Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 98 of 213
Found at i:27546823 original size:14 final size:14
Alignment explanation
Indices: 27546806--27546834 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
27546796 ATTATCTAAT
27546806 GGTCTTATGAGAAG
1 GGTCTTATGAGAAG
27546820 GGTCTTATGAGAAG
1 GGTCTTATGAGAAG
27546834 G
1 G
27546835 ATCGCTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.38, T:0.28
Consensus pattern (14 bp):
GGTCTTATGAGAAG
Found at i:27567861 original size:44 final size:44
Alignment explanation
Indices: 27567792--27567880 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
27567782 TGAAATAAAG
** *
27567792 TAGAAATTGTGATAATTATGCATTTT-AAATAAATTTTAATTTAA
1 TAGAAATTGTGATAATTAAACATTTTAAAAT-AATTATAATTTAA
* *
27567836 TAGAAGTTGTGATAATTAAATATTTTAAAATAATTATAATTTAA
1 TAGAAATTGTGATAATTAAACATTTTAAAATAATTATAATTTAA
27567880 T
1 T
27567881 TTATAATTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 35 0.90
45 4 0.10
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.45
Consensus pattern (44 bp):
TAGAAATTGTGATAATTAAACATTTTAAAATAATTATAATTTAA
Found at i:27567995 original size:18 final size:19
Alignment explanation
Indices: 27567969--27568008 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
27567959 GGTAAAAGCT
* *
27567969 ATTATAATTA-TAATTTAA
1 ATTACAATTACTAATTAAA
27567987 ATTACAATTACTAATTAAA
1 ATTACAATTACTAATTAAA
27568006 ATT
1 ATT
27568009 GGTGTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTACAATTACTAATTAAA
Found at i:27582817 original size:41 final size:41
Alignment explanation
Indices: 27582772--27582917 Score: 229
Period size: 41 Copynumber: 3.6 Consensus size: 41
27582762 ACATATTCAT
* *
27582772 CGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCAC
1 CGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCAC
* *
27582813 CGGCACTTAGCCTGCTAGGTTTATAACCTGATTTAGATCAC
1 CGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCAC
* *
27582854 CGACACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCAC
1 CGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCAC
*
27582895 CGGCACTTAGCCTGCTAGACTTA
1 CGGCACTTAGCCTGCTAGGCTTA
27582918 AAGTCTGAAT
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 96 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (41 bp):
CGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCAC
Found at i:27583625 original size:25 final size:25
Alignment explanation
Indices: 27583596--27583658 Score: 117
Period size: 25 Copynumber: 2.5 Consensus size: 25
27583586 ACAAGAATTT
27583596 ATACATATATATATTTTCGAACATG
1 ATACATATATATATTTTCGAACATG
*
27583621 ATACATAGATATATTTTCGAACATG
1 ATACATATATATATTTTCGAACATG
27583646 ATACATATATATA
1 ATACATATATATA
27583659 CATATCATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (25 bp):
ATACATATATATATTTTCGAACATG
Found at i:27584689 original size:13 final size:13
Alignment explanation
Indices: 27584671--27584695 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27584661 ACAAACGATA
27584671 AAATTTTCACACG
1 AAATTTTCACACG
27584684 AAATTTTCACAC
1 AAATTTTCACAC
27584696 AAGTAAATTC
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:27586203 original size:15 final size:15
Alignment explanation
Indices: 27586183--27586214 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
27586173 CATTTCACTG
*
27586183 TTATGTCTTTTTTAT
1 TTATGTCTTTTATAT
27586198 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
27586213 TT
1 TT
27586215 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.06, T:0.72
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:27587870 original size:48 final size:51
Alignment explanation
Indices: 27587812--27587907 Score: 135
Period size: 48 Copynumber: 1.9 Consensus size: 51
27587802 ATTGGAAAAA
* * *
27587812 TAATATTATTTTAATAGTTTAATATTAAA-TTA-TAT-TTAATATTTATCT
1 TAATAGTATTTTAATAATTTAATATTAAAGTGATTATCTTAATATTTATCT
*
27587860 TAATAGTATTTTATTAATTTAATATTAAAGTGATTATCTTAATATTTA
1 TAATAGTATTTTAATAATTTAATATTAAAGTGATTATCTTAATATTTA
27587908 ATTTAATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
48 26 0.63
49 2 0.05
50 3 0.07
51 10 0.24
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (51 bp):
TAATAGTATTTTAATAATTTAATATTAAAGTGATTATCTTAATATTTATCT
Found at i:27587887 original size:11 final size:11
Alignment explanation
Indices: 27587812--27587887 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
27587802 ATTGGAAAAA
*
27587812 TAATATTATTT
1 TAATATTAATT
27587823 TAATAGTTTAATAT
1 TAATA--TTAAT-T
27587837 TAA-ATTATATT
1 TAATATTA-ATT
*
27587848 TAATATTTATCT
1 TAATATTAAT-T
*
27587860 TAATAGT-ATT
1 TAATATTAATT
27587870 T--TATTAATT
1 TAATATTAATT
27587879 TAATATTAA
1 TAATATTAA
27587888 AGTGATTATC
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 22 0.42
12 12 0.23
13 5 0.10
14 4 0.08
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:27598468 original size:50 final size:50
Alignment explanation
Indices: 27598348--27598636 Score: 321
Period size: 50 Copynumber: 5.7 Consensus size: 50
27598338 CATGCCAAAA
** * *
27598348 CCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC--TGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGGTGCCAATG
* * * ** *
27598397 ACATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAATG
** *
27598447 CCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAATG
* * * * * *
27598497 CCATGTCCCAAACTTGGTATCACATGGGACCTCTCGTCTCGGTGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAATG
27598547 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGGATGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC--GG-TGCCAATG
*
27598603 CCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCT
27598637 TTACCCAAAT
Statistics
Matches: 201, Mismatches: 31, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
48 1 0.00
49 32 0.16
50 123 0.61
53 2 0.01
55 2 0.01
56 41 0.20
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAATG
Found at i:27600305 original size:47 final size:47
Alignment explanation
Indices: 27600198--27600406 Score: 188
Period size: 47 Copynumber: 4.3 Consensus size: 47
27600188 AATGTGATTT
* * * * *
27600198 CTGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATTTGTGCTT
1 CTGTATAAGACCATATCTGGGATATGGCATC-G-G---TGTGATATGTGCTA
* *
27600250 CCGTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTA
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
* * *
27600297 CTGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGATT
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
** * *
27600344 C-GTATAAGACCATGGCTGGGCTATGGCCTCGGTATGTGATATGTGACTA
1 CTGTATAAGACCATATCTGGGATATGGCATCGG--TGTGATATGTG-CTA
**
27600393 -TGTGCAAGACCATA
1 CTGTATAAGACCATA
27600407 ATTTTACTAT
Statistics
Matches: 131, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
46 26 0.20
47 55 0.42
48 11 0.08
49 11 0.08
50 1 0.01
51 1 0.01
52 26 0.20
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (47 bp):
CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
Found at i:27603294 original size:15 final size:16
Alignment explanation
Indices: 27603265--27603303 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
27603255 CAAAAAGTTA
*
27603265 GAAATGAATACTATAT
1 GAAATGAATAATATAT
27603281 GAAAT-AATAATATAT
1 GAAATGAATAATATAT
27603296 -AAATGAAT
1 GAAATGAAT
27603304 TTTCAAGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 4 0.19
15 12 0.57
16 5 0.24
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.31
Consensus pattern (16 bp):
GAAATGAATAATATAT
Found at i:27606733 original size:3 final size:3
Alignment explanation
Indices: 27606727--27606764 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
27606717 AAGTATTTTT
* *
27606727 TTA TTA TTG TTA TTA TTA TTG TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
27606765 CTTTGCACTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:27606744 original size:12 final size:12
Alignment explanation
Indices: 27606727--27606764 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
27606717 AAGTATTTTT
27606727 TTATTATTGTTA
1 TTATTATTGTTA
27606739 TTATTATTGTTA
1 TTATTATTGTTA
*
27606751 TTATTATTATTA
1 TTATTATTGTTA
27606763 TT
1 TT
27606765 CTTTGCACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (12 bp):
TTATTATTGTTA
Found at i:27608238 original size:18 final size:18
Alignment explanation
Indices: 27608215--27608257 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
27608205 CGTTCCTGGC
*
27608215 TTGATCAGTTCTTCTAGT
1 TTGATCAGTTCCTCTAGT
*
27608233 TTGATCAGTTCCTCTGGT
1 TTGATCAGTTCCTCTAGT
*
27608251 TCGATCA
1 TTGATCA
27608258 AATAAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (18 bp):
TTGATCAGTTCCTCTAGT
Found at i:27610106 original size:35 final size:33
Alignment explanation
Indices: 27610063--27610303 Score: 272
Period size: 35 Copynumber: 7.2 Consensus size: 33
27610053 TCACTTGTCT
* *
27610063 TTTCTTGCAGGGAATATTTCCTGTTCACGTATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACG-ATTA
* * *
27610097 TTCTATTGCAGGGAATCTTTCCTGTTCAC-ATCA
1 TT-TCTTGCAGGGAATCTCTCCTGTTCACGATTA
27610130 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACG-ATTA
* * * *
27610164 TTTTGTTGCAGGGAATCTTTACTGTTCAC-ATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCACGATTA
27610197 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACG-ATTA
* * * *
27610231 TTTTGTTGCAAGGAACCTCTCCTGTTCAC-ATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCACGATTA
*
27610264 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACG-ATTA
27610298 TTTCTT
1 TTTCTT
27610304 TTTGGACCTG
Statistics
Matches: 175, Mismatches: 23, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
32 73 0.42
33 11 0.06
34 17 0.10
35 74 0.42
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (33 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACGATTA
Found at i:27610173 original size:67 final size:67
Alignment explanation
Indices: 27610063--27610300 Score: 377
Period size: 67 Copynumber: 3.6 Consensus size: 67
27610053 TCACTTGTCT
* * * * *
27610063 TTTCTTGCAGGGAATATTTCCTGTTCACGTATTATTCTATTGCAGGGAATCTTTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTCCTGTTCACAT
27610128 CA
66 CA
*
27610130 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTACTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTCCTGTTCACAT
27610195 CA
66 CA
* * *
27610197 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAAGGAACCTCTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTCCTGTTCACAT
27610262 CA
66 CA
* *
27610264 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTT
27610301 CTTTTTGGAC
Statistics
Matches: 159, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 159 1.00
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (67 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTCCTGTTCACAT
CA
Found at i:27613129 original size:21 final size:22
Alignment explanation
Indices: 27613099--27613143 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
27613089 GAGCAAATTG
27613099 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
27613121 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
27613142 TT
1 TT
27613144 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:27617447 original size:16 final size:14
Alignment explanation
Indices: 27617416--27617473 Score: 98
Period size: 14 Copynumber: 4.0 Consensus size: 14
27617406 CAGGAAGTCC
27617416 CGAGACATTTTTTA
1 CGAGACATTTTTTA
27617430 CGAGACATTTTATTTA
1 CGAGACA-TTT-TTTA
27617446 CGAGACATTTTTTA
1 CGAGACATTTTTTA
27617460 CGAGACATTTTTTA
1 CGAGACATTTTTTA
27617474 GTATAGTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
14 25 0.60
15 6 0.14
16 11 0.26
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (14 bp):
CGAGACATTTTTTA
Found at i:27620447 original size:27 final size:26
Alignment explanation
Indices: 27620416--27620494 Score: 83
Period size: 25 Copynumber: 3.0 Consensus size: 26
27620406 TTCAAGAATG
27620416 CTCTTACGAGCACATA-AATGGGAAGCT
1 CTCTT-CGAGC-CATATAATGGGAAGCT
* *
27620443 CTCTTTCGAGTCATATAATAGGAAGCT
1 CTC-TTCGAGCCATATAATGGGAAGCT
27620470 CT-TGT-GAGCCATATAATGGGAAGCT
1 CTCT-TCGAGCCATATAATGGGAAGCT
27620495 TATCCGGACT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
25 19 0.42
26 5 0.11
27 19 0.42
28 2 0.04
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (26 bp):
CTCTTCGAGCCATATAATGGGAAGCT
Found at i:27620562 original size:24 final size:23
Alignment explanation
Indices: 27620507--27620579 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 23
27620497 TCCGGACTGT
27620507 ATAACAGGAAGCTCATAAGAGCC
1 ATAACAGGAAGCTCATAAGAGCC
* **
27620530 ATAGTCAGGAAGCTCATGCGAGCC
1 ATA-ACAGGAAGCTCATAAGAGCC
*
27620554 AATAACAGGTAGCTTCA-AAGAGCC
1 -ATAACAGGAAGC-TCATAAGAGCC
27620578 AT
1 AT
27620580 TAATCGGGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
23 5 0.12
24 29 0.73
25 6 0.15
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (23 bp):
ATAACAGGAAGCTCATAAGAGCC
Found at i:27620662 original size:25 final size:26
Alignment explanation
Indices: 27620628--27620693 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
27620618 TAAGCGATCC
* *
27620628 ATATCGGGAAGCTC-CGGAGAGCCAT
1 ATATCAGGAAGCTCACGAAGAGCCAT
*
27620653 -TAATCAGGAAGCTCATGAAGAGCCAT
1 AT-ATCAGGAAGCTCACGAAGAGCCAT
*
27620679 ATATCAGGACGCTCA
1 ATATCAGGAAGCTCA
27620694 TAAGAGCTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
24 1 0.03
25 11 0.32
26 21 0.62
27 1 0.03
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (26 bp):
ATATCAGGAAGCTCACGAAGAGCCAT
Found at i:27621169 original size:5 final size:5
Alignment explanation
Indices: 27621140--27621178 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
27621130 TAAATTTAAC
* *
27621140 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
27621179 CATATTAGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:27625171 original size:20 final size:21
Alignment explanation
Indices: 27625146--27625184 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27625136 TTAGGTTGAA
*
27625146 TAAATT-ATATAAGTTTGTTT
1 TAAATTAATATAAATTTGTTT
27625166 TAAATTAATATAAATTTGT
1 TAAATTAATATAAATTTGT
27625185 ACTGCATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (21 bp):
TAAATTAATATAAATTTGTTT
Found at i:27626268 original size:16 final size:16
Alignment explanation
Indices: 27626247--27626284 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
27626237 TTTGGTTCGC
27626247 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
27626263 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
27626279 CGTAAT
1 TGTAAT
27626285 AGGTAATCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.03, G:0.34, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:27626482 original size:21 final size:21
Alignment explanation
Indices: 27626456--27626499 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
27626446 TATTAAATTT
*
27626456 TAATAAGATTATTAATA-TAAA
1 TAATAA-ATAATTAATATTAAA
*
27626477 TAATAAATAATTATTATTAAA
1 TAATAAATAATTAATATTAAA
27626498 TA
1 TA
27626500 TAATTTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
TAATAAATAATTAATATTAAA
Found at i:27626527 original size:28 final size:28
Alignment explanation
Indices: 27626467--27626532 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
27626457 AATAAGATTA
* *
27626467 TTAATATAA-ATAATAAATAATTATTAT
1 TTAATATAATTTAATAAATAATTATAAT
*
27626494 TAAATATAATTTAATAAA-AATATATAAT
1 TTAATATAATTTAATAAATAAT-TATAAT
*
27626522 TTAATAAAATT
1 TTAATATAATT
27626533 CTTAGTATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
27 11 0.34
28 21 0.66
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
TTAATATAATTTAATAAATAATTATAAT
Found at i:27626577 original size:61 final size:60
Alignment explanation
Indices: 27626512--27626712 Score: 178
Period size: 61 Copynumber: 3.3 Consensus size: 60
27626502 ATTTAATAAA
27626512 AATATATAATTTAATAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTT-ATAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
* * * * * * * ** *
27626573 AATATATAATACTATAAAA-T-ATAAT-TTAAAATAATTATTAT-TAAATATAATTTAAT-AGA
1 AATATATAAT-TTATAAAATTCTTAGTATT-AAAT-ATTCTTATATGAATTTACTAAAATCA-T
* **
27626632 AATATATAATTTGTTAAAATTCTTAGTATTAAGCATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTT-ATAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
*
27626693 AATATATAATACTATAAAAT
1 AATATATAAT-TTATAAAAT
27626713 ATAATTTAAA
Statistics
Matches: 104, Mismatches: 25, Indels: 22
0.69 0.17 0.15
Matches are distributed among these distances:
58 4 0.04
59 32 0.31
60 16 0.15
61 47 0.45
62 5 0.05
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (60 bp):
AATATATAATTTATAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
Found at i:27626612 original size:120 final size:120
Alignment explanation
Indices: 27626481--27626746 Score: 478
Period size: 120 Copynumber: 2.2 Consensus size: 120
27626471 TATAAATAAT
*
27626481 AAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAGTATTAAAT
1 AAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAGTATTAAAC
27626546 ATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTA
66 ATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTA
* ** *
27626601 AAATAATTATTATTAAATATAATTTAATAGAAATATATAATTTGTTAAAATTCTTAGTATTAAGC
1 AAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAGTATTAAAC
27626666 ATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTA
66 ATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTA
*
27626721 AAATAATTATTATTAAACATAATTTA
1 AAATAATTATTATTAAATATAATTTA
27626747 TAATTTACTT
Statistics
Matches: 140, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 140 1.00
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (120 bp):
AAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAGTATTAAAC
ATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTA
Found at i:27626698 original size:59 final size:59
Alignment explanation
Indices: 27626515--27626698 Score: 146
Period size: 59 Copynumber: 3.1 Consensus size: 59
27626505 TAATAAAAAT
*
27626515 ATATAATTTAATAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCATA
1 ATATAATTTATTAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCATA
* * * * * * * *
27626574 ATAT-ATAATACTATAAAATATAATTTA-AAATAATTATTATTAAATAT-AATTTAATAGAA--A
1 ATATAAT-TTA-T-TAAAAT-T--CTTAGTATTAAATATTCTT--ATATGAATTTACTAAAATCA
27626634 T-
58 TA
* **
27626635 ATATAATTTGTTAAAATTCTTAGTATTAAGCATTCTTATATGAATTTACTAAAATCATA
1 ATATAATTTATTAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCATA
27626694 ATATA
1 ATATA
27626699 TAATACTATA
Statistics
Matches: 92, Mismatches: 19, Indels: 28
0.66 0.14 0.20
Matches are distributed among these distances:
55 4 0.04
56 13 0.14
57 9 0.10
58 5 0.05
59 17 0.18
60 1 0.01
61 11 0.12
62 5 0.05
63 10 0.11
64 13 0.14
65 4 0.04
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (59 bp):
ATATAATTTATTAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCATA
Found at i:27628997 original size:51 final size:50
Alignment explanation
Indices: 27628920--27629024 Score: 174
Period size: 51 Copynumber: 2.1 Consensus size: 50
27628910 ATGCTGGTTT
* *
27628920 TGATACCCTATCTTGATACGTGCAACAAATGGACACTTAAATATAAACAAA
1 TGATACCCTATCTTGATACATACAACAAATGGACACTT-AATATAAACAAA
*
27628971 TGATACCCTATCTTGATACATACAACACATGGACACTTAATATAAACAAA
1 TGATACCCTATCTTGATACATACAACAAATGGACACTTAATATAAACAAA
27629021 TGAT
1 TGAT
27629025 TTATAGCTAC
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
50 16 0.31
51 35 0.69
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (50 bp):
TGATACCCTATCTTGATACATACAACAAATGGACACTTAATATAAACAAA
Found at i:27629675 original size:227 final size:227
Alignment explanation
Indices: 27629280--27629731 Score: 850
Period size: 227 Copynumber: 2.0 Consensus size: 227
27629270 GATAGACGAT
* **
27629280 TGGATCCTTTGCTGTCTGTTCTGAAAAGAGATACTCTAAAGTTACCCCCTATTACTCAGTGTGAA
1 TGGATCCTTTGCTGTCTGTTCTGAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAA
*
27629345 GATGATTGAGTAGCCGTACACTAACAGCTATAGGAGGCTACTATGGGTGGTGGGGGCCAATCCCA
66 GATGATTGAGTAGCCGTACACTAACAGCTATAGGAGGCTACTATGGGTGGTGGGAGCCAATCCCA
27629410 AGGGGAAGAAGGGCTCAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCT
131 AGGGGAAGAAGGGCTCAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCT
*
27629475 AACCACCTTCGGCCTTATTTGTCAAGAATCGA
196 AACCACCTTCGGCCCTATTTGTCAAGAATCGA
27629507 TGGATCCTTTGCTGTCTGTTCTGAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAA
1 TGGATCCTTTGCTGTCTGTTCTGAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAA
27629572 GATGATTGAGTAGCCGTACACTAACAGCTATAGGAGGCTACTATGGGTGGTGGGAGCCAATCCCA
66 GATGATTGAGTAGCCGTACACTAACAGCTATAGGAGGCTACTATGGGTGGTGGGAGCCAATCCCA
*
27629637 AGGGGAAGAAGGGCTGAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCT
131 AGGGGAAGAAGGGCTCAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCT
27629702 AACCACCTTCGGCCCTATTTGTCAAGAATC
196 AACCACCTTCGGCCCTATTTGTCAAGAATC
27629732 AACAATGCTG
Statistics
Matches: 219, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
227 219 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (227 bp):
TGGATCCTTTGCTGTCTGTTCTGAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAA
GATGATTGAGTAGCCGTACACTAACAGCTATAGGAGGCTACTATGGGTGGTGGGAGCCAATCCCA
AGGGGAAGAAGGGCTCAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCT
AACCACCTTCGGCCCTATTTGTCAAGAATCGA
Found at i:27637302 original size:26 final size:26
Alignment explanation
Indices: 27637252--27637302 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
27637242 TTGGACGATT
* *
27637252 GAACGATTGAAATTTTAAGGGAAAGG
1 GAACAATTGAAATTTTAAGGAAAAGG
27637278 GAACAATTGAAATTTT-AGAGAAAAG
1 GAACAATTGAAATTTTAAG-GAAAAG
27637303 CGATCAGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.47, C:0.04, G:0.25, T:0.24
Consensus pattern (26 bp):
GAACAATTGAAATTTTAAGGAAAAGG
Found at i:27638417 original size:25 final size:25
Alignment explanation
Indices: 27638389--27638436 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
27638379 AAATACTTTA
*
27638389 ATTTA-AATAATATATATGTATATGT
1 ATTTACAA-AATATATATATATATGT
*
27638414 ATTTACAAAATATGTATATATAT
1 ATTTACAAAATATATATATATAT
27638437 AAGTATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (25 bp):
ATTTACAAAATATATATATATATGT
Found at i:27638810 original size:3 final size:3
Alignment explanation
Indices: 27638802--27638886 Score: 77
Period size: 3 Copynumber: 28.7 Consensus size: 3
27638792 TTAATATAGA
* **
27638802 AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAG AGC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
27638849 AGT AAA AAT AATT AAT -TT AAT AAT AA- AAT AATT AAT AA
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AA-T AAT AA
27638887 CAAATAGAGG
Statistics
Matches: 66, Mismatches: 11, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
2 5 0.08
3 55 0.83
4 6 0.09
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:27638826 original size:17 final size:17
Alignment explanation
Indices: 27638806--27638840 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
27638796 TATAGAAATA
27638806 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
27638823 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
27638840 A
1 A
27638841 AGAGCAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:27638826 original size:20 final size:21
Alignment explanation
Indices: 27638803--27638885 Score: 91
Period size: 20 Copynumber: 4.0 Consensus size: 21
27638793 TAATATAGAA
27638803 ATAATAATAATAATAA-TAAT
1 ATAATAATAATAATAATTAAT
*
27638823 ATAATAATAATAATAA-TAAG
1 ATAATAATAATAATAATTAAT
* * *
27638843 AGCAATAGTAAAAATAATTAAT
1 A-TAATAATAATAATAATTAAT
*
27638865 TTAATAATAA-AATAATTAAT
1 ATAATAATAATAATAATTAAT
27638885 A
1 A
27638886 ACAAATAGAG
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
20 30 0.58
21 19 0.37
22 3 0.06
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.33
Consensus pattern (21 bp):
ATAATAATAATAATAATTAAT
Found at i:27639792 original size:18 final size:18
Alignment explanation
Indices: 27639769--27639808 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
27639759 GCTGCTGAAT
27639769 GTGGGCGGTTGCTGCGAC
1 GTGGGCGGTTGCTGCGAC
*
27639787 GTGGGCGGTTGCTGTGAC
1 GTGGGCGGTTGCTGCGAC
27639805 GTGG
1 GTGG
27639809 AGTATGCGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.17, G:0.53, T:0.25
Consensus pattern (18 bp):
GTGGGCGGTTGCTGCGAC
Found at i:27640500 original size:128 final size:127
Alignment explanation
Indices: 27640316--27640646 Score: 466
Period size: 128 Copynumber: 2.6 Consensus size: 127
27640306 TGCTCTACTG
* * * *
27640316 CAAC-TCATAGAGATAAGATCCGTTTTTAATCCGCTCCACTGCATCTTCAGGGAGATAGGATTAT
1 CAACTTCAGAGAGATAAGATCCGATGTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAT
* * *
27640380 TTTCTTCAATTTACTCCACTGCAACTTCAGGGAGATAAGATTGGATACAATCTGCTCTTCTG
66 TTTCTTCAATTTACTCCACTGCAACTTCAGGGAGATAAGACTGGATACAATCTACTCTTCTA
* * * * * *
27640442 TAACTTCAGAGAAGCTAAGATCTGATGTTAATCTGCTCTACTGCAACTTCAGGAAGATAGGATTA
1 CAACTTCAGAG-AGATAAGATCCGATGTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTA
* * * *
27640507 TTTTCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGACTGGATGCAATCTACTCTTCTA
65 TTTTCTTCAATTTACTCCACTGCAACTTCAGGGAGATAAGACTGGATACAATCTACTCTTCTA
* * *
27640570 CAACTTTAGAGAGATAAGATCCGATTTTAATCCGCTCCACTGCAATTTCAGGGAGATAGGATTAT
1 CAACTTCAGAGAGATAAGATCCGATGTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAT
27640635 TTTCTTCAATTT
66 TTTCTTCAATTT
27640647 GTTTAACTGC
Statistics
Matches: 176, Mismatches: 27, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
126 3 0.02
127 63 0.36
128 110 0.62
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (127 bp):
CAACTTCAGAGAGATAAGATCCGATGTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAT
TTTCTTCAATTTACTCCACTGCAACTTCAGGGAGATAAGACTGGATACAATCTACTCTTCTA
Found at i:27640523 original size:44 final size:43
Alignment explanation
Indices: 27640343--27640544 Score: 158
Period size: 44 Copynumber: 4.7 Consensus size: 43
27640333 ATCCGTTTTT
* *
27640343 AATCCGCTCCACTGCATCTTCAGGGAGATAGGATTATTTTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGA-TATTTTCTTC
* * * *** *
27640387 AATTTACTCCACTGCAACTTCAGGGAGATA--AGATTGGATAC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATATTTTCTTC
** * * * * * ** *
27640428 AATCTGCTCTTCTGTAACTTCAGAGAAGCTAAGATCTGATGTT-
1 AATCTGCTCCACTGCAACTTCAG-GGAGATAGGATATTTTCTTC
* *
27640471 AATCTGCTCTACTGCAACTTCAGGAAGATAGGATTATTTTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGA-TATTTTCTTC
*
27640515 AATCTGCTCCACTGCAACTTTAGGGAGATA
1 AATCTGCTCCACTGCAACTTCAGGGAGATA
27640545 AGACTGGATG
Statistics
Matches: 119, Mismatches: 34, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
41 23 0.19
42 14 0.12
43 26 0.22
44 56 0.47
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.32
Consensus pattern (43 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAGGATATTTTCTTC
Found at i:27640772 original size:100 final size:98
Alignment explanation
Indices: 27640638--27641003 Score: 468
Period size: 100 Copynumber: 3.7 Consensus size: 98
27640628 GGATTATTTT
* *
27640638 CTTCAAT-TTGTTTAACTGCAATGTCGGAGAAACAAGATTTGCCGTCGTGACTTCAATCTGTTCC
1 CTTCAATCTT-TTTAACTGCAATGTCGG-GAAACAAGATTCGCCATCGTGACTTCAATCTGTTCC
* * *
27640702 ACTGCACTGCCAGGAAGGTAAGATTCGCCGTTGTGA
64 ACTACACCGCCAGGAA-GTAAGATTCGCCGTTGTGG
* * * * * * *
27640738 CTTCAATATATTTAACTACAATGTTAGGGAAACAAGGTTCGCCATCGTGACTTCAATCTATTCCC
1 CTTCAATCTTTTTAACTGCAATG-TCGGGAAACAAGATTCGCCATCGTGACTTCAATCTGTTCCA
27640803 CTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
65 CTACACCGCCA-GGAAGTAAGATTCGCCGTTGTGG
* *
27640838 CTTCAATCTTTTTAATTGCAATGTCGGGAAACAAGATACGCCATCGT-AGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAACTGCAATGTCGGGAAACAAGATTCGCCATCGTGA-CTTCAATCTGTTCCA
*
27640902 CTACACCACCAAGGAAGTAAGATTCGCCGTTGTGG
65 CTACACCGCC-AGGAAGTAAGATTCGCCGTTGTGG
* * *
27640937 CTTTAATCTTTTTAACTGCAATGTCGGGGAAACAAGA-TCTGCCGTCGTGGCTTCAATCTGTTCC
1 CTTCAATCTTTTTAACTGCAATGTC-GGGAAACAAGATTC-GCCATCGTGACTTCAATCTGTTCC
27641001 ACT
64 ACT
27641004 GTAATGCCAA
Statistics
Matches: 232, Mismatches: 26, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
98 1 0.00
99 90 0.39
100 133 0.57
101 8 0.03
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (98 bp):
CTTCAATCTTTTTAACTGCAATGTCGGGAAACAAGATTCGCCATCGTGACTTCAATCTGTTCCAC
TACACCGCCAGGAAGTAAGATTCGCCGTTGTGG
Found at i:27641028 original size:199 final size:200
Alignment explanation
Indices: 27640638--27641003 Score: 463
Period size: 199 Copynumber: 1.8 Consensus size: 200
27640628 GGATTATTTT
** *
27640638 CTTCAATTTGTTTAACTGCAATGTCGGAGAAACAAGATTTGCCGTCGTGACTTCAATCTGTTCCA
1 CTTCAATTTGTTTAACTGCAATGTCGGAGAAACAAGATACGCCATCGTGACTTCAATCTGTTCCA
* ** *
27640703 CTGCACTGCCAGGAAGGTAAGATTCGCCGTTGTGACTTCAATATATTTAACTACAATGTTAGGGA
66 CTACACCACCAGGAAGGTAAGATTCGCCGTTGTGACTTCAATATATTTAACTACAATGTCAGGGA
* * * **
27640768 AACAAGGTTCGCCATCGTGACTTCAATCTATTCCCCTACACCGCCAGGGAAGTAAGATTCGCCGT
131 AACAAGATTCGCCATCGTGACTTCAATCTATTCCACTACAACGCCAAAGAAGTAAGATTCGCCGT
27640833 TGTGG
196 TGTGG
*
27640838 CTTCAATCTT-TTTAATTGCAATGTCGG-GAAACAAGATACGCCATCGT-AGCTTCAATCTGTTC
1 CTTCAAT-TTGTTTAACTGCAATGTCGGAGAAACAAGATACGCCATCGTGA-CTTCAATCTGTTC
* * * * * *
27640900 CACTACACCACCAAGGAA-GTAAGATTCGCCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGG
64 CACTACACCACC-AGGAAGGTAAGATTCGCCGTTGTGACTTCAATATATTTAACTACAATGTCAG
* * *
27640964 GGAAACAAGA-TCTGCCGTCGTGGCTTCAATCTGTTCCACT
128 GGAAACAAGATTC-GCCATCGTGACTTCAATCTATTCCACT
27641004 GTAATGCCAA
Statistics
Matches: 143, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
198 3 0.02
199 110 0.77
200 28 0.20
201 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (200 bp):
CTTCAATTTGTTTAACTGCAATGTCGGAGAAACAAGATACGCCATCGTGACTTCAATCTGTTCCA
CTACACCACCAGGAAGGTAAGATTCGCCGTTGTGACTTCAATATATTTAACTACAATGTCAGGGA
AACAAGATTCGCCATCGTGACTTCAATCTATTCCACTACAACGCCAAAGAAGTAAGATTCGCCGT
TGTGG
Found at i:27642259 original size:42 final size:41
Alignment explanation
Indices: 27642212--27642332 Score: 161
Period size: 42 Copynumber: 2.9 Consensus size: 41
27642202 GGTATAGCAA
* * **
27642212 GATCACTGCATGCCTCATTTTAATCAATATTTGAGCTGCTCT
1 GATCACT-CATGCCCCATTTTGATCAATATTTGAGCCACTCT
*
27642254 GATCACCTCATGCCCCATTTTGATCAATATTTGAGCCATTCT
1 GATCA-CTCATGCCCCATTTTGATCAATATTTGAGCCACTCT
*
27642296 GATCACATCATACCCCATTTTGATCAATATTTGAGCC
1 GATCAC-TCATGCCCCATTTTGATCAATATTTGAGCC
27642333 GCCCTTTTTG
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
41 1 0.01
42 68 0.96
43 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (41 bp):
GATCACTCATGCCCCATTTTGATCAATATTTGAGCCACTCT
Found at i:27642292 original size:21 final size:21
Alignment explanation
Indices: 27642268--27642332 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
27642258 ACCTCATGCC
27642268 CCATTTTGATCAATATTTGAG
1 CCATTTTGATCAATATTTGAG
* *
27642289 CCATTCTGATCACATCA--T-ACC
1 CCATTTTGATCA-AT-ATTTGA-G
27642310 CCATTTTGATCAATATTTGAG
1 CCATTTTGATCAATATTTGAG
27642331 CC
1 CC
27642333 GCCCTTTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
19 1 0.03
20 3 0.09
21 26 0.76
22 3 0.09
23 1 0.03
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.37
Consensus pattern (21 bp):
CCATTTTGATCAATATTTGAG
Found at i:27642422 original size:11 final size:12
Alignment explanation
Indices: 27642406--27642436 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
27642396 CCTTGGCCTC
27642406 TCCTTTTTCTTT
1 TCCTTTTTCTTT
27642418 T-CTTTTTCTTT
1 TCCTTTTTCTTT
27642429 TCCTTTTT
1 TCCTTTTT
27642437 TCATCATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
TCCTTTTTCTTT
Found at i:27642472 original size:13 final size:14
Alignment explanation
Indices: 27642464--27642530 Score: 70
Period size: 13 Copynumber: 4.9 Consensus size: 14
27642454 CAATTTTTAT
27642464 TTTTTA-TTTTT-A
1 TTTTTATTTTTTGA
*
27642476 TTTTGATTTTTCCTGA
1 TTTTTATTTTT--TGA
27642492 TTTTTTATTTTTTGA
1 -TTTTTATTTTTTGA
27642507 -TTTTATTTTTTGA
1 TTTTTATTTTTTGA
27642520 -TTTTATTTTTT
1 TTTTTATTTTTT
27642531 CAGATTTTTC
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
12 5 0.10
13 28 0.58
15 4 0.08
16 1 0.02
17 10 0.21
ACGTcount: A:0.13, C:0.03, G:0.06, T:0.78
Consensus pattern (14 bp):
TTTTTATTTTTTGA
Found at i:27642486 original size:50 final size:49
Alignment explanation
Indices: 27642433--27642528 Score: 115
Period size: 49 Copynumber: 2.0 Consensus size: 49
27642423 TTCTTTTCCT
27642433 TTTTTCATCA-TTCTTATTTTTCAATTTTTATTTTTT-ATTTTTATTTTGA
1 TTTTTCATCATTTCTTATTTTTCAA-TTTTATTTTTTGA-TTTTATTTTGA
* * * **
27642482 TTTTTCCTGATTTTTTATTTTTTGATTTTATTTTTTGATTTTATTTT
1 TTTTTCATCATTTCTTATTTTTCAATTTTATTTTTTGATTTTATTTT
27642529 TTCAGATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
49 28 0.70
50 12 0.30
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.74
Consensus pattern (49 bp):
TTTTTCATCATTTCTTATTTTTCAATTTTATTTTTTGATTTTATTTTGA
Found at i:27642495 original size:43 final size:43
Alignment explanation
Indices: 27642448--27642540 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 43
27642438 CATCATTCTT
* *
27642448 ATTTTTCAATTTTT-ATTTT-TTATTTTTATTTTGATTTTTCCTG
1 ATTTTTCAATTTTTGATTTTATT-TTTTGATTTT-ATTTTTCCAG
* * *
27642491 ATTTTTTATTTTTTGATTTTATTTTTTGATTTTATTTTTTCAG
1 ATTTTTCAATTTTTGATTTTATTTTTTGATTTTATTTTTCCAG
27642534 ATTTTTC
1 ATTTTTC
27642541 TTTGATTGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
43 26 0.62
44 14 0.33
45 2 0.05
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.73
Consensus pattern (43 bp):
ATTTTTCAATTTTTGATTTTATTTTTTGATTTTATTTTTCCAG
Found at i:27642530 original size:7 final size:7
Alignment explanation
Indices: 27642446--27642523 Score: 56
Period size: 7 Copynumber: 11.0 Consensus size: 7
27642436 TTCATCATTC
27642446 TTATTTT
1 TTATTTT
* *
27642453 TCAATTT
1 TTATTTT
27642460 TTATTTT
1 TTATTTT
27642467 TTA-TTT
1 TTATTTT
27642473 TTA-TTT
1 TTATTTT
*
27642479 TGATTTT
1 TTATTTT
27642486 TCCTGATTTT
1 T--T-ATTTT
27642496 TTATTTT
1 TTATTTT
27642503 TTGA--TT
1 TT-ATTTT
27642509 TTATTTT
1 TTATTTT
27642516 TTGATTTT
1 TT-ATTTT
27642524 ATTTTTTCAG
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
5 1 0.02
6 15 0.26
7 28 0.49
8 7 0.12
10 6 0.11
ACGTcount: A:0.15, C:0.04, G:0.05, T:0.76
Consensus pattern (7 bp):
TTATTTT
Found at i:27642544 original size:26 final size:26
Alignment explanation
Indices: 27642494--27642547 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
27642484 TTTCCTGATT
*
27642494 TTTTATTTTTTGATTTTATTTTTTGA
1 TTTTATTTTTTGATTTTATTCTTTGA
27642520 TTTTATTTTTTCAGA-TTT-TTCTTTGA
1 TTTTATTTTTT--GATTTTATTCTTTGA
27642546 TT
1 TT
27642548 GAATCTGAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 20 0.80
27 3 0.12
28 2 0.08
ACGTcount: A:0.15, C:0.04, G:0.07, T:0.74
Consensus pattern (26 bp):
TTTTATTTTTTGATTTTATTCTTTGA
Found at i:27646950 original size:13 final size:14
Alignment explanation
Indices: 27646926--27646955 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
27646916 TACAAAATAT
27646926 GTATATATATATAA
1 GTATATATATATAA
27646940 GTATA-ATATATAA
1 GTATATATATATAA
27646953 GTA
1 GTA
27646956 AAGTTTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (14 bp):
GTATATATATATAA
Found at i:27661979 original size:34 final size:34
Alignment explanation
Indices: 27661931--27662000 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
27661921 TTCAAGCGCA
*
27661931 TTAGGGTTTTGTTTATTTAAA-TTAGGATTTAGGG
1 TTAGGGTTTTGTTTATTTAAAGTAAGG-TTTAGGG
*
27661965 TTAGTGTTTTGTTTATTTAAAGTAAGGTTTAGGG
1 TTAGGGTTTTGTTTATTTAAAGTAAGGTTTAGGG
27661999 TT
1 TT
27662001 TTTTGAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 29 0.88
35 4 0.12
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (34 bp):
TTAGGGTTTTGTTTATTTAAAGTAAGGTTTAGGG
Found at i:27662575 original size:20 final size:20
Alignment explanation
Indices: 27662550--27662591 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
27662540 CGAGCATTAG
*
27662550 CGGCGATTTAGCCA-AAGCGC
1 CGGCGATTT-CCCAGAAGCGC
27662570 CGGCGATTTCCCAGAAGCGC
1 CGGCGATTTCCCAGAAGCGC
27662590 CG
1 CG
27662592 CTAAAAATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.21, C:0.33, G:0.31, T:0.14
Consensus pattern (20 bp):
CGGCGATTTCCCAGAAGCGC
Found at i:27662732 original size:41 final size:41
Alignment explanation
Indices: 27662675--27662814 Score: 219
Period size: 41 Copynumber: 3.4 Consensus size: 41
27662665 ATTTTTTAAA
*
27662675 CCTTTAGCGGCGTTTTTATCTAAGCGTCGCTAATTCTCTGG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGG
*
27662716 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTC-GG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGG
* * *
27662756 ATCTTTAGCGGCGTTTTTATCTGAGCGCCACTAATTCTCTGG
1 -CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGG
27662798 CCTTTAGCGGCGTTTTT
1 CCTTTAGCGGCGTTTTT
27662815 GCCGAAGCGC
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
40 2 0.02
41 86 0.96
42 2 0.02
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.38
Consensus pattern (41 bp):
CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGG
Found at i:27662823 original size:82 final size:82
Alignment explanation
Indices: 27662676--27662831 Score: 249
Period size: 82 Copynumber: 1.9 Consensus size: 82
27662666 TTTTTTAAAC
* * * *
27662676 CTTTAGCGGCGTTTTTATCTAAGCGTCGCTAATTCTCTGGCCTTTAGCGGCGTTTTTATCTAAGC
1 CTTTAGCGGCGTTTTTATCTAAGCGCCACTAATTCTCTGGCCTTTAGCGGCGTTTTTACCGAAGC
27662741 GCCGCTAATGCTCGGAT
66 GCCGCTAATGCTCGGAT
* *
27662758 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATTCTCTGGCCTTTAGCGGCGTTTTTGCCGAAGC
1 CTTTAGCGGCGTTTTTATCTAAGCGCCACTAATTCTCTGGCCTTTAGCGGCGTTTTTACCGAAGC
*
27662823 GCTGCTAAT
66 GCCGCTAAT
27662832 AGTAACAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 67 1.00
ACGTcount: A:0.15, C:0.25, G:0.24, T:0.36
Consensus pattern (82 bp):
CTTTAGCGGCGTTTTTATCTAAGCGCCACTAATTCTCTGGCCTTTAGCGGCGTTTTTACCGAAGC
GCCGCTAATGCTCGGAT
Found at i:27662824 original size:41 final size:41
Alignment explanation
Indices: 27662675--27662831 Score: 183
Period size: 41 Copynumber: 3.8 Consensus size: 41
27662665 ATTTTTTAAA
* * *
27662675 CCTTTAGCGGCGTTTTTATCTAAGCGTCGCTAATTCTCTGG
1 CCTTTAGCGGCGTTTTTACCGAAGCGCCGCTAATTCTCTGG
* * *
27662716 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTC-GG
1 CCTTTAGCGGCGTTTTTACCGAAGCGCCGCTAATTCTCTGG
* * *
27662756 ATCTTTAGCGGCGTTTTTATCTG-AGCGCCACTAATTCTCTGG
1 -CCTTTAGCGGCGTTTTTA-CCGAAGCGCCGCTAATTCTCTGG
* *
27662798 CCTTTAGCGGCGTTTTTGCCGAAGCGCTGCTAAT
1 CCTTTAGCGGCGTTTTTACCGAAGCGCCGCTAAT
27662832 AGTAACAAAA
Statistics
Matches: 99, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
40 4 0.04
41 93 0.94
42 2 0.02
ACGTcount: A:0.15, C:0.25, G:0.24, T:0.36
Consensus pattern (41 bp):
CCTTTAGCGGCGTTTTTACCGAAGCGCCGCTAATTCTCTGG
Found at i:27663641 original size:21 final size:21
Alignment explanation
Indices: 27663616--27663660 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
27663606 CAACTTAAAA
*
27663616 CAGAGGCGGCAACGAGGGAAG
1 CAGAGGCGGCAACGAGAGAAG
* *
27663637 CAGAGGCTGCAGCGAGAGAAG
1 CAGAGGCGGCAACGAGAGAAG
27663658 CAG
1 CAG
27663661 CGAGAGAAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.20, G:0.44, T:0.02
Consensus pattern (21 bp):
CAGAGGCGGCAACGAGAGAAG
Found at i:27663662 original size:12 final size:12
Alignment explanation
Indices: 27663645--27663672 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
27663635 AGCAGAGGCT
27663645 GCAGCGAGAGAA
1 GCAGCGAGAGAA
27663657 GCAGCGAGAGAA
1 GCAGCGAGAGAA
27663669 GCAG
1 GCAG
27663673 AGGTTCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.18, G:0.43, T:0.00
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:27664143 original size:43 final size:43
Alignment explanation
Indices: 27664096--27664186 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
27664086 CATATAGTGG
*
27664096 CGTTTGTGAAAT-AAGCGCCGCGAAAGAACACTACTTTTAGCGA
1 CGTTTGT-AAATGAAGCACCGCGAAAGAACACTACTTTTAGCGA
* ** * *
27664139 CGTTTGTAGATGAAGCACCGTTAAAGAACATTACTTTTAGCGG
1 CGTTTGTAAATGAAGCACCGCGAAAGAACACTACTTTTAGCGA
27664182 CGTTT
1 CGTTT
27664187 TTTACCAAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 3 0.07
43 38 0.93
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (43 bp):
CGTTTGTAAATGAAGCACCGCGAAAGAACACTACTTTTAGCGA
Found at i:27664246 original size:43 final size:43
Alignment explanation
Indices: 27664107--27664378 Score: 257
Period size: 43 Copynumber: 6.3 Consensus size: 43
27664097 GTTTGTGAAA
* * * * ***
27664107 TAAGCGCCGCGAAAGAACACTACTTTTAGCGACG-TTTGTAGA
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTTCC
* * *
27664149 TGAAGCACCGTTAAAGAACATTACTTTTAGCGGCGTTTTTTACC
1 T-AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTTCC
* *
27664193 -AAGCGTCGCTATAGAACATTACTTTTAGCGGCGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTTCC
* * * *
27664235 TAAACGCCGCTAAAGATCATGTTC-TTTAACGGCG-TTTTTTCC
1 TAAGCGCCGCTAAAGAACAT-TACTTTTAGCGGCGTTTTTTTCC
* * *
27664277 CAAGCGCCGCTAAAGAACATGA-TCATTAGCGGCGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTTTTTCC
* * * *
27664320 TAAGCGCCGCTAAAGAACATGACCTTTAGCAGCGTTTTTTTCTG
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTTC-C
*
27664364 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
27664379 TTAGCGACGT
Statistics
Matches: 189, Mismatches: 32, Indels: 16
0.80 0.14 0.07
Matches are distributed among these distances:
42 71 0.38
43 97 0.51
44 21 0.11
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (43 bp):
TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTTCC
Found at i:27664268 original size:85 final size:85
Alignment explanation
Indices: 27664160--27664359 Score: 267
Period size: 85 Copynumber: 2.4 Consensus size: 85
27664150 GAAGCACCGT
* * * * * *
27664160 TAAAGAACATTACTTTTAGCGGCGTTTTTTACCAAGCGTCGCTATAGAACATTA-CTTTTAGCGG
1 TAAAGAACATGACCTTTAGCGGCGTTTTTTACCAAGCGCCGCTAAAGAACATGATC-ATTAGCGG
27664224 CGTTTTTTTCCTAAACGCCGC
65 CGTTTTTTTCCTAAACGCCGC
* ** * *
27664245 TAAAGATCATGTTCTTTAACGGCGTTTTTTCCCAAGCGCCGCTAAAGAACATGATCATTAGCGGC
1 TAAAGAACATGACCTTTAGCGGCGTTTTTTACCAAGCGCCGCTAAAGAACATGATCATTAGCGGC
*
27664310 GTTTTTTTCCTAAGCGCCGC
66 GTTTTTTTCCTAAACGCCGC
*
27664330 TAAAGAACATGACCTTTAGCAGCGTTTTTT
1 TAAAGAACATGACCTTTAGCGGCGTTTTTT
27664360 TCTGTAAGCG
Statistics
Matches: 97, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
85 96 0.99
86 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (85 bp):
TAAAGAACATGACCTTTAGCGGCGTTTTTTACCAAGCGCCGCTAAAGAACATGATCATTAGCGGC
GTTTTTTTCCTAAACGCCGC
Found at i:27673127 original size:16 final size:17
Alignment explanation
Indices: 27673077--27673124 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
27673067 TTATTCATTC
27673077 GATGGCTATTAAAGTTG
1 GATGGCTATTAAAGTTG
* **
27673094 GATGG-AAAAAAAGTTG
1 GATGGCTATTAAAGTTG
27673110 GATGGCTATTAAAGT
1 GATGGCTATTAAAGT
27673125 GGACTTTGAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.38, C:0.04, G:0.29, T:0.29
Consensus pattern (17 bp):
GATGGCTATTAAAGTTG
Found at i:27678106 original size:18 final size:18
Alignment explanation
Indices: 27678083--27678141 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
27678073 AGTTTGTAAC
27678083 TGAGTTGGGGTAGCCTGT
1 TGAGTTGGGGTAGCCTGT
* *
27678101 TGAGTTGGGGTACTCTCTTGC
1 TGAGTTGGGGTA-GC-C-TGT
*
27678122 TGATTTGGGGTAGCCTGT
1 TGAGTTGGGGTAGCCTGT
27678140 TG
1 TG
27678142 TTGAGTTGGG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
18 16 0.48
19 2 0.06
20 2 0.06
21 13 0.39
ACGTcount: A:0.10, C:0.14, G:0.39, T:0.37
Consensus pattern (18 bp):
TGAGTTGGGGTAGCCTGT
Found at i:27678150 original size:21 final size:20
Alignment explanation
Indices: 27678083--27678152 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 20
27678073 AGTTTGTAAC
27678083 TGAGTTGGGGTAGCC--TGT
1 TGAGTTGGGGTAGCCTTTGT
*
27678101 TGAGTTGGGGTA-CTCTCTTGC
1 TGAGTTGGGGTAGC-CT-TTGT
*
27678122 TGATTTGGGGTAGCCTGTTGT
1 TGAGTTGGGGTAGCCT-TTGT
27678143 TGAGTTGGGG
1 TGAGTTGGGG
27678153 CAACCACTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
17 1 0.02
18 13 0.31
21 27 0.64
22 1 0.02
ACGTcount: A:0.10, C:0.11, G:0.41, T:0.37
Consensus pattern (20 bp):
TGAGTTGGGGTAGCCTTTGT
Found at i:27678851 original size:28 final size:28
Alignment explanation
Indices: 27678820--27678874 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
27678810 CACACGCACC
*
27678820 TAAAAAACAGTCACTACATGCATATTAT
1 TAAAAAACACTCACTACATGCATATTAT
* *
27678848 TAAAAAATACTCACTGCATGCATATTA
1 TAAAAAACACTCACTACATGCATATTA
27678875 AAAAATAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.29
Consensus pattern (28 bp):
TAAAAAACACTCACTACATGCATATTAT
Found at i:27679021 original size:25 final size:25
Alignment explanation
Indices: 27678972--27679049 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 25
27678962 ACACCAACAA
27678972 TCACTGCATGCATATTATTAAAAAATAC
1 TCACTGCATGC--A-TATTAAAAAATAC
*
27679000 TCACTGCATGCATATTAAAAAATAG
1 TCACTGCATGCATATTAAAAAATAC
** *
27679025 TCAACAACATGTATATTAAAAAATA
1 TC-ACTGCATGCATATTAAAAAATA
27679050 TTCATACACA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
25 14 0.31
26 20 0.44
28 11 0.24
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.29
Consensus pattern (25 bp):
TCACTGCATGCATATTAAAAAATAC
Found at i:27679025 original size:95 final size:96
Alignment explanation
Indices: 27678914--27679179 Score: 489
Period size: 96 Copynumber: 2.8 Consensus size: 96
27678904 ATATTCATAC
27678914 ACATATTAAAAAATAGTCAACAACATGTATATTAAAAAACAGTCATACACACCAACAATCACTGC
1 ACATATTAAAAAATAGTCAACAACATGTATATTAAAAAACAGTCATACACACCAACAATCACTGC
27678979 ATGCATATTATT-AAAAAATACTCACTGCAT
66 ATGCATATTATTAAAAAAATACTCACTGCAT
* * *
27679009 GCATATTAAAAAATAGTCAACAACATGTATATTAAAAAATATTCATACACACCAACAATCACTGC
1 ACATATTAAAAAATAGTCAACAACATGTATATTAAAAAACAGTCATACACACCAACAATCACTGC
27679074 ATGCATATTATTAAAAAAATACTCACTGCAT
66 ATGCATATTATTAAAAAAATACTCACTGCAT
*
27679105 ACATATTAAAAAATAGTCAACAGCATGTATATTAAAAAACAGTCATACACACCAACAATCACTGC
1 ACATATTAAAAAATAGTCAACAACATGTATATTAAAAAACAGTCATACACACCAACAATCACTGC
27679170 ATGCATATTA
66 ATGCATATTA
27679180 AAAAACACTC
Statistics
Matches: 163, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
95 74 0.45
96 89 0.55
ACGTcount: A:0.48, C:0.20, G:0.07, T:0.26
Consensus pattern (96 bp):
ACATATTAAAAAATAGTCAACAACATGTATATTAAAAAACAGTCATACACACCAACAATCACTGC
ATGCATATTATTAAAAAAATACTCACTGCAT
Found at i:27679103 original size:25 final size:26
Alignment explanation
Indices: 27679075--27679143 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 26
27679065 AATCACTGCA
27679075 TGCATATTATTAAAAAAATACTC-AC
1 TGCATATTATTAAAAAAATACTCAAC
* *
27679100 TGCATACATATT-AAAAAATAGTCAAC
1 TGCATA-TTATTAAAAAAATACTCAAC
* *
27679126 AGCATGTATATTAAAAAA
1 TGCATAT-TATTAAAAAA
27679144 CAGTCATACA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
25 16 0.46
26 14 0.40
27 5 0.14
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.29
Consensus pattern (26 bp):
TGCATATTATTAAAAAAATACTCAAC
Found at i:27679130 original size:26 final size:26
Alignment explanation
Indices: 27679082--27679149 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
27679072 GCATGCATAT
* *
27679082 TATTAAAAAAATACTC-ACTGCATACA
1 TATT-AAAAAATAGTCAACAGCATACA
**
27679108 TATTAAAAAATAGTCAACAGCATGTA
1 TATTAAAAAATAGTCAACAGCATACA
*
27679134 TATTAAAAAACAGTCA
1 TATTAAAAAATAGTCA
27679150 TACACACCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
25 10 0.28
26 26 0.72
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.26
Consensus pattern (26 bp):
TATTAAAAAATAGTCAACAGCATACA
Found at i:27680283 original size:6 final size:6
Alignment explanation
Indices: 27680269--27680313 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
27680259 TCGAAATTGT
*
27680269 AATCGA AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA AAT
1 AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA AAT
27680314 TGAAATTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.64, C:0.16, G:0.02, T:0.18
Consensus pattern (6 bp):
AATCAA
Found at i:27683231 original size:24 final size:24
Alignment explanation
Indices: 27683199--27683275 Score: 120
Period size: 26 Copynumber: 3.2 Consensus size: 24
27683189 AGGCCCAAAA
27683199 CTTTTATTTTTCTTCAAAAATTTC
1 CTTTTATTTTTCTTCAAAAATTTC
*
27683223 CTTTTATTTTTCTTCAAAAATCATCC
1 CTTTTATTTTTCTTCAAAAAT--TTC
27683249 CTTTTATTTTTCTTCAAAAA-TTC
1 CTTTTATTTTTCTTCAAAAATTTC
27683272 CTTT
1 CTTT
27683276 AAATTCTAGG
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
23 6 0.12
24 21 0.43
26 22 0.45
ACGTcount: A:0.25, C:0.19, G:0.00, T:0.56
Consensus pattern (24 bp):
CTTTTATTTTTCTTCAAAAATTTC
Found at i:27683258 original size:26 final size:24
Alignment explanation
Indices: 27683199--27683272 Score: 121
Period size: 24 Copynumber: 3.0 Consensus size: 24
27683189 AGGCCCAAAA
*
27683199 CTTTTATTTTTCTTCAAAAATTTC
1 CTTTTATTTTTCTTCAAAAATTCC
27683223 CTTTTATTTTTCTTCAAAAATCATCC
1 CTTTTATTTTTCTTCAAAAAT--TCC
27683249 CTTTTATTTTTCTTCAAAAATTCC
1 CTTTTATTTTTCTTCAAAAATTCC
27683273 TTTAAATTCT
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
24 24 0.51
26 23 0.49
ACGTcount: A:0.26, C:0.20, G:0.00, T:0.54
Consensus pattern (24 bp):
CTTTTATTTTTCTTCAAAAATTCC
Found at i:27683646 original size:45 final size:45
Alignment explanation
Indices: 27683595--27683684 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
27683585 CGGTAAGTAC
27683595 GCCTCAATCTCGATGTTTAGATCTTGAATCACTATAGAACTTCTA
1 GCCTCAATCTCGATGTTTAGATCTTGAATCACTATAGAACTTCTA
27683640 GCCTCAATCTCGATGTTTAGATCTTGAATCACTATAGAACTTCTA
1 GCCTCAATCTCGATGTTTAGATCTTGAATCACTATAGAACTTCTA
27683685 TAACGATAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (45 bp):
GCCTCAATCTCGATGTTTAGATCTTGAATCACTATAGAACTTCTA
Found at i:27684137 original size:28 final size:28
Alignment explanation
Indices: 27684100--27684240 Score: 162
Period size: 28 Copynumber: 5.1 Consensus size: 28
27684090 GTGTCCCTTG
* *
27684100 TTTTTCAGATTTTATAGTTTTTCCCCTA
1 TTTTTTAGATTTTACAGTTTTTCCCCTA
* ** *
27684128 TTTTTTAGATTTTATAGTTTTTCCTTTT
1 TTTTTTAGATTTTACAGTTTTTCCCCTA
* *
27684156 TTTTTTAGA-TTTAGAG-TTTTCCTCTA
1 TTTTTTAGATTTTACAGTTTTTCCCCTA
* *
27684182 TTTTTTAGATTTTACAATTTTGCCCCTA
1 TTTTTTAGATTTTACAGTTTTTCCCCTA
*
27684210 TTTTTTAGATTTTACAG-TTTTGCCCTA
1 TTTTTTAGATTTTACAGTTTTTCCCCTA
27684237 TTTT
1 TTTT
27684241 CTAAGTTTTA
Statistics
Matches: 97, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
26 17 0.18
27 23 0.24
28 57 0.59
ACGTcount: A:0.18, C:0.13, G:0.09, T:0.60
Consensus pattern (28 bp):
TTTTTTAGATTTTACAGTTTTTCCCCTA
Found at i:27684215 original size:55 final size:54
Alignment explanation
Indices: 27684100--27684261 Score: 166
Period size: 55 Copynumber: 2.9 Consensus size: 54
27684090 GTGTCCCTTG
* * * * * ** *
27684100 TTTTTCAGATTTTATAGTTTTTCCCCTATTTTTTAGATTTTATAGTTTTTCCTTTT
1 TTTTTTAGATTTTACAG-TTTT-CCCTATTTTTTAGATTTTACAATTTTGCCCCTA
*
27684156 TTTTTTAGA-TTTAGAGTTTTCCTCTATTTTTTAGATTTTACAATTTTGCCCCTA
1 TTTTTTAGATTTTACAGTTTTCC-CTATTTTTTAGATTTTACAATTTTGCCCCTA
* *
27684210 TTTTTTAGATTTTACAGTTTTGCCCTATTTTCTA-AGTTTTACAAATTTGCCC
1 TTTTTTAGATTTTACAGTTTT-CCCTATTTTTTAGA-TTTTACAATTTTGCCC
27684262 AAAATTTTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
53 2 0.02
54 39 0.43
55 40 0.44
56 10 0.11
ACGTcount: A:0.19, C:0.15, G:0.09, T:0.57
Consensus pattern (54 bp):
TTTTTTAGATTTTACAGTTTTCCCTATTTTTTAGATTTTACAATTTTGCCCCTA
Found at i:27684249 original size:27 final size:27
Alignment explanation
Indices: 27684100--27684261 Score: 132
Period size: 27 Copynumber: 5.9 Consensus size: 27
27684090 GTGTCCCTTG
* * * *
27684100 TTTTTCAGATTTTATAGTTTTTCCCCTA
1 TTTTTTAGATTTTACA-ATTTTGCCCTA
* * * * *
27684128 TTTTTTAGATTTTATAGTTTTTCCTTTT
1 TTTTTTAGATTTTACAATTTTGCC-CTA
* *
27684156 TTTTTTAGA-TTTAGAGTTTT-CCTCTA
1 TTTTTTAGATTTTACAATTTTGCC-CTA
27684182 TTTTTTAGATTTTACAATTTTGCCCCTA
1 TTTTTTAGATTTTACAATTTTG-CCCTA
*
27684210 TTTTTTAGATTTTACAGTTTTGCCCTA
1 TTTTTTAGATTTTACAATTTTGCCCTA
* *
27684237 TTTTCTA-AGTTTTACAAATTTGCCC
1 TTTTTTAGA-TTTTACAATTTTGCCC
27684262 AAAATTTTAT
Statistics
Matches: 115, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
26 14 0.12
27 50 0.43
28 49 0.43
29 2 0.02
ACGTcount: A:0.19, C:0.15, G:0.09, T:0.57
Consensus pattern (27 bp):
TTTTTTAGATTTTACAATTTTGCCCTA
Found at i:27684904 original size:88 final size:90
Alignment explanation
Indices: 27684799--27685012 Score: 297
Period size: 90 Copynumber: 2.4 Consensus size: 90
27684789 CCTACAAATA
* * * *
27684799 TGTTGTGCATCTACAGCCAAGTGGTAGA-TTTATCTGCGATATTTTTCTATGCACCCACATCC-A
1 TGTTGTGTATCCACAGCCAAGTGGTAGATTTTATCTGCGATATTTTGCTATGCACCCACAGCCTA
27684862 ATAGCAAGTTTCATCTATGAATTTT
66 ATAGCAAGTTTCATCTATGAATTTT
* * *
27684887 TGTTGTGTATCCACAGCCTAGTGGTAGATTTTATCTGCGATATTTTGCTGTGTACCCACAGCCTA
1 TGTTGTGTATCCACAGCCAAGTGGTAGATTTTATCTGCGATATTTTGCTATGCACCCACAGCCTA
* * *
27684952 GTGGCAAGTTTCATCTGTGAATTTT
66 ATAGCAAGTTTCATCTATGAATTTT
* * *
27684977 TGCTGTGTATCCACAGCCCAGTGGCAGATTTTATCT
1 TGTTGTGTATCCACAGCCAAGTGGTAGATTTTATCT
27685013 ACGAAACCAG
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
88 25 0.23
89 30 0.27
90 56 0.50
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (90 bp):
TGTTGTGTATCCACAGCCAAGTGGTAGATTTTATCTGCGATATTTTGCTATGCACCCACAGCCTA
ATAGCAAGTTTCATCTATGAATTTT
Found at i:27684933 original size:45 final size:45
Alignment explanation
Indices: 27684880--27685017 Score: 181
Period size: 45 Copynumber: 3.1 Consensus size: 45
27684870 TTTCATCTAT
* *
27684880 GAATTTTTGTTGTGTATCCACAGCCTAGTGGTAGATTTTATCTGC
1 GAATTTTTGCTGTGTATCCACAGCCTAGTGGCAGATTTTATCTGC
* * *
27684925 G-ATATTTTGCTGTGTACCCACAGCCTAGTGGCA-AGTTTCATCTGT
1 GAAT-TTTTGCTGTGTATCCACAGCCTAGTGGCAGA-TTTTATCTGC
* *
27684970 GAATTTTTGCTGTGTATCCACAGCCCAGTGGCAGATTTTATCTAC
1 GAATTTTTGCTGTGTATCCACAGCCTAGTGGCAGATTTTATCTGC
27685015 GAA
1 GAA
27685018 ACCAGTGGTG
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
44 3 0.04
45 73 0.92
46 3 0.04
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (45 bp):
GAATTTTTGCTGTGTATCCACAGCCTAGTGGCAGATTTTATCTGC
Found at i:27686539 original size:51 final size:53
Alignment explanation
Indices: 27686457--27686561 Score: 142
Period size: 51 Copynumber: 2.0 Consensus size: 53
27686447 CATAATTTTT
* * *
27686457 TAGGCGTGTTTTCGGGGGAGGATGTGTAGCCTACGGGATTGGCACTTAGTGCC
1 TAGGCGTGTTTTCGGGAGAGGATGTGTAGCCTACAGGATTGGCACTCAGTGCC
* * *
27686510 TAGGCGTGTTTT-TGGAG-GGATGTTTAGCCTACAGGCTTGGCACTCAGTGCC
1 TAGGCGTGTTTTCGGGAGAGGATGTGTAGCCTACAGGATTGGCACTCAGTGCC
27686561 T
1 T
27686562 GTTCTTTGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
51 31 0.67
52 3 0.07
53 12 0.26
ACGTcount: A:0.15, C:0.18, G:0.36, T:0.30
Consensus pattern (53 bp):
TAGGCGTGTTTTCGGGAGAGGATGTGTAGCCTACAGGATTGGCACTCAGTGCC
Found at i:27691406 original size:17 final size:17
Alignment explanation
Indices: 27691384--27691424 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
27691374 AGCCTATCGA
*
27691384 AAGCTCGATCAGGTTGG
1 AAGCTCAATCAGGTTGG
*
27691401 AAGCTCAATCGGGTTGG
1 AAGCTCAATCAGGTTGG
27691418 AAGCTCA
1 AAGCTCA
27691425 TCGGAGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.22
Consensus pattern (17 bp):
AAGCTCAATCAGGTTGG
Found at i:27692204 original size:12 final size:12
Alignment explanation
Indices: 27692176--27692205 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27692166 GTCAGGTTTT
*
27692176 ACACAGCCTAGC
1 ACACGGCCTAGC
27692188 ACACGGCCTAGC
1 ACACGGCCTAGC
27692200 ACACGG
1 ACACGG
27692206 GCGTGAGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.40, G:0.23, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:27695472 original size:21 final size:21
Alignment explanation
Indices: 27695448--27695500 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
27695438 ACACTTGCTG
27695448 AATTAAAAGAACTTAAAACAC
1 AATTAAAAGAACTTAAAACAC
*
27695469 AATTATAAGAACTTAAAACAC
1 AATTAAAAGAACTTAAAACAC
*
27695490 AATTACAAGAA
1 AATTAAAAGAA
27695501 TTTTCTGACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.60, C:0.13, G:0.06, T:0.21
Consensus pattern (21 bp):
AATTAAAAGAACTTAAAACAC
Found at i:27698173 original size:51 final size:51
Alignment explanation
Indices: 27698110--27698300 Score: 205
Period size: 51 Copynumber: 3.8 Consensus size: 51
27698100 TCGGTTCACA
* *
27698110 TAGTAGCCTGCACATAGTACTGCACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACG
* * * *
27698161 TAGTAGCATGCACATAGTACTACACACGTGATCGA--AGCTATCC-AGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGA-TACACG
* * * *
27698212 TAGTAGCCTGTACATAGTACTACACATC-CGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACA-CGTGACC-ATCACTATCCGATACACG
27698262 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
27698301 TTCACTTTCA
Statistics
Matches: 114, Mismatches: 16, Indels: 21
0.75 0.11 0.14
Matches are distributed among these distances:
49 5 0.04
50 39 0.34
51 66 0.58
52 3 0.03
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACG
Found at i:27698275 original size:101 final size:102
Alignment explanation
Indices: 27698108--27698292 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
27698098 TATCGGTTCA
* **
27698108 CATAGTAGCCTGCACATAGTACTGCACATGTGACCATCACTATCCGATACACGTAGTAGCATGCA
1 CATAGTAGCCTGCACATAGTACTACACATCCGACCATCACTATCCGATACACGTAGTAGCATGCA
27698173 CATAGTACTACACACGTGATCGAAGCTATCCAGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCCAGTACG
* * * *
27698210 CATAGTAGCCTGTACATAGTACTACACATCCGACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATCCGACC-ATCACTATCCGATACACGTAGTAGCATGC
27698273 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
27698293 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 39 0.52
102 32 0.43
103 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATCCGACCATCACTATCCGATACACGTAGTAGCATGCA
CATAGTACTACACACGTGATCGAAGCTATCCAGTACG
Found at i:27701360 original size:40 final size:41
Alignment explanation
Indices: 27701277--27701407 Score: 140
Period size: 41 Copynumber: 3.2 Consensus size: 41
27701267 TTTTGAATCC
* * **
27701277 ATGAAAAGGTTGAAAAGGA-AGTTATCTAAAAAGGATAACAA
1 ATGAAAAGGTGGAAAAGGATA-TTACCCGAAAAGGATAACAA
* * *
27701318 ATGAAAAGGTGGAAAATGATA-TATCCGAAAAGGATATCAA
1 ATGAAAAGGTGGAAAAGGATATTACCCGAAAAGGATAACAA
* * * *
27701358 ATGAAAATGTTGAAAAGGATATTACCCTAAAAGGGTAACAA
1 ATGAAAAGGTGGAAAAGGATATTACCCGAAAAGGATAACAA
27701399 ATGAAAAGG
1 ATGAAAAGG
27701408 ATGTGTTTGA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 34 0.45
41 40 0.53
42 1 0.01
ACGTcount: A:0.51, C:0.07, G:0.22, T:0.20
Consensus pattern (41 bp):
ATGAAAAGGTGGAAAAGGATATTACCCGAAAAGGATAACAA
Found at i:27704227 original size:19 final size:19
Alignment explanation
Indices: 27704200--27704238 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
27704190 TGTAGAAGTT
27704200 AGTCATTGTGGCACTAAAG
1 AGTCATTGTGGCACTAAAG
* *
27704219 AGTCGTTGTGGCGCTAAAG
1 AGTCATTGTGGCACTAAAG
27704238 A
1 A
27704239 TACTGCAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (19 bp):
AGTCATTGTGGCACTAAAG
Found at i:27705984 original size:41 final size:41
Alignment explanation
Indices: 27705939--27706067 Score: 154
Period size: 41 Copynumber: 3.2 Consensus size: 41
27705929 TTTCGAACCC
*
27705939 ATGAAAAGGTTGAAAAGGAAGTTATTTGAAAAGGATAACAA
1 ATGAAAAGGTTGAAAAGGAAGTTATCTGAAAAGGATAACAA
* * * *
27705980 ATGAAAAGGTTGAAAAGGATG-TATCCGAAAAGAATATCAA
1 ATGAAAAGGTTGAAAAGGAAGTTATCTGAAAAGGATAACAA
* * * *
27706020 ATGAAAATGTTGAAAA-GAATATTAACTGAAAAGGGTAACAA
1 ATGAAAAGGTTGAAAAGGAA-GTTATCTGAAAAGGATAACAA
27706061 ATGAAAA
1 ATGAAAA
27706068 TGATGTGTTT
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
39 2 0.03
40 30 0.41
41 41 0.56
ACGTcount: A:0.53, C:0.05, G:0.22, T:0.21
Consensus pattern (41 bp):
ATGAAAAGGTTGAAAAGGAAGTTATCTGAAAAGGATAACAA
Found at i:27708308 original size:7 final size:7
Alignment explanation
Indices: 27708296--27708329 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
27708286 TTCTTCACCA
27708296 TCACATC
1 TCACATC
27708303 TCACATC
1 TCACATC
27708310 TCACATC
1 TCACATC
* *
27708317 TTACATA
1 TCACATC
27708324 TCACAT
1 TCACAT
27708330 ATTGGTGGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (7 bp):
TCACATC
Found at i:27721699 original size:23 final size:23
Alignment explanation
Indices: 27721669--27721714 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
27721659 GTCCACTTCA
*
27721669 AATGTACTAGTTAGAAGAGAGAT
1 AATGTACTAGTTAGAAGAAAGAT
27721692 AATGTACTAGTTAGAAGAAAGAT
1 AATGTACTAGTTAGAAGAAAGAT
27721715 GCTCGTCTTA
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:0.46, C:0.04, G:0.24, T:0.26
Consensus pattern (23 bp):
AATGTACTAGTTAGAAGAAAGAT
Found at i:27721966 original size:13 final size:13
Alignment explanation
Indices: 27721948--27721973 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27721938 AAGAAGCGCG
27721948 CACACACAAAAAA
1 CACACACAAAAAA
27721961 CACACACAAAAAA
1 CACACACAAAAAA
27721974 AAAATCTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (13 bp):
CACACACAAAAAA
Found at i:27725136 original size:6 final size:6
Alignment explanation
Indices: 27725125--27725173 Score: 98
Period size: 6 Copynumber: 8.2 Consensus size: 6
27725115 AAACAGAGGC
27725125 CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT
1 CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT
27725173 C
1 C
27725174 TTGAGAAATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.65
Consensus pattern (6 bp):
CATTTT
Found at i:27736892 original size:3 final size:3
Alignment explanation
Indices: 27736884--27736909 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
27736874 AGTAAGTGGC
27736884 GGA GGA GGA GGA GGA GGA GGA GGA GG
1 GGA GGA GGA GGA GGA GGA GGA GGA GG
27736910 TGGCGAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:27738553 original size:26 final size:26
Alignment explanation
Indices: 27738524--27738573 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
27738514 TTGAAAATTA
27738524 CTTTTGAAAAGTGTTGTGGAAAAGCG
1 CTTTTGAAAAGTGTTGTGGAAAAGCG
* * *
27738550 CTTTTGAGAAGTGTTTTTGAAAAG
1 CTTTTGAAAAGTGTTGTGGAAAAG
27738574 TTTGGTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.30, C:0.06, G:0.28, T:0.36
Consensus pattern (26 bp):
CTTTTGAAAAGTGTTGTGGAAAAGCG
Found at i:27739804 original size:48 final size:48
Alignment explanation
Indices: 27739731--27739827 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
27739721 CTTAAGGGAA
**
27739731 TTCTGTTGAATCCTTTATCGTTGCAAGTTAAGCTGACTTAGGTGTTTT
1 TTCTGTTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGTGTTTT
* *
27739779 TTCTGTTGAATCCTTTATCACTGCAAGTTAGGTTGACTTAGGTGTTTT
1 TTCTGTTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGTGTTTT
27739827 T
1 T
27739828 AAGCAAAGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.46
Consensus pattern (48 bp):
TTCTGTTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGTGTTTT
Found at i:27751629 original size:15 final size:14
Alignment explanation
Indices: 27751579--27751629 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
27751569 TAGAACATAG
*
27751579 AAAAAATTTTAATA
1 AAAAAATATTAATA
**
27751593 AAAAAATATTTCT-
1 AAAAAATATTAATA
*
27751606 TAAAAATATTAATA
1 AAAAAATATTAATA
27751620 AAAAATATAT
1 AAAAA-ATAT
27751630 AATTTAGATC
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 10 0.36
14 14 0.50
15 4 0.14
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (14 bp):
AAAAAATATTAATA
Found at i:27751631 original size:11 final size:13
Alignment explanation
Indices: 27751579--27751632 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
27751569 TAGAACATAG
*
27751579 AAAAAATTTTAAT
1 AAAAAATATTAAT
**
27751592 AAAAAAATATTTCT
1 -AAAAAATATTAAT
*
27751606 TAAAAATATTAAT
1 AAAAAATATTAAT
27751619 AAAAAATATATAAT
1 AAAAAATAT-TAAT
27751633 TTAGATCGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
13 18 0.56
14 14 0.44
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (13 bp):
AAAAAATATTAAT
Found at i:27751713 original size:22 final size:22
Alignment explanation
Indices: 27751688--27751733 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
27751678 AGAGATTTTT
* * *
27751688 GAGAGTTGATTGAGAAATTTGA
1 GAGAGTTAATAGAGAAATGTGA
*
27751710 GAGATTTAATAGAGAAATGTGA
1 GAGAGTTAATAGAGAAATGTGA
27751732 GA
1 GA
27751734 AATTTGTAGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.28
Consensus pattern (22 bp):
GAGAGTTAATAGAGAAATGTGA
Found at i:27757462 original size:12 final size:12
Alignment explanation
Indices: 27757429--27757463 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
27757419 AGACACAAGA
27757429 TATTCTTTAAAT
1 TATTCTTTAAAT
*
27757441 TACTCTTTTAAAT
1 TATTC-TTTAAAT
27757454 TATTCTTTAA
1 TATTCTTTAA
27757464 GTAACATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTCTTTAAAT
Found at i:27757634 original size:18 final size:18
Alignment explanation
Indices: 27757611--27757659 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
27757601 TTGTATTAAA
27757611 ATTATTATTAAATTATAT
1 ATTATTATTAAATTATAT
27757629 ATTATTATTAAATTATAT
1 ATTATTATTAAATTATAT
* *
27757647 -TTAATAATAAATT
1 ATTATTATTAAATT
27757660 TATTAAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 11 0.38
18 18 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTATTATTAAATTATAT
Found at i:27757662 original size:18 final size:18
Alignment explanation
Indices: 27757619--27757659 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
27757609 AAATTATTAT
* *
27757619 TAAATTATATATTATTAT
1 TAAATTATATATTAATAA
27757637 TAAATTATAT-TTAATAA
1 TAAATTATATATTAATAA
27757654 TAAATT
1 TAAATT
27757660 TATTAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAAATTATATATTAATAA
Found at i:27757662 original size:29 final size:30
Alignment explanation
Indices: 27757604--27757667 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 30
27757594 ATAATTGTTG
* *
27757604 TATTAAAATTATTATTAAATTATATATTAT
1 TATTAAAATTATTATTAAATAATAAATTAT
*
27757634 TATT-AAATTA-TATTTAATAATAAA-T-T
1 TATTAAAATTATTATTAAATAATAAATTAT
27757660 TATTAAAA
1 TATTAAAA
27757668 AGGATTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 5 0.17
27 4 0.13
28 11 0.37
29 6 0.20
30 4 0.13
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (30 bp):
TATTAAAATTATTATTAAATAATAAATTAT
Found at i:27757864 original size:16 final size:16
Alignment explanation
Indices: 27757843--27757897 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
27757833 ACAAGAATCT
*
27757843 TATTACAGTTCTATTC
1 TATTACAGCTCTATTC
*
27757859 TATTACAACTCTATTC
1 TATTACAGCTCTATTC
*
27757875 TTTTACAGCTCTATTC
1 TATTACAGCTCTATTC
*
27757891 CATTACA
1 TATTACA
27757898 CTGAACCAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.27, C:0.24, G:0.04, T:0.45
Consensus pattern (16 bp):
TATTACAGCTCTATTC
Found at i:27757963 original size:21 final size:21
Alignment explanation
Indices: 27757938--27757979 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
27757928 ATACGTATAA
27757938 GTAAAACTAAAAAATGAATTT
1 GTAAAACTAAAAAATGAATTT
27757959 GTAAAACTAAAAAATGAATTT
1 GTAAAACTAAAAAATGAATTT
27757980 CAAGAGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.10, T:0.29
Consensus pattern (21 bp):
GTAAAACTAAAAAATGAATTT
Found at i:27759538 original size:17 final size:19
Alignment explanation
Indices: 27759511--27759545 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
27759501 TTATATTAAG
27759511 TTTTTATTTTTA-AAAATA
1 TTTTTATTTTTACAAAATA
27759529 TTTTTA-TTTTACAAAAT
1 TTTTTATTTTTACAAAAT
27759546 TTTAAACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTATTTTTACAAAATA
Found at i:27759797 original size:53 final size:52
Alignment explanation
Indices: 27759737--27759836 Score: 130
Period size: 53 Copynumber: 1.9 Consensus size: 52
27759727 TTCAATTTGT
* *
27759737 TTTTAAATATATATTTAGT-AGTGTTTGCTTATATATTATTTTAAAAAAATTAC
1 TTTTAAATATACATTTA-TAAGTATTTGCTTATATATTA-TTTAAAAAAATTAC
* * *
27759790 TTTTAAATATCCATTTATAAGTATTTGTTTATATCTTATTTAAAAAA
1 TTTTAAATATACATTTATAAGTATTTGCTTATATATTATTTAAAAAA
27759837 TTATTGTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
52 10 0.24
53 31 0.76
ACGTcount: A:0.38, C:0.05, G:0.06, T:0.51
Consensus pattern (52 bp):
TTTTAAATATACATTTATAAGTATTTGCTTATATATTATTTAAAAAAATTAC
Found at i:27760244 original size:17 final size:17
Alignment explanation
Indices: 27760218--27760253 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
27760208 AGTAAATTTG
*
27760218 TTTATAAAAAATTGTAA
1 TTTATAAAAAATTATAA
*
27760235 TTTATTAAAAATTATAA
1 TTTATAAAAAATTATAA
27760252 TT
1 TT
27760254 AAAATGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TTTATAAAAAATTATAA
Found at i:27760576 original size:27 final size:26
Alignment explanation
Indices: 27760546--27760604 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
27760536 AATTAGATTA
27760546 AAATAATTTA-AAATAAATTT-AAATTT
1 AAATAATTTAGAAAT--ATTTAAAATTT
27760572 CAAATAA-TTAGAAATATTTAAAATTT
1 -AAATAATTTAGAAATATTTAAAATTT
27760598 AAATAAT
1 AAATAAT
27760605 AATTGAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
25 10 0.34
26 9 0.31
27 10 0.34
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (26 bp):
AAATAATTTAGAAATATTTAAAATTT
Found at i:27763149 original size:18 final size:18
Alignment explanation
Indices: 27763126--27763168 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
27763116 TGCCAAGTGC
* *
27763126 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
27763144 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
27763162 GTTTCCT
1 GTATCCT
27763169 TTTCCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:27763646 original size:49 final size:49
Alignment explanation
Indices: 27763589--27763709 Score: 206
Period size: 49 Copynumber: 2.5 Consensus size: 49
27763579 GTTTACATTA
* *
27763589 ATGTAATAAAATACAAAATAGTTTATTTTAAATGTTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTAAATATTTTGATATTATTTC
*
27763638 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC
1 ATGTAATAAAATACAAAATAGTTTATTTTAAATATTTTGATATTATTTC
*
27763687 ATTTAATAAAATACAAAATAGTT
1 ATGTAATAAAATACAAAATAGTT
27763710 AATATTCTTA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 68 1.00
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTATTTTAAATATTTTGATATTATTTC
Found at i:27764228 original size:125 final size:125
Alignment explanation
Indices: 27764006--27764281 Score: 462
Period size: 125 Copynumber: 2.2 Consensus size: 125
27763996 TAAAAGGAGC
* * * *
27764006 AAGCGTGTTCACGTGGGAGCGATTTCAAAAATTCTTCTAATAAAGCATCCTGCTTGAAGCGTTTT
1 AAGCGCGTCCACGTGGGAGCGATTTCAAAAATTATTCTAATAAAGCATCCTGCTTGAAGCGTGTT
*
27764071 TTATACTATTTGCTCAGAAACGTCAACTTGAAATTATTTTTTCAGGACCTACTGTAGCAA
66 TTATACTATTGGCTCAGAAACGTCAACTTGAAATTATTTTTTCAGGACCTACTGTAGCAA
* *
27764131 AAGCGCGTCCACGTGGGAGCAATTTCAGAAATTATTCTAATAAAGCATCCTGCTTGAAGCGTGTT
1 AAGCGCGTCCACGTGGGAGCGATTTCAAAAATTATTCTAATAAAGCATCCTGCTTGAAGCGTGTT
*
27764196 TTATACTATTGGCTCAGAAACGTCAACTTGAAATTATTTTTTCAGGACCTACTGTATCAA
66 TTATACTATTGGCTCAGAAACGTCAACTTGAAATTATTTTTTCAGGACCTACTGTAGCAA
**
27764256 AAATGCGTCCACGTGGGAGCGATTTC
1 AAGCGCGTCCACGTGGGAGCGATTTC
27764282 CTTAATAAAT
Statistics
Matches: 140, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 140 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (125 bp):
AAGCGCGTCCACGTGGGAGCGATTTCAAAAATTATTCTAATAAAGCATCCTGCTTGAAGCGTGTT
TTATACTATTGGCTCAGAAACGTCAACTTGAAATTATTTTTTCAGGACCTACTGTAGCAA
Found at i:27765255 original size:19 final size:16
Alignment explanation
Indices: 27765220--27765262 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 16
27765210 TTTCAATAAG
27765220 ATTTTAAAAATAATTT
1 ATTTTAAAAATAATTT
27765236 ATTTTAAAATTATAAATTT
1 ATTTTAAAA--AT-AATTT
27765255 ATTTTAAA
1 ATTTTAAA
27765263 TTTTTTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.38
18 2 0.08
19 13 0.54
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTTAAAAATAATTT
Found at i:27767396 original size:92 final size:91
Alignment explanation
Indices: 27767216--27767523 Score: 306
Period size: 92 Copynumber: 3.4 Consensus size: 91
27767206 CCAGTCTTCA
* * * * * **
27767216 ATCTGCTCCACTGTAACTTCAGAGAGATAAGAT-TG--ATTTAT--TTTTAACCTGTTCCACTGC
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATGACTTCAATCTGTTCCACTAT
* * *
27767276 AACTTCAGGGAGATAAGGTTTGATATG
66 AACTTCAGGAAAATAA-GATTGATATG
*
27767303 ATCTGCTCTACTGCAACTTCAGAGAGATAATG-TCTGTAATTTAT-AGCTTCAATTTGTTCCACT
1 ATCTGCTCTACTGCAACTTCAGAGAGATAA-GATCTGTAATTTATGA-CTTCAATCTGTTCCACT
* *
27767366 ATGACTTTAGGAAAATAAGACTTGATATG
64 ATAACTTCAGGAAAATAAGA-TTGATATG
* * *
27767395 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATGATTTTAATCTGTTCCACTGT
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATGACTTCAATCTGTTCCACTAT
* *
27767460 AACTTCAGGGAAATAAGATTCGTTATATTC
66 AACTTCAGGAAAATAAGATT-G--ATA-TG
* *
27767490 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGAT
1 A-TCTGCTCTACTGCAACTTCAGAGAGATAAGAT
27767524 TAGTGGCTCC
Statistics
Matches: 184, Mismatches: 23, Indels: 19
0.81 0.10 0.08
Matches are distributed among these distances:
87 29 0.16
88 3 0.02
90 6 0.03
91 4 0.02
92 106 0.58
93 1 0.01
94 3 0.02
95 2 0.01
96 30 0.16
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (91 bp):
ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATGACTTCAATCTGTTCCACTAT
AACTTCAGGAAAATAAGATTGATATG
Found at i:27767521 original size:45 final size:44
Alignment explanation
Indices: 27767445--27767570 Score: 153
Period size: 44 Copynumber: 2.8 Consensus size: 44
27767435 TTATGATTTT
* * * * *
27767445 AATCTGTTCCACTGTAACTTCAGGGAAATAAGATTCGTTATATTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCG-TAGATCC
* * * *
27767490 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTGGCTCC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAGATCC
*
27767534 AATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTCG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCG
27767571 CCGTGATGAC
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
44 37 0.54
45 32 0.46
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAGATCC
Found at i:27775656 original size:19 final size:20
Alignment explanation
Indices: 27775632--27775678 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
27775622 TTGTGAAACT
* *
27775632 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
27775651 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
27775671 -AATGCAAA
1 TAATGCAAA
27775679 AGAGGTATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:27779408 original size:12 final size:12
Alignment explanation
Indices: 27779382--27779416 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
27779372 AAAATACATA
27779382 AATAGATAGTAAT
1 AATAGATA-TAAT
27779395 AATAGATATAAT
1 AATAGATATAAT
*
27779407 AATAAATATA
1 AATAGATATA
27779417 GTAAAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (12 bp):
AATAGATATAAT
Found at i:27782990 original size:17 final size:18
Alignment explanation
Indices: 27782957--27782992 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
27782947 TAATGAATAC
*
27782957 ATAAAATAATATTATATA
1 ATAAAAGAATATTATATA
27782975 ATAAAAGAAT-TTATATA
1 ATAAAAGAATATTATATA
27782992 A
1 A
27782993 AAATTAGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
ATAAAAGAATATTATATA
Found at i:27785050 original size:63 final size:64
Alignment explanation
Indices: 27784982--27785105 Score: 207
Period size: 63 Copynumber: 2.0 Consensus size: 64
27784972 TATTTCCAGG
* *
27784982 TCATTTTCATTTTGGAGAAAACCATATTCATTTTCAAATGA-TTCT-ATTTCTCCATTTTCATTT
1 TCATTTTCATTTTGGAGAAAACCATAATAATTTTCAAAT-ATTTCTCATTTCTCCATTTTCATTT
27785045 TCATTTTCATTTTGGAGAAAACCATAATAATTTTCAAATATTTCTCATTTCTCCATTTTCA
1 TCATTTTCATTTTGGAGAAAACCATAATAATTTTCAAATATTTCTCATTTCTCCATTTTCA
27785106 CCATTCTTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
62 1 0.02
63 41 0.72
64 15 0.26
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.48
Consensus pattern (64 bp):
TCATTTTCATTTTGGAGAAAACCATAATAATTTTCAAATATTTCTCATTTCTCCATTTTCATTT
Found at i:27785966 original size:22 final size:22
Alignment explanation
Indices: 27785894--27785967 Score: 55
Period size: 22 Copynumber: 3.4 Consensus size: 22
27785884 CTAATTCACG
27785894 TTTTTTTCTTCTTTTCTA--TTT
1 TTTTTTTC-TCTTTTCTACTTTT
* * * *
27785915 CTTTATTCTATTTTCT-CTTCCT
1 TTTTTTTCTCTTTTCTACTT-TT
* *
27785937 GTTCTTTCTCTTTTCTACTTTT
1 TTTTTTTCTCTTTTCTACTTTT
27785959 TTTTTTTCT
1 TTTTTTTCT
27785968 GAAAATACTA
Statistics
Matches: 38, Mismatches: 11, Indels: 7
0.68 0.20 0.12
Matches are distributed among these distances:
20 7 0.18
21 7 0.18
22 21 0.55
23 3 0.08
ACGTcount: A:0.05, C:0.20, G:0.01, T:0.73
Consensus pattern (22 bp):
TTTTTTTCTCTTTTCTACTTTT
Found at i:27790096 original size:39 final size:40
Alignment explanation
Indices: 27789995--27790179 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
27789985 TTGAATGATG
* * *
27789995 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
27790034 ATCCGGACTAAGAT-CCGAAGGCATTTGTGAGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
27790075 TCCGGGCTAAG-CCCGAAGGCATTTGCGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
27790114 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
27790153 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
27790180 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 34 0.28
40 77 0.64
41 9 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:27790131 original size:79 final size:81
Alignment explanation
Indices: 27789995--27790179 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
27789985 TTGAATGATG
* * *
27789995 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
27790059 TGTGAGAGATACTA-A
66 TGTGAGAGATACTATA
* * * **
27790074 TTCCGGGCTAAG-CCCGAAGGCATTTGCGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
27790136 ATTGTGCGAGTTACTATA
64 ATTGTGAGAGATACTATA
* *
27790154 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27790180 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGAGAGATACTATA
Done.