Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 339 of 425
Found at i:105131029 original size:16 final size:16
Alignment explanation
Indices: 105131008--105131041 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
105130998 ACCATATTCA
* *
105131008 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
105131024 ATTATCACATTTACAC
1 ATTATCACATTTACAC
105131040 AT
1 AT
105131042 ATATTAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:105132626 original size:20 final size:20
Alignment explanation
Indices: 105132601--105132650 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
105132591 TTATAATTGT
*
105132601 AAACATTTCA-CTTATATCC
1 AAACATTTCACCCTATATCC
*
105132620 AAAACATATTTACCCTATATCC
1 -AAACAT-TTCACCCTATATCC
105132642 AAACATTTC
1 AAACATTTC
105132651 TTTATCAGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 8 0.32
21 9 0.36
22 8 0.32
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.34
Consensus pattern (20 bp):
AAACATTTCACCCTATATCC
Found at i:105142589 original size:39 final size:39
Alignment explanation
Indices: 105142487--105142628 Score: 169
Period size: 39 Copynumber: 3.6 Consensus size: 39
105142477 CAGTGATGTT
* * *
105142487 TATCCGGACTTAGGGTCTGCAGGCAATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* *
105142526 TATCTGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * *
105142565 TATCCGGACTTAAGGTCCGCAGGCTACGTGTTGGAAATA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * *
105142604 TGTCCGGGC-TAAAGTCTCGCAGGCT
1 TATCCGGACTTAAGGTC-CGCAGGCT
105142629 TCGAGCTGGT
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
38 6 0.07
39 85 0.93
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:105143419 original size:23 final size:23
Alignment explanation
Indices: 105143393--105143439 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
105143383 ATTTTGGACT
105143393 CAATATCGCATGTATAGGTTAGA
1 CAATATCGCATGTATAGGTTAGA
105143416 CAATATCGCATGTATAGGTTAGA
1 CAATATCGCATGTATAGGTTAGA
105143439 C
1 C
105143440 TGATGATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (23 bp):
CAATATCGCATGTATAGGTTAGA
Found at i:105144138 original size:21 final size:21
Alignment explanation
Indices: 105144114--105144184 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
105144104 AATCATGAAC
105144114 TCAGACCATAACTCAATGAGT
1 TCAGACCATAACTCAATGAGT
**
105144135 TCAGATGCCACATATA-TC-ATGAAC
1 TCAGA---C-CATA-ACTCAATGAGT
*
105144159 TCAGACCGTAACTCAATGAGT
1 TCAGACCATAACTCAATGAGT
105144180 TCAGA
1 TCAGA
105144185 TCACACAGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
19 1 0.03
20 5 0.13
21 15 0.39
24 10 0.26
25 6 0.16
26 1 0.03
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (21 bp):
TCAGACCATAACTCAATGAGT
Found at i:105144148 original size:45 final size:45
Alignment explanation
Indices: 105144098--105144185 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
105144088 AAACATGTGT
105144098 CACATAAATCATGAACTCAGACCATAACTCAATGAGTTCAGATGC
1 CACATAAATCATGAACTCAGACCATAACTCAATGAGTTCAGATGC
* *
105144143 CACATATATCATGAACTCAGACCGTAACTCAATGAGTTCAGAT
1 CACATAAATCATGAACTCAGACCATAACTCAATGAGTTCAGAT
105144186 CACACAGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.24
Consensus pattern (45 bp):
CACATAAATCATGAACTCAGACCATAACTCAATGAGTTCAGATGC
Found at i:105151987 original size:26 final size:25
Alignment explanation
Indices: 105151937--105152032 Score: 81
Period size: 24 Copynumber: 3.8 Consensus size: 25
105151927 AGCTCTGAAT
* *
105151937 AGCCATATATCGGGAAGTTCAAGAG
1 AGCCATATATCGAGAAGCTCAAGAG
*
105151962 AGCCA-ATATCGAGAAGCTCAGGAG
1 AGCCATATATCGAGAAGCTCAAGAG
* *
105151986 AGCCAT-TAATC-AGGAAGCTCACAAAA
1 AGCCATAT-ATCGA-GAAGCTCA-AGAG
* *
105152012 AGCCATATAACGAGACGCTCA
1 AGCCATATATCGAGAAGCTCA
105152033 TAAGAGCTGA
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
24 23 0.40
25 16 0.28
26 16 0.28
27 2 0.04
ACGTcount: A:0.40, C:0.22, G:0.23, T:0.16
Consensus pattern (25 bp):
AGCCATATATCGAGAAGCTCAAGAG
Found at i:105153179 original size:58 final size:58
Alignment explanation
Indices: 105153084--105153194 Score: 168
Period size: 58 Copynumber: 1.9 Consensus size: 58
105153074 ACAATTCGGC
* *
105153084 TAGCAAAAAAATGAACATTTGAAACCATTAAGGCATCATCAATTGGTTAGCATTCAGA
1 TAGCAAAAAAATGAACATTTGAAACCATTAAGACATCATCAATTGGTCAGCATTCAGA
* * * *
105153142 TAGCATAATAATGAACGTTTGAAGCCATTAAGACATCATCAATTGGTCAGCAT
1 TAGCAAAAAAATGAACATTTGAAACCATTAAGACATCATCAATTGGTCAGCAT
105153195 AAAAATACAC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 47 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (58 bp):
TAGCAAAAAAATGAACATTTGAAACCATTAAGACATCATCAATTGGTCAGCATTCAGA
Found at i:105154187 original size:28 final size:28
Alignment explanation
Indices: 105154156--105154211 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
105154146 AAAATAGGAA
*
105154156 TCATTGAAATAAATGTTGAAATTCTAAC
1 TCATTGAAATAAATGCTGAAATTCTAAC
105154184 TCATTGAAATAAATGCTGAAATTCTAAC
1 TCATTGAAATAAATGCTGAAATTCTAAC
105154212 ATGTTGGGCT
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:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (28 bp):
TCATTGAAATAAATGCTGAAATTCTAAC
Found at i:105157230 original size:18 final size:18
Alignment explanation
Indices: 105157207--105157268 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
105157197 GTACCTTTGT
105157207 TTTTGAAACTGTTATAGA
1 TTTTGAAACTGTTATAGA
*
105157225 TTTTGAATGA-TGCCTT-T-GT
1 TTTTGAA--ACTG--TTATAGA
105157244 TTTTGAAACTGTTATAGA
1 TTTTGAAACTGTTATAGA
105157262 TTTTGAA
1 TTTTGAA
105157269 TGATGCCATT
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
16 2 0.06
17 2 0.06
18 17 0.49
19 10 0.29
20 2 0.06
21 2 0.06
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.48
Consensus pattern (18 bp):
TTTTGAAACTGTTATAGA
Found at i:105157250 original size:37 final size:37
Alignment explanation
Indices: 105157200--105157275 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
105157190 CTAGCCTGTA
105157200 CCTTTGTTTTTGAAACTGTTATAGATTTTGAATGATG
1 CCTTTGTTTTTGAAACTGTTATAGATTTTGAATGATG
105157237 CCTTTGTTTTTGAAACTGTTATAGATTTTGAATGATG
1 CCTTTGTTTTTGAAACTGTTATAGATTTTGAATGATG
105157274 CC
1 CC
105157276 ATTTTTGAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.47
Consensus pattern (37 bp):
CCTTTGTTTTTGAAACTGTTATAGATTTTGAATGATG
Found at i:105158040 original size:22 final size:23
Alignment explanation
Indices: 105157954--105158061 Score: 96
Period size: 23 Copynumber: 4.7 Consensus size: 23
105157944 TAACGATATA
* *
105157954 TCAGCTCGTTAGAGCTTACTGTTT
1 TCAGCTCGATAGAGCTTACCG-TT
* *
105157978 TTAGCTC-AAAGGAGCTTACCGTT
1 TCAGCTCGATA-GAGCTTACCGTT
* *
105158001 TCAGCTCG-TAAGAACTTACTG-T
1 TCAGCTCGAT-AGAGCTTACCGTT
*
105158023 TCAGCTTGATAGAGCTTACCGTT
1 TCAGCTCGATAGAGCTTACCGTT
*
105158046 TCAGCTCAATAGAGCT
1 TCAGCTCGATAGAGCT
105158062 CACTGTTCAT
Statistics
Matches: 66, Mismatches: 13, Indels: 11
0.73 0.14 0.12
Matches are distributed among these distances:
22 17 0.26
23 33 0.50
24 16 0.24
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (23 bp):
TCAGCTCGATAGAGCTTACCGTT
Found at i:105159574 original size:66 final size:66
Alignment explanation
Indices: 105159499--105159630 Score: 237
Period size: 66 Copynumber: 2.0 Consensus size: 66
105159489 TTATATGTTC
*
105159499 GATTTAAGTACATATTGAATGTGAATGAATGATATTTACTAAAATGAAATGATATTTGATAAATG
1 GATTTAAGTACATATTGAATGTGAATGAATGACATTTACTAAAATGAAATGATATTTGATAAATG
105159564 A
66 A
* *
105159565 GATTTAAGTACATATTGAATGTGAATGAATGACATTTATTAAAATGAGATGATATTTGATAAATG
1 GATTTAAGTACATATTGAATGTGAATGAATGACATTTACTAAAATGAAATGATATTTGATAAATG
105159630 A
66 A
105159631 TTGTTCTTAA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.36
Consensus pattern (66 bp):
GATTTAAGTACATATTGAATGTGAATGAATGACATTTACTAAAATGAAATGATATTTGATAAATG
A
Found at i:105159792 original size:25 final size:24
Alignment explanation
Indices: 105159763--105159820 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
105159753 CATATAATAG
*
105159763 GAAGCTCATGTGAGCCATGTAACG-
1 GAAGCTCATGAGAGCCAT-TAACGA
105159787 GAAAGCTCCA-GAGAGCCATTAACGA
1 G-AAGCT-CATGAGAGCCATTAACGA
105159812 GAAGCTCAT
1 GAAGCTCAT
105159821 ACAAGCCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
23 2 0.07
24 11 0.38
25 14 0.48
26 2 0.07
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.17
Consensus pattern (24 bp):
GAAGCTCATGAGAGCCATTAACGA
Found at i:105160005 original size:24 final size:24
Alignment explanation
Indices: 105159978--105160048 Score: 61
Period size: 25 Copynumber: 2.9 Consensus size: 24
105159968 GGATGCTCCG
* *
105159978 AAGAGCTATTAACTGGAAGCTCGC
1 AAGAGCTATTAACAGGAAGCTCGA
* * * *
105160002 AAGAACAATATATCGGGAAGCTCGA
1 AAGAGCTAT-TAACAGGAAGCTCGA
* *
105160027 AAGGGCTATTAACAGGATGCTC
1 AAGAGCTATTAACAGGAAGCTC
105160049 TTTCGAGTTG
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
24 17 0.49
25 18 0.51
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (24 bp):
AAGAGCTATTAACAGGAAGCTCGA
Found at i:105160388 original size:5 final size:5
Alignment explanation
Indices: 105160378--105160402 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
105160368 ATCAATTTAT
105160378 ATTCA ATTCA ATTCA ATTCA ATTCA
1 ATTCA ATTCA ATTCA ATTCA ATTCA
105160403 CACCTTAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
ATTCA
Found at i:105162079 original size:29 final size:29
Alignment explanation
Indices: 105162041--105162176 Score: 121
Period size: 29 Copynumber: 4.7 Consensus size: 29
105162031 ATCAGTAGCC
* *
105162041 AAATCAAAAACCCTAAACCAATATCCCAA
1 AAATAAAAAACCCTAAACCAAAATCCCAA
** *
105162070 AAATTGAAAACCCTAAACAAAAATCCCAA
1 AAATAAAAAACCCTAAACCAAAATCCCAA
* * *
105162099 AAATAAAAAAACCTAAGA-GAAAATCCCCA
1 AAATAAAAAACCCTAA-ACCAAAATCCCAA
** * ** * *
105162128 AAATTGAAAACCTTAAAATAAAATCTCTA
1 AAATAAAAAACCCTAAACCAAAATCCCAA
105162157 AAATAAAAAACCCTAAACCA
1 AAATAAAAAACCCTAAACCA
105162177 TAACCCCCAT
Statistics
Matches: 84, Mismatches: 21, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
28 1 0.01
29 82 0.98
30 1 0.01
ACGTcount: A:0.59, C:0.23, G:0.03, T:0.15
Consensus pattern (29 bp):
AAATAAAAAACCCTAAACCAAAATCCCAA
Found at i:105162114 original size:58 final size:58
Alignment explanation
Indices: 105162041--105162176 Score: 168
Period size: 58 Copynumber: 2.3 Consensus size: 58
105162031 ATCAGTAGCC
* *
105162041 AAATCAAAAACCCTAAACCAATATCCCAAAAATTGAAAACCCTAAACA-AAAATCCCAA
1 AAATAAAAAACCCTAAACCAAAATCCCAAAAATTGAAAACCCTAAA-ATAAAATCCCAA
* * * * * *
105162099 AAATAAAAAAACCTAAGA-GAAAATCCCCAAAATTGAAAACCTTAAAATAAAATCTCTA
1 AAATAAAAAACCCTAA-ACCAAAATCCCAAAAATTGAAAACCCTAAAATAAAATCCCAA
105162157 AAATAAAAAACCCTAAACCA
1 AAATAAAAAACCCTAAACCA
105162177 TAACCCCCAT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
57 2 0.03
58 62 0.95
59 1 0.02
ACGTcount: A:0.59, C:0.23, G:0.03, T:0.15
Consensus pattern (58 bp):
AAATAAAAAACCCTAAACCAAAATCCCAAAAATTGAAAACCCTAAAATAAAATCCCAA
Found at i:105162172 original size:15 final size:15
Alignment explanation
Indices: 105162076--105162173 Score: 58
Period size: 15 Copynumber: 6.7 Consensus size: 15
105162066 CCAAAAATTG
*
105162076 AAAACCCT-AAACAA
1 AAAACCCTAAAATAA
* *
105162090 AAATCCCAAAAATAA
1 AAAACCCTAAAATAA
* * *
105162105 AAAAACCTAAGA-GA
1 AAAACCCTAAAATAA
* * **
105162119 AAATCCCCAAAATTG
1 AAAACCCTAAAATAA
*
105162134 AAAACCTTAAAAT-A
1 AAAACCCTAAAATAA
* *
105162148 AAATCTCTAAAATAA
1 AAAACCCTAAAATAA
105162163 AAAACCCTAAA
1 AAAACCCTAAA
105162174 CCATAACCCC
Statistics
Matches: 58, Mismatches: 23, Indels: 5
0.67 0.27 0.06
Matches are distributed among these distances:
14 25 0.43
15 33 0.57
ACGTcount: A:0.61, C:0.20, G:0.03, T:0.15
Consensus pattern (15 bp):
AAAACCCTAAAATAA
Found at i:105170440 original size:3 final size:3
Alignment explanation
Indices: 105170434--105170519 Score: 91
Period size: 3 Copynumber: 28.7 Consensus size: 3
105170424 ATATGAACGT
** * * * * * * *
105170434 ATA ATA ATA ATA ATA ACC ATA ATG ATG ATG ATG ATG ATG ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
105170482 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
105170520 TTGCAAGTAA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:105170711 original size:21 final size:21
Alignment explanation
Indices: 105170662--105170723 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
105170652 AAACCAATTT
*
105170662 TAAATAAA-AAAGGAAATAATAAG
1 TAAATAAATAAA--AAATAA-AAA
105170685 TAAATAAATAAAAAATAAAAA
1 TAAATAAATAAAAAATAAAAA
*
105170706 TAAATACAT-AAAAATAAA
1 TAAATAAATAAAAAATAAA
105170724 TAATTTAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
20 9 0.25
21 10 0.28
22 6 0.17
23 8 0.22
24 3 0.08
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (21 bp):
TAAATAAATAAAAAATAAAAA
Found at i:105170718 original size:14 final size:14
Alignment explanation
Indices: 105170690--105170726 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
105170680 ATAAGTAAAT
105170690 AAATAAA-AAATAA
1 AAATAAATAAATAA
*
105170703 AAATAAATACATAA
1 AAATAAATAAATAA
105170717 AAATAAATAA
1 AAATAAATAA
105170727 TTTAGATAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAATAAATAA
Found at i:105172475 original size:4 final size:4
Alignment explanation
Indices: 105172466--105172530 Score: 52
Period size: 4 Copynumber: 17.5 Consensus size: 4
105172456 CCTGTCTAGA
* *
105172466 TTAT TTA- TT-T TTAT GTA- TTAT TT-T TTAC TT-T TTAT TTATT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA-T TTAT
*
105172510 TTAT TTAT TTAC TTA- TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TT
105172531 CCTTGTTTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
3 14 0.29
4 31 0.63
5 4 0.08
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:105172499 original size:21 final size:19
Alignment explanation
Indices: 105172469--105172530 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 19
105172459 GTCTAGATTA
105172469 TTTATTTTTATGTATTATTT
1 TTTATTTTTAT-TATTATTT
*
105172489 TTTACTTTTTATTTATT-TTA
1 TTTA-TTTTTA-TTATTATTT
105172509 TTTATTTATTTACTTATTATTT
1 TTTA-TT-TTTA-TTATTATTT
105172531 CCTTGTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 12 0.35
21 19 0.56
22 3 0.09
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTATTTTTATTATTATTT
Found at i:105172525 original size:12 final size:12
Alignment explanation
Indices: 105172497--105172543 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
105172487 TTTTTACTTT
*
105172497 TTATTTATTTTAT
1 TTATTTA-TTTAC
105172510 TTATTTATTTAC
1 TTATTTATTTAC
*
105172522 TTA-TTATTTCC
1 TTATTTATTTAC
*
105172533 TTGTTTATTTA
1 TTATTTATTTA
105172544 AAATTGGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 9 0.31
12 13 0.45
13 7 0.24
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.70
Consensus pattern (12 bp):
TTATTTATTTAC
Found at i:105175981 original size:46 final size:44
Alignment explanation
Indices: 105175877--105175984 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
105175867 TGTCTTTGAC
** * * *
105175877 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
105175921 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
105175967 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
105175985 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:105183343 original size:46 final size:44
Alignment explanation
Indices: 105183239--105183346 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
105183229 TGTCTTTGAC
** * * *
105183239 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
105183283 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
105183329 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
105183347 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:105184488 original size:2 final size:2
Alignment explanation
Indices: 105184481--105184508 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
105184471 AAAATAATAA
105184481 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
105184509 TTTACCCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:105187894 original size:2 final size:2
Alignment explanation
Indices: 105187887--105187927 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
105187877 CCCAATTCTA
105187887 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
105187928 CTTGTTTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:105189324 original size:19 final size:20
Alignment explanation
Indices: 105189272--105189326 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 20
105189262 CACCTCTTTT
*
105189272 TGCATTCATTTTGCATTCATCA
1 TGCATTAATTTT-CA-TCATCA
105189294 -GCATTACA-TTTCATCAT-A
1 TGCATTA-ATTTTCATCATCA
105189312 TGCATTAATTTTCAT
1 TGCATTAATTTTCAT
105189327 AAAAAGACCC
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
18 2 0.07
19 16 0.55
20 2 0.07
21 8 0.28
22 1 0.03
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.45
Consensus pattern (20 bp):
TGCATTAATTTTCATCATCA
Found at i:105191619 original size:18 final size:19
Alignment explanation
Indices: 105191568--105191631 Score: 73
Period size: 18 Copynumber: 3.5 Consensus size: 19
105191558 TAATGGCACG
105191568 ATAATAAT-ACGCATAATA
1 ATAATAATAACGCATAATA
*
105191586 A-AAT-ATGAACGTATAATA
1 ATAATAAT-AACGCATAATA
*
105191604 ATAATAATAAC-CATAATG
1 ATAATAATAACGCATAATA
105191622 ATAATAATAA
1 ATAATAATAA
105191632 TAACAATAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 2 0.05
17 3 0.08
18 26 0.67
19 6 0.15
20 2 0.05
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.28
Consensus pattern (19 bp):
ATAATAATAACGCATAATA
Found at i:105191652 original size:3 final size:3
Alignment explanation
Indices: 105191598--105191640 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
105191588 ATATGAACGT
** * *
105191598 ATA ATA ATA ATA ATA ACC ATA ATG ATA ATA ATA ATA ACA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
105191641 CACGAATAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:105193752 original size:41 final size:41
Alignment explanation
Indices: 105193695--105193773 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
105193685 ACAAAGAATA
*
105193695 GAAAAACATTTATTCAAAGAATGTTATTCAACTTTGCTATC
1 GAAAAAAATTTATTCAAAGAATGTTATTCAACTTTGCTATC
105193736 GAAAAAAATTTATTCAAAGAATGTTATTCAACTTTGCT
1 GAAAAAAATTTATTCAAAGAATGTTATTCAACTTTGCT
105193774 TGCTTTGAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.37
Consensus pattern (41 bp):
GAAAAAAATTTATTCAAAGAATGTTATTCAACTTTGCTATC
Found at i:105199659 original size:2 final size:2
Alignment explanation
Indices: 105199652--105199679 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
105199642 GTTGAATACC
105199652 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
105199680 TTGAAAACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:105200612 original size:3 final size:3
Alignment explanation
Indices: 105200604--105200653 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
105200594 GAGAAACATA
105200604 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
105200652 AA
1 AA
105200654 AGAACGAGGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:105207002 original size:3 final size:3
Alignment explanation
Indices: 105206994--105207057 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
105206984 GGTTAGCTTG
105206994 TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
105207041 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
105207058 CATGTAATTG
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 58 0.97
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:105208852 original size:11 final size:10
Alignment explanation
Indices: 105208804--105208865 Score: 70
Period size: 11 Copynumber: 5.8 Consensus size: 10
105208794 CACAAAAGTC
105208804 CTCTCATAATT
1 CTCTCA-AATT
105208815 CTCTCTAAATT
1 CTCTC-AAATT
105208826 CTCTTCAAATT
1 CTC-TCAAATT
105208837 CTCTCAAATTT
1 CTCTCAAA-TT
*
105208848 CTCTCACATT
1 CTCTCAAATT
*
105208858 TTCTCAAA
1 CTCTCAAA
105208866 GCTCTATTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
10 13 0.29
11 29 0.64
12 3 0.07
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.44
Consensus pattern (10 bp):
CTCTCAAATT
Found at i:105208862 original size:21 final size:21
Alignment explanation
Indices: 105208811--105208865 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
105208801 GTCCTCTCAT
105208811 AATTCTCTCTAAATTCTCTTCA
1 AATTCTCTC-AAATTCTCTTCA
105208833 AATTCTCTCAAATT-TCTCTCA
1 AATTCTCTCAAATTCTCT-TCA
* *
105208854 CATTTTCTCAAA
1 AATTCTCTCAAA
105208866 GCTCTATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 3 0.10
21 18 0.60
22 9 0.30
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (21 bp):
AATTCTCTCAAATTCTCTTCA
Found at i:105210006 original size:7 final size:7
Alignment explanation
Indices: 105209994--105210019 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
105209984 TAGTCGTTTT
105209994 GTATTTA
1 GTATTTA
105210001 GTATTTA
1 GTATTTA
105210008 GTATTTA
1 GTATTTA
105210015 GTATT
1 GTATT
105210020 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:105210025 original size:14 final size:13
Alignment explanation
Indices: 105209991--105210025 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
105209981 AAATAGTCGT
105209991 TTTGTATTTAGTA
1 TTTGTATTTAGTA
105210004 TTTAGTATTTAGTA
1 TTT-GTATTTAGTA
105210018 TTATGTAT
1 TT-TGTAT
105210026 ATAACTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 3 0.15
14 16 0.80
15 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (13 bp):
TTTGTATTTAGTA
Found at i:105210557 original size:30 final size:31
Alignment explanation
Indices: 105210515--105210581 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
105210505 GATGACGACG
*
105210515 CGGG-CCTATCAACAGTGCCCACACAATCAC
1 CGGGCCCTATCAACAGTACCCACACAATCAC
* *
105210545 CGGGCCCT-TCAACAGTACCCATACAGTCAC
1 CGGGCCCTATCAACAGTACCCACACAATCAC
105210575 CGGGCCC
1 CGGGCCC
105210582 AACGCTTCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 30 0.91
31 3 0.09
ACGTcount: A:0.25, C:0.42, G:0.19, T:0.13
Consensus pattern (31 bp):
CGGGCCCTATCAACAGTACCCACACAATCAC
Found at i:105210952 original size:22 final size:21
Alignment explanation
Indices: 105210926--105210980 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
105210916 CCATAACCAG
105210926 ATCCCCTGCCGGAGCAACCACA
1 ATCCCC-GCCGGAGCAACCACA
*
105210948 ATCCCCGCCGGAGTAACCACA
1 ATCCCCGCCGGAGCAACCACA
105210969 ATCCCCGCCGGA
1 ATCCCCGCCGGA
105210981 AGCTGAACCA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 26 0.81
22 6 0.19
ACGTcount: A:0.25, C:0.45, G:0.20, T:0.09
Consensus pattern (21 bp):
ATCCCCGCCGGAGCAACCACA
Found at i:105214332 original size:23 final size:23
Alignment explanation
Indices: 105214305--105214354 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
105214295 AAGTAAAGTA
105214305 AATAAAAAGGAAAGAAACAAA-AG
1 AATAAAAA-GAAAGAAACAAACAG
* *
105214328 AATAAAAAGAAGGAAAGAAACAG
1 AATAAAAAGAAAGAAACAAACAG
105214351 AATA
1 AATA
105214355 GCAGGAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.72, C:0.04, G:0.18, T:0.06
Consensus pattern (23 bp):
AATAAAAAGAAAGAAACAAACAG
Found at i:105215924 original size:23 final size:23
Alignment explanation
Indices: 105215894--105215980 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
105215884 GCTTTACTGA
* *
105215894 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
105215917 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
105215938 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
105215960 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
105215981 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:105222195 original size:23 final size:23
Alignment explanation
Indices: 105222168--105222217 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
105222158 AAGTAAAGTA
105222168 AATAAAAAGGAAAGAAACAAA-AG
1 AATAAAAA-GAAAGAAACAAACAG
* *
105222191 AATAAAAAGAAGGAAAGAAACAG
1 AATAAAAAGAAAGAAACAAACAG
105222214 AATA
1 AATA
105222218 GCAGGAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.72, C:0.04, G:0.18, T:0.06
Consensus pattern (23 bp):
AATAAAAAGAAAGAAACAAACAG
Found at i:105223786 original size:23 final size:23
Alignment explanation
Indices: 105223756--105223842 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
105223746 GCTTTACTGA
* *
105223756 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
105223779 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
105223800 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
105223822 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
105223843 ACTAATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:105225472 original size:126 final size:125
Alignment explanation
Indices: 105225227--105225794 Score: 796
Period size: 126 Copynumber: 4.5 Consensus size: 125
105225217 CCAAATAGGA
* ** *
105225227 ACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTTTGTAATTTTACTGACAGTGCATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * * * * * * *
105225292 GCTTGAAGCATTTTGGACACTATTTTTTCAAAAATGTCTTCTCGAAACTATTTTTTTAGAT
66 GCTTGACGCATTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTA-TTTTTCAAAT
* * *
105225353 ACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * * *
105225418 ACTTGACGCGTTTTGGACACTATTTGTTCA-AAACCTTTTCTCAAAATTACTTTTTCAAAT
66 GCTTGACGCATTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTA-TTTTTCAAAT
* * * * *
105225478 ACTACTGTAGCAAAAAAGCGTCCACGTGAAAGTTTTTTTTAGTAATTTTGCTGACAGTGAATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * *
105225543 GCTTGACGCGTTTTGAACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCGAAT
66 GCTTGACGCATTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTA-TTTTTCAAAT
* * * * *
105225604 ACTACTGTAGCAAAATAACGTCCATGTGGAAGCTTGTTTCAGTAATTTTGCTAACAGTGCATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
*
105225669 GCTCGACGCATTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAAT
66 GCTTGACGCATTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTA-TTTTTCAAAT
105225730 ACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
105225795 AATTTAATTA
Statistics
Matches: 392, Mismatches: 49, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
125 107 0.27
126 285 0.73
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (125 bp):
ACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
GCTTGACGCATTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTCAAAT
Found at i:105225685 original size:251 final size:252
Alignment explanation
Indices: 105225227--105225794 Score: 827
Period size: 251 Copynumber: 2.3 Consensus size: 252
105225217 CCAAATAGGA
* *
105225227 ACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTTT-GTAATTTTACTGACAGTGCATCC
1 ACTACTGTAGCAAAAGAGCGTCCACGTGGAAG-TTTTTTTTAGTAATTTTGCTGACAGTGCATCC
* * * * *
105225291 TGCTTGAAGCATTTTGGACACTATTTTTTCAAAAATGTCTTCTCGAAACTATTTTTTTAGATACT
65 TGCTTGAAGCATTTTGAACACTATTTGTTCAAAAACGTCTTCTCAAAACTATTTTTTGAGATACT
* * * *
105225356 ACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATCCTACT
130 ACTGTAGCAAAAGAACATCCACGTGGAAGCTTGTTTCAATAATTTTGCTAACAGTGCATCCTACT
* * *
105225421 TGACGCGTTTTGGACACTATTTGTTCA-AAACCTTTTCTCAAAATTACTTTTTCAAAT
195 CGACGCATTTTGGACACTATTTGTTCAGAAACCTCTTCTCAAAATTACTTTTTCAAAT
* * *
105225478 ACTACTGTAGCAAAAAAGCGTCCACGTGAAAGTTTTTTTTAGTAATTTTGCTGACAGTGAATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGGAAGTTTTTTTTAGTAATTTTGCTGACAGTGCATCCT
* * * *
105225543 GCTTGACGCGTTTTGAACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCGA-ATACT
66 GCTTGAAGCATTTTGAACACTATTTGTTCAAAAACGTCTTCTCAAAACTATTTTTT-GAGATACT
* * * * *
105225607 ACTGTAGCAAAATAACGTCCATGTGGAAGCTTGTTTCAGTAATTTTGCTAACAGTGCATCCTGCT
130 ACTGTAGCAAAAGAACATCCACGTGGAAGCTTGTTTCAATAATTTTGCTAACAGTGCATCCTACT
* *
105225672 CGACGCATTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAAT
195 CGACGCATTTTGGACACTATTTGTTCAGAAACCTCTTCTCAAAATTACTTTTTCAAAT
* *
105225730 ACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGGAAGTTTTTTTTAGTAATTTTGCTGACAGTGCATCCT
105225795 AATTTAATTA
Statistics
Matches: 281, Mismatches: 33, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
250 8 0.03
251 185 0.66
252 88 0.31
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (252 bp):
ACTACTGTAGCAAAAGAGCGTCCACGTGGAAGTTTTTTTTAGTAATTTTGCTGACAGTGCATCCT
GCTTGAAGCATTTTGAACACTATTTGTTCAAAAACGTCTTCTCAAAACTATTTTTTGAGATACTA
CTGTAGCAAAAGAACATCCACGTGGAAGCTTGTTTCAATAATTTTGCTAACAGTGCATCCTACTC
GACGCATTTTGGACACTATTTGTTCAGAAACCTCTTCTCAAAATTACTTTTTCAAAT
Found at i:105226738 original size:62 final size:60
Alignment explanation
Indices: 105226669--105226784 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
105226659 GTAGTACTTA
* * *
105226669 AACTATTAATATGTGTTTTATCGTGGTACTAGTAATTTCATAAAATGTCTAATATGATACCT
1 AACTATT-A-ATGTATTTTATCGTGGTACTAGTAATTTCATAAAATATCCAATATGATACCT
* * * *
105226731 AACTATTAATGTATTTTGTTGTGGTACTTGTACTTTCATAAAATATCCAATATG
1 AACTATTAATGTATTTTATCGTGGTACTAGTAATTTCATAAAATATCCAATATG
105226785 GTACTTGAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
60 39 0.83
61 1 0.02
62 7 0.15
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (60 bp):
AACTATTAATGTATTTTATCGTGGTACTAGTAATTTCATAAAATATCCAATATGATACCT
Found at i:105226815 original size:29 final size:30
Alignment explanation
Indices: 105226750--105226816 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
105226740 TGTATTTTGT
* * *
105226750 TGTGGTACTTGTACTTTCATAAAATATCCAA
1 TGTGGTACTTGAACTTT-AGAAAATACCCAA
* *
105226781 TATGGTACTTGAACTTT-GAAAATGCCCAA
1 TGTGGTACTTGAACTTTAGAAAATACCCAA
105226810 TGTGGTA
1 TGTGGTA
105226817 TCTAAACTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 15 0.50
31 15 0.50
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (30 bp):
TGTGGTACTTGAACTTTAGAAAATACCCAA
Found at i:105229221 original size:2 final size:2
Alignment explanation
Indices: 105229216--105229246 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
105229206 TATATATTCA
105229216 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
105229247 CCAATTCAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:105231813 original size:2 final size:2
Alignment explanation
Indices: 105231806--105231834 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
105231796 TGATTGAAAC
105231806 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
105231835 CATTTATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:105233978 original size:2 final size:2
Alignment explanation
Indices: 105233971--105234013 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
105233961 TAGACACGCG
* * *
105233971 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT TT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
105234013 A
1 A
105234014 GAGTCCAAGC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:105242770 original size:17 final size:17
Alignment explanation
Indices: 105242750--105242784 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
105242740 ATAAGTTAAT
105242750 TTAAATAAATAAATTTC
1 TTAAATAAATAAATTTC
* *
105242767 TTAATTAAATAATTTTC
1 TTAAATAAATAAATTTC
105242784 T
1 T
105242785 CAATCCGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAAATAAATAAATTTC
Found at i:105246042 original size:112 final size:109
Alignment explanation
Indices: 105245887--105246271 Score: 250
Period size: 111 Copynumber: 3.4 Consensus size: 109
105245877 ACCAGTATTT
* * ** *
105245887 AAAAAAATATTTTGGTGCTAGCCAGTAGATGGTCGGCACCAAGTA-TTTTTTGGTGTC-CTAATG
1 AAAAAAAAATTTGGGTGCTAGCCAGTAGATGGTCGGCACCAAGTACTTTTTTCATGTCACCAATG
* * *
105245950 CAAATTTTTTTACTTT-AGTACACTGATGGTTGGCACCAGTTAAGTTTAA
66 C---TTTTTTT--TTTGA-AACACTGATGGCTGGCACCAGTTAAATTTAA
* * * * *
105245999 AAAAAAAAATTTGGGTGCTGGTCATGTA-ATGGTCGGTAGCAAGTACTTTTTTCATGTCACCAGT
1 AAAAAAAAATTTGGGTGCTAGCCA-GTAGATGGTCGGCACCAAGTACTTTTTTCATGTCACCAAT
*
105246063 GCTTTTTTTTTTGAAACACTTATGGCTGGCACCAGTTAAATTTAAAAAAAA
65 GCTTTTTTTTTTGAAACACTGATGGCTGGCACCAGTTAAATTT------AA
* ** *
105246114 AAAAAACAAATTTGGGTGCTAGCCATGTA-ATGGCCGGCACCAAGTAC-AATTTCGA-CTC-CCA
1 AAAAAA-AAATTTGGGTGCTAGCCA-GTAGATGGTCGGCACCAAGTACTTTTTTC-ATGTCACCA
* * * * * **
105246175 ATGCAAATTTTCTTTTTTGGAACACTGGTGACCGACACCAGTTAAATTTTT
63 ATGC---TTTT-TTTTTTGAAACACTGATGGCTGGCACCAGTTAAATTTAA
* * *
105246226 AAAAAAAAATTTAGGTGCT-GACCATGT-GATGGCCGACACCAAGTAC
1 AAAAAAAAATTTGGGTGCTAG-CCA-GTAGATGGTCGGCACCAAGTAC
105246272 CTTGAAAAAA
Statistics
Matches: 222, Mismatches: 33, Indels: 37
0.76 0.11 0.13
Matches are distributed among these distances:
109 28 0.13
110 2 0.01
111 42 0.19
112 41 0.18
113 13 0.06
114 11 0.05
115 14 0.06
116 36 0.16
117 4 0.02
118 31 0.14
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (109 bp):
AAAAAAAAATTTGGGTGCTAGCCAGTAGATGGTCGGCACCAAGTACTTTTTTCATGTCACCAATG
CTTTTTTTTTTGAAACACTGATGGCTGGCACCAGTTAAATTTAA
Found at i:105249303 original size:65 final size:65
Alignment explanation
Indices: 105249234--105249360 Score: 173
Period size: 65 Copynumber: 2.0 Consensus size: 65
105249224 TTTCTGAGTG
* * ** *
105249234 GTACACACAAAGTATTCCTTTCCTTTTCATATGGTATACACAAAGTGTACATAACCTTTTCAAGT
1 GTACACACAAAGTATACATAACCTTTTCATATGGTATACACAAAGTATACATAACCTTTTCAAGT
* * * *
105249299 GTACACACAAAGTGTACATAACCTTTTCATGTGGTATACACAAAGTATACCTAACTTTTTCA
1 GTACACACAAAGTATACATAACCTTTTCATATGGTATACACAAAGTATACATAACCTTTTCA
105249361 CATTTGATAG
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (65 bp):
GTACACACAAAGTATACATAACCTTTTCATATGGTATACACAAAGTATACATAACCTTTTCAAGT
Found at i:105249312 original size:32 final size:33
Alignment explanation
Indices: 105249230--105249360 Score: 140
Period size: 33 Copynumber: 4.0 Consensus size: 33
105249220 TTTCTTTCTG
* * * **
105249230 AGTGGTACACACAAAGTATTCCTTTCCTTTTCA
1 AGTGGTACACACAAAGTGTACATAACCTTTTCA
*
105249263 TA-TGGTATACACAAAGTGTACATAACCTTTTCA
1 -AGTGGTACACACAAAGTGTACATAACCTTTTCA
105249296 AGT-GTACACACAAAGTGTACATAACCTTTTCA
1 AGTGGTACACACAAAGTGTACATAACCTTTTCA
* * * * *
105249328 TGTGGTATACACAAAGTATACCTAACTTTTTCA
1 AGTGGTACACACAAAGTGTACATAACCTTTTCA
105249361 CATTTGATAG
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
32 31 0.37
33 51 0.61
34 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.34
Consensus pattern (33 bp):
AGTGGTACACACAAAGTGTACATAACCTTTTCA
Found at i:105249388 original size:29 final size:29
Alignment explanation
Indices: 105249355--105249421 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
105249345 ATACCTAACT
* *
105249355 TTTTCACATTTGATAGCCGAAGCTATCCC
1 TTTTCACATTCGATAGCCAAAGCTATCCC
105249384 TTTTCACATTCGATAGCCAAAGCTATCCC
1 TTTTCACATTCGATAGCCAAAGCTATCCC
105249413 TTTTCACAT
1 TTTTCACAT
105249422 GGTACACACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.25, C:0.28, G:0.10, T:0.36
Consensus pattern (29 bp):
TTTTCACATTCGATAGCCAAAGCTATCCC
Found at i:105250310 original size:26 final size:26
Alignment explanation
Indices: 105250280--105250331 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
105250270 TAACAAGAAG
105250280 AAAGGGACACATTTGGGGTTTAAAAT
1 AAAGGGACACATTTGGGGTTTAAAAT
105250306 AAAGGGACACATTTGGGGTTTAAAAT
1 AAAGGGACACATTTGGGGTTTAAAAT
105250332 TTATCTTTTA
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:0.38, C:0.08, G:0.27, T:0.27
Consensus pattern (26 bp):
AAAGGGACACATTTGGGGTTTAAAAT
Found at i:105254732 original size:30 final size:30
Alignment explanation
Indices: 105254686--105254745 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
105254676 TTCCCGAGCC
*
105254686 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* * *
105254716 TAGGGGTAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
105254746 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:105258089 original size:42 final size:42
Alignment explanation
Indices: 105257993--105258153 Score: 162
Period size: 42 Copynumber: 3.7 Consensus size: 42
105257983 CTTCGTTTTC
** * *
105257993 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
* * *
105258036 T-GATACAATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
105258077 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT---AT-TCACATA
* *
105258126 TTGATGCCACAGCCCAGCTATGGTCTTA
1 TCGATGCCATAGCCCAGCTATGGTCTTA
105258154 TACGAATCAC
Statistics
Matches: 98, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.02
42 59 0.60
43 1 0.01
45 2 0.02
48 2 0.02
49 32 0.33
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:105258140 original size:49 final size:48
Alignment explanation
Indices: 105258063--105258199 Score: 170
Period size: 49 Copynumber: 2.9 Consensus size: 48
105258053 TATGGTCTTA
* *
105258063 CACATATTCATATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATTGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
* *
105258113 CACATATCACATATTGATGCCACAGCCCAGCTATGGTCTTATACGAAT
1 CACATATCACATATTGATGCCATAGCCCAGCTATGGTCTTACACGAAT
* * * *
105258161 CACATATCTC--ACTGATGCCATATCCCAGATATGGTCTTA
1 CACATATCACATATTGATGCCATAGCCCAGCTATGGTCTTA
105258200 TATAGTAGCA
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
46 25 0.32
48 12 0.15
49 35 0.45
50 6 0.08
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (48 bp):
CACATATCACATATTGATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:105258215 original size:95 final size:93
Alignment explanation
Indices: 105258079--105258250 Score: 211
Period size: 95 Copynumber: 1.8 Consensus size: 93
105258069 TTCATATATC
* * * ** *
105258079 GATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATTGATGCCACAGCCCAGC
1 GATGCCATAGCCCAGATATGGTCTTACAAGTAAGCACATATCAC--ACCGATGCCACAGCCCAGA
105258144 TATGGTCTTATACGAATCACATATCTCACT
64 TATGGTCTTATACGAATCACATATCTCACT
* * * * *
105258174 GATGCCATATCCCAGATATGGTCTTATATAGT-AGCATATATCACACCGATGCCATATCCCAGAT
1 GATGCCATAGCCCAGATATGGTCTTACA-AGTAAGCACATATCACACCGATGCCACAGCCCAGAT
105258238 ATGGTCTTATACG
65 ATGGTCTTATACG
105258251 GAAATCACTT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
93 28 0.43
95 35 0.54
96 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (93 bp):
GATGCCATAGCCCAGATATGGTCTTACAAGTAAGCACATATCACACCGATGCCACAGCCCAGATA
TGGTCTTATACGAATCACATATCTCACT
Found at i:105258232 original size:47 final size:46
Alignment explanation
Indices: 105258078--105258248 Score: 162
Period size: 47 Copynumber: 3.6 Consensus size: 46
105258068 ATTCATATAT
* * * * * *
105258078 CGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATAT
1 CGATGCCATATCCCAGATATGGTCTTATAAG-AAGCACATATCAC--AC
* * * * * * *
105258127 TGATGCCACAGCCCAGCTATGGTCTTATACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATAAGAAGCACATATCACAC
* * *
105258173 TGATGCCATATCCCAGATATGGTCTTATATAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATA-AGAAGCACATATCACAC
105258220 CGATGCCATATCCCAGATATGGTCTTATA
1 CGATGCCATATCCCAGATATGGTCTTATA
105258249 CGGAAATCAC
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
46 27 0.25
47 40 0.37
48 12 0.11
49 28 0.26
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATAAGAAGCACATATCACAC
Found at i:105258311 original size:31 final size:31
Alignment explanation
Indices: 105258276--105258416 Score: 178
Period size: 31 Copynumber: 4.5 Consensus size: 31
105258266 TTGTAGCCGA
*
105258276 AGCTACCA-TTATTCACTGATCAGGTAGTCAG
1 AGCTACCACTT-TTCACTGATCAGGTAGACAG
* * *
105258307 AGCTACCATTTTTCACTGATCAAGTAGCCAG
1 AGCTACCACTTTTCACTGATCAGGTAGACAG
105258338 AGCTACCACTTTTCACTGATCAGGTA-ACAG
1 AGCTACCACTTTTCACTGATCAGGTAGACAG
* * *
105258368 AAGCTACCACTTTTCACTGATTAGGTAGCCAA
1 -AGCTACCACTTTTCACTGATCAGGTAGACAG
*
105258400 AGTTACCACTTTTCACT
1 AGCTACCACTTTTCACT
105258417 TGTCATTTGT
Statistics
Matches: 98, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
30 3 0.03
31 91 0.93
32 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (31 bp):
AGCTACCACTTTTCACTGATCAGGTAGACAG
Found at i:105258373 original size:62 final size:62
Alignment explanation
Indices: 105258268--105258416 Score: 196
Period size: 62 Copynumber: 2.4 Consensus size: 62
105258258 CTTGTCACTT
* *
105258268 GTAGCC-GAAGCTACCA-TTATTCACTGATCAGGTAGTCAGAGCTACCATTTTTCACTGATCAA
1 GTAGCCAG-AGCTACCACTT-TTCACTGATCAGGTAGACAGAGCTACCACTTTTCACTGATCAA
* *
105258330 GTAGCCAGAGCTACCACTTTTCACTGATCAGGTA-ACAGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCAGAGCTACCACTTTTCACTGATCAGGTAGACAG-AGCTACCACTTTTCACTGATCAA
* *
105258392 GTAGCCAAAGTTACCACTTTTCACT
1 GTAGCCAGAGCTACCACTTTTCACT
105258417 TGTCATTTGT
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
61 3 0.04
62 72 0.92
63 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (62 bp):
GTAGCCAGAGCTACCACTTTTCACTGATCAGGTAGACAGAGCTACCACTTTTCACTGATCAA
Found at i:105258486 original size:50 final size:51
Alignment explanation
Indices: 105258392--105258520 Score: 206
Period size: 50 Copynumber: 2.5 Consensus size: 51
105258382 CACTGATTAG
* * *
105258392 GTAGCCAAAGTTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGTTATCACTTATCACTTGTCATTTGTCCTTGATCAGATAAGT
*
105258443 GTAGCCGAAGTTATTACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGTTATCACTTATCACTTGTCATTTGTCCTTGATCAGATAAGT
*
105258493 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGTTATCACTTATCACTTGT
105258521 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
50 48 0.68
51 23 0.32
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (51 bp):
GTAGCCGAAGTTATCACTTATCACTTGTCATTTGTCCTTGATCAGATAAGT
Found at i:105260779 original size:65 final size:65
Alignment explanation
Indices: 105260710--105260836 Score: 184
Period size: 65 Copynumber: 2.0 Consensus size: 65
105260700 TTTCTGAGTG
** *
105260710 GTACACACAAAGTATAGC-TTTCCTTTTCATATGGTATACACAAAGTGTACATAACCTTTTCAAG
1 GTACACACAAAGTATA-CATAACCTTTTCATATGGTATACACAAAGTATACATAACCTTTTCAAG
105260774 T
65 T
* * *
105260775 GTACACACAAAGTGTACATAACCTTTTCATGTGGTATACACAAAGTATACCTAACCTTTTCA
1 GTACACACAAAGTATACATAACCTTTTCATATGGTATACACAAAGTATACATAACCTTTTCA
105260837 CATTAGATAG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
64 1 0.02
65 54 0.98
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (65 bp):
GTACACACAAAGTATACATAACCTTTTCATATGGTATACACAAAGTATACATAACCTTTTCAAGT
Found at i:105260788 original size:32 final size:33
Alignment explanation
Indices: 105260706--105260836 Score: 151
Period size: 33 Copynumber: 4.0 Consensus size: 33
105260696 TTTCTTTCTG
* **
105260706 AGTGGTACACACAAAGTATAGC-TTTCCTTTTCA
1 AGTGGTACACACAAAGTGTA-CATAACCTTTTCA
*
105260739 TA-TGGTATACACAAAGTGTACATAACCTTTTCA
1 -AGTGGTACACACAAAGTGTACATAACCTTTTCA
105260772 AGT-GTACACACAAAGTGTACATAACCTTTTCA
1 AGTGGTACACACAAAGTGTACATAACCTTTTCA
* * * *
105260804 TGTGGTATACACAAAGTATACCTAACCTTTTCA
1 AGTGGTACACACAAAGTGTACATAACCTTTTCA
105260837 CATTAGATAG
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
32 32 0.38
33 52 0.61
34 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (33 bp):
AGTGGTACACACAAAGTGTACATAACCTTTTCA
Found at i:105262084 original size:93 final size:93
Alignment explanation
Indices: 105261922--105262104 Score: 287
Period size: 93 Copynumber: 2.0 Consensus size: 93
105261912 CTCCTCTAGG
* * * *
105261922 GTGTATTTATAGGCTTTGGAATGCCTAAGAACCCTCGAAATTAGCCTTTTCCGACTTGGACTCAC
1 GTGTATTTATAGGCTTTGAAATGCATAAGAACCCTCGAAATTAGCCTTTTCCGAATTGGACTCAA
*
105261987 CTTGGGATCGGCAGGGACACACCCGTGT
66 CTTGGGATCGGCAAGGACACACCCGTGT
105262015 GTGTATTTATAGGCTTTGAAATGCATAAGAACCCTCGAAATTAGCCTTTTTCC-AATTGGACTCA
1 GTGTATTTATAGGCTTTGAAATGCATAAGAACCCTCGAAATTAGCC-TTTTCCGAATTGGACTCA
* *
105262079 ACTTGGGCTCGGCAAGGACACGCCCG
65 ACTTGGGATCGGCAAGGACACACCCG
105262105 AATGCGATTA
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
93 76 0.93
94 6 0.07
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (93 bp):
GTGTATTTATAGGCTTTGAAATGCATAAGAACCCTCGAAATTAGCCTTTTCCGAATTGGACTCAA
CTTGGGATCGGCAAGGACACACCCGTGT
Found at i:105265335 original size:41 final size:41
Alignment explanation
Indices: 105265301--105265541 Score: 367
Period size: 41 Copynumber: 5.9 Consensus size: 41
105265291 GCTAAAAACT
* * * * * *
105265301 GAGCAATAGCGGCGTTTTTTGTTAAAATGCCGCTAAA-AACA
1 GAGCATTAGCGGCG-CTTTTGGTGAAACGCCGCTAAAGACCA
*
105265342 GAGCATTAGCGGCGCTTTTGGTGAAACGCCACTAAAGACCA
1 GAGCATTAGCGGCGCTTTTGGTGAAACGCCGCTAAAGACCA
*
105265383 GAGCATTAGCGGCGCTTTTGGTGAAACGCCGCTAAAGATCA
1 GAGCATTAGCGGCGCTTTTGGTGAAACGCCGCTAAAGACCA
*
105265424 GAGCATTAGCGGCGTTTTTGGTGAAACGCCGCTAAAGACCA
1 GAGCATTAGCGGCGCTTTTGGTGAAACGCCGCTAAAGACCA
*
105265465 GAGCATTAGCGGCGCTTTTGGTGAAGCGCCGCTAAAGACCA
1 GAGCATTAGCGGCGCTTTTGGTGAAACGCCGCTAAAGACCA
*
105265506 GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAA
1 GAGCATTAGCGGCGCTTTTGGTGAAACGCCGCTAAA
105265542 AGTCATGTAA
Statistics
Matches: 184, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 17 0.09
41 167 0.91
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (41 bp):
GAGCATTAGCGGCGCTTTTGGTGAAACGCCGCTAAAGACCA
Found at i:105266183 original size:24 final size:24
Alignment explanation
Indices: 105266156--105266228 Score: 146
Period size: 24 Copynumber: 3.0 Consensus size: 24
105266146 CATATATTTA
105266156 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
105266180 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
105266204 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
105266228 T
1 T
105266229 GTTATTTTGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:105266184 original size:12 final size:12
Alignment explanation
Indices: 105266169--105266228 Score: 66
Period size: 12 Copynumber: 5.0 Consensus size: 12
105266159 AAAGTTTATA
105266169 TAAAAATTAATT
1 TAAAAATTAATT
* * *
105266181 TAAAAGTTTATA
1 TAAAAATTAATT
105266193 TAAAAATTAATT
1 TAAAAATTAATT
* * *
105266205 TAAAAGTTTATA
1 TAAAAATTAATT
105266217 TAAAAATTAATT
1 TAAAAATTAATT
105266229 GTTATTTTGG
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (12 bp):
TAAAAATTAATT
Found at i:105267092 original size:14 final size:13
Alignment explanation
Indices: 105267043--105267094 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
105267033 TTAATTTCTT
105267043 TATTTATAAAAACCA
1 TATTTATAAAAA--A
105267058 -ATTTATAAAAAA
1 TATTTATAAAAAA
* *
105267070 TAATAATAAAAAA
1 TATTTATAAAAAA
105267083 TATTTTATAAAA
1 TA-TTTATAAAA
105267095 TCACTTAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 1 0.03
13 12 0.39
14 18 0.58
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (13 bp):
TATTTATAAAAAA
Found at i:105268580 original size:14 final size:14
Alignment explanation
Indices: 105268563--105268590 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
105268553 GAGATCATCT
105268563 CTGTGAAAATACCA
1 CTGTGAAAATACCA
105268577 CTGTGAAAATACCA
1 CTGTGAAAATACCA
105268591 TTTGCAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.21
Consensus pattern (14 bp):
CTGTGAAAATACCA
Found at i:105270860 original size:29 final size:29
Alignment explanation
Indices: 105270827--105270900 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
105270817 CCTTCGAGCT
105270827 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
105270856 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
105270885 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
105270901 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:105270861 original size:58 final size:58
Alignment explanation
Indices: 105270768--105270900 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
105270758 ATACTCGATT
* * * * *
105270768 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
105270826 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
105270884 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
105270901 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:105279296 original size:29 final size:29
Alignment explanation
Indices: 105279263--105279336 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
105279253 CCTTCGAGCT
105279263 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
105279292 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
105279321 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
105279337 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:105279297 original size:58 final size:58
Alignment explanation
Indices: 105279204--105279336 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
105279194 ATACTCGATT
* * * * *
105279204 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
105279262 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
105279320 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
105279337 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:105287169 original size:29 final size:29
Alignment explanation
Indices: 105287136--105287209 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
105287126 CCTTCGAGCT
105287136 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
105287165 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
105287194 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
105287210 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:105287170 original size:58 final size:58
Alignment explanation
Indices: 105287077--105287209 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
105287067 ATACTCGATT
* * * * *
105287077 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
105287135 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
105287193 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
105287210 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:105299053 original size:26 final size:24
Alignment explanation
Indices: 105298990--105299053 Score: 58
Period size: 26 Copynumber: 2.5 Consensus size: 24
105298980 TTCCAAGAGA
*
105298990 AAGAAAAAGTAAGTTAATAAATAGT
1 AAGAAAAA-TAAATTAATAAATAGT
* *
105299015 AATAATAAA-AAATTAAATTAAATTGT
1 AAGAA-AAATAAATT-AA-TAAATAGT
105299041 AAGAAAAATAAAT
1 AAGAAAAATAAAT
105299054 GGCTAAAGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
24 4 0.13
25 9 0.29
26 18 0.58
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (24 bp):
AAGAAAAATAAATTAATAAATAGT
Found at i:105300110 original size:13 final size:13
Alignment explanation
Indices: 105300092--105300122 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
105300082 GCTCGGCAGG
105300092 GACACGCCCGTGT
1 GACACGCCCGTGT
*
105300105 GACACGCTCGTGT
1 GACACGCCCGTGT
105300118 GACAC
1 GACAC
105300123 ACCGTGTGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.35, G:0.29, T:0.16
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:105308055 original size:13 final size:13
Alignment explanation
Indices: 105308039--105308069 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
105308029 GTATACGGCT
105308039 GTGTCACACGGTC
1 GTGTCACACGGTC
105308052 GTGTCACACGGTC
1 GTGTCACACGGTC
105308065 GTGTC
1 GTGTC
105308070 TTACTTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.13, C:0.29, G:0.32, T:0.26
Consensus pattern (13 bp):
GTGTCACACGGTC
Found at i:105321786 original size:17 final size:18
Alignment explanation
Indices: 105321761--105321796 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
105321751 CAAATGGGCA
105321761 GTGTAGG-CCACACGGGT
1 GTGTAGGCCCACACGGGT
*
105321778 GTGTGGGCCCACACGGGT
1 GTGTAGGCCCACACGGGT
105321796 G
1 G
105321797 AACCACACGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.14, C:0.25, G:0.44, T:0.17
Consensus pattern (18 bp):
GTGTAGGCCCACACGGGT
Found at i:105323750 original size:27 final size:26
Alignment explanation
Indices: 105323720--105323872 Score: 96
Period size: 27 Copynumber: 6.2 Consensus size: 26
105323710 GAGAAAAATG
105323720 TAAATTAAAATGGAAAGAAAGATAATT
1 TAAATTAAAAT-GAAAGAAAGATAATT
* *
105323747 TAAATGAAAA-G--AGAAA-A-AAAT
1 TAAATTAAAATGAAAGAAAGATAATT
* * *
105323768 TAAATTTAAATGAAATGAGAA-AAAAAT
1 TAAATTAAAATGAAA-GA-AAGATAATT
*
105323795 TAAATTAAAATGGAAAGAAAGATAGTT
1 TAAATTAAAAT-GAAAGAAAGATAATT
* *
105323822 TAAA-TGAAATG--AGGAAGA-AA-T
1 TAAATTAAAATGAAAGAAAGATAATT
* *
105323843 TAAATTTAAAT-AAAAAAAGATAATT
1 TAAATTAAAATGAAAGAAAGATAATT
105323868 TAAAT
1 TAAAT
105323873 GAAATAAAAA
Statistics
Matches: 99, Mismatches: 14, Indels: 28
0.70 0.10 0.20
Matches are distributed among these distances:
21 16 0.16
22 8 0.08
23 16 0.16
24 3 0.03
25 10 0.10
26 10 0.10
27 32 0.32
28 4 0.04
ACGTcount: A:0.61, C:0.00, G:0.14, T:0.25
Consensus pattern (26 bp):
TAAATTAAAATGAAAGAAAGATAATT
Found at i:105323802 original size:75 final size:72
Alignment explanation
Indices: 105323713--105324069 Score: 294
Period size: 75 Copynumber: 5.0 Consensus size: 72
105323703 TAAACATGAG
*
105323713 AAAAATGTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAAAGAGAAAAAAATTAAATTTAAA
1 AAAAAT-TAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGAAAAAAATTAAATTTAAA
105323778 TGAAATGAGAA
65 TGAAA--A-AA
* * *
105323789 AAAAATTAAATTAAAATGGAAAGAAAGATAGTTTAAATGAAATGAGGAAGAAATTAAATTTAAAT
1 AAAAATTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGAAAAAAATTAAATTTAAAT
105323854 ---AAAA
66 GAAAAAA
* * * * * * *
105323858 AAAGA-T-AATTTAAAT-GAAATAAA-A-AAATTAAATTTACATG-GAAAAAAATATAAA-TGAA
1 AAAAATTAAATTAAAATGGAAAGAAAGATAATTTAAA-TGAAATGAGAAAAAAAT-TAAATTTAA
*
105323916 ATG--AGAA
64 ATGAAAAAA
* * * *
105323923 AAAAATTAAATGAAAATGGGAAGATAGATAATTTAAATGAAATGAGAAAAAAAATTAATTTTAAA
1 AAAAATTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAG-AAAAAAATTAAATTTAAA
105323988 TGTAAAAAA
65 TG-AAAAAA
* * * * *
105323997 AGATAATTTAAA-TGAAATGAGAAA-AAA-TTAAATATAAATGAAATGAGAAAAAAAATTAAATG
1 A-A-AAATTAAATTAAAATG-GAAAGAAAGAT-AATTTAAATGAAATGAG-AAAAAAATTAAATT
*
105324059 TAAATGGAAAA
61 TAAATGAAAAA
105324070 TAATATAATT
Statistics
Matches: 226, Mismatches: 37, Indels: 38
0.75 0.12 0.13
Matches are distributed among these distances:
64 18 0.08
65 17 0.08
66 8 0.04
67 15 0.07
68 6 0.03
69 12 0.05
70 12 0.05
71 14 0.06
72 1 0.00
74 9 0.04
75 98 0.43
76 16 0.07
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.24
Consensus pattern (72 bp):
AAAAATTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGAAAAAAATTAAATTTAAAT
GAAAAAA
Found at i:105323929 original size:134 final size:138
Alignment explanation
Indices: 105323769--105324029 Score: 413
Period size: 134 Copynumber: 1.9 Consensus size: 138
105323759 GAAAAAAATT
* * *
105323769 AAATTTAAATGAAATGAGAAAAAAATTAAATTAAAATGGAAAGAAAGATAGTTTAAATGAAATGA
1 AAATATAAATGAAATGAGAAAAAAATTAAATGAAAATGGAAAGAAAGATAATTTAAATGAAATGA
* *
105323834 G-GAAGAAATTAAATTTAAA-TAAAAAAAGATAATTTAAATGAAAT-A-AAAAAATTAAATTTAC
66 GAAAAAAAATTAAATTTAAAGTAAAAAAAGATAATTTAAATGAAATGAGAAAAAATTAAATTTAC
105323895 ATGGAAAA
131 ATGGAAAA
* *
105323903 AAATATAAATGAAATGAGAAAAAAATTAAATGAAAATGGGAAGATAGATAATTTAAATGAAATGA
1 AAATATAAATGAAATGAGAAAAAAATTAAATGAAAATGGAAAGAAAGATAATTTAAATGAAATGA
*
105323968 GAAAAAAAATTAATTTTAAATGTAAAAAAAGATAATTTAAATGAAATGAGAAAAAATTAAAT
66 GAAAAAAAATTAAATTTAAA-GTAAAAAAAGATAATTTAAATGAAATGAGAAAAAATTAAAT
105324030 ATAAATGAAA
Statistics
Matches: 114, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
134 61 0.54
135 15 0.13
137 25 0.22
138 1 0.01
139 12 0.11
ACGTcount: A:0.61, C:0.00, G:0.13, T:0.25
Consensus pattern (138 bp):
AAATATAAATGAAATGAGAAAAAAATTAAATGAAAATGGAAAGAAAGATAATTTAAATGAAATGA
GAAAAAAAATTAAATTTAAAGTAAAAAAAGATAATTTAAATGAAATGAGAAAAAATTAAATTTAC
ATGGAAAA
Found at i:105324001 original size:49 final size:48
Alignment explanation
Indices: 105323770--105324036 Score: 322
Period size: 48 Copynumber: 5.8 Consensus size: 48
105323760 AAAAAAATTA
* *
105323770 AATTTAAATGAAATGAGAAAAAAATTAAATTAAAATGGAAAGAAAGAT
1 AATTTAAATGAAATGAGAAAAAAATTAAATTTAAATGGAAAAAAAGAT
* * *
105323818 AGTTTAAATGAAATGAGGAAGAAATTAAATTTAAAT--AAAAAAAGAT
1 AATTTAAATGAAATGAGAAAAAAATTAAATTTAAATGGAAAAAAAGAT
*
105323864 AATTTAAATGAAAT---AAAAAAATTAAATTTACATGG-AAAAAA-AT
1 AATTTAAATGAAATGAGAAAAAAATTAAATTTAAATGGAAAAAAAGAT
** * * *
105323907 -A--TAAATGAAATGAGAAAAAAATTAAATGAAAATGGGAAGATAGAT
1 AATTTAAATGAAATGAGAAAAAAATTAAATTTAAATGGAAAAAAAGAT
* *
105323952 AATTTAAATGAAATGAGAAAAAAAATTAATTTTAAATGTAAAAAAAGAT
1 AATTTAAATGAAATGAG-AAAAAAATTAAATTTAAATGGAAAAAAAGAT
*
105324001 AATTTAAATGAAATGAG-AAAAAATTAAATATAAATG
1 AATTTAAATGAAATGAGAAAAAAATTAAATTTAAATG
105324037 AAATGAGAAA
Statistics
Matches: 185, Mismatches: 23, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
40 10 0.05
42 1 0.01
43 36 0.19
44 10 0.05
45 2 0.01
46 23 0.12
47 17 0.09
48 45 0.24
49 41 0.22
ACGTcount: A:0.61, C:0.00, G:0.13, T:0.25
Consensus pattern (48 bp):
AATTTAAATGAAATGAGAAAAAAATTAAATTTAAATGGAAAAAAAGAT
Found at i:105324064 original size:49 final size:47
Alignment explanation
Indices: 105323773--105324088 Score: 212
Period size: 49 Copynumber: 6.8 Consensus size: 47
105323763 AAAATTAAAT
* * **
105323773 TTAAATGAAATGAGAAAAAAATTAAAT-TAAAATGGAAAGAAAGATAGT
1 TTAAATGAAATGAGAAAAAAATTAAATAT-AAAT-GAAAGAAAAAAAAA
* * * * *
105323821 TTAAATGAAATGAGGAAGAAATTAAATTTAAAT-AAA-AAAAGATAAT
1 TTAAATGAAATGAGAAAAAAATTAAATATAAATGAAAGAAAA-AAAAA
* * *
105323867 TTAAATGAAAT---AAAAAAATTAAATTTACATG---GAAAAAAATA
1 TTAAATGAAATGAGAAAAAAATTAAATATAAATGAAAGAAAAAAAAA
* * * * *
105323908 -TAAATGAAATGAGAAAAAAATTAAATGA-AAATGGGAAGATAGATAAT
1 TTAAATGAAATGAGAAAAAAATTAAAT-ATAAAT-GAAAGAAAAAAAAA
* * * *
105323955 TTAAATGAAATGAGAAAAAAAATTAATTTTAAATGTAAA-AAAAGATAAT
1 TTAAATGAAATGAG-AAAAAAATTAAATATAAATG-AAAGAAAA-AAAAA
105324004 TTAAATGAAATGAG-AAAAAATTAAATATAAATGAAATGAGAAAAAAAA
1 TTAAATGAAATGAGAAAAAAATTAAATATAAATGAAA-GA-AAAAAAAA
* *
105324052 TTAAATGTAAATG-GAAAATAA-TATAATTTAAATGAAA
1 TTAAATG-AAATGAGAAAAAAATTA-AATATAAATGAAA
105324089 TGTAAATGGA
Statistics
Matches: 217, Mismatches: 28, Indels: 45
0.75 0.10 0.16
Matches are distributed among these distances:
40 10 0.05
41 2 0.01
42 4 0.02
43 32 0.15
44 1 0.00
45 3 0.01
46 21 0.10
47 22 0.10
48 59 0.27
49 63 0.29
ACGTcount: A:0.61, C:0.00, G:0.13, T:0.25
Consensus pattern (47 bp):
TTAAATGAAATGAGAAAAAAATTAAATATAAATGAAAGAAAAAAAAA
Found at i:105324089 original size:5 final size:5
Alignment explanation
Indices: 105324081--105324170 Score: 56
Period size: 6 Copynumber: 16.6 Consensus size: 5
105324071 AATATAATTT
* *
105324081 AAATG AAATG TAAATGG AAATG AAATTT AAATTC AAATG AAA-G AAATAG
1 AAATG AAATG -AAAT-G AAATG AAA-TG AAA-TG AAATG AAATG AAAT-G
* * *
105324130 AAATTC AAATT AAATGG AATTG AAATAG AAATG AAATG AAA
1 AAA-TG AAATG AAAT-G AAATG AAAT-G AAATG AAATG AAA
105324171 AAATAAGGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
4 4 0.06
5 31 0.45
6 32 0.46
7 2 0.03
ACGTcount: A:0.58, C:0.02, G:0.16, T:0.24
Consensus pattern (5 bp):
AAATG
Found at i:105324103 original size:17 final size:17
Alignment explanation
Indices: 105324081--105324170 Score: 73
Period size: 17 Copynumber: 5.5 Consensus size: 17
105324071 AATATAATTT
105324081 AAATGAAATGTAAATGG
1 AAATGAAATGTAAATGG
* **
105324098 AAATGAAATTTAAATTC
1 AAATGAAATGTAAATGG
*
105324115 AAATGAAA-G-AAATAG
1 AAATGAAATGTAAATGG
*
105324130 AAATTCAAAT-TAAATGG
1 AAA-TGAAATGTAAATGG
*
105324147 AATTGAAATAG-AAAT-G
1 AAATGAAAT-GTAAATGG
105324163 AAATGAAA
1 AAATGAAA
105324171 AAATAAGGTG
Statistics
Matches: 57, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
15 7 0.12
16 17 0.30
17 33 0.58
ACGTcount: A:0.58, C:0.02, G:0.16, T:0.24
Consensus pattern (17 bp):
AAATGAAATGTAAATGG
Found at i:105324171 original size:124 final size:119
Alignment explanation
Indices: 105323903--105324173 Score: 275
Period size: 124 Copynumber: 2.2 Consensus size: 119
105323893 ACATGGAAAA
*
105323903 AAATATAAATGAAATGAGAAAAAAATTAAATGAAAATGGGAAGATAGATAATTTAAATGAAATGA
1 AAATATAAATGAAATGA-AAAAAAATTAAATGAAAATGGGAAAATAGATAATTTAAATGAAATGA
* * *
105323968 GAAAAAAAATTAATTTTAAATGTAAAAAAAGATAATTTAAATGAAATGAGAAAAAATT
65 GAAAAAAAATTAAATTCAAATGTAAAAAAAGATAATTCAAATGAAATGAG---AAATT
* *
105324026 AAATATAAATGAAATGAGAAAAAAAATTAAATGTAAAT-GGAAAATAATATAATTTAAATGAAAT
1 AAATATAAATGAAAT--GAAAAAAAATTAAATGAAAATGGGAAAAT-AGATAATTTAAATGAAAT
*
105324090 GTA-AATGGAAATGAAATTTAAATTCAAATG-AAAGAAATAGA-AATTCAAATTAAATG-G-AAT
63 G-AGAA---AAA--AAA-TTAAATTCAAATGTAAA-AAA-AGATAATTCAAATGAAATGAGAAAT
105324150 T
119 T
*
105324151 GAAATAGAAATGAAATGAAAAAA
1 -AAATATAAATGAAATGAAAAAA
105324174 TAAGGTGAAA
Statistics
Matches: 127, Mismatches: 8, Indels: 25
0.79 0.05 0.16
Matches are distributed among these distances:
123 21 0.17
124 45 0.35
125 7 0.06
126 14 0.11
127 3 0.02
129 7 0.06
130 27 0.21
131 3 0.02
ACGTcount: A:0.61, C:0.01, G:0.14, T:0.25
Consensus pattern (119 bp):
AAATATAAATGAAATGAAAAAAAATTAAATGAAAATGGGAAAATAGATAATTTAAATGAAATGAG
AAAAAAAATTAAATTCAAATGTAAAAAAAGATAATTCAAATGAAATGAGAAATT
Found at i:105324572 original size:21 final size:22
Alignment explanation
Indices: 105324536--105324577 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
105324526 CTAATTAATA
105324536 TGAAAAAAAATATGAAATGAAT
1 TGAAAAAAAATATGAAATGAAT
*
105324558 TGAAAAAAAAT-TGAATTGAA
1 TGAAAAAAAATATGAAATGAA
105324578 AAAAGATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (22 bp):
TGAAAAAAAATATGAAATGAAT
Found at i:105324589 original size:15 final size:16
Alignment explanation
Indices: 105324555--105324593 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
105324545 ATATGAAATG
*
105324555 AATTGAAAAAAAATTG
1 AATTGAAAAAAAATTA
*
105324571 AATTGAAAAAAGA-TA
1 AATTGAAAAAAAATTA
105324586 AATTGAAA
1 AATTGAAA
105324594 TGAGACTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.23
Consensus pattern (16 bp):
AATTGAAAAAAAATTA
Found at i:105324676 original size:5 final size:5
Alignment explanation
Indices: 105324666--105324738 Score: 56
Period size: 5 Copynumber: 13.0 Consensus size: 5
105324656 TGACAAAAAT
*
105324666 AATGA AATGA AATGTTA AATGA AATGTGA ATATGA AATTA AATGA AATGTTA
1 AATGA AATGA AATG--A AATGA AA--TGA A-ATGA AATGA AATGA AATG--A
*
105324718 AATGA ATATAA AATGA AATGA
1 AATGA A-ATGA AATGA AATGA
105324739 TGATTATCAA
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
5 33 0.59
6 8 0.14
7 14 0.25
8 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.29
Consensus pattern (5 bp):
AATGA
Found at i:105324685 original size:12 final size:12
Alignment explanation
Indices: 105324670--105324737 Score: 79
Period size: 12 Copynumber: 5.8 Consensus size: 12
105324660 AAAAATAATG
105324670 AAATGAAATGTT
1 AAATGAAATGTT
*
105324682 AAATGAAATGTG
1 AAATGAAATGTT
105324694 AATATGAAA--TT
1 AA-ATGAAATGTT
105324705 AAATGAAATGTT
1 AAATGAAATGTT
* *
105324717 AAATG-AATATA
1 AAATGAAATGTT
105324728 AAATGAAATG
1 AAATGAAATG
105324738 ATGATTATCA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
10 6 0.13
11 12 0.26
12 23 0.49
13 6 0.13
ACGTcount: A:0.54, C:0.00, G:0.16, T:0.29
Consensus pattern (12 bp):
AAATGAAATGTT
Found at i:105324710 original size:23 final size:23
Alignment explanation
Indices: 105324668--105324737 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
105324658 ACAAAAATAA
*
105324668 TGAAATGAAATGTTAAATGAAATG
1 TGAAATG-AATATTAAATGAAATG
105324692 TGAATATGAA-ATTAAATGAAATG
1 TGAA-ATGAATATTAAATGAAATG
* *
105324715 TTAAATGAATATAAAATGAAATG
1 TGAAATGAATATTAAATGAAATG
105324738 ATGATTATCA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
22 5 0.12
23 27 0.66
24 6 0.15
25 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (23 bp):
TGAAATGAATATTAAATGAAATG
Found at i:105324757 original size:47 final size:46
Alignment explanation
Indices: 105324682--105324776 Score: 120
Period size: 47 Copynumber: 2.0 Consensus size: 46
105324672 ATGAAATGTT
* * *
105324682 AAATGAAATGTGAATATGAAATTAAATGAAA-TGTTAAATGAATATA
1 AAATGAAATGTGAATATCAAATGAAATGAAAGT-TTAAATGAAAATA
* *
105324728 AAATGAAATGATGATTATCAAATGGAATGAAAGTTTAAATGAAAATA
1 AAATGAAATG-TGAATATCAAATGAAATGAAAGTTTAAATGAAAATA
105324775 AA
1 AA
105324777 TTATAAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
46 10 0.24
47 31 0.74
48 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.16, T:0.28
Consensus pattern (46 bp):
AAATGAAATGTGAATATCAAATGAAATGAAAGTTTAAATGAAAATA
Found at i:105324849 original size:21 final size:19
Alignment explanation
Indices: 105324774--105324888 Score: 78
Period size: 18 Copynumber: 6.1 Consensus size: 19
105324764 AAATGAAAAT
* *
105324774 AAATTATAAATTTGAATGA
1 AAATAATAAATTTAAATGA
* * * *
105324793 AAACAA-ATACTGAAATGA
1 AAATAATAAATTTAAATGA
105324811 AAATAA-AAACTTTGAAATGA
1 AAATAATAAA-TTT-AAATGA
105324831 GAAATAATTAAATTTAAATGA
1 -AAATAA-TAAATTTAAATGA
*
105324852 AAAAAAT-AATTTAAATG-
1 AAATAATAAATTTAAATGA
* *
105324869 AAAT-GTAAATGTAAATGA
1 AAATAATAAATTTAAATGA
105324887 AA
1 AA
105324889 TGAAATGAAA
Statistics
Matches: 75, Mismatches: 14, Indels: 15
0.72 0.13 0.14
Matches are distributed among these distances:
16 1 0.01
17 12 0.16
18 27 0.36
19 6 0.08
20 11 0.15
21 12 0.16
22 3 0.04
23 3 0.04
ACGTcount: A:0.59, C:0.03, G:0.10, T:0.28
Consensus pattern (19 bp):
AAATAATAAATTTAAATGA
Found at i:105324864 original size:18 final size:19
Alignment explanation
Indices: 105324761--105324871 Score: 84
Period size: 18 Copynumber: 5.6 Consensus size: 19
105324751 GGAATGAAAG
105324761 TTTAAATGAAAATAAATTATAAA
1 TTTAAATGAAAAT-AA--AT-AA
* *
105324784 TTTGAATGAAAACAAAT-A
1 TTTAAATGAAAATAAATAA
* *
105324802 CTGAAATGAAAATAAA-AA
1 TTTAAATGAAAATAAATAA
*
105324820 CTTTGAAATGAGAAATAATTAAA
1 -TTT-AAATGA-AAATAAAT-AA
105324843 TTTAAATGAAAA-AAATAA
1 TTTAAATGAAAATAAATAA
105324861 TTTAAATGAAA
1 TTTAAATGAAA
105324872 TGTAAATGTA
Statistics
Matches: 72, Mismatches: 10, Indels: 17
0.73 0.10 0.17
Matches are distributed among these distances:
18 27 0.38
19 4 0.06
20 11 0.15
21 12 0.17
22 5 0.07
23 13 0.18
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (19 bp):
TTTAAATGAAAATAAATAA
Found at i:105324872 original size:23 final size:22
Alignment explanation
Indices: 105324832--105324899 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 22
105324822 TTGAAATGAG
*
105324832 AAATAATTAAATTTAAATGAAAA
1 AAATAATTAAA-TGAAATGAAAA
*
105324855 AAATAATTTAAATGAAATG-TAA
1 AAATAA-TTAAATGAAATGAAAA
** *
105324877 ATGTAAATGAAATGAAATGAAAA
1 AAAT-AATTAAATGAAATGAAAA
105324900 TATAAATGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
22 15 0.42
23 16 0.44
24 5 0.14
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (22 bp):
AAATAATTAAATGAAATGAAAA
Found at i:105324889 original size:5 final size:5
Alignment explanation
Indices: 105324864--105324961 Score: 61
Period size: 5 Copynumber: 17.6 Consensus size: 5
105324854 AAAATAATTT
* *
105324864 AAATG AAATG TAAATG TAAATG AAATG AAATG AAAATAT AAATG AAATA
1 AAATG AAATG -AAATG -AAATG AAATG AAATG -AAAT-G AAATG AAATG
* * *
105324913 AACAGG AAGAATG AAATG CAAATG CAAATG AAATAT AAATT AAATG AAA
1 AA-ATG -A-AATG AAATG -AAATG -AAATG AAAT-G AAATG AAATG AAA
105324962 AAAAAAAGGT
Statistics
Matches: 77, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
5 37 0.48
6 36 0.47
7 3 0.04
8 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.15, T:0.21
Consensus pattern (5 bp):
AAATG
Found at i:105324891 original size:22 final size:22
Alignment explanation
Indices: 105324846--105324961 Score: 92
Period size: 22 Copynumber: 5.1 Consensus size: 22
105324836 AATTAAATTT
* * *
105324846 AAATGAAAAAAATAATTTAAATG
1 AAATG-AAAATATAAATGAAATG
* *
105324869 AAATGTAAATGTAAATGAAATG
1 AAATGAAAATATAAATGAAATG
*
105324891 AAATGAAAATATAAATGAAATA
1 AAATGAAAATATAAATGAAATG
* *
105324913 AACAGGAAGAAT-GAAATGCAAATG
1 AA-ATGAA-AATATAAATG-AAATG
*
105324937 CAAATG-AAATATAAATTAAATG
1 -AAATGAAAATATAAATGAAATG
105324959 AAA
1 AAA
105324962 AAAAAAAGGT
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
21 3 0.04
22 41 0.55
23 19 0.26
24 9 0.12
25 2 0.03
ACGTcount: A:0.61, C:0.03, G:0.14, T:0.22
Consensus pattern (22 bp):
AAATGAAAATATAAATGAAATG
Found at i:105327760 original size:90 final size:90
Alignment explanation
Indices: 105327626--105327849 Score: 315
Period size: 90 Copynumber: 2.5 Consensus size: 90
105327616 TATGGATTAA
* * *
105327626 ATTAAATTTACAGATACAAAAAAAATACAAATATTCTAAAAAATTAATACAAGAAAATATAAAAA
1 ATTAAATTTACAGATA-TAAAAAAATACAAAAATTCTAAGAAATTAATACAAGAAAATATAAAAA
*
105327691 TGAAAATTTAAATCCTAAACAACTAT
65 TGAAAACTTAAATCCTAAACAACTAT
* *
105327717 ATTAAATTTACAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAAT
1 ATTAAATTTACAGATATAAAAAAATACAAAAATTCTAAGAAATTAATACAAGAAAATATAAAAAT
*** * *
105327782 GATCCCTTACATCCTAAACAATTAT
66 GAAAACTTAAATCCTAAACAACTAT
*
105327807 ATTAAATTTATAGATATAAAAAAATA-AAAAATTCTAAAGAAAT
1 ATTAAATTTACAGATATAAAAAAATACAAAAATTCT-AAGAAAT
105327850 ATTACAATTA
Statistics
Matches: 120, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
89 8 0.07
90 96 0.80
91 16 0.13
ACGTcount: A:0.58, C:0.10, G:0.04, T:0.28
Consensus pattern (90 bp):
ATTAAATTTACAGATATAAAAAAATACAAAAATTCTAAGAAATTAATACAAGAAAATATAAAAAT
GAAAACTTAAATCCTAAACAACTAT
Found at i:105330225 original size:17 final size:18
Alignment explanation
Indices: 105330191--105330225 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
105330181 ACACCTACAG
105330191 AAACTAACTCATAAAACA
1 AAACTAACTCATAAAACA
*
105330209 AAACTATCTCA-AAAACA
1 AAACTAACTCATAAAACA
105330226 CAATGAAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (18 bp):
AAACTAACTCATAAAACA
Found at i:105334196 original size:20 final size:22
Alignment explanation
Indices: 105334173--105334217 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
105334163 GTGGGATTCA
* *
105334173 ACATGCCAATGTGG-AGG-GGC
1 ACATCCCAATATGGAAGGAGGC
105334193 ACATCCCAATATGGAAGGAGGC
1 ACATCCCAATATGGAAGGAGGC
105334215 ACA
1 ACA
105334218 CGGCTGTGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.57
21 3 0.14
22 6 0.29
ACGTcount: A:0.33, C:0.22, G:0.31, T:0.13
Consensus pattern (22 bp):
ACATCCCAATATGGAAGGAGGC
Found at i:105337650 original size:20 final size:20
Alignment explanation
Indices: 105337627--105337665 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
105337617 TAAACATGGT
105337627 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
105337647 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
105337666 TGTATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:105337743 original size:24 final size:23
Alignment explanation
Indices: 105337716--105337858 Score: 144
Period size: 24 Copynumber: 6.0 Consensus size: 23
105337706 GAGGAAGTGA
105337716 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
105337739 CAAAACGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
105337763 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* * *
105337786 TAAAGCGCTTATGCCCCGGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* * *
105337809 AAAAAGGTCTTTTACCCCAGTTACT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
105337834 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
105337858 A
1 A
105337859 TGATAAAGCA
Statistics
Matches: 98, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
23 41 0.42
24 47 0.48
25 10 0.10
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:105337778 original size:23 final size:23
Alignment explanation
Indices: 105337717--105337836 Score: 132
Period size: 23 Copynumber: 5.1 Consensus size: 23
105337707 AGGAAGTGAA
*
105337717 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
* *
105337741 AAACGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
105337764 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* * *
105337787 AAAGCGCTTATGCCCCGGTTATAA
1 AAAGGGCTTATGCCCCAGTTAT-T
* * * *
105337811 AAAGGTCTTTTACCCCAGTTACT
1 AAAGGGCTTATGCCCCAGTTATT
105337834 AAA
1 AAA
105337837 AGAGGCTAGG
Statistics
Matches: 80, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
23 44 0.55
24 36 0.45
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:105337815 original size:47 final size:48
Alignment explanation
Indices: 105337715--105337837 Score: 151
Period size: 47 Copynumber: 2.6 Consensus size: 48
105337705 GGAGGAAGTG
*
105337715 AAAAAGGGCTTATGCCCCAGTTATCAAAACGGCTTACGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAACGGCTTACGCCCCAGTTAT
* * * *
105337763 -TAAAGGGCTTATGCCCCAGTTATTAAAGC-GCTTATGCCCCGGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAACGGCTTACGCCCCAGTTAT
* * * *
105337809 AAAAAGGTCTTTTACCCCAGTTACTAAAA
1 AAAAAGGGCTTATGCCCCAGTTATTAAAA
105337838 GAGGCTAGGC
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
46 15 0.24
47 48 0.76
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (48 bp):
AAAAAGGGCTTATGCCCCAGTTATTAAAACGGCTTACGCCCCAGTTAT
Found at i:105338086 original size:31 final size:31
Alignment explanation
Indices: 105338051--105338114 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
105338041 CGTTTACAGT
* *
105338051 AAAGGCTTCGGCCTAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
105338082 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
105338113 AA
1 AA
105338115 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:105342816 original size:27 final size:26
Alignment explanation
Indices: 105342781--105342854 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
105342771 ATATTTTCTC
105342781 AAAATTTTACCAGGGGTAAAATCGTCA
1 AAAATTTTACCAGGGGTAAAATCGT-A
* * *
105342808 AAAATTTTATCAGAGGTGAAATCGTA
1 AAAATTTTACCAGGGGTAAAATCGTA
*
105342834 AAAGA-TTTACTA-GGGTAAAAT
1 AAA-ATTTTACCAGGGGTAAAAT
105342855 AGGGGTGAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
25 7 0.18
26 9 0.23
27 23 0.59
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.28
Consensus pattern (26 bp):
AAAATTTTACCAGGGGTAAAATCGTA
Found at i:105343865 original size:6 final size:6
Alignment explanation
Indices: 105343854--105343888 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
105343844 GAGTCCATAA
105343854 TGGTTT TGGTTT TGGTTT TGGTTT TGGTTT TGGTT
1 TGGTTT TGGTTT TGGTTT TGGTTT TGGTTT TGGTT
105343889 CAGAATAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.34, T:0.66
Consensus pattern (6 bp):
TGGTTT
Found at i:105344035 original size:18 final size:18
Alignment explanation
Indices: 105344012--105344055 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
105344002 ATGATATTGC
* * *
105344012 ATCACATGGCCTCAGTCT
1 ATCACACGGCCACAATCT
105344030 ATCACACGGCCACAATCT
1 ATCACACGGCCACAATCT
105344048 AGTCACAC
1 A-TCACAC
105344056 AACCTGTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.30, C:0.36, G:0.14, T:0.20
Consensus pattern (18 bp):
ATCACACGGCCACAATCT
Found at i:105348278 original size:16 final size:18
Alignment explanation
Indices: 105348243--105348281 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
105348233 ATAAAAATTG
*
105348243 AAATAAACACACAAATAA
1 AAATAAACACACAAAAAA
105348261 AAATAAA-A-ACAAAAAA
1 AAATAAACACACAAAAAA
105348277 AAATA
1 AAATA
105348282 CACATAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
17 1 0.05
18 7 0.35
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.10
Consensus pattern (18 bp):
AAATAAACACACAAAAAA
Found at i:105349198 original size:24 final size:25
Alignment explanation
Indices: 105349144--105349200 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
105349134 ACTGCTCTAT
105349144 TGGGCATATAATCACCTTCTTTTTA
1 TGGGCATATAATCACCTTCTTTTTA
105349169 TGGGCATATAATCACCTTCTTTTTA
1 TGGGCATATAATCACCTTCTTTTTA
105349194 T-GGCATA
1 TGGGCATA
105349201 ATTTCGTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 6 0.19
25 26 0.81
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (25 bp):
TGGGCATATAATCACCTTCTTTTTA
Found at i:105350384 original size:41 final size:40
Alignment explanation
Indices: 105350316--105350515 Score: 249
Period size: 41 Copynumber: 5.0 Consensus size: 40
105350306 TATGAAACAT
105350316 AGAGCAATAGCGGCGTTTTTGGT-AAACGCCGCTAAAAAC
1 AGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAAC
* * * *
105350355 AGAGTAATAGCGGTGTTTTTTGTTAAAACGCCGTTAAAAAC
1 AGAGCAATAGCGGCG-TTTTTGGTAAAACGCCGCTAAAAAC
*
105350396 AGAGCAATAGCGGCGTTTTTGGTAAACCGCCGCTAAAAACC
1 AGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAA-C
* * *
105350437 AGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAAC
1 AGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAAC
* * * * *
105350477 TGAAGCAATAGCAGCGCTTTCGGTAAAACGCTGCTAAAA
1 AG-AGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAA
105350516 TTCATATAAC
Statistics
Matches: 140, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 13 0.09
40 30 0.21
41 97 0.69
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (40 bp):
AGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAAC
Found at i:105350603 original size:23 final size:22
Alignment explanation
Indices: 105350556--105350603 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
105350546 AAAAAATCAT
* *
105350556 AAACACTAATCTATAATCCTTA
1 AAACACTAAACTATAAACCTTA
*
105350578 AAACACTAAACTGCTAAACCTTA
1 AAACACTAAACT-ATAAACCTTA
105350601 AAA
1 AAA
105350604 ATCTTAAACC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.50, C:0.23, G:0.02, T:0.25
Consensus pattern (22 bp):
AAACACTAAACTATAAACCTTA
Found at i:105350840 original size:15 final size:15
Alignment explanation
Indices: 105350817--105350870 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
105350807 TATTTTAAGT
*
105350817 TTTATGGATTATGGG
1 TTTAGGGATTATGGG
105350832 TTTAGGGATTAT-GG
1 TTTAGGGATTATGGG
*
105350846 TTTAAGGG-TTAGGGG
1 TTT-AGGGATTATGGG
*
105350861 TCTA-GGATTA
1 TTTAGGGATTA
105350871 AGAGTTTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 2 0.06
14 12 0.36
15 19 0.58
ACGTcount: A:0.22, C:0.02, G:0.35, T:0.41
Consensus pattern (15 bp):
TTTAGGGATTATGGG
Done.