAGCCTACGGACCTTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
Found at i:63480210 original size:24 final size:25
Alignment explanation
Indices: 63480161--63480213 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
63480151 TAGCTTAGAG
* *
63480161 GAGCTTACCGATTTGCAGCTCGTAT
1 GAGCTTACCGATTTACAGCTCATAT
*
63480186 GAGCTTACCG-TTTACCGCTCATAT
1 GAGCTTACCGATTTACAGCTCATAT
63480210 GAGC
1 GAGC
63480214 ATACATGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (25 bp):
GAGCTTACCGATTTACAGCTCATAT
Found at i:63486191 original size:55 final size:54
Alignment explanation
Indices: 63486062--63486377 Score: 321
Period size: 55 Copynumber: 5.8 Consensus size: 54
63486052 ATTAGGGTTT
* * *
63486062 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTATAAGGC
* * * * * *
63486116 AAGGAAATCATGTAAGACCATGTCAAGGCATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGT-AAGTTCTATAAGGC
* * * *
63486171 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTATAAGGC
* * * * * *
63486225 AAGGAAATCATGTAAGACCATGTCC-AGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATG-CCAAGGCATGGCATTGGT-AAGTTCTATAAGGC
* * * * *
63486280 AAAGATCCCATGAAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTATAAGGC
* * ** * *
63486333 AAGGATACCACGTAAGACCATGTCAAGATATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTT
63486378 TAAAAAGGAA
Statistics
Matches: 209, Mismatches: 49, Indels: 9
0.78 0.18 0.03
Matches are distributed among these distances:
53 43 0.21
54 81 0.39
55 85 0.41
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTATAAGGC
Found at i:63486247 original size:109 final size:109
Alignment explanation
Indices: 63486073--63486365 Score: 480
Period size: 109 Copynumber: 2.7 Consensus size: 109
63486063 AGGATACCAA
63486073 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAGGAAATCATGTAAGACCATG
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAGGAAATCATGTAAGACCATG
*
63486138 TCAAGGCATGGCATTGATAAACTACTATAAGGCAAAGATCCCAT
66 TCAAGACATGGCATTGATAAACTACTATAAGGCAAAGATCCCAT
63486182 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAGGAAATCATGTAAGACCATG
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAGGAAATCATGTAAGACCATG
*
63486247 TCCAGACATGGCATTGATAAACTACTATAAGGCAAAGATCCCAT
66 TCAAGACATGGCATTGATAAACTACTATAAGGCAAAGATCCCAT
* * * * * * * *
63486291 GAAAGACCATGCCAAGGCATGGCAATGGTGAG-TTCATAAGGCAAGGATACCACGTAAGACCATG
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAGGAAATCATGTAAGACCATG
*
63486355 TCAAGATATGG
66 TCAAGACATGG
63486366 AAATGGTAAG
Statistics
Matches: 172, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
108 36 0.21
109 136 0.79
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.21
Consensus pattern (109 bp):
GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAGGAAATCATGTAAGACCATG
TCAAGACATGGCATTGATAAACTACTATAAGGCAAAGATCCCAT
Found at i:63488704 original size:42 final size:42
Alignment explanation
Indices: 63488643--63488840 Score: 213
Period size: 42 Copynumber: 4.6 Consensus size: 42
63488633 TCGTTTTCTC
** * * *
63488643 GATGCCATAGTTCAACTATGGTCTTGCACATCTTCACATAAT
1 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
*
63488685 GATGCCATATCCCAGCTATGGTCTTACACATATTCACATAAT
1 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
* *
63488727 GATGTCATAGCCCAGCTATGGTCTTACACATATTCATAT-AT
1 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
*
63488768 CGATGCCATAGCGCAGCTATGGTCTTACACGA-A-TCACATATCTCACT
1 -GATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA----A-T
* *
63488815 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATAGCCCAGCTATGGTCTTA
63488841 TACAGTAGCA
Statistics
Matches: 133, Mismatches: 15, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
41 7 0.05
42 100 0.75
43 1 0.01
46 24 0.18
47 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
Found at i:63488869 original size:47 final size:46
Alignment explanation
Indices: 63488768--63488891 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 46
63488758 ATTCATATAT
* * * * * *
63488768 CGATGCCATAGCGCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
63488814 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
63488861 CGATGCCATATCCCAGATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
63488892 GAAATTACTT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
46 26 0.39
47 41 0.61
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:63488910 original size:7 final size:7
Alignment explanation
Indices: 63488898--63488924 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
63488888 TACGGAAATT
63488898 ACTTGTC
1 ACTTGTC
63488905 ACTTGTC
1 ACTTGTC
63488912 ACTTGTC
1 ACTTGTC
63488919 ACTTGT
1 ACTTGT
63488925 AGCCGAAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.44
Consensus pattern (7 bp):
ACTTGTC
Found at i:63488958 original size:31 final size:31
Alignment explanation
Indices: 63488923--63489069 Score: 213
Period size: 31 Copynumber: 4.7 Consensus size: 31
63488913 CTTGTCACTT
* * *
63488923 GTAGCCGAAGCTACCACTATTCACTGATCAA
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
63488954 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
63488985 GTAGCCGGAGCAACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
63489016 GTAGCCGGAGCTACCACTTTTCACTTATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* * *
63489047 GTAGCAGAAGCTATCACTTTTCA
1 GTAGCCGGAGCTACCACTTTTCA
63489070 GTTGTCATTT
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 105 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Found at i:63489215 original size:55 final size:49
Alignment explanation
Indices: 63489047--63489278 Score: 302
Period size: 50 Copynumber: 4.5 Consensus size: 49
63489037 CACTTATCAG
* * * * *
63489047 GTAGCAGAAGCTATCACTTTTCAGTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATTACTTATCACTT-TCATTT-TCCTTGATCAGATAAGT
* *
63489098 GTAGCCGAAGTTATAACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATTACTTATCACTTTCA-TTTTCCTTGATCAGATAAGT
63489148 GTAGCCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAAATCAGATAAGT
1 GTAGCCGAAGCTATTACTTATCACTTTCATTT-TCCTTG-----ATCAGATAAGT
63489203 GTAGCCGAAGCTATTACTTATCACTTTCATTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATTACTTATCACTTTCA-TTTTCCTTGATCAGATAAGT
*
63489253 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATTACTTATCACTT
63489279 GTTGCCATGG
Statistics
Matches: 164, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
49 3 0.02
50 88 0.54
51 24 0.15
55 46 0.28
56 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.37
Consensus pattern (49 bp):
GTAGCCGAAGCTATTACTTATCACTTTCATTTTCCTTGATCAGATAAGT
Found at i:63489225 original size:105 final size:105
Alignment explanation
Indices: 63489047--63489278 Score: 348
Period size: 105 Copynumber: 2.2 Consensus size: 105
63489037 CACTTATCAG
* * * *
63489047 GTAGCAGAAGCTATCACTTTTCAGTTGTCATTTGTCATTG-----ATCAGATAAGTGTAGCCGAA
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAAATCAGATAAGTGTAGCCGAA
*
63489107 GTTATAACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
65 GCTATAACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
*
63489148 GTAGCCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAAATCAGATAAGTGTAGCCGAAG
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAAATCAGATAAGTGTAGCCGAAG
* *
63489213 CTATTACTTATCACTTTCATTTTTCCTTGATCAGATAAGT
66 CTATAACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
63489253 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
63489279 GTTGCCATGG
Statistics
Matches: 117, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
100 12 0.10
101 22 0.19
105 83 0.71
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.37
Consensus pattern (105 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAAATCAGATAAGTGTAGCCGAAG
CTATAACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
Found at i:63491879 original size:22 final size:23
Alignment explanation
Indices: 63491838--63491912 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
63491828 CAACTTATTG
63491838 GAGCTTACCGTTCCAGCTCG-TA
1 GAGCTTACCGTTCCAGCTCGATA
*
63491860 TGAGCTTACTGTT-CAGCTCGATA
1 -GAGCTTACCGTTCCAGCTCGATA
* *
63491883 GAGCTTACCATTTCAGCTC-ATTA
1 GAGCTTACCGTTCCAGCTCGA-TA
63491906 GAGCTTA
1 GAGCTTA
63491913 TTGTTCATCA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
22 18 0.39
23 28 0.61
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (23 bp):
GAGCTTACCGTTCCAGCTCGATA
Found at i:63492750 original size:22 final size:22
Alignment explanation
Indices: 63492725--63492774 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
63492715 TTGAGTTGCA
*
63492725 TAAATGTGGTCAATTATGCTTT
1 TAAATGCGGTCAATTATGCTTT
63492747 TAAATGCGGTCAATTATGCTTT
1 TAAATGCGGTCAATTATGCTTT
63492769 TAAATG
1 TAAATG
63492775 GTTGTGTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (22 bp):
TAAATGCGGTCAATTATGCTTT
Found at i:63493175 original size:108 final size:108
Alignment explanation
Indices: 63492982--63493178 Score: 236
Period size: 108 Copynumber: 1.8 Consensus size: 108
63492972 CCCCCTAAAT
* * * *
63492982 GGCACACGACCTAGCACACGGGCGTGTGACTTGGCCGTGTTACATAAGTCAATATACCCTACAAT
1 GGCACACGAACTAGCACACAGGCGTGTGACTTGGCCGTGTGACACAAGTCAATATACCCTACAAT
** *
63493047 TTTGGCACGGCCTGATACACGGGCGTGTGTGGCCATTTTGAAG
66 TTTCACACGGCCTGACACACGGGCGTGTGTGGCCATTTTGAAG
* * * *
63493090 GGCACACGAACTAGACACACAGGCGTGTG-GTTGGCCGTGTGACCCAAGTCAGTAT-CCTCTCCA
1 GGCACACGAACTAG-CACACAGGCGTGTGACTTGGCCGTGTGACACAAGTCAATATACC-CTACA
* * *
63493153 GTTTTCACACGGCTTGGCACACGGGC
64 ATTTTCACACGGCCTGACACACGGGC
63493179 ATGTCCTCGA
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
107 2 0.03
108 58 0.79
109 13 0.18
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.22
Consensus pattern (108 bp):
GGCACACGAACTAGCACACAGGCGTGTGACTTGGCCGTGTGACACAAGTCAATATACCCTACAAT
TTTCACACGGCCTGACACACGGGCGTGTGTGGCCATTTTGAAG
Found at i:63493854 original size:43 final size:43
Alignment explanation
Indices: 63493790--63493940 Score: 203
Period size: 43 Copynumber: 3.5 Consensus size: 43
63493780 GCAATTTTTA
* * *
63493790 GTCATGTTCTTTAGCGACGTTTGTGGGGAAAGCGCCGCTAAAG
1 GTCATGTTCTATAACGGCGTTTGTGGGGAAAGCGCCGCTAAAG
* * *
63493833 GTCATGTTCTATAATGGCGTTTGTGGGGAAAGCACCGCTAAAA
1 GTCATGTTCTATAACGGCGTTTGTGGGGAAAGCGCCGCTAAAG
* * * *
63493876 GTCATGTTCTTTAACGGCATTTGTGGGAAAAGCGTCGCTAAAG
1 GTCATGTTCTATAACGGCGTTTGTGGGGAAAGCGCCGCTAAAG
*
63493919 GTCATGTTCTATAACGGAGTTT
1 GTCATGTTCTATAACGGCGTTT
63493941 TTCCACATAA
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 92 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
GTCATGTTCTATAACGGCGTTTGTGGGGAAAGCGCCGCTAAAG
Found at i:63494755 original size:21 final size:21
Alignment explanation
Indices: 63494726--63494766 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
63494716 CAAAAATTAT
63494726 AAAAATAAAA-TAAAATAAATC
1 AAAAATAAAATTAAAA-AAATC
*
63494747 AAAATTAAAATTAAAAAAAT
1 AAAAATAAAATTAAAAAAAT
63494767 ATAAAAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAAATAAAATTAAAAAAATC
Found at i:63495031 original size:81 final size:81
Alignment explanation
Indices: 63494876--63495027 Score: 288
Period size: 81 Copynumber: 1.9 Consensus size: 81
63494866 TTTATGTTAA
63494876 CTAGTTTTCAAAAGGTTGATGTCAAAATTGACTCTTTCTAAAAAGTTAAGGGTCAAAATTTTTTT
1 CTAGTTTTCAAAAGGTTGATGTCAAAATTGACTCTTTCTAAAAAGTTAAGGGTCAAAATTTTTTT
*
63494941 TAAAAAAGAAAAAACC
66 AAAAAAAGAAAAAACC
63494957 CTAGTTTTCAAAAGGTTGATGTCAAAATTGACTCTTTCTAAAAAGTTAAGGGTC-AAATTTTTTT
1 CTAGTTTTCAAAAGGTTGATGTCAAAATTGACTCTTTCTAAAAAGTTAAGGGTCAAAATTTTTTT
63495021 AAAAAAA
66 AAAAAAA
63495028 AGAATAAAGC
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
80 16 0.23
81 54 0.77
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (81 bp):
CTAGTTTTCAAAAGGTTGATGTCAAAATTGACTCTTTCTAAAAAGTTAAGGGTCAAAATTTTTTT
AAAAAAAGAAAAAACC
Found at i:63495743 original size:28 final size:28
Alignment explanation
Indices: 63495711--63495766 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
63495701 TTAGGACTCC
63495711 TTAACTCAGAAACACATGTACTAAATTT
1 TTAACTCAGAAACACATGTACTAAATTT
*
63495739 TTAACTCAGAAACACGTGTACTAAATTT
1 TTAACTCAGAAACACATGTACTAAATTT
63495767 AGTGAGATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (28 bp):
TTAACTCAGAAACACATGTACTAAATTT
Found at i:63497768 original size:27 final size:25
Alignment explanation
Indices: 63497741--63497794 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
63497731 TTTCTTAAAT
63497741 TTTAAAAATCTTTTTATTTTTTATAAT
1 TTTAAAAA-CTTTTTATTTTTTA-AAT
* *
63497768 TTTAAAGAGTTTTTA-TTTTTAAAT
1 TTTAAAAACTTTTTATTTTTTAAAT
63497792 TTT
1 TTT
63497795 TATGTTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 6 0.24
26 6 0.24
27 7 0.28
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTAAAAACTTTTTATTTTTTAAAT
Found at i:63502587 original size:17 final size:17
Alignment explanation
Indices: 63502565--63502607 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
63502555 TTCGGGAGTC
*
63502565 GGTTACGTACGAGGAAG
1 GGTTACGCACGAGGAAG
63502582 GGTTACGCACGAGGAAG
1 GGTTACGCACGAGGAAG
63502599 GGTTA-GCAC
1 GGTTACGCAC
63502608 CCTCGATATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.28, C:0.16, G:0.40, T:0.16
Consensus pattern (17 bp):
GGTTACGCACGAGGAAG
Found at i:63503217 original size:23 final size:22
Alignment explanation
Indices: 63503191--63503240 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
63503181 TATATAATGC
63503191 AATAACAATGAAGACAAAAATAA
1 AATAACAATGAA-ACAAAAATAA
* *
63503214 AATAAGAATGAAACAATAATAA
1 AATAACAATGAAACAAAAATAA
63503236 AATAA
1 AATAA
63503241 AATAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.70, C:0.06, G:0.08, T:0.16
Consensus pattern (22 bp):
AATAACAATGAAACAAAAATAA
Found at i:63503256 original size:22 final size:22
Alignment explanation
Indices: 63503204--63503256 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
63503194 AACAATGAAG
* *
63503204 ACAAAAATAAAATAAGAATGAA
1 ACAACAATAAAATAAGAATAAA
*
63503226 ACAATAATAAAATAA-AATAAAA
1 ACAACAATAAAATAAGAAT-AAA
*
63503248 ATAACAATA
1 ACAACAATA
63503257 CATTAATAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 3 0.12
22 23 0.88
ACGTcount: A:0.74, C:0.06, G:0.04, T:0.17
Consensus pattern (22 bp):
ACAACAATAAAATAAGAATAAA
Found at i:63503320 original size:3 final size:3
Alignment explanation
Indices: 63503314--63503343 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
63503304 GATAATAATA
63503314 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
63503344 TAAGTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:63503583 original size:3 final size:3
Alignment explanation
Indices: 63503575--63503684 Score: 95
Period size: 3 Copynumber: 37.7 Consensus size: 3
63503565 AAAGTAAGAG
* * *
63503575 TAA TAA TAA T-A TAT TGA TAA TAA TAA TAA TAA TAA TAA TAA -AA GGAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* * * *
63503622 TAA TAA TAG TAA -AA TAA TAA TAG TGA TAA TAA TATA TCA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
*
63503666 TAA TAG TAA -AA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
63503685 TATTAAATTA
Statistics
Matches: 85, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
2 9 0.11
3 72 0.85
4 4 0.05
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:63503594 original size:29 final size:28
Alignment explanation
Indices: 63503539--63503684 Score: 84
Period size: 29 Copynumber: 5.0 Consensus size: 28
63503529 TAATATTTTA
*
63503539 AATAAGATAATAATAATAGGTTAATAA-
1 AATAAGATAATAATAATAGATTAATAAT
* *
63503566 AAGTAAGAGTAATAATAATATATTGATAAT
1 AA-TAAGA-TAATAATAATAGATTAATAAT
* * **
63503596 AATAATAATAATAATAATAAAAGGAATAAT
1 AATAA-GATAATAATAAT-AGATTAATAAT
*
63503626 AAT-AGTAAAATAATAATAG-TGATAATAAT
1 AATAAG-ATAATAATAATAGAT--TAATAAT
* * *
63503655 ATATCAA-ATAATAATAGTAAAATAATAAT
1 A-AT-AAGATAATAATAATAGATTAATAAT
63503684 A
1 A
63503685 TATTAAATTA
Statistics
Matches: 90, Mismatches: 17, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
27 2 0.02
28 6 0.07
29 56 0.62
30 25 0.28
32 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.09, T:0.30
Consensus pattern (28 bp):
AATAAGATAATAATAATAGATTAATAAT
Found at i:63503665 original size:41 final size:41
Alignment explanation
Indices: 63503593--63503684 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 41
63503583 ATATATTGAT
**
63503593 AATAATAATAATAATAATAATAAAAGGAATAATAATAGTAA
1 AATAATAATAATAATAATAATAAAACAAATAATAATAGTAA
* * * *
63503634 AATAATAATAGTGATAATAATATATCAAATAATAATAGTAA
1 AATAATAATAATAATAATAATAAAACAAATAATAATAGTAA
63503675 AATAATAATA
1 AATAATAATA
63503685 TATTAAATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.29
Consensus pattern (41 bp):
AATAATAATAATAATAATAATAAAACAAATAATAATAGTAA
Found at i:63517754 original size:51 final size:51
Alignment explanation
Indices: 63517699--63517827 Score: 168
Period size: 51 Copynumber: 2.5 Consensus size: 51
63517689 ATGATTTTAA
* * *
63517699 AAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGTAATCTTAT
1 AAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATACGTAATCTTAG
* ** * *
63517750 AAGATATTATTTTATAAGATTACATATCTTAGATAAGATACGTAATCTTAG
1 AAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATACGTAATCTTAG
* *
63517801 GAGATATGATTTTATATTCTTAGAGAT
1 AAGATATGATTTTATAATCTTAGAGAT
63517828 TTGATTGTAG
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (51 bp):
AAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATACGTAATCTTAG
Found at i:63522937 original size:51 final size:50
Alignment explanation
Indices: 63522875--63523009 Score: 171
Period size: 51 Copynumber: 2.7 Consensus size: 50
63522865 TAGAAACATG
*
63522875 ATCTTAAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGTA
1 ATCTTAAAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
* ** * *
63522925 ATCTTATAAGATATTATTTTATAAGATTACATATCTTAGATAAGATATGTA
1 ATCTTA-AAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
* * *
63522976 ATCTTAGGAGATATGATTCTATATTCTTAGAGAT
1 ATCTTA-AAGATATGATTTTATAATCTTAGAGAT
63523010 TTGATTGTAG
Statistics
Matches: 69, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
50 6 0.09
51 63 0.91
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (50 bp):
ATCTTAAAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
Found at i:63522979 original size:19 final size:19
Alignment explanation
Indices: 63522906--63522982 Score: 60
Period size: 19 Copynumber: 4.4 Consensus size: 19
63522896 AATCTTAGAG
*
63522906 ATCTTAGATATGATATGTA
1 ATCTTAGATAAGATATGTA
63522925 ATCTT--ATAAGATAT-T-
1 ATCTTAGATAAGATATGTA
* **
63522940 AT-TT-TATAAGAT-TACA
1 ATCTTAGATAAGATATGTA
63522956 TATCTTAGATAAGATATGTA
1 -ATCTTAGATAAGATATGTA
63522976 ATCTTAG
1 ATCTTAG
63522983 GAGATATGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
14 3 0.07
15 9 0.20
16 1 0.02
17 10 0.22
18 2 0.04
19 19 0.41
20 2 0.04
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (19 bp):
ATCTTAGATAAGATATGTA
Found at i:63525068 original size:17 final size:17
Alignment explanation
Indices: 63525024--63525068 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
63525014 ATTAAGTTAT
*
63525024 TATTAAAGTTAAATTAG
1 TATTAAAGTTTAATTAG
63525041 TATTAAAGTTTAATTAG
1 TATTAAAGTTTAATTAG
63525058 TATTAAAGTTT
1 TATTAAAGTTT
63525069 TGTTATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (17 bp):
TATTAAAGTTTAATTAG
Found at i:63528176 original size:45 final size:45
Alignment explanation
Indices: 63528127--63528390 Score: 420
Period size: 45 Copynumber: 5.9 Consensus size: 45
63528117 TCGGCCATGG
* * * * *
63528127 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
63528172 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
63528217 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
63528262 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
63528307 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
* * * **
63528352 TGCTTCCTTAATTTGTTCCACAAATTATGCATGATGTTG
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTG
63528391 TCCACCTCTT
Statistics
Matches: 205, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 205 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.39
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:63531860 original size:45 final size:45
Alignment explanation
Indices: 63531811--63532029 Score: 314
Period size: 45 Copynumber: 4.9 Consensus size: 45
63531801 TCGGCCATTG
* * *
63531811 TGCTTCCTTAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTTAATTTGTTCCATGAATTATGCATGATGTTGGTCAAA
* *
63531856 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTTAATTTGTTCCATGAATTATGCATGATGTTGGTCAAA
* * *
63531901 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTTAATTTGTTCCATGAATTATGCATGATGTTGGTCAAA
* *
63531946 TGCTTCCTCAAATTCG-TCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCT-TAATTTGTTCCATGAATTATGCATGATGTTGGTCAAA
**
63531991 TGCTTCCTTAATTTGTTCCACAAATTATGCATGATGTTG
1 TGCTTCCTTAATTTGTTCCATGAATTATGCATGATGTTG
63532030 TCCACCTCTT
Statistics
Matches: 158, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
44 5 0.03
45 150 0.95
46 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.40
Consensus pattern (45 bp):
TGCTTCCTTAATTTGTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:63538426 original size:34 final size:34
Alignment explanation
Indices: 63538388--63538456 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
63538378 ACATGTATGT
*
63538388 ATTATACTTTATACACATGTAATTAATGTTTACC
1 ATTATACTTTATACACATGTAATAAATGTTTACC
63538422 ATTATACTTTATACACATGTAATAAATGTTTACC
1 ATTATACTTTATACACATGTAATAAATGTTTACC
63538456 A
1 A
63538457 CACATTTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.42
Consensus pattern (34 bp):
ATTATACTTTATACACATGTAATAAATGTTTACC
Found at i:63547453 original size:26 final size:26
Alignment explanation
Indices: 63547423--63547476 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
63547413 GTGATGAATC
63547423 TGAGCATGTCGAATATTTGAGAATAG
1 TGAGCATGTCGAATATTTGAGAATAG
63547449 TGAGCATGTCGAATATTTGAGAATAG
1 TGAGCATGTCGAATATTTGAGAATAG
63547475 TG
1 TG
63547477 CTACAGACTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.31
Consensus pattern (26 bp):
TGAGCATGTCGAATATTTGAGAATAG
Found at i:63555862 original size:17 final size:18
Alignment explanation
Indices: 63555841--63555904 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 18
63555831 ACCCTAATTT
63555841 TTCCCTTTTCTTTTTCT-
1 TTCCCTTTTCTTTTTCTA
*
63555858 TTCCCTTTCCTTCTTTCCTA
1 TTCCCTTTTCTT-TTT-CTA
* * *
63555878 TTCCCTTTTCATTCTCTG
1 TTCCCTTTTCTTTTTCTA
63555896 TTCCCTTTT
1 TTCCCTTTT
63555905 TCTATTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
17 11 0.28
18 14 0.36
19 4 0.10
20 10 0.26
ACGTcount: A:0.03, C:0.34, G:0.02, T:0.61
Consensus pattern (18 bp):
TTCCCTTTTCTTTTTCTA
Found at i:63555881 original size:20 final size:17
Alignment explanation
Indices: 63555840--63555885 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 17
63555830 AACCCTAATT
*
63555840 TTTCCCTTTTCTTTTTC
1 TTTCCCTTTCCTTTTTC
63555857 TTTCCCTTTCCTTCTTTCC
1 TTTCCCTTTCCTT-TTT-C
63555876 TATTCCCTTT
1 T-TTCCCTTT
63555886 TCATTCTCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 12 0.48
18 3 0.12
19 2 0.08
20 8 0.32
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTCCCTTTCCTTTTTC
Found at i:63555951 original size:5 final size:5
Alignment explanation
Indices: 63555943--63555972 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
63555933 TTACTTTAAC
63555943 TATTA TATTA TATTA TATTA TTATTA TATT
1 TATTA TATTA TATTA TATTA -TATTA TATT
63555973 TTAGTAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TATTA
Found at i:63561355 original size:40 final size:40
Alignment explanation
Indices: 63561300--63561412 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
63561290 TATTCGGATG
63561300 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTCACT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTCACT
* * * *
63561340 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTCACT
* ** *
63561380 ATAACCGGGTTAAG-TCCCGAAGGCATTCGTGCG
1 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
63561413 GGTTATTATA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
39 1 0.02
40 61 0.98
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTCACT
Found at i:63561418 original size:40 final size:40
Alignment explanation
Indices: 63561316--63561451 Score: 150
Period size: 40 Copynumber: 3.4 Consensus size: 40
63561306 GGACTAAGAT
* * * * **
63561316 CCGAAGGCATTTGTGCGAGTCACTATATCCGGACTAAGAT-
1 CCGAAGGCATTCGTGCGAGTTATTATAACCGGGTTAAG-TC
*
63561356 CCGAAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCGAGTTATTATAACCGGGTTAAGTC
* *
63561396 CCGAAGGCATTCGTGCGGGTTATTATAATCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTATAACCGGGTTAAGTC
*
63561436 CCAAAGGCATTCGTGC
1 CCGAAGGCATTCGTGC
63561452 TGGTTGTTAC
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
39 4 0.05
40 76 0.92
41 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTATAACCGGGTTAAGTC
Found at i:63569663 original size:40 final size:40
Alignment explanation
Indices: 63569605--63569716 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 40
63569595 TATTCGGATG
*
63569605 ATATCCGGACTAATATCCGAAGGCATTTGTGCTAGTCACT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTCACT
* * *
63569645 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTCACT
* ** *
63569685 ATAACCGGGTTAAG-TCCCGAAGGCATTCGTGC
1 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGC
63569717 GGGTTATTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.02
40 61 0.98
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTCACT
Found at i:63569796 original size:79 final size:80
Alignment explanation
Indices: 63569679--63569840 Score: 299
Period size: 79 Copynumber: 2.0 Consensus size: 80
63569669 AATTGTGCTA
63569679 GTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCA
1 GTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCA
63569744 AAGGCATTCGTGCGG
66 AAGGCATTCGTGCGG
*
63569759 GTTATTATAACCGGG-TAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCG
1 GTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCA
*
63569823 AAGGCATTCGTGCTG
66 AAGGCATTCGTGCGG
63569838 GTT
1 GTT
63569841 GTTACATCCG
Statistics
Matches: 80, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
79 65 0.81
80 15 0.19
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (80 bp):
GTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCA
AAGGCATTCGTGCGG
Found at i:63569864 original size:40 final size:40
Alignment explanation
Indices: 63569661--63569840 Score: 301
Period size: 40 Copynumber: 4.5 Consensus size: 40
63569651 GGACTAAGAT
**
63569661 CCGAAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCGGGTTATTATAACCGGGTTAAGTC
63569701 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
63569741 CCAAAGGCATTCGTGCGGGTTATTATAACCGGG-TAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
63569780 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
63569820 CCGAAGGCATTCGTGCTGGTT
1 CCGAAGGCATTCGTGCGGGTT
63569841 GTTACATCCG
Statistics
Matches: 133, Mismatches: 5, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
39 41 0.31
40 92 0.69
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
Found at i:63575027 original size:21 final size:22
Alignment explanation
Indices: 63575001--63575047 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
63574991 CTCTGCTCAA
*
63575001 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
63575022 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
63575044 ACTC
1 ACTC
63575048 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:63582113 original size:28 final size:26
Alignment explanation
Indices: 63582059--63582119 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
63582049 AAATTGATAA
*
63582059 TTTTTATTTTTATAAATTAATAATTT
1 TTTTTATTTTTATAAAATAATAATTT
*
63582085 TTTTTACTATTTTATAAAAT-ATTATTT
1 TTTTTA-T-TTTTATAAAATAATAATTT
*
63582112 TTTATATT
1 TTTTTATT
63582120 AAAAACAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 1 0.03
26 7 0.23
27 12 0.40
28 10 0.33
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (26 bp):
TTTTTATTTTTATAAAATAATAATTT
Found at i:63582119 original size:24 final size:26
Alignment explanation
Indices: 63582059--63582119 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 26
63582049 AAATTGATAA
63582059 TTTTTAT-TTTTATAAATTAATAATTT
1 TTTTTATATTTTATAAA-TAATAATTT
63582085 TTTTTACTATTTTAT-AA-AAT-ATTAT
1 TTTTTA-TATTTTATAAATAATAATT-T
63582110 TTTTTATATT
1 TTTTTATATT
63582120 AAAAACAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
24 7 0.22
25 10 0.31
26 6 0.19
27 3 0.09
28 6 0.19
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (26 bp):
TTTTTATATTTTATAAATAATAATTT
Found at i:63583071 original size:8 final size:8
Alignment explanation
Indices: 63583060--63583153 Score: 55
Period size: 8 Copynumber: 10.8 Consensus size: 8
63583050 TTAAATTTTA
63583060 ATAAAAAT
1 ATAAAAAT
63583068 ATAAAAAT
1 ATAAAAAT
*
63583076 ATTTAAAAT
1 A-TAAAAAT
*
63583085 -TAAAATT
1 ATAAAAAT
* *
63583092 AGAAAAAAA
1 A-TAAAAAT
63583101 ATAAAAAT
1 ATAAAAAT
63583109 AGTAAAAAAAT
1 A-T--AAAAAT
63583120 ATAAAAAAATT
1 AT--AAAAA-T
*
63583131 ATCAAATAT
1 AT-AAAAAT
63583140 ATAAAAAT
1 ATAAAAAT
63583148 ATAAAA
1 ATAAAA
63583154 TTTTATAAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
7 5 0.07
8 26 0.38
9 15 0.22
10 12 0.18
11 10 0.15
ACGTcount: A:0.71, C:0.01, G:0.02, T:0.26
Consensus pattern (8 bp):
ATAAAAAT
Found at i:63583082 original size:18 final size:18
Alignment explanation
Indices: 63583061--63583149 Score: 58
Period size: 19 Copynumber: 4.9 Consensus size: 18
63583051 TAAATTTTAA
63583061 TAAAAATATAAAAATATT
1 TAAAAATATAAAAATATT
* *
63583079 T-AAAAT-TAAAATTA-G
1 TAAAAATATAAAAATATT
* * *
63583094 AAAAAAAATAAAAATAGTA
1 TAAAAATATAAAAATA-TT
* *
63583113 AAAAAATATAAAAAAATT
1 TAAAAATATAAAAATATT
*
63583131 ATCAAATATATAAAAATAT
1 -T-AAAAATATAAAAATAT
63583150 AAAATTTTAT
Statistics
Matches: 53, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
16 11 0.21
17 12 0.23
18 2 0.04
19 14 0.26
20 14 0.26
ACGTcount: A:0.70, C:0.01, G:0.02, T:0.27
Consensus pattern (18 bp):
TAAAAATATAAAAATATT
Found at i:63583100 original size:17 final size:18
Alignment explanation
Indices: 63583080--63583126 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
63583070 AAAAATATTT
*
63583080 AAAATTAAAATTAG-AAA
1 AAAATTAAAAATAGTAAA
*
63583097 AAAAATAAAAATAGTAAA
1 AAAATTAAAAATAGTAAA
63583115 AAAATATAAAAA
1 AAAAT-TAAAAA
63583127 AATTATCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 12 0.48
18 7 0.28
19 6 0.24
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (18 bp):
AAAATTAAAAATAGTAAA
Found at i:63583117 original size:11 final size:10
Alignment explanation
Indices: 63583103--63583153 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
63583093 GAAAAAAAAT
63583103 AAAAATAGTAA
1 AAAAATA-TAA
63583114 AAAAATATAA
1 AAAAATATAA
63583124 AAAAAT-T-A
1 AAAAATATAA
** *
63583132 TCAAATATAT
1 AAAAATATAA
63583142 AAAAATATAA
1 AAAAATATAA
63583152 AA
1 AA
63583154 TTTTATAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
8 5 0.16
9 2 0.06
10 18 0.56
11 7 0.22
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (10 bp):
AAAAATATAA
Found at i:63583164 original size:10 final size:10
Alignment explanation
Indices: 63583147--63583172 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
63583137 TATATAAAAA
63583147 TATAAAATTT
1 TATAAAATTT
63583157 TATAAAATTT
1 TATAAAATTT
63583167 TATAAA
1 TATAAA
63583173 GTCGTAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TATAAAATTT
Found at i:63583950 original size:40 final size:40
Alignment explanation
Indices: 63583867--63583950 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
63583857 AAATAGATTC
*
63583867 AAAACAAATATTAAAACAAGAAACAAATAAAAATGATACT
1 AAAACAAATATTAAAACAAGAAACAAATAAAAATGATAAT
* * * * *
63583907 AAAACAATTCTTAAAACAATACACAAATTGAAAAT-ATAAT
1 AAAACAAATATTAAAACAAGAAACAAA-TAAAAATGATAAT
63583947 AAAA
1 AAAA
63583951 AGTGATTGCA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
40 31 0.84
41 6 0.16
ACGTcount: A:0.65, C:0.11, G:0.04, T:0.20
Consensus pattern (40 bp):
AAAACAAATATTAAAACAAGAAACAAATAAAAATGATAAT
Found at i:63592927 original size:40 final size:39
Alignment explanation
Indices: 63592848--63592935 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 39
63592838 ATAACTTATT
* * *
63592848 ATTTTTAACCTTTCACTTATAAATATTATAACATTATAA
1 ATTTTCAACCTTTCACTTATAAATATTAGAACATAATAA
* * * *
63592887 AGTTTTCAACTTTTCATTTATAATTATTAGAATATAATAA
1 A-TTTTCAACCTTTCACTTATAAATATTAGAACATAATAA
63592927 ATATTTCAA
1 AT-TTTCAA
63592936 AAATATTTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.05
40 38 0.95
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (39 bp):
ATTTTCAACCTTTCACTTATAAATATTAGAACATAATAA
Found at i:63593321 original size:43 final size:45
Alignment explanation
Indices: 63593248--63593331 Score: 118
Period size: 43 Copynumber: 1.9 Consensus size: 45
63593238 TTTTTTTCTA
* * *
63593248 AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGC-TTTTACCG
1 AAAAACGCCACTAAAAACCAGGACATTTAGCGGCGCATTTTACCG
*
63593292 AAAAA-GCCACTAAAAACCATGACATTTAGCGGCGCATTTT
1 AAAAACGCCACTAAAAACCAGGACATTTAGCGGCGCATTTT
63593332 TTCAAGACAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 26 0.74
44 9 0.26
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (45 bp):
AAAAACGCCACTAAAAACCAGGACATTTAGCGGCGCATTTTACCG
Found at i:63596974 original size:9 final size:9
Alignment explanation
Indices: 63596962--63596994 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
63596952 TTAATTTTAA
63596962 ATTTTTTTC
1 ATTTTTTTC
*
63596971 ATTTTTTAC
1 ATTTTTTTC
63596980 ATTTTTTT-
1 ATTTTTTTC
63596988 ATTTTTT
1 ATTTTTT
63596995 CTTCCAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (9 bp):
ATTTTTTTC
Found at i:63596977 original size:18 final size:17
Alignment explanation
Indices: 63596956--63596994 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
63596946 TTTTATTTAA
63596956 TTTTAAATTTTTTTCATT
1 TTTTAAATTTTTTT-ATT
*
63596974 TTTTACATTTTTTTATT
1 TTTTAAATTTTTTTATT
63596991 TTTT
1 TTTT
63596995 CTTCCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTAAATTTTTTTATT
Found at i:63597094 original size:6 final size:7
Alignment explanation
Indices: 63597082--63597125 Score: 61
Period size: 7 Copynumber: 6.0 Consensus size: 7
63597072 TAAAAACTAA
63597082 AATTTTT
1 AATTTTT
63597089 AATTTTT
1 AATTTTT
63597096 AATTTTTTT
1 AA--TTTTT
*
63597105 ATTTTTT
1 AATTTTT
63597112 AATTTTT
1 AATTTTT
63597119 AATTTTT
1 AATTTTT
63597126 TTAAAGATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 27 0.82
9 6 0.18
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
AATTTTT
Found at i:63597112 original size:23 final size:23
Alignment explanation
Indices: 63597084--63597128 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
63597074 AAAACTAAAA
63597084 TTTTTAATTTTTAATTTTTTTAT
1 TTTTTAATTTTTAATTTTTTTAT
63597107 TTTTTAATTTTTAATTTTTTTA
1 TTTTTAATTTTTAATTTTTTTA
63597129 AAGATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTAATTTTTAATTTTTTTAT
Done.