Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 32 of 333
Found at i:9019279 original size:22 final size:21
Alignment explanation
Indices: 9019226--9019281 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
9019216 AATAGGGTTA
* * *
9019226 TAAAAAAAGTATGAAAATTTT
1 TAAAAAAATTATTACAATTTT
9019247 TAAAAAAATTATTACAATTTT
1 TAAAAAAATTATTACAATTTT
*
9019268 TATAAAATATTATT
1 TA-AAAAAATTATT
9019282 TGTGTTTGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 20 0.67
22 10 0.33
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (21 bp):
TAAAAAAATTATTACAATTTT
Found at i:9024914 original size:5 final size:5
Alignment explanation
Indices: 9024904--9024931 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
9024894 CCATTTGAGA
9024904 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
9024932 GAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:9025322 original size:16 final size:17
Alignment explanation
Indices: 9025301--9025333 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9025291 CATATTTAAG
9025301 CACATA-AATTGAAAAC
1 CACATATAATTGAAAAC
*
9025317 CACATATATTTGAAAAC
1 CACATATAATTGAAAAC
9025334 TTTTTCAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.52, C:0.18, G:0.06, T:0.24
Consensus pattern (17 bp):
CACATATAATTGAAAAC
Found at i:9026463 original size:14 final size:13
Alignment explanation
Indices: 9026444--9026474 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
9026434 AAATTGTGTG
9026444 TTTTTTATTTTAAT
1 TTTTTTATTTT-AT
9026458 TTTTTTATTTTAT
1 TTTTTTATTTTAT
9026471 TTTT
1 TTTT
9026475 CACAAATTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTATTTTAT
Found at i:9028711 original size:58 final size:58
Alignment explanation
Indices: 9028621--9028737 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
9028611 TGTCCTAAAA
9028621 TAGAAAAGTTGTGATTAGCAGAGATGTTGTTTTTGATGAAACTGCTATGCTACCTAAC
1 TAGAAAAGTTGTGATTAGCAGAGATGTTGTTTTTGATGAAACTGCTATGCTACCTAAC
9028679 TAGAAAAGTTGTGATTAGCAGAGATGTTGTTTTTGATGAAACTGCTATGCTACCTAAC
1 TAGAAAAGTTGTGATTAGCAGAGATGTTGTTTTTGATGAAACTGCTATGCTACCTAAC
9028737 T
1 T
9028738 TATCTCTTAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (58 bp):
TAGAAAAGTTGTGATTAGCAGAGATGTTGTTTTTGATGAAACTGCTATGCTACCTAAC
Found at i:9031936 original size:17 final size:19
Alignment explanation
Indices: 9031914--9031951 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
9031904 ATATGTTTAA
9031914 AATTCTA-TTTA-AATAAT
1 AATTCTATTTTACAATAAT
9031931 AATTCTATTTTACAATAAT
1 AATTCTATTTTACAATAAT
9031950 AA
1 AA
9031952 AATTAGCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 4 0.21
19 8 0.42
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTCTATTTTACAATAAT
Found at i:9040202 original size:86 final size:86
Alignment explanation
Indices: 9040107--9040280 Score: 312
Period size: 86 Copynumber: 2.0 Consensus size: 86
9040097 ATTAAAATTG
*
9040107 AATTATTAATTATGCCATAAAATATTCATGTTAAAATTTTATATTAGTATCAATTTCACATTTTA
1 AATTATTAATTATGCCATAAAATATTCATGTTAAAATTTTATATTAGTATAAATTTCACATTTTA
*
9040172 TCTTTAAAATAACTTTTATTA
66 TCTTTAAAATAAATTTTATTA
* *
9040193 AATTATTAATTATGCCATAAAATATTCGTGTTAAAATTTTATATTGGTATAAATTTCACATTTTA
1 AATTATTAATTATGCCATAAAATATTCATGTTAAAATTTTATATTAGTATAAATTTCACATTTTA
9040258 TCTTTAAAATAAATTTTATTA
66 TCTTTAAAATAAATTTTATTA
9040279 AA
1 AA
9040281 AAATCACATT
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (86 bp):
AATTATTAATTATGCCATAAAATATTCATGTTAAAATTTTATATTAGTATAAATTTCACATTTTA
TCTTTAAAATAAATTTTATTA
Found at i:9044136 original size:18 final size:18
Alignment explanation
Indices: 9044113--9044152 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
9044103 ATGGTAGGCG
9044113 TAAAGTGTAGCCTTTCTT
1 TAAAGTGTAGCCTTTCTT
9044131 TAAAGTGTAGCCTTTCTT
1 TAAAGTGTAGCCTTTCTT
9044149 TAAA
1 TAAA
9044153 ACATTGTGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (18 bp):
TAAAGTGTAGCCTTTCTT
Found at i:9060197 original size:6 final size:6
Alignment explanation
Indices: 9060188--9060245 Score: 66
Period size: 6 Copynumber: 10.0 Consensus size: 6
9060178 AATAAAATTG
* * * *
9060188 AAATGA AAATAA AAATCA AAAGAA AAATAA AAAT-A AAA-GA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
9060234 AAATAA AAATAA
1 AAATAA AAATAA
9060246 GACTAAATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
5 8 0.18
6 36 0.82
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (6 bp):
AAATAA
Found at i:9060242 original size:17 final size:16
Alignment explanation
Indices: 9060178--9060241 Score: 83
Period size: 17 Copynumber: 3.8 Consensus size: 16
9060168 AAAATGAAAT
* *
9060178 AATAAAATTGAAATGAA
1 AATAAAAAT-AAAAGAA
9060195 AATAAAAATCAAAAGAAA
1 AATAAAAAT-AAAAG-AA
9060213 AATAAAAATAAAAGAA
1 AATAAAAATAAAAGAA
9060229 AATAAAAATAAAA
1 AATAAAAATAAAA
9060242 ATAAGACTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
16 15 0.35
17 17 0.40
18 11 0.26
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.16
Consensus pattern (16 bp):
AATAAAAATAAAAGAA
Found at i:9060253 original size:22 final size:22
Alignment explanation
Indices: 9060188--9060258 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
9060178 AATAAAATTG
* *
9060188 AAATGAAAATAAAAATCAAAAGAA
1 AAATAAAAAT-AAAA-CAAAATAA
*
9060212 AAATAAAAATAAAAGAAAATAA
1 AAATAAAAATAAAACAAAATAA
* *
9060234 AAATAAAAATAAGACTAAATAA
1 AAATAAAAATAAAACAAAATAA
9060256 AAA
1 AAA
9060259 ATAGAAGGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 28 0.68
23 4 0.10
24 9 0.22
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.14
Consensus pattern (22 bp):
AAATAAAAATAAAACAAAATAA
Found at i:9071135 original size:26 final size:26
Alignment explanation
Indices: 9071099--9071180 Score: 97
Period size: 26 Copynumber: 3.4 Consensus size: 26
9071089 TGCATCGTTC
*
9071099 CGAAGATTTTGCGCCCAATTCTTTTA
1 CGAAGATTTTGCGCCTAATTCTTTTA
*
9071125 CGAATATTTTGCGCCTAATTC---T-
1 CGAAGATTTTGCGCCTAATTCTTTTA
9071147 --AAGATTTTGCGCCTAATTCTTTTA
1 CGAAGATTTTGCGCCTAATTCTTTTA
9071171 CGAA-ATTTTG
1 CGAAGATTTTG
9071181 TCAATTCTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
20 18 0.38
23 2 0.04
25 6 0.13
26 21 0.45
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (26 bp):
CGAAGATTTTGCGCCTAATTCTTTTA
Found at i:9071808 original size:29 final size:29
Alignment explanation
Indices: 9071741--9071833 Score: 96
Period size: 29 Copynumber: 3.2 Consensus size: 29
9071731 GCTGTAAAAA
* * *
9071741 AAAATCCATCTCGTCAAAATAATTTTTTC
1 AAAACCCATCTCGTCAAATTTATTTTTTC
* *
9071770 AAAACGCATCACGTCAAATTTATTTTTTC
1 AAAACCCATCTCGTCAAATTTATTTTTTC
* * * *
9071799 ATATCCCATCTTGTCAAATTTATTTCTTCC
1 AAAACCCATCTCGTCAAATTTATTT-TTTC
9071829 AAAAC
1 AAAAC
9071834 AATATTTACC
Statistics
Matches: 50, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 44 0.88
30 6 0.12
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.39
Consensus pattern (29 bp):
AAAACCCATCTCGTCAAATTTATTTTTTC
Found at i:9072472 original size:12 final size:12
Alignment explanation
Indices: 9072433--9072471 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
9072423 TTCTTTAAAT
9072433 AAAATGAAATTC
1 AAAATGAAATTC
9072445 AAAATGAAATTC
1 AAAATGAAATTC
9072457 AAAATGAAATT-
1 AAAATGAAATTC
9072468 AAAA
1 AAAA
9072472 AAAAAGATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 4 0.15
12 23 0.85
ACGTcount: A:0.64, C:0.05, G:0.08, T:0.23
Consensus pattern (12 bp):
AAAATGAAATTC
Found at i:9072961 original size:89 final size:92
Alignment explanation
Indices: 9072814--9072988 Score: 259
Period size: 89 Copynumber: 1.9 Consensus size: 92
9072804 GCCCTATTTT
* *
9072814 TTTTTCAAAAAAAGCAATTAAGTCCCCTCCCTTTTTTTTTGCACTCAATTGGATACTTGAATT-T
1 TTTTTCAAAAAAAGCAATTAAGTCCCCTCACTTTTTTTTTGCACTCAATTGGATACTTGAATTGG
* **
9072878 CTAAATGCATTAAAAAGACCCTCAAAC
66 CAAAATGCACAAAAAAGACCCTCAAAC
*
9072905 TTTTTCAAAAAAAAGCAATTAAGT-CCCT-AC-TTTTTTTTGCACTTAATTGGATACTTGAATTG
1 TTTTTC-AAAAAAAGCAATTAAGTCCCCTCACTTTTTTTTTGCACTCAATTGGATACTTGAATTG
9072967 GCAAAATGCACAAAAAAGACCC
65 GCAAAATGCACAAAAAAGACCC
9072989 ATTGACCATT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
89 30 0.39
90 19 0.25
91 10 0.13
92 17 0.22
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (92 bp):
TTTTTCAAAAAAAGCAATTAAGTCCCCTCACTTTTTTTTTGCACTCAATTGGATACTTGAATTGG
CAAAATGCACAAAAAAGACCCTCAAAC
Found at i:9073147 original size:10 final size:9
Alignment explanation
Indices: 9073101--9073255 Score: 61
Period size: 10 Copynumber: 16.4 Consensus size: 9
9073091 TATGTGGCAA
9073101 AAAAATTAT
1 AAAAATTAT
9073110 -AAAA--AT
1 AAAAATTAT
*
9073116 AAAAATCAAT
1 AAAAAT-TAT
9073126 AAAAATTAT
1 AAAAATTAT
9073135 AAAAATTATT
1 AAAAATTA-T
**
9073145 AAATTTTAAT
1 AAAAATT-AT
9073155 AAAGAA-TAT
1 AAA-AATTAT
*
9073164 AAAAATATTT
1 AAAAAT-TAT
* *
9073174 CAAAA-TAG
1 AAAAATTAT
9073182 AAAATATTAT
1 AAAA-ATTAT
9073192 AAAAA-TAGT
1 AAAAATTA-T
*
9073201 ATGAAATTAT
1 A-AAAATTAT
*
9073211 AAAAAAATTGT
1 --AAAAATTAT
*
9073222 AAAATTTTAT
1 AAAA-ATTAT
*
9073232 AAAAATCATAA
1 AAAAAT--TAT
9073243 AAAAATTAT
1 AAAAATTAT
9073252 AAAA
1 AAAA
9073256 TACATCAAAA
Statistics
Matches: 108, Mismatches: 19, Indels: 38
0.65 0.12 0.23
Matches are distributed among these distances:
6 2 0.02
7 4 0.04
8 12 0.11
9 30 0.28
10 42 0.39
11 17 0.16
12 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:9073187 original size:17 final size:18
Alignment explanation
Indices: 9073165--9073199 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9073155 AAAGAATATA
*
9073165 AAAATATT-TCAAAATAG
1 AAAATATTATAAAAATAG
9073182 AAAATATTATAAAAATAG
1 AAAATATTATAAAAATAG
9073200 TATGAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.29
Consensus pattern (18 bp):
AAAATATTATAAAAATAG
Found at i:9073243 original size:19 final size:18
Alignment explanation
Indices: 9073114--9073255 Score: 74
Period size: 19 Copynumber: 7.3 Consensus size: 18
9073104 AATTATAAAA
9073114 ATAAAAATCAATAAAA-ATT
1 ATAAAAAT--ATAAAATATT
* *
9073133 ATAAAAATTATTAAATTTT
1 ATAAAAA-TATAAAATATT
9073152 AATAAAGAATATAAAAATATT
1 -ATAAA-AATAT-AAAATATT
* *
9073173 -TCAAAATAGAAAATATT
1 ATAAAAATATAAAATATT
9073190 ATAAAAATAGTATGAAAT-TAT
1 ATAAAAATA-TA--AAATAT-T
* * *
9073211 AAAAAAATTGTAAAATTTT
1 ATAAAAA-TATAAAATATT
*
9073230 ATAAAAATCATAAAAAAATT
1 ATAAAAAT-AT-AAAATATT
9073250 ATAAAA
1 ATAAAA
9073256 TACATCAAAA
Statistics
Matches: 95, Mismatches: 14, Indels: 27
0.70 0.10 0.20
Matches are distributed among these distances:
17 8 0.08
18 17 0.18
19 25 0.26
20 23 0.24
21 21 0.22
22 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (18 bp):
ATAAAAATATAAAATATT
Found at i:9073266 original size:30 final size:30
Alignment explanation
Indices: 9073204--9073266 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
9073194 AAATAGTATG
* * **
9073204 AAATTATAAAAAAATTGTAAAATTTTATAA
1 AAATCATAAAAAAATTATAAAATTACATAA
9073234 AAATCATAAAAAAATTATAAAA-TACATCAA
1 AAATCATAAAAAAATTATAAAATTACAT-AA
9073264 AAA
1 AAA
9073267 GGTCATTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 3 0.11
30 25 0.89
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.29
Consensus pattern (30 bp):
AAATCATAAAAAAATTATAAAATTACATAA
Found at i:9073470 original size:10 final size:10
Alignment explanation
Indices: 9073451--9073596 Score: 53
Period size: 10 Copynumber: 14.9 Consensus size: 10
9073441 CTTTTAGTAG
9073451 ATAA-TTTTT
1 ATAATTTTTT
9073460 ATAATTTTTT
1 ATAATTTTTT
*
9073470 ACGAA--TTTT
1 A-TAATTTTTT
9073479 A-AATTTCTTT
1 ATAATTT-TTT
*
9073489 A-CATTTTTT
1 ATAATTTTTT
9073498 ATAATTTTCTT
1 ATAATTTT-TT
* *
9073509 ACAA--CTTT
1 ATAATTTTTT
**
9073517 ATAAAATTTT
1 ATAATTTTTT
*
9073527 ATAATTTTAT
1 ATAATTTTTT
9073537 A-AATTTTTT
1 ATAATTTTTT
* *
9073546 -TCTATATTTCT
1 AT-AAT-TTTTT
*
9073557 AT-ATATTTT
1 ATAATTTTTT
9073566 ATAAATTTTTTT
1 AT-AA-TTTTTT
9073578 ATAATTCTTTT
1 ATAATT-TTTT
9073589 AT-ATTTTT
1 ATAATTTTT
9073597 AATTAAAATT
Statistics
Matches: 104, Mismatches: 16, Indels: 34
0.68 0.10 0.22
Matches are distributed among these distances:
7 2 0.02
8 5 0.05
9 30 0.29
10 39 0.38
11 20 0.19
12 8 0.08
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.62
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:9073478 original size:20 final size:19
Alignment explanation
Indices: 9073453--9073545 Score: 77
Period size: 19 Copynumber: 4.9 Consensus size: 19
9073443 TTTAGTAGAT
9073453 AATTTTTATAATTTTTTAC
1 AATTTTTATAATTTTTTAC
9073472 GAA-TTTTA-AATTTCTTTAC
1 -AATTTTTATAATTT-TTTAC
*
9073491 ATTTTTTATAATTTTCTTAC
1 AATTTTTATAATTTT-TTAC
* ** *
9073511 AA-CTTTATAAAATTTTAT
1 AATTTTTATAATTTTTTAC
9073529 AA-TTTTATAAATTTTTT
1 AATTTTTAT-AATTTTTT
9073546 TCTATATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
18 16 0.27
19 31 0.53
20 12 0.20
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.59
Consensus pattern (19 bp):
AATTTTTATAATTTTTTAC
Found at i:9073592 original size:30 final size:30
Alignment explanation
Indices: 9073523--9073595 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 30
9073513 CTTTATAAAA
*
9073523 TTTTATAATTTTATAAATTTTTTTCTATATT
1 TTTTAT-ATTTTATAAATTTTTTTATATATT
*
9073554 TCTATATATTTTATAAATTTTTTTATA-ATT
1 T-TTTATATTTTATAAATTTTTTTATATATT
9073584 CTTTTATATTTT
1 -TTTTATATTTT
9073596 TAATTAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 12 0.32
31 21 0.57
32 4 0.11
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (30 bp):
TTTTATATTTTATAAATTTTTTTATATATT
Found at i:9073597 original size:31 final size:30
Alignment explanation
Indices: 9073514--9073597 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 30
9073504 TTCTTACAAC
* * *
9073514 TTTATAAAATTTTATAATTTTATAAATTTT
1 TTTATATATTTTTATATTTTTATAAATTTT
* *
9073544 TTTCTATATTTCTATATATTTTATAAATTTT
1 TTTATATATTTTTATAT-TTTTATAAATTTT
9073575 TTTATA-ATTCTTTTATATTTTTA
1 TTTATATA-T-TTTTATATTTTTA
9073598 ATTAAAATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
30 13 0.30
31 24 0.55
32 7 0.16
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (30 bp):
TTTATATATTTTTATATTTTTATAAATTTT
Found at i:9090142 original size:18 final size:18
Alignment explanation
Indices: 9090112--9090161 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
9090102 ATTACTTTTT
*
9090112 TATATAAT-T-TTAAATA
1 TATATAATATATTAAAAA
9090128 TATATAATATATTAAAAA
1 TATATAATATATTAAAAA
*
9090146 TAT-TAAAATATTAAAA
1 TATATAATATATTAAAA
9090162 TAAATATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 8 0.27
17 13 0.43
18 9 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TATATAATATATTAAAAA
Found at i:9090155 original size:8 final size:8
Alignment explanation
Indices: 9090121--9090163 Score: 50
Period size: 8 Copynumber: 5.0 Consensus size: 8
9090111 TTATATAATT
9090121 TTAAATATA
1 TTAAA-ATA
*
9090130 TATAATATA
1 T-TAAAATA
9090139 TTAAAAATA
1 TT-AAAATA
9090148 TTAAAATA
1 TTAAAATA
9090156 TTAAAATA
1 TTAAAATA
9090164 AATATTTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 15 0.50
9 12 0.40
10 3 0.10
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TTAAAATA
Found at i:9090300 original size:14 final size:14
Alignment explanation
Indices: 9090275--9090309 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
9090265 ATATCCAAAC
*
9090275 AATAACAACATAAT
1 AATAATAACATAAT
*
9090289 AGTAATAACATAAT
1 AATAATAACATAAT
9090303 AATAATA
1 AATAATA
9090310 TGGTAGCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.63, C:0.09, G:0.03, T:0.26
Consensus pattern (14 bp):
AATAATAACATAAT
Found at i:9090365 original size:21 final size:22
Alignment explanation
Indices: 9090328--9090368 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
9090318 AAATAAGGAG
*
9090328 AAAACAACAAGAAAATAGCATT
1 AAAAAAACAAGAAAATAGCATT
9090350 AAAAAAACAA-AAAATAGCA
1 AAAAAAACAAGAAAATAGCA
9090369 GTTTTTTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.71, C:0.12, G:0.07, T:0.10
Consensus pattern (22 bp):
AAAAAAACAAGAAAATAGCATT
Found at i:9094966 original size:20 final size:21
Alignment explanation
Indices: 9094927--9094967 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
9094917 AATAAGGACT
* *
9094927 AAACTGGAAACTTTTTCAAAA
1 AAACTAGAAACTTTTGCAAAA
9094948 AAACTAGAAA-TTTTGCAAAA
1 AAACTAGAAACTTTTGCAAAA
9094968 CAGGGGTCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (21 bp):
AAACTAGAAACTTTTGCAAAA
Found at i:9095375 original size:15 final size:14
Alignment explanation
Indices: 9095351--9095381 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
9095341 TGCTCGTCCG
9095351 AGCTAAATTATATC
1 AGCTAAATTATATC
9095365 AGCTGAAATTATATC
1 AGCT-AAATTATATC
9095380 AG
1 AG
9095382 GTTACTCGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (14 bp):
AGCTAAATTATATC
Found at i:9105562 original size:33 final size:33
Alignment explanation
Indices: 9105520--9105643 Score: 212
Period size: 33 Copynumber: 3.8 Consensus size: 33
9105510 TTTCTTCTTG
*
9105520 ACATTCCAGCTACTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
9105553 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
* * *
9105586 ACATTCCAGCTCCCGCCCAACAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
9105619 ACATTCCAGCTCCTGTCCAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
9105644 TGAAACAGAG
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 84 1.00
ACGTcount: A:0.31, C:0.44, G:0.09, T:0.17
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:9106707 original size:54 final size:54
Alignment explanation
Indices: 9106619--9106726 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
9106609 AGCTCGAAAA
**
9106619 GTTAAAATATTTCCTTGGTATTGAAGTGTTACACTCTCGGGAAGGAATCTTTAT
1 GTTAAAATATTTCCTTGGTATTGAAGTGGCACACTCTCGGGAAGGAATCTTTAT
9106673 GTTAAAATATTTCCTTGGTATTGAAGTGGCACACTCTCGGGAAGGAATCTTTAT
1 GTTAAAATATTTCCTTGGTATTGAAGTGGCACACTCTCGGGAAGGAATCTTTAT
9106727 AGCTCAGCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (54 bp):
GTTAAAATATTTCCTTGGTATTGAAGTGGCACACTCTCGGGAAGGAATCTTTAT
Found at i:9119485 original size:21 final size:22
Alignment explanation
Indices: 9119437--9119485 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
9119427 GTGTCAATAG
* *
9119437 GATAATATTAAAGTTTCGTTAA
1 GATAATTTTAAAGTTTCGATAA
*
9119459 GA-AATTTTAATGTTTCGAT-A
1 GATAATTTTAAAGTTTCGATAA
9119479 GATAATT
1 GATAATT
9119486 ATGAAAAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 3 0.13
21 18 0.78
22 2 0.09
ACGTcount: A:0.39, C:0.04, G:0.14, T:0.43
Consensus pattern (22 bp):
GATAATTTTAAAGTTTCGATAA
Found at i:9119640 original size:5 final size:5
Alignment explanation
Indices: 9119630--9119701 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
9119620 TGTTAAAAAA
* *
9119630 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATCATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT AT-ATT
9119676 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
9119702 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 33 0.59
6 10 0.18
7 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:9119683 original size:19 final size:19
Alignment explanation
Indices: 9119659--9119701 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
9119649 ATTATGTTTT
9119659 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
9119678 TATATTATATTATATTATA
1 TATATTATATTATATTATA
9119697 TATAT
1 TATAT
9119702 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:9119733 original size:17 final size:17
Alignment explanation
Indices: 9119711--9119744 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9119701 TACATAAAAC
*
9119711 AAAAGAAAGAATAGAAA
1 AAAAGAAAGAAAAGAAA
9119728 AAAAGAAAGAAAAGAAA
1 AAAAGAAAGAAAAGAAA
9119745 CAGAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAGAAAGAAAAGAAA
Found at i:9119740 original size:9 final size:9
Alignment explanation
Indices: 9119711--9119744 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
9119701 TACATAAAAC
9119711 AAAAGAAAG
1 AAAAGAAAG
*
9119720 AATAGAAA-
1 AAAAGAAAG
9119728 AAAAGAAAG
1 AAAAGAAAG
9119737 AAAAGAAA
1 AAAAGAAA
9119745 CAGAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:9120732 original size:46 final size:44
Alignment explanation
Indices: 9120673--9120787 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
9120663 ACAGGACAGA
* *
9120673 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
9120719 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
9120763 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
9120788 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:9120768 original size:44 final size:45
Alignment explanation
Indices: 9120673--9120806 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
9120663 ACAGGACAGA
* *
9120673 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
9120719 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
9120763 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
9120807 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:9125685 original size:21 final size:22
Alignment explanation
Indices: 9125637--9125685 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
9125627 GTGTCAATAG
* *
9125637 GATAATATTAAAGTTTCGTTAA
1 GATAATTTTAAAGTTTCGATAA
*
9125659 GA-AATTTTAATGTTTCGAT-A
1 GATAATTTTAAAGTTTCGATAA
9125679 GATAATT
1 GATAATT
9125686 ATGAAAAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 3 0.13
21 18 0.78
22 2 0.09
ACGTcount: A:0.39, C:0.04, G:0.14, T:0.43
Consensus pattern (22 bp):
GATAATTTTAAAGTTTCGATAA
Found at i:9125840 original size:5 final size:5
Alignment explanation
Indices: 9125830--9125901 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
9125820 TGTTAAAAAA
* *
9125830 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATCATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT AT-ATT
9125876 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
9125902 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 33 0.59
6 10 0.18
7 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:9125883 original size:19 final size:19
Alignment explanation
Indices: 9125859--9125901 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
9125849 ATTATGTTTT
9125859 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
9125878 TATATTATATTATATTATA
1 TATATTATATTATATTATA
9125897 TATAT
1 TATAT
9125902 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:9125933 original size:17 final size:17
Alignment explanation
Indices: 9125911--9125944 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9125901 TACATAAAAC
*
9125911 AAAAGAAAGAATAGAAA
1 AAAAGAAAGAAAAGAAA
9125928 AAAAGAAAGAAAAGAAA
1 AAAAGAAAGAAAAGAAA
9125945 CAGAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAGAAAGAAAAGAAA
Found at i:9125940 original size:9 final size:9
Alignment explanation
Indices: 9125911--9125944 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
9125901 TACATAAAAC
9125911 AAAAGAAAG
1 AAAAGAAAG
*
9125920 AATAGAAA-
1 AAAAGAAAG
9125928 AAAAGAAAG
1 AAAAGAAAG
9125937 AAAAGAAA
1 AAAAGAAA
9125945 CAGAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:9126933 original size:46 final size:44
Alignment explanation
Indices: 9126874--9126988 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
9126864 ACAGGACAGA
* *
9126874 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
9126920 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
9126964 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
9126989 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:9126969 original size:44 final size:45
Alignment explanation
Indices: 9126874--9127007 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
9126864 ACAGGACAGA
* *
9126874 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
9126920 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
9126964 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
9127008 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:9132826 original size:20 final size:19
Alignment explanation
Indices: 9132798--9132895 Score: 61
Period size: 20 Copynumber: 4.9 Consensus size: 19
9132788 TTCATTATTG
*
9132798 TTTTGAATCAATTCTTTACT
1 TTTTAAATCAATTCTTTA-T
** * *
9132818 TTTTAAATCGGTTGTATAT
1 TTTTAAATCAATTCTTTAT
**
9132837 TGTTTTGATCAATTCTTTAT
1 T-TTTAAATCAATTCTTTAT
* * *
9132857 TGTTTGAATCGATTCATTATT
1 T-TTTAAATCAATTCTTTA-T
9132878 GTTTTAAATCAATTCTTT
1 -TTTTAAATCAATTCTTT
9132896 TCTGTTTAAC
Statistics
Matches: 57, Mismatches: 18, Indels: 5
0.71 0.22 0.06
Matches are distributed among these distances:
19 2 0.04
20 40 0.70
21 14 0.25
22 1 0.02
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.55
Consensus pattern (19 bp):
TTTTAAATCAATTCTTTAT
Found at i:9132854 original size:40 final size:40
Alignment explanation
Indices: 9132788--9132913 Score: 139
Period size: 41 Copynumber: 3.1 Consensus size: 40
9132778 CAATCTTAGT
*
9132788 TTCATTATTGTTTTGAATCAATTCTTTACTTTTTAAATCGG
1 TTCATTATTGTTTTG-ATCAATTCTTTACTTTTTAAATCGA
* *
9132829 TT-GTATATTGTTTTGATCAATTCTTTA-TTGTTTGAATCGA
1 TTCAT-TATTGTTTTGATCAATTCTTTACTT-TTTAAATCGA
* * * *
9132869 TTCATTATTGTTTTAAATCAATTCTTTTCTGTTTAACTCGA
1 TTCATTATTGTTTT-GATCAATTCTTTACTTTTTAAATCGA
9132910 TTCA
1 TTCA
9132914 AACTCTAACA
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
39 2 0.03
40 32 0.45
41 36 0.51
42 1 0.01
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.54
Consensus pattern (40 bp):
TTCATTATTGTTTTGATCAATTCTTTACTTTTTAAATCGA
Found at i:9133561 original size:9 final size:9
Alignment explanation
Indices: 9133547--9133614 Score: 100
Period size: 9 Copynumber: 7.6 Consensus size: 9
9133537 ATAAATATAA
9133547 AATTAACCG
1 AATTAACCG
*
9133556 AATTAATCG
1 AATTAACCG
9133565 AATTAACCG
1 AATTAACCG
*
9133574 AATTATCCG
1 AATTAACCG
* *
9133583 AATTACCCA
1 AATTAACCG
9133592 AATTAACCG
1 AATTAACCG
9133601 AATTAACCG
1 AATTAACCG
9133610 AATTA
1 AATTA
9133615 TTTGTATAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 52 1.00
ACGTcount: A:0.44, C:0.21, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:9133641 original size:12 final size:12
Alignment explanation
Indices: 9133626--9133678 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
9133616 TTGTATAAAA
*
9133626 TTATATATATTT
1 TTATATTTATTT
*
9133638 TTATTTTTATTT
1 TTATATTTATTT
* *
9133650 TTATTTTTAGTT
1 TTATATTTATTT
9133662 TTATATTTTATTT
1 TTATA-TTTATTT
9133675 TTAT
1 TTAT
9133679 TTATTAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
12 25 0.71
13 10 0.29
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (12 bp):
TTATATTTATTT
Found at i:9133644 original size:6 final size:6
Alignment explanation
Indices: 9133633--9133680 Score: 78
Period size: 6 Copynumber: 7.8 Consensus size: 6
9133623 AAATTATATA
*
9133633 TATTTT TATTTT TATTTT TATTTT TAGTTT TATATTT TATTTT TATTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TAT-TTT TATTTT TATTT
9133681 ATTAAATTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
6 33 0.85
7 6 0.15
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (6 bp):
TATTTT
Found at i:9133690 original size:25 final size:24
Alignment explanation
Indices: 9133638--9133703 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 24
9133628 ATATATATTT
**
9133638 TTATTTTTATTTTTATTTTTAGTT
1 TTATTTTTATTTTTATTTTTAGAA
9133662 TTATATTTTATTTTTATTTATTA-AA
1 TTAT-TTTTATTTTTATTT-TTAGAA
*
9133687 TTATTTGTAATTTTTAT
1 TTATTT-TTATTTTTAT
9133704 GATAGGGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 6 0.17
25 27 0.75
26 3 0.08
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (24 bp):
TTATTTTTATTTTTATTTTTAGAA
Found at i:9135937 original size:29 final size:30
Alignment explanation
Indices: 9135895--9135956 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 30
9135885 ACTTAACAAG
9135895 CAAATGCCTCTAAAATAATAA-AAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
9135924 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
9135954 CAA
1 CAA
9135957 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:9136693 original size:43 final size:42
Alignment explanation
Indices: 9136549--9136703 Score: 150
Period size: 43 Copynumber: 3.6 Consensus size: 42
9136539 ATCAATGTGA
* * *
9136549 GATTACATGTAAGACTATGTCTGGGACATTGGCATTGTATTGT
1 GATTACATGTAAGACCATATCTGGGACATTGGCATCGTA-TGT
* * * * *
9136592 GATTACGTGTAAGATCGTGTCTGGGACATTGTCATCGTTAAT-T
1 GATTACATGTAAGACCATATCTGGGACATTGGCATCG-T-ATGT
* * *
9136635 GATTACGTGTAAGACCCTATCTGGGACAGTGGCATCGATATGT
1 GATTACATGTAAGACCATATCTGGGACATTGGCATCG-TATGT
* *
9136678 GATAACATGTAAGACCATATTTGGGA
1 GATTACATGTAAGACCATATCTGGGA
9136704 TATGACATTG
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 2 0.02
43 88 0.95
44 2 0.02
45 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (42 bp):
GATTACATGTAAGACCATATCTGGGACATTGGCATCGTATGT
Found at i:9139628 original size:26 final size:26
Alignment explanation
Indices: 9139595--9139651 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
9139585 TCCCTAATAC
9139595 TAAAATTATTCAATATTGACAACACT
1 TAAAATTATTCAATATTGACAACACT
9139621 TAAAATTATTCAATATTGACAACACT
1 TAAAATTATTCAATATTGACAACACT
9139647 TAAAA
1 TAAAA
9139652 ACTTAATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (26 bp):
TAAAATTATTCAATATTGACAACACT
Found at i:9140427 original size:52 final size:53
Alignment explanation
Indices: 9140337--9140442 Score: 205
Period size: 52 Copynumber: 2.0 Consensus size: 53
9140327 TTATAAAGTA
9140337 AAAATAAAATTATCAAAAAAAAAAATCTCCAATCGGAGTTGTCAATAATGAAT
1 AAAATAAAATTATCAAAAAAAAAAATCTCCAATCGGAGTTGTCAATAATGAAT
9140390 AAAATAAAATTATC-AAAAAAAAAATCTCCAATCGGAGTTGTCAATAATGAAT
1 AAAATAAAATTATCAAAAAAAAAAATCTCCAATCGGAGTTGTCAATAATGAAT
9140442 A
1 A
9140443 GTCTGCTACC
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 39 0.74
53 14 0.26
ACGTcount: A:0.55, C:0.11, G:0.09, T:0.25
Consensus pattern (53 bp):
AAAATAAAATTATCAAAAAAAAAAATCTCCAATCGGAGTTGTCAATAATGAAT
Found at i:9146082 original size:13 final size:15
Alignment explanation
Indices: 9146046--9146087 Score: 54
Period size: 13 Copynumber: 3.0 Consensus size: 15
9146036 CTATATTTCC
*
9146046 ATTCTATTGAATTTT
1 ATTCTATTAAATTTT
9146061 ATTCT-TT-AATTTT
1 ATTCTATTAAATTTT
9146074 ATT-TATTAAATTTT
1 ATTCTATTAAATTTT
9146088 GTCTCAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.04
13 11 0.44
14 8 0.32
15 5 0.20
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (15 bp):
ATTCTATTAAATTTT
Found at i:9146405 original size:38 final size:37
Alignment explanation
Indices: 9146357--9146444 Score: 108
Period size: 37 Copynumber: 2.4 Consensus size: 37
9146347 TTTTTCCATA
*
9146357 TTTT-AAATAAAAACATGA-AATTTTTTAAAATATATAT
1 TTTTAAAATAAAAA-ATGATAATTTTTTAAAA-ATAAAT
*
9146394 TTTTAAAATAAAAAATTATAATTTTTTAAAAATAAAT
1 TTTTAAAATAAAAAATGATAATTTTTTAAAAATAAAT
* *
9146431 TATAAAAATAAAAA
1 TTTTAAAATAAAAA
9146445 TTCTTTAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
37 24 0.53
38 21 0.47
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (37 bp):
TTTTAAAATAAAAAATGATAATTTTTTAAAAATAAAT
Found at i:9146413 original size:21 final size:20
Alignment explanation
Indices: 9146383--9146434 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
9146373 GAAATTTTTT
9146383 AAAATATATATTTTTAAAATAA
1 AAAAT-TATATTTTTAAAA-AA
*
9146405 AAAATTATAATTTTTTAAAAA
1 AAAATTAT-ATTTTTAAAAAA
*
9146426 TAAATTATA
1 AAAATTATA
9146435 AAAATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 12 0.44
22 14 0.52
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATTATATTTTTAAAAAA
Found at i:9146435 original size:21 final size:22
Alignment explanation
Indices: 9146382--9146435 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
9146372 TGAAATTTTT
*
9146382 TAAAATATATATTTTTAAAATAA
1 TAAATTATA-ATTTTTAAAATAA
* *
9146405 AAAATTATAATTTTTTAAA-AA
1 TAAATTATAATTTTTAAAATAA
9146426 TAAATTATAA
1 TAAATTATAA
9146436 AAATAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 11 0.41
22 9 0.33
23 7 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TAAATTATAATTTTTAAAATAA
Found at i:9146439 original size:37 final size:38
Alignment explanation
Indices: 9146361--9146444 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 38
9146351 TCCATATTTT
* * *
9146361 AAATAAAAACATGAAATTTTTTAAAATATATATTTTTA
1 AAATAAAAACATGAAATTTTTTAAAATATAAATTATAA
*
9146399 AAATAAAAA-ATTATAATTTTTTAAAA-ATAAATTATAA
1 AAATAAAAACATGA-AATTTTTTAAAATATAAATTATAA
9146436 AAATAAAAA
1 AAATAAAAA
9146445 TTCTTTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
37 20 0.49
38 21 0.51
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (38 bp):
AAATAAAAACATGAAATTTTTTAAAATATAAATTATAA
Found at i:9147167 original size:15 final size:16
Alignment explanation
Indices: 9147147--9147176 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9147137 TTTAAAGAGT
9147147 TTTTATTT-TTTAAAC
1 TTTTATTTATTTAAAC
9147162 TTTTATTTATTTAAA
1 TTTTATTTATTTAAA
9147177 ATAATATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTATTTATTTAAAC
Found at i:9148231 original size:29 final size:31
Alignment explanation
Indices: 9148170--9148238 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
9148160 TCGCCCTTTC
*
9148170 ATAATGAAATTTTTTTAATTCAAATTAATAT
1 ATAATAAAATTTTTTTAATTCAAATTAATAT
9148201 ATAATAAAATTTTTTTAATTCAAATTAATAT
1 ATAATAAAATTTTTTTAATTCAAATTAATAT
9148232 ATAATAA
1 ATAATAA
9148239 TAAAAAATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (31 bp):
ATAATAAAATTTTTTTAATTCAAATTAATAT
Found at i:9148253 original size:29 final size:30
Alignment explanation
Indices: 9148221--9148282 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
9148211 TTTTTTAATT
* *
9148221 CAAATTAATATATAATAATAA-AAAATTAA
1 CAAATGAATATAAAATAATAAGAAAATTAA
** *
9148250 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGAATATAAAATAATAAGAAAATTAA
9148280 CAA
1 CAA
9148283 TAAAATAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGAATATAAAATAATAAGAAAATTAA
Found at i:9151486 original size:14 final size:14
Alignment explanation
Indices: 9151467--9151506 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
9151457 TTGATTGCCA
9151467 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
9151481 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
9151495 GGAAAATGTTTT
1 GTAAAATGTTTT
9151507 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:9151515 original size:20 final size:20
Alignment explanation
Indices: 9151490--9151529 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9151480 CGTAAAATGA
*
9151490 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
9151510 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
9151530 AGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:9151519 original size:34 final size:35
Alignment explanation
Indices: 9151475--9151541 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
9151465 CAGTAAAATG
* *
9151475 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
*
9151509 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
9151542 CTGGTGATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:9154050 original size:12 final size:12
Alignment explanation
Indices: 9154033--9154086 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
9154023 CAAAACGGGA
9154033 AAGGGAAGGGGT
1 AAGGGAAGGGGT
9154045 AAGGGAAAGGGGT
1 AAGGG-AAGGGGT
* *
9154058 AGGGGAAAGGG-
1 AAGGGAAGGGGT
*
9154069 AAGGAGAAGGGGA
1 AAGG-GAAGGGGT
9154082 AAGGG
1 AAGGG
9154087 GAGAAGAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
11 3 0.09
12 17 0.49
13 15 0.43
ACGTcount: A:0.39, C:0.00, G:0.57, T:0.04
Consensus pattern (12 bp):
AAGGGAAGGGGT
Found at i:9154052 original size:18 final size:18
Alignment explanation
Indices: 9154029--9154086 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
9154019 GCTTCAAAAC
*
9154029 GGGAAAGGGAAGGGGTAA
1 GGGAAAGGGAAGGGGAAA
*
9154047 GGGAAAGGGGTAGGGGAAA
1 GGGAAA-GGGAAGGGGAAA
9154066 GGG-AAGGAGAAGGGGAAA
1 GGGAAAGG-GAAGGGGAAA
9154084 GGG
1 GGG
9154087 GAGAAGAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 2 0.06
18 20 0.57
19 13 0.37
ACGTcount: A:0.38, C:0.00, G:0.59, T:0.03
Consensus pattern (18 bp):
GGGAAAGGGAAGGGGAAA
Found at i:9154056 original size:13 final size:13
Alignment explanation
Indices: 9154033--9154068 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
9154023 CAAAACGGGA
9154033 AAGGG-AAGGGGT
1 AAGGGAAAGGGGT
9154045 AAGGGAAAGGGGT
1 AAGGGAAAGGGGT
*
9154058 AGGGGAAAGGG
1 AAGGGAAAGGG
9154069 AAGGAGAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.36, C:0.00, G:0.58, T:0.06
Consensus pattern (13 bp):
AAGGGAAAGGGGT
Found at i:9154067 original size:31 final size:31
Alignment explanation
Indices: 9154029--9154087 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
9154019 GCTTCAAAAC
*
9154029 GGGAAAGGGAAGGGGTAA-GGGAAAGGGGTAG
1 GGGAAAGGGAAGGAG-AAGGGGAAAGGGGTAG
9154060 GGGAAAGGGAAGGAGAAGGGGAAAGGGG
1 GGGAAAGGGAAGGAGAAGGGGAAAGGGG
9154088 AGAAGAATGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.37, C:0.00, G:0.59, T:0.03
Consensus pattern (31 bp):
GGGAAAGGGAAGGAGAAGGGGAAAGGGGTAG
Found at i:9154094 original size:18 final size:18
Alignment explanation
Indices: 9154058--9154094 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9154048 GGAAAGGGGT
*
9154058 AGGGGAAAGGGAAGGAGA
1 AGGGGAAAGGGAAGAAGA
*
9154076 AGGGGAAAGGGGAGAAGA
1 AGGGGAAAGGGAAGAAGA
9154094 A
1 A
9154095 TGGGTCATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (18 bp):
AGGGGAAAGGGAAGAAGA
Found at i:9161762 original size:74 final size:74
Alignment explanation
Indices: 9161641--9162767 Score: 478
Period size: 75 Copynumber: 14.5 Consensus size: 74
9161631 TTAAAAGCAG
* * * * *
9161641 AAATTGAAATTAACTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGA-TTTTT
1 AAATTGAAAATAACTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
9161705 TGAAAGACAA
66 TGAAA-ACAA
* * **
9161715 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATAACTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
* *
9161780 TTGACAACAG
65 TTGAAAACAA
* * * *
9161790 AAATTGAAATTATCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
1 AAATTGAAAATAACTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT
9161855 TTGAAAA-ATA
65 TTGAAAACA-A
* * * *** ** ** * * * * *
9161865 TAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCAC-C--TCTCGC
1 -AAATTG-AAA--A-TAACTCAGCGTGTCTTGA-G-G-C-TCA-ACTCACCTCTCGCAATAT-G-
*
9161927 AATATGAGTTGATTTTTTGAAAGACAA
54 AGT-TGA-TT--TTTT-TGAAA-ACAA
* * * **
9161954 AAATTGAAAATACCTCAGCATGT-TTAAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATAACTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* *
9162018 TGACAACAG
66 TGAAAACAA
* * *
9162027 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
1 AAATTGAAAATAACTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT
9162092 TTGAAAA-ATA
65 TTGAAAACA-A
* * * *** ** ** * * * * *
9162102 TAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGCTTTGAGGCTCAACTCAC-C--TCTCGC
1 -AAATTG-AAA--A-TAACTCAGCGTGTCTTGA-G-GC--TCA-ACTCACCTCTCGCAATAT-G-
* *
9162164 AATATGAGTTGATTTTTGACAAACAG
54 AGT-TGA-TT--TTTTTGA-AAACAA
* * * ** * *
9162190 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTT-A-ATTTT
1 AAATTGAAAATAACTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
9162253 TGAAAA-AT
66 TGAAAACAA
* * * * ** * * * * * * *
9162261 AAATTGAAACACAAAAAT-TGACAATACCTCAGCGTGCCCCGAGGCTCAACTCAC-C--TCTCGC
1 AAATTG-AA-A-ATAACTCAG-C-GTGTCT-TGAG-G-CTC-A-ACTCACCTCTCGCAATAT-G-
* *
9162322 AATATGAGTTGATTTTTGAAAAACAG
54 AGT-TGA-TT--TTTTTG-AAAACAA
* * * *
9162348 AAATTAAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
1 AAATTGAAAATAACTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
9162411 TGAAAAACAT
66 TG-AAAACAA
* ** *
9162421 AAATTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAGGA
1 AAATTG---A-AAA-T---A--A-CTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
9162486 GTTGATTTTTTTTGAAAGACAA
55 GTTGA-TTTTTTTGAAA-ACAA
* * **
9162508 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATAACTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
9162573 TGAAAGACAA
66 TGAAA-ACAA
* * **
9162583 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATAACTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* *
9162648 TGACAACAG
66 TGAAAACAA
* * * * *
9162657 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAATTCACCTCTCGCAATATGAGTTGA--ATTT
1 AAATTGAAAATAACTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
9162720 TGAAAACAG
66 TGAAAACAA
* *
9162729 AAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCA
1 AAATTGAAAATAACTCAGCGTGTCTTGAGGCTCAACTCA
9162768 TTTTGAACAG
Statistics
Matches: 790, Mismatches: 174, Indels: 180
0.69 0.15 0.16
Matches are distributed among these distances:
71 7 0.01
72 53 0.07
73 51 0.06
74 145 0.18
75 168 0.21
76 68 0.09
77 15 0.02
78 33 0.04
79 17 0.02
80 26 0.03
81 14 0.02
82 12 0.02
83 17 0.02
84 60 0.08
85 33 0.04
86 12 0.02
87 41 0.05
88 14 0.02
89 3 0.00
90 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (74 bp):
AAATTGAAAATAACTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAACAA
Found at i:9161917 original size:165 final size:162
Alignment explanation
Indices: 9161715--9162020 Score: 425
Period size: 165 Copynumber: 1.9 Consensus size: 162
9161705 TGAAAGACAA
* * **
9161715 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACATGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
* * * * * * *
9161780 TTGACA-ACAGAAATTGAAATTATCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
64 TTGAAAGACAAAAATTGAAAATACCTCAGCATGT-CTAAGGCTCAACTCACCTCTCGCAATATGA
9161844 GTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAG
128 GTTG-ATTTTTTTGAAAAATATAAATTGAAAAGCAG
* *
9161880 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACATGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* **
9161945 GAAAGACAAAAATTGAAAATACCTCAGCATGTTTAAGGCTCAACTCATTTCTCGCAATATGAGTT
66 GAAAGACAAAAATTGAAAATACCTCAGCATGTCTAAGGCTCAACTCACCTCTCGCAATATGAGTT
9162010 GATTTTTTTGA
131 GATTTTTTTGA
9162021 CAACAGAAAT
Statistics
Matches: 124, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
162 10 0.08
163 39 0.31
164 22 0.18
165 53 0.43
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (162 bp):
AAATTGAAAATACCTCAACATGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GAAAGACAAAAATTGAAAATACCTCAGCATGTCTAAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTGAAAAATATAAATTGAAAAGCAG
Found at i:9162031 original size:73 final size:74
Alignment explanation
Indices: 9161873--9162111 Score: 313
Period size: 73 Copynumber: 3.2 Consensus size: 74
9161863 TATAAATTGA
* *
9161873 AAAG-CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAGACAGAAATTGAAATTACCTCAGCGTG-TTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
9161937 GA-TTTTTTG
65 GATTTTTTTG
* * * * **
9161946 AAAGACAAAAATTGAAAATACCTCAGCATGTTTAAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGACAGAAATTGAAATTACCTCAGCGTGTTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
9162011 ATTTTTTTG
66 ATTTTTTTG
* *
9162020 ACA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAGACAGAAATTGAAATTACCTCAGCGTGT-TTGAGGCTCAACTCACCTCTCGCAATATGAGTT
9162084 GAATTTTTTTG
65 G-ATTTTTTTG
* * *
9162095 AAAAATATAAATTGAAA
1 AAAGACAGAAATTGAAA
9162112 AGCAGAAATT
Statistics
Matches: 142, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
73 60 0.42
74 60 0.42
75 11 0.08
76 11 0.08
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (74 bp):
AAAGACAGAAATTGAAATTACCTCAGCGTGTTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTG
Found at i:9162117 original size:237 final size:239
Alignment explanation
Indices: 9161527--9162767 Score: 1470
Period size: 237 Copynumber: 5.3 Consensus size: 239
9161517 CTAAGGCTCA
* * *
9161527 GAGTTGATTTTTTTTTGACAACAGAAATTGAAATTACCTCAACATGTCCTGAGGCTCAACTCACC
1 GAGTTGA-TTTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACC
* *
9161592 TCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTTAAAAGCAGAAATTGAAATTAACTC
65 TCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTC
* * *
9161657 AACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTTGAAAGACAAAAATTGA
130 AACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGA
*
9161722 AAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAT
195 AAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
* * *
9161767 GAGTTGATTTTTTTTGACAACAGAAATTGAAATTATCTTAGCGTGTCCTGAGGCTCAACTCACCT
1 GAGTTGATTTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
9161832 CTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCA
66 CTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCA
*
9161897 ACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAAAAATTGAA
131 ACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAA
* *
9161962 AATACCTCAGCATGT-TTAAGGCTCAACTCATTTCTCGCAATAT
196 AATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
*
9162005 GAGTTGA-TTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
1 GAGTTGATTTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
9162069 CTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCA
66 CTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCA
*
9162134 ACGTGCTTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAA-ACAGAAATTGA
131 ACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAGACAGAAATTGA
* * *
9162197 AATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATAT
195 AAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
* * * *
9162242 GAGTTAATTTTTGAAAAATAAATTGAAACACAAAAATTGACAA-TACCTCAGCGTGCCCCGAGGC
1 GAGTTGATTTTT------T---TTGAAA-ACAGAAATTGA-AATTACCTCAGCGTGTCCTGAGGC
*
9162306 TCAACTCACCTCTCGCAATATGAGTTG-A--TTTTTG----------A---AAAA-CAGAAATTA
55 TCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTG
* **
9162354 AAAATACCTCAGTGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAA
120 AAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG----
* *
9162417 ACATAAATTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
180 ----AAA--G-ACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
*
9162482 AG
238 AT
* * * * **
9162484 GAGTTGATTTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATT
1 GAGTTGATTTTTTTTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACC
* *
9162549 TCTCGCAATATGAGTTG-ATTTTTTTG--------AAA--G---A-CAAAAATTGAAAATACCTC
65 TCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTC
* * * ** *
9162599 AGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGACA-ACAGAAATTG
130 AACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAGACAGAAATTG
* * * **
9162663 AAATTACCTCAGCGTGTCCTGAGGCTCAATTCACCTCTCGCAATAT
194 AAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
* *
9162709 GAGTTGA---ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCA
1 GAGTTGATTTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA
9162768 TTTTGAACAG
Statistics
Matches: 905, Mismatches: 60, Indels: 91
0.86 0.06 0.09
Matches are distributed among these distances:
221 40 0.04
222 8 0.01
225 56 0.06
229 2 0.00
231 61 0.07
232 7 0.01
233 60 0.07
234 1 0.00
235 61 0.07
236 32 0.04
237 201 0.22
238 40 0.04
239 196 0.22
240 7 0.01
242 62 0.07
244 1 0.00
245 6 0.01
247 6 0.01
248 56 0.06
249 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (239 bp):
GAGTTGATTTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
CTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCA
ACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAA
AATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
Found at i:9162199 original size:73 final size:72
Alignment explanation
Indices: 9162106--9162269 Score: 224
Period size: 73 Copynumber: 2.3 Consensus size: 72
9162096 AAAATATAAA
*
9162106 TTGAAAAGCAGAAATTGAAATTACCTCAACGTG-CTTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAA-CAGAAATTGAAATTACCTCAACGTGTC-CTGAGGCTCAACTCACCTCTCGCAATATG
*
9162170 AGTTGATTT
64 AGTTAATTT
* ** *
9162179 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGA
1 TTGA-AAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
9162244 GTTAATTT
65 GTTAATTT
*
9162252 TTGAAAA-ATAAATTGAAA
1 TTGAAAACAGAAATTGAAA
9162270 CACAAAAATT
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
71 10 0.12
72 3 0.04
73 65 0.79
74 4 0.05
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (72 bp):
TTGAAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTAATTT
Found at i:9162324 original size:158 final size:158
Alignment explanation
Indices: 9161943--9162737 Score: 939
Period size: 158 Copynumber: 5.0 Consensus size: 158
9161933 AGTTGATTTT
* * *
9161943 TTGAAAGACAAAAATTGAAAATACCTCAGCATG-TTTAAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAA-ACAAAAATTG-AAATACCTCAGCGTGCCTTGAGGCTCAACTCATTTCTCGCAATATGA
9162007 GTTGATTTTTTTGAC-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
64 GTTGA-TTTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
*
9162071 CGCAATATGAGTTGAATTTTTTTGAAAAATATAAA
128 CGCAATATGAGTT-AA--TTTTTG-AAAACATAAA
* * * **
9162106 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGCTTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAA-CAAAAATTGAAA-TACCTCAGCGTGCCTTGAGGCTCAACTCATTTCTCGCAATATGA
**
9162171 GTTGA-TTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTC
64 GTTGATTTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
*
9162235 GTAATATGAGTTAATTTTTGAAAA-ATAAA
129 GCAATATGAGTTAATTTTTGAAAACATAAA
** **
9162264 TTGAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAAAAATTGA-AATACCTCAGCGTGCCTTGAGGCTCAACTCATTTCTCGCAATATGA
* * * *
9162329 GTTGA-TTTTTGAAAAACAGAAATTAAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTC
64 GTTGATTTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
*
9162393 GCAATATGAGTTGATTTTTGAAAAACATAAA
129 GCAATATGAGTTAATTTTTG-AAAACATAAA
* * * *
9162424 TTG--AACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAG
1 TTGAAAACAAAAATTGAAA-TACCTCAGCGTGCCTTGAGGCTCAACTCATTTCTCGCAATATGAG
* * * * **
9162487 TTGATTTTTTTTGA-AAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTC
65 TTGA--TTTTTTGACAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
*
9162551 TCGCAATATGAGTTGA-TTTT-------T---
127 TCGCAATATGAGTTAATTTTTGAAAACATAAA
* *
9162572 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAA-ACAAAAATTG-AAATACCTCAGCGTGCCTTGAGGCTCAACTCATTTCTCGCAATATGA
*
9162637 GTTGATTTTTTTGAC-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAATTCACCTCT
64 GTTGA-TTTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
*
9162701 CGCAATATGAGTTGAA-TTTTGAAAACAGAAA
128 CGCAATATGAGTT-AATTTTTGAAAACATAAA
9162732 TTGAAA
1 TTGAAA
9162738 TTACCTCAGC
Statistics
Matches: 553, Mismatches: 50, Indels: 61
0.83 0.08 0.09
Matches are distributed among these distances:
148 3 0.01
149 54 0.10
150 16 0.03
151 56 0.10
152 3 0.01
156 2 0.00
157 52 0.09
158 137 0.25
159 17 0.03
160 83 0.15
162 14 0.03
163 83 0.15
164 33 0.06
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (158 bp):
TTGAAAACAAAAATTGAAATACCTCAGCGTGCCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
TGATTTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
AATATGAGTTAATTTTTGAAAACATAAA
Found at i:9162337 original size:85 final size:84
Alignment explanation
Indices: 9162179--9162495 Score: 347
Period size: 84 Copynumber: 3.9 Consensus size: 84
9162169 GAGTTGATTT
* ** *
9162179 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGA
1 TTGA-AAACAGAAATTGAAACTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
9162244 GTTAATTTTTGAAAAATAAA
65 GTTGATTTTTGAAAAATAAA
* * *
9162264 TTGAAACACAAAAATTGACAA-TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAA-ACAGAAATTGA-AACTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
9162328 AGTTGATTTTTG--------A
64 AGTTGATTTTTGAAAAATAAA
* * *
9162341 ---AAAACAGAAATTAAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAACTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
9162403 TTGATTTTTGAAAAACATAAA
66 TTGATTTTTG-AAAA-ATAAA
* * ** *
9162424 TTG--AACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAG
1 TTGAAAACAGAAATTGAAACTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
9162487 TTGATTTTT
66 TTGATTTTT
9162496 TTTGAAAGAC
Statistics
Matches: 196, Mismatches: 20, Indels: 33
0.79 0.08 0.13
Matches are distributed among these distances:
72 2 0.01
73 61 0.31
74 3 0.02
77 1 0.01
83 1 0.01
84 63 0.32
85 63 0.32
86 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.29
Consensus pattern (84 bp):
TTGAAAACAGAAATTGAAACTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTGAAAAATAAA
Found at i:9162383 original size:73 final size:74
Alignment explanation
Indices: 9162264--9162767 Score: 568
Period size: 75 Copynumber: 6.7 Consensus size: 74
9162254 GAAAAATAAA
* * * **
9162264 TTGAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
9162329 GTTGA-TTT
66 GTTGATTTT
* * * *
9162337 TTGAAAAACAGAAATTAAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
9162402 GTTGA-TTT
66 GTTGATTTT
* * **
9162410 TTGAAAAACATAAATTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
1 TTGAAAAAC---------A-A-AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTC
*
9162475 TCGCAATAGGAGTTGATTTTTT
55 TCGCAATATGAGTTGA--TTTT
* * **
9162497 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
9162562 GTTGATTTTT
66 GTTGA-TTTT
* * **
9162572 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
9162637 GTTGATTTTT
66 GTTGA-TTTT
* * * * *
9162647 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAATTCACCTCTCGCAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
9162711 GTTGA-ATT
66 GTTGATTTT
* *
9162719 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCA
1 TTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCA
9162768 TTTTGAACAG
Statistics
Matches: 383, Mismatches: 34, Indels: 29
0.86 0.08 0.07
Matches are distributed among these distances:
72 48 0.13
73 75 0.20
74 57 0.15
75 83 0.22
76 55 0.14
77 1 0.00
78 1 0.00
82 1 0.00
84 51 0.13
87 11 0.03
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (74 bp):
TTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTT
Found at i:9162781 original size:49 final size:49
Alignment explanation
Indices: 9162724--9162819 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
9162714 GAATTTTGAA
*
9162724 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
9162773 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
9162820 CTCGCAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (49 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:9162866 original size:121 final size:121
Alignment explanation
Indices: 9162652--9162891 Score: 417
Period size: 121 Copynumber: 2.0 Consensus size: 121
9162642 TTTTTTTGAC
* *
9162652 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAATTCACCTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
*
9162717 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
66 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
* **
9162773 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
*
9162838 TTTTGAAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
66 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
9162892 CTCGCAATAT
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
121 112 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31
Consensus pattern (121 bp):
AACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:9162882 original size:72 final size:72
Alignment explanation
Indices: 9162773--9162998 Score: 276
Period size: 72 Copynumber: 3.0 Consensus size: 72
9162763 ACTCATTTTG
9162773 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
9162838 TTTTGAA
66 TTTTGAA
*
9162845 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
9162910 TTTTTTTTTTGAA
66 ------TTTTGAA
* * * * ** *
9162923 AGACAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACATCTCGCAATATGAGC
1 A-ACAGAAATTGAAATTACCTCA--ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
9162987 TG-ATTTTGAA
62 TGAATTTTGAA
9162997 AA
1 AA
9162999 AGTAGAAATT
Statistics
Matches: 135, Mismatches: 9, Indels: 19
0.83 0.06 0.12
Matches are distributed among these distances:
72 64 0.47
73 1 0.01
74 8 0.06
78 8 0.06
79 19 0.14
80 1 0.01
81 33 0.24
82 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAA
Found at i:9163062 original size:54 final size:55
Alignment explanation
Indices: 9162962--9163067 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 55
9162952 GAACCGAGGC
* *
9162962 TCAACTCACATCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACATCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * * *
9163016 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACATCTCGCAATATGAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
9163068 CAGAAATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
54 33 0.75
55 11 0.25
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (55 bp):
TCAACCCACATCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:9163074 original size:13 final size:13
Alignment explanation
Indices: 9163047--9163080 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
9163037 GAGTTGATTC
*
9163047 TTGAACAACATAAA
1 TTGAA-AACAGAAA
9163061 TTGAAAACAGAAA
1 TTGAAAACAGAAA
9163074 TTGAAAA
1 TTGAAAA
9163081 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:9163128 original size:140 final size:140
Alignment explanation
Indices: 9162918--9163545 Score: 1150
Period size: 140 Copynumber: 4.5 Consensus size: 140
9162908 AATTTTTTTT
*
9162918 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACATCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
9162982 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
*
9163047 TTGAACAACATAAA
127 TTGAACAACGTAAA
9163061 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
9163126 CTGATTTTGAAAAAGTAGAAATTAAAGGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
9163191 ACAACGTAAA
131 ACAACGTAAA
*
9163201 TTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
9163266 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
9163331 ACAACGTAAA
131 ACAACGTAAA
*
9163341 TTGAAAATAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
9163406 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
*
9163471 ACAATGTAAA
131 ACAACGTAAA
9163481 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
9163546 TTGAAATTAA
Statistics
Matches: 473, Mismatches: 11, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
139 3 0.01
140 441 0.93
142 23 0.05
143 6 0.01
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
ACAACGTAAA
Found at i:9163342 original size:54 final size:54
Alignment explanation
Indices: 9163242--9163347 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
9163232 GACCTGAGGC
*
9163242 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
9163296 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
9163348 TAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:9163356 original size:13 final size:13
Alignment explanation
Indices: 9163338--9163362 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9163328 TGAACAACGT
9163338 AAATTGAAAATAG
1 AAATTGAAAATAG
9163351 AAATTGAAAATA
1 AAATTGAAAATA
9163363 CCTCAGCGTG
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:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (13 bp):
AAATTGAAAATAG
Found at i:9163482 original size:54 final size:54
Alignment explanation
Indices: 9163382--9163487 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
9163372 GACCTGAGGC
*
9163382 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
9163436 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAATGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
9163488 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:9163612 original size:72 final size:71
Alignment explanation
Indices: 9163478--9163643 Score: 228
Period size: 72 Copynumber: 2.3 Consensus size: 71
9163468 TGAACAATGT
* * * *
9163478 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
9163543 GAGTTG
66 GAGTTG
*
9163549 AAATTAAAACACAAAAATTGAAAATGCCTCAGCGT-ACCCCGAGGCTCAACTCACCTCTAGCAAT
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGA-CCCGAGGCTCAACTCACCTCTAGCAAT
9163613 ATGAGTTG
64 ATGAGTTG
**
9163621 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
9163644 GGCTTAACTC
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
71 13 0.15
72 68 0.80
73 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:9163738 original size:122 final size:124
Alignment explanation
Indices: 9163518--9163764 Score: 374
Period size: 122 Copynumber: 2.0 Consensus size: 124
9163508 GCGTGACCTG
* * *
9163518 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATGCCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
9163583 TACCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 TACCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAACAAAAATTAAA
* * * *
9163643 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
* * *
9163705 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
66 TACCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
9163764 A
1 A
9163765 ATACCTCAAC
Statistics
Matches: 112, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
121 16 0.14
122 61 0.54
123 7 0.06
124 1 0.01
125 27 0.24
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (124 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
TACCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
Found at i:9163786 original size:71 final size:70
Alignment explanation
Indices: 9163643--9163817 Score: 228
Period size: 71 Copynumber: 2.5 Consensus size: 70
9163633 AAAAATTAAA
* * * * * *
9163643 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
9163707 CCCCG
66 CCCCG
*
9163712 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
9163777 GTCTTG
65 GCCCCG
9163783 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTT
9163818 CCCTTGAAAA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
69 26 0.28
70 6 0.06
71 61 0.66
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.28
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:9178194 original size:11 final size:11
Alignment explanation
Indices: 9178171--9178203 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
9178161 AAAAAAAAAA
9178171 AGAG-AGGGAAG
1 AGAGAAGGG-AG
9178182 AGAGAAGGGAG
1 AGAGAAGGGAG
9178193 AGAGAAGGGAG
1 AGAGAAGGGAG
9178204 GGGGGAAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (11 bp):
AGAGAAGGGAG
Found at i:9178346 original size:14 final size:14
Alignment explanation
Indices: 9178299--9178351 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 14
9178289 TCGGAAAAGG
*
9178299 TATTTTTTA-TATT
1 TATTTTTTATTATA
* *
9178312 TGTTTTGTATT-TA
1 TATTTTTTATTATA
*
9178325 TATATTTTATTATA
1 TATTTTTTATTATA
9178339 TATTTTTTATTAT
1 TATTTTTTATTAT
9178352 GATGTATATA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
13 16 0.52
14 15 0.48
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (14 bp):
TATTTTTTATTATA
Found at i:9178405 original size:11 final size:11
Alignment explanation
Indices: 9178391--9178425 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
9178381 AAAAGGGAAA
9178391 AAAAATAAAAT
1 AAAAATAAAAT
9178402 AAAAATAAAAT
1 AAAAATAAAAT
* *
9178413 AAGAGTAAAAT
1 AAAAATAAAAT
9178424 AA
1 AA
9178426 TAAAGAAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:9179815 original size:72 final size:72
Alignment explanation
Indices: 9179600--9180311 Score: 650
Period size: 72 Copynumber: 9.5 Consensus size: 72
9179590 GTGATCTGAA
*
9179600 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAGAC-GAAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA-ACAG-AAATTGAAAATACCTCAGC
*
9179664 ATGTGAACCGAG
64 --GTG-TCCGAG
* *
9179676 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
*
9179741 TGTCTTGAG
65 TGTC-CGAG
** * *
9179750 GCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCGT
9179814 GTCCGA-
66 GTCCGAG
* *
9179820 GCTC-ACTCACCTCTCGCAATATGAGTTTATTTTTTGAAAGACAGAAATTAAAAATACCTCAGCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA-ACAGAAATTGAAAATACCTCAGC-
*
9179884 TGTGAACCGAG
64 -GTG-TCCGAG
* * * *
9179895 GCTCAACTCACCTTTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTAAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
*
9179960 TGTCTTGAG
65 TGTC-CGAG
** * *
9179969 GCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCGT
9180033 GTCCCGAG
66 GT-CCGAG
* * * * **
9180041 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAGCATAAATTGAAAAAACATTA-AT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA-CAGAAATTGAAAATACCTCAGCG
*
9180104 TGAAAATACCTTAGCG
65 TG----T-CC---GAG
* * * *
9180120 TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAATAGAATTTGAA
1 -G-CTC-A-ACTC-----ACCTCTCGCAATATGAGTTGA-TTTTTTG---AAAACAGAAATTGAA
* *
9180185 AATATCTCAGCGTGTCCTAAG
53 AATACCTCAGCGTGTCC-GAG
* * *
9180206 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAAAAATTGAAATTATCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAACAGAAATTGAAAATACCTCAGCG
* *
9180270 TCT-TGAG
65 TGTCCGAG
* *
9180277 GCTCAACTCACTTTTCGCAATATGAGTTGATTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
9180312 GTTTGAAACA
Statistics
Matches: 527, Mismatches: 71, Indels: 80
0.78 0.10 0.12
Matches are distributed among these distances:
69 22 0.04
70 12 0.02
71 53 0.10
72 113 0.21
73 45 0.09
74 69 0.13
75 10 0.02
76 96 0.18
77 41 0.08
79 2 0.00
80 1 0.00
81 2 0.00
82 4 0.01
83 4 0.01
84 2 0.00
85 1 0.00
86 1 0.00
88 23 0.04
89 1 0.00
90 6 0.01
92 13 0.02
93 6 0.01
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (72 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCGT
GTCCGAG
Found at i:9179876 original size:219 final size:222
Alignment explanation
Indices: 9179600--9180311 Score: 972
Period size: 219 Copynumber: 3.2 Consensus size: 222
9179590 GTGATCTGAA
* *
9179600 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAGAC-GAAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAAATTAAAAATACCTCAGC
9179664 ATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAA
66 ATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAA
9179729 AATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGA
131 AATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGA
9179794 AATTGAAATTACCTCAGCGTGTCCGA-
196 AATTGAAATTACCTCAGCGTGTCCGAG
*
9179820 GCTC-ACTCACCTCTCGCAATATGAGTTTATTTTTTGAAAGACAG-AAATTAAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAAATTAAAAATACCTCAGC
* *
9179883 ATGTGAACCGAGGCTCAACTCACCTTTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTAAA
66 ATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAA
9179948 AATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGA
131 AATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGA
9180013 AATTGAAATTACCTCAGCGTGTCCCGAG
196 AATTGAAATTACCTCAGCGTGT-CCGAG
*
9180041 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAGCATAAATTGAAAAAACATTAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAG---ACA--G---AAA-ATT-A--
* ** *
9180105 GAAAATACCTTAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
53 -AAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTG-
* * * * * * **
9180168 TAAAAATAGAATTTGAAAATATCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGT
116 --AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
* * * * *
9180233 TGATTTTTGACAAACAAAAATTGAAATTATCTCAGCGTCT-TGAG
179 TGAATTTTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCCGAG
* *
9180277 GCTCAACTCACTTTTCGCAATATGAGTTGATTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
9180312 GTTTGAAACA
Statistics
Matches: 440, Mismatches: 28, Indels: 31
0.88 0.06 0.06
Matches are distributed among these distances:
219 204 0.46
220 9 0.02
221 10 0.02
222 28 0.06
225 2 0.00
227 1 0.00
231 2 0.00
232 3 0.01
233 1 0.00
234 44 0.10
236 43 0.10
237 67 0.15
238 26 0.06
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (222 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAAATTAAAAATACCTCAGC
ATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAA
AATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGA
AATTGAAATTACCTCAGCGTGTCCGAG
Found at i:9180219 original size:77 final size:75
Alignment explanation
Indices: 9180101--9180311 Score: 279
Period size: 77 Copynumber: 2.8 Consensus size: 75
9180091 AAAAAACATT
* * *
9180101 AATTGAAAATACCTTAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
*
9180166 GATAAA-AATA
66 GACAAACAA-A
*
9180176 GAATTTGAAAATATCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
1 -AA-TTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
9180239 TTGACAAACAAA
64 TTGACAAACAAA
* * * *
9180251 AATTGAAATTATCTCAGC--GTCTTGAGGCTCAACTCACTTTTCGCAATATGAGTTGATTTTT
1 AATTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
9180312 GTTTGAAACA
Statistics
Matches: 121, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
71 34 0.28
73 18 0.15
74 2 0.02
75 11 0.09
76 4 0.03
77 52 0.43
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (75 bp):
AATTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
GACAAACAAA
Found at i:9180231 original size:165 final size:160
Alignment explanation
Indices: 9179941--9180258 Score: 440
Period size: 165 Copynumber: 2.0 Consensus size: 160
9179931 TGAAAACAGA
** **
9179941 AATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA
1 AATTAAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGA
* *
9180006 AAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
66 AAACAGAAATTGAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
9180071 TTTTTGA-AAAGCATAAATTGAAAAAACATT
131 TTTTTGACAAA-CAAAAATTGAAAAAACATT
* * * *
9180101 AATTGAAAATACCTTAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTAAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTT
* * * *
9180166 GATAAAAATAGAATTTGAAAATATCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGA
64 G---AAAACAGAAATTGAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGA
9180231 GTTGATTTTTGACAAACAAAAATTGAAA
126 GTTGATTTTTGACAAACAAAAATTGAAA
9180259 TTATCTCAGC
Statistics
Matches: 137, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
160 51 0.37
162 5 0.04
165 78 0.57
166 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (160 bp):
AATTAAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGA
AAACAGAAATTGAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGACAAACAAAAATTGAAAAAACATT
Found at i:9180347 original size:238 final size:233
Alignment explanation
Indices: 9179864--9180399 Score: 716
Period size: 238 Copynumber: 2.3 Consensus size: 233
9179854 TGAAAGACAG
* ** * *
9179864 AAATTAAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTTTCGCAATATAAGTTGATTTT
1 AAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * **
9179929 TTTGAAAACAGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
64 TTTGAAAACAGAAATTAAAAATACCTCAACGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGA
*
9179994 GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
129 GTTGAATTTTGAAAACAAAAATTGAAATTACCTCAGCG-GTCCCGAGGCTCAACTCACCTCTCGC
* *
9180059 AATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAAACAT
193 AATATGAGTTGATTTTTGAAAAGCATAAATTAAAAAAACAA
* *
9180100 TAATTGAAAATACCTTAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * * * *
9180165 TGATAAAAATAGAATTTGAAAATATCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATG
66 TG---AAAACAGAAATTAAAAATACCTCAACGTGTCCTAAGGCTCAACTCACCTCTCGCAATATG
* * ** * *
9180230 AGTTGATTTTTGACAAACAAAAATTGAAATTATCTCAGC-GTCTTGAGGCTCAACTCACTTTTCG
128 AGTTGAATTTTGA-AAACAAAAATTGAAATTACCTCAGCGGTCCCGAGGCTCAACTCACCTCTCG
*
9180294 CAATATGAGTTGATTTTTGTTTGAAA-CATAAATTAAAAAAACAA
192 CAATATGAGTTGATTTTTG---AAAAGCATAAATTAAAAAAACAA
**
9180338 AAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
9180400 GAAAAGCAGA
Statistics
Matches: 263, Mismatches: 30, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
234 44 0.17
236 56 0.21
237 63 0.24
238 97 0.37
239 3 0.01
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (233 bp):
AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAACAGAAATTAAAAATACCTCAACGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGT
TGAATTTTGAAAACAAAAATTGAAATTACCTCAGCGGTCCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATTTTTGAAAAGCATAAATTAAAAAAACAA
Found at i:9180537 original size:14 final size:13
Alignment explanation
Indices: 9180500--9180543 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
9180490 GTTGATTTTG
*
9180500 AAAACGGAAATTA
1 AAAACAGAAATTA
*
9180513 AAAGCAGAAATTGA
1 AAAACAGAAATT-A
*
9180527 AAAACATAAATTA
1 AAAACAGAAATTA
9180540 AAAA
1 AAAA
9180544 TACTCGGCGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.66, C:0.07, G:0.11, T:0.16
Consensus pattern (13 bp):
AAAACAGAAATTA
Found at i:9180595 original size:97 final size:99
Alignment explanation
Indices: 9180330--9180614 Score: 398
Period size: 98 Copynumber: 2.9 Consensus size: 99
9180320 CATAAATTAA
* **
9180330 AAAAACAAAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
9180395 GA-TTTGAAAAGCAGAATTTGTAAGGCAAAATTG
66 GATTTTGAAAAGCAGAAATTGAAAAGCAAAATTG
*
9180428 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
9180493 GATTTTGAAAA-CGGAAATT-AAAAGCAGAAATTG
66 GATTTTGAAAAGCAGAAATTGAAAAGCA-AAATTG
* * * * *
9180526 AAAAACATAAATTAAAAATA-CTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCTCAATATGAGTT
1 AAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
9180590 GATTTTTGAAAAGCATAAATTGAAA
66 GA-TTTTGAAAAGCAGAAATTGAAA
9180615 TTACCTGAGC
Statistics
Matches: 167, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
97 48 0.29
98 102 0.61
99 14 0.08
100 3 0.02
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (99 bp):
AAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTGAAAAGCAGAAATTGAAAAGCAAAATTG
Found at i:9180645 original size:73 final size:73
Alignment explanation
Indices: 9180523--9180689 Score: 239
Period size: 73 Copynumber: 2.3 Consensus size: 73
9180513 AAAGCAGAAA
* * * *
9180523 TTGAAAAACATAAATTAAAAATACTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCTCAATATGAG
1 TTGAAAAGCATAAATTGAAAATACTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAG
9180588 TTGA-TTT
66 TTGATTTT
* * *
9180595 TTGAAAAGCATAAATTGAAATTAC-CTGAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAGCATAAATTGAAAATACTC-G-GCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
9180659 AGTTGATTTT
64 AGTTGATTTT
9180669 TTGAAAAGCATAAATTGAAAA
1 TTGAAAAGCATAAATTGAAAA
9180690 AATAGAAATT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
71 1 0.01
72 22 0.26
73 38 0.45
74 23 0.27
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (73 bp):
TTGAAAAGCATAAATTGAAAATACTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTT
Found at i:9192826 original size:16 final size:15
Alignment explanation
Indices: 9192804--9192845 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
9192794 TATATATGCA
*
9192804 TATAATAAAAGTATG
1 TATAATAAAAGTATC
9192819 TAATAATAATAA-TATC
1 T-ATAATAA-AAGTATC
9192835 TATAATAAAAG
1 TATAATAAAAG
9192846 AAAATATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
14 2 0.09
15 8 0.35
16 11 0.48
17 2 0.09
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.33
Consensus pattern (15 bp):
TATAATAAAAGTATC
Found at i:9193169 original size:11 final size:11
Alignment explanation
Indices: 9193142--9193184 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
9193132 ATGGCATTAA
*
9193142 AAAATATATAC
1 AAAATATATAT
*
9193153 ATAATATATAT
1 AAAATATATAT
*
9193164 AAAATACATAT
1 AAAATATATAT
*
9193175 AATATATATA
1 AAAATATATA
9193185 CGTATTAGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATATATAT
Found at i:9193690 original size:11 final size:12
Alignment explanation
Indices: 9193674--9193709 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
9193664 AGAAAAAAAC
9193674 GAAGAGAG-AGG
1 GAAGAGAGAAGG
9193685 GAAGAGAGAAGG
1 GAAGAGAGAAGG
9193697 G-AGAGAGAAGG
1 GAAGAGAGAAGG
9193708 GA
1 GA
9193710 GGGGGGAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:9193860 original size:12 final size:13
Alignment explanation
Indices: 9193810--9193857 Score: 53
Period size: 12 Copynumber: 3.6 Consensus size: 13
9193800 GAAAAGGTAT
*
9193810 TTTTTTATATATT
1 TTTTTTATATATA
9193823 TGTTTTGTATATATA
1 T-TTTT-TATATATA
*
9193838 TATTTTAT-TATA
1 TTTTTTATATATA
9193850 TTTTTTAT
1 TTTTTTAT
9193858 TATGATGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 11 0.37
13 4 0.13
14 7 0.23
15 8 0.27
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (13 bp):
TTTTTTATATATA
Found at i:9194224 original size:18 final size:18
Alignment explanation
Indices: 9194201--9194252 Score: 77
Period size: 18 Copynumber: 2.8 Consensus size: 18
9194191 CAAAAATCTT
9194201 GGTTTTTTTGGGGGGTTA
1 GGTTTTTTTGGGGGGTTA
**
9194219 GGTTTTTTTTTGGGGTTA
1 GGTTTTTTTGGGGGGTTA
9194237 GGTTTTTTTAGGGGGG
1 GGTTTTTTT-GGGGGG
9194253 CTTAATGGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 25 0.86
19 4 0.14
ACGTcount: A:0.06, C:0.00, G:0.42, T:0.52
Consensus pattern (18 bp):
GGTTTTTTTGGGGGGTTA
Found at i:9196184 original size:22 final size:22
Alignment explanation
Indices: 9196159--9196233 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
9196149 TATGAAATAG
*
9196159 ATATAAAAAAAATATGTACATA
1 ATATAAAAAAAATATATACATA
* *
9196181 ATATAGTGTAAAAAATACATACATA
1 ATATA---AAAAAAATATATACATA
** *
9196206 ATATAATTAAAATATTTACATA
1 ATATAAAAAAAATATATACATA
*
9196228 AGATAA
1 ATATAA
9196234 CATGTAGAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
22 22 0.54
25 19 0.46
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (22 bp):
ATATAAAAAAAATATATACATA
Found at i:9196276 original size:25 final size:25
Alignment explanation
Indices: 9196170--9196379 Score: 98
Period size: 25 Copynumber: 8.6 Consensus size: 25
9196160 TATAAAAAAA
* * * *
9196170 ATATGTACATAATATAGTGTAAAAA
1 ATATATACATAATATAGTATTAAAG
*
9196195 ATACATACATAATATA--ATTAAA-
1 ATATATACATAATATAGTATTAAAG
* * ** *
9196217 ATATTTACATAAGATAACATGTAGAAAAA
1 ATATATACAT-A-AT-ATA-GTATTAAAG
* *
9196246 AAATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
9196271 ATATATACATAAAATAGTA-TAATAT
1 ATATATACATAATATAGTATTAA-AG
* * *
9196296 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
9196320 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
9196342 AATATATATATAATATAATATTAAA-
1 -ATATATACATAATATAGTATTAAAG
*
9196367 AAATATA-ATAATA
1 ATATATACATAATA
9196380 ACAAAAGAAA
Statistics
Matches: 138, Mismatches: 33, Indels: 30
0.69 0.16 0.15
Matches are distributed among these distances:
21 1 0.01
22 10 0.07
23 25 0.18
24 25 0.18
25 56 0.41
26 7 0.05
27 2 0.01
28 5 0.04
29 7 0.05
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.33
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:9196703 original size:16 final size:16
Alignment explanation
Indices: 9196665--9196703 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9196655 CTCCAAAAAA
*
9196665 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
9196681 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
9196697 AATAACT
1 AAAAACT
9196704 CTTTTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:9196890 original size:30 final size:30
Alignment explanation
Indices: 9196849--9196944 Score: 165
Period size: 30 Copynumber: 3.2 Consensus size: 30
9196839 TAGGTACAAG
* *
9196849 TGGTGCTGGAGCAAGTGTGGCTAATGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
9196879 AGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
9196909 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
9196939 TGGTGG
1 TGGTGG
9196945 GCTAGGATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.18, C:0.07, G:0.49, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:9196907 original size:18 final size:18
Alignment explanation
Indices: 9196884--9196937 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
9196874 GGAGTAGGTG
9196884 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
9196902 GT-G-G--AGT-TGG-TG
1 GTGGAGCAAGTGTGGCTA
9196914 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
9196932 GTGGAG
1 GTGGAG
9196938 TTGGTGGGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 4 0.14
14 4 0.14
16 4 0.14
17 4 0.14
18 9 0.32
ACGTcount: A:0.19, C:0.07, G:0.50, T:0.24
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:9200173 original size:84 final size:84
Alignment explanation
Indices: 9200038--9200558 Score: 762
Period size: 84 Copynumber: 6.2 Consensus size: 84
9200028 TACAGATCTT
* * * ** * * * *
9200038 ATCT-CCCTAAGCAGTAGGGGAGTAGATTAAAGACAATGAACCTTAACCCCCTAAACAGTAGGGT
1 ATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAACCCCTAAGCAGTAGGGT
* *
9200102 AATAGGTTAGAAAATACAG
66 AACAGGCTAGAAAATACAG
**
9200121 ATCTCCTTTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAACCCCTAAGCAGTAGGGT
1 ATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAACCCCTAAGCAGTAGGGT
*
9200186 AACAGGCTGGAAAATACAG
66 AACAGGCTAGAAAATACAG
** * *
9200205 ATCTCCCCTAAACAGTAGCAGATCAGATCAAAGACAGTGAGCCTT-AACCCCTTAAGCAGTAGGG
1 ATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAACCCC-TAAGCAGTAGGG
9200269 TAACAGGCTAGAAAATACAG
65 TAACAGGCTAGAAAATACAG
* *
9200289 ATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCATTAAACCCTTAAGCAGTAGGGT
1 ATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAACCCCTAAGCAGTAGGGT
*
9200354 AACAGGCTGGAAAATACAG
66 AACAGGCTAGAAAATACAG
*
9200373 ATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGT
1 ATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAACCCCTAAGCAGTAGGGT
*
9200438 AACAGGCTAGAAAATACAT
66 AACAGGCTAGAAAATACAG
* *
9200457 ATCTCCCCTAAACAGTAATGGAGCAGATCGAAGACAGTGAGCCTT-AACCCCTTGAGCAGTAGGG
1 ATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAACCCC-TAAGCAGTAGGG
9200521 TAACAGGCT-GAAAAATACAG
65 TAACAGGCTAG-AAAATACAG
9200541 ATCTCCCCTAAACAGTAG
1 ATCTCCCCTAAACAGTAG
9200559 GGTATAGGCT
Statistics
Matches: 395, Mismatches: 38, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
83 16 0.04
84 374 0.95
85 5 0.01
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (84 bp):
ATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAACCCCTAAGCAGTAGGGT
AACAGGCTAGAAAATACAG
Found at i:9200427 original size:44 final size:44
Alignment explanation
Indices: 9200293--9200507 Score: 125
Period size: 44 Copynumber: 5.1 Consensus size: 44
9200283 ATACAGATCT
* *
9200293 CCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCATTAAA
1 CCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAC
* * * * * ** *
9200337 CCCTTAAGCAGTAG-GGTAACAGGCTGGAA-A-A-T-A--CAGATC
1 CCCCTAAACAGTAGTGG-AGCA-GATCGAAGACAGTGAGCCTTAAC
9200376 TCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAC
1 -CCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAC
* * * * * *
9200421 CCCCTAAGCAGTAG-GGTAACAGGCTAGAA-A-A-T-A--CATATC
1 CCCCTAAACAGTAGTGG-AGCA-GATCGAAGACAGTGAGCCTTAAC
*
9200460 TCCCCTAAACAGTAATGGAGCAGATCGAAGACAGTGAGCCTTAAC
1 -CCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAC
9200505 CCC
1 CCC
9200508 TTGAGCAGTA
Statistics
Matches: 120, Mismatches: 31, Indels: 40
0.63 0.16 0.21
Matches are distributed among these distances:
39 15 0.12
40 32 0.27
41 8 0.07
42 4 0.03
43 8 0.07
44 36 0.30
45 17 0.14
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (44 bp):
CCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAC
Found at i:9200568 original size:39 final size:40
Alignment explanation
Indices: 9200513--9200597 Score: 145
Period size: 39 Copynumber: 2.1 Consensus size: 40
9200503 ACCCCTTGAG
9200513 CAGTAGGGTAACAGGCTGAAAAATACAGATCTCCCCTAAA
1 CAGTAGGGTAACAGGCTGAAAAATACAGATCTCCCCTAAA
*
9200553 CAGTAGGGT-ATAGGCTGAAAAATACAGATCTCCCCTAAA
1 CAGTAGGGTAACAGGCTGAAAAATACAGATCTCCCCTAAA
*
9200592 TAGTAG
1 CAGTAG
9200598 TGGAGTAGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
39 34 0.79
40 9 0.21
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (40 bp):
CAGTAGGGTAACAGGCTGAAAAATACAGATCTCCCCTAAA
Found at i:9200588 original size:123 final size:124
Alignment explanation
Indices: 9200421--9200667 Score: 329
Period size: 123 Copynumber: 2.0 Consensus size: 124
9200411 GAGCCTTAAC
* *
9200421 CCCCTAAGCAGTAGGGTAACAGGCTAGAAAATACATATCTCCCCTAAACAGTAATGGAGCAGATC
1 CCCCTAAACAGTAGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAACAGTAATGGAGCAGATC
** * * * *
9200486 GAAGACAGTGAGCCTTAACCCCTTGAGCAGTAGGGTAACAGGCTGAAAAA-TACAGATCT
66 GAAGACAGCAAGCATTAACCCCCTAAGCAGTAGAGTAACAGGCT-AAAAATTACAGATCT
* * * *
9200545 CCCCTAAACAGTAGGGT-ATAGGCT-GAAAAATACAGATCTCCCCTAAATAGTAGTGGAGTAGAT
1 CCCCTAAACAGTAGGGTAACAGGCTAG-AAAATACAGATCTCCCCTAAACAGTAATGGAGCAGAT
* *
9200608 TGAAGTCAGCAAGCATTAACCCCCTAAGCAGTAGAGTAACAGGCTAAAAATTACAGATCT
65 CGAAGACAGCAAGCATTAACCCCCTAAGCAGTAGAGTAACAGGCTAAAAATTACAGATCT
9200668 TATATCCCTA
Statistics
Matches: 107, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
122 6 0.06
123 85 0.79
124 16 0.15
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.20
Consensus pattern (124 bp):
CCCCTAAACAGTAGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAACAGTAATGGAGCAGATC
GAAGACAGCAAGCATTAACCCCCTAAGCAGTAGAGTAACAGGCTAAAAATTACAGATCT
Found at i:9200715 original size:88 final size:86
Alignment explanation
Indices: 9200623--9200959 Score: 307
Period size: 88 Copynumber: 3.8 Consensus size: 86
9200613 TCAGCAAGCA
*
9200623 TTAACCCCCTAAGCAGTAGAGTAACAGGCTAAAAATTACAGATCTTATATCCCTAAGCAGTAGTG
1 TTAACCCCCTAAGCAGTAG-GTAACAGGCTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTG
9200688 GAGCAAATCGAAGACGGTGAGCC
65 GAGCAAATCG-AGACGGTGAGCC
* * *
9200711 TTAACCCCCTAAGCAGTAGGGTAGCAGGCTAAAGATTATAGATCTTATCTCCCTAAGCAGTAGTG
1 TTAACCCCCTAAGCAGTA-GGTAACAGGCTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTG
** *
9200776 GAGCGGATAGGAGACGGTGAGCC
65 GAGCAAAT-CGAGACGGTGAGCC
* * * * * ** * * *
9200799 TTATCCCTCTAAGCAGTAGGAAAATATGCTGGAAATTATAGATTTTATCTCCCTTAA-TAGTAGT
1 TTAACCCCCTAAGCAGTAGG-TAACAGGCTAAAAATTACAGATCTTATCTCCC-TAAGCAGTAGT
* * *
9200863 GGAGCAGATCGAGAACAGTAAGCC
64 GGAGCAAATCGAG-ACGGTGAGCC
* * * * * * * * * * *
9200887 TTATCTCCCTGAGCAGCAGCGGAGCAGGCTGAAGATTACAAATCATATCTCCCTAAGCAGTAGCG
1 TTAACCCCCTAAGCAGTAG-GTAACAGGCTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTG
*
9200952 GAGAAAAT
65 GAGCAAAT
9200960 TGAAACGAAA
Statistics
Matches: 202, Mismatches: 40, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
87 8 0.04
88 188 0.93
89 6 0.03
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (86 bp):
TTAACCCCCTAAGCAGTAGGTAACAGGCTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
AGCAAATCGAGACGGTGAGCC
Found at i:9200765 original size:44 final size:44
Alignment explanation
Indices: 9200629--9200773 Score: 116
Period size: 44 Copynumber: 3.3 Consensus size: 44
9200619 AGCATTAACC
* * * * *
9200629 CCCTAAGCAGTAGAGTAACAGGCTAAAAATTACAGATCTTATAT
1 CCCTAAGCAGTAGGGTAGCAGGCTAAAGATTATAGATCTTATCT
** * *** * * *
9200673 CCCTAAGCAGTAGTGG-AGCA-AATCGAAGACGGT-GAGCCTTAACC
1 CCCTAAGCAGTAG-GGTAGCAGGCT-AAAGATTATAGA-TCTTATCT
9200717 CCCTAAGCAGTAGGGTAGCAGGCTAAAGATTATAGATCTTATCT
1 CCCTAAGCAGTAGGGTAGCAGGCTAAAGATTATAGATCTTATCT
9200761 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
9200774 TGGAGCGGAT
Statistics
Matches: 72, Mismatches: 23, Indels: 12
0.67 0.21 0.11
Matches are distributed among these distances:
43 5 0.07
44 63 0.88
45 4 0.06
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.22
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGTAGCAGGCTAAAGATTATAGATCTTATCT
Found at i:9200802 original size:44 final size:44
Alignment explanation
Indices: 9200666--9200817 Score: 132
Period size: 44 Copynumber: 3.5 Consensus size: 44
9200656 AATTACAGAT
* ** *
9200666 CTTATATCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGTGAGC
1 CTTATCTCCCTAAGCAGTAGTGGAGCGGATAGAAGACGGTGAGC
* * * *** *
9200710 CTTAACCCCCTAAGCAGTAG-GGTAGCAGGCTA-AAGATTAT-AGAT
1 CTTATCTCCCTAAGCAGTAGTGG-AGC-GGATAGAAGACGGTGAG-C
*
9200754 CTTATCTCCCTAAGCAGTAGTGGAGCGGATAGGAGACGGTGAGC
1 CTTATCTCCCTAAGCAGTAGTGGAGCGGATAGAAGACGGTGAGC
9200798 CTTATC-CCTCTAAGCAGTAG
1 CTTATCTCC-CTAAGCAGTAG
9200818 GAAAATATGC
Statistics
Matches: 82, Mismatches: 19, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
43 10 0.12
44 67 0.82
45 5 0.06
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCGGATAGAAGACGGTGAGC
Found at i:9201333 original size:21 final size:21
Alignment explanation
Indices: 9201304--9201346 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
9201294 AAATAGGAAG
9201304 ATTTGATTTTGATTTT-TTATT
1 ATTTGATTTT-ATTTTATTATT
*
9201325 ATTTTATTTTATTTTATTATT
1 ATTTGATTTTATTTTATTATT
9201346 A
1 A
9201347 AATTAGTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (21 bp):
ATTTGATTTTATTTTATTATT
Done.