Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D08
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: 69935236
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1740000 characters in sequence are not A, C, G, or T
File 69 of 223
Found at i:21326824 original size:20 final size:20
Alignment explanation
Indices: 21326801--21326843 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
21326791 AAAAAAGAAA
*
21326801 AAAAAAGAAGAA-GAAAGATG
1 AAAAAAGAA-AATGAAAAATG
*
21326821 AAAAATGAAAATGAAAAATG
1 AAAAAAGAAAATGAAAAATG
21326841 AAA
1 AAA
21326844 GAGTAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (20 bp):
AAAAAAGAAAATGAAAAATG
Found at i:21326836 original size:13 final size:14
Alignment explanation
Indices: 21326813--21326854 Score: 61
Period size: 13 Copynumber: 3.1 Consensus size: 14
21326803 AAAAGAAGAA
21326813 GAAAGATGAAAAAT
1 GAAAGATGAAAAAT
21326827 GAAA-ATGAAAAAT
1 GAAAGATGAAAAAT
21326840 GAAAGA-GTAAAAAT
1 GAAAGATG-AAAAAT
21326854 G
1 G
21326855 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.14
Consensus pattern (14 bp):
GAAAGATGAAAAAT
Found at i:21328185 original size:87 final size:87
Alignment explanation
Indices: 21328039--21328520 Score: 811
Period size: 87 Copynumber: 5.5 Consensus size: 87
21328029 CAGATCAATG
*
21328039 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
*
21328104 TCAGTTGTAGTGGAGCTGGTTA
66 TCGGTTGTAGTGGAGCTGGTTA
* *
21328126 AAGATAGCAGATTTTGCCTTCCTGCATTAACAGCGAAGCAGATCCAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
* *
21328191 TCGGTTGCAGTGGAGCTAGTTA
66 TCGGTTGTAGTGGAGCTGGTTA
* *
21328213 AAGATAGCAAATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
21328278 TCGGTTGTAGTGGAGCTGGTTA
66 TCGGTTGTAGTGGAGCTGGTTA
*
21328300 AAGATAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
*
21328365 TCGGTTGCAGTGGAGCTGGTTA
66 TCGGTTGTAGTGGAGCTGGTTA
*
21328387 AAGATAGCAGATCTTGTCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
21328452 TCGGTTGTAGTGGAGCTGGTTA
66 TCGGTTGTAGTGGAGCTGGTTA
* * * ** *
21328474 AAGATAGTAGATATTGCCTTCTTGCATTGGCAGTGAAGCAGATCGAA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA
21328521 GCCAATAGTC
Statistics
Matches: 369, Mismatches: 26, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 369 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.24
Consensus pattern (87 bp):
AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
TCGGTTGTAGTGGAGCTGGTTA
Found at i:21328187 original size:43 final size:42
Alignment explanation
Indices: 21328139--21328274 Score: 100
Period size: 43 Copynumber: 3.1 Consensus size: 42
21328129 ATAGCAGATT
*
21328139 TTGCCTTCCTGCATTAACAGCGAAGCAGATCCAAAACAAAGCC
1 TTGCCTTCCT-CATTAACAGCGAAGCAGATCAAAAACAAAGCC
* * * * * *
21328182 TTGCC-TCCATCGGTT-GCAGTGGAGCTAG-TTAAAGATAGCAAA-TC
1 TTGCCTTCC-TC-ATTAACAGCGAAGC-AGATCAAA-A-A-CAAAGCC
*
21328226 TTGCCTTCCTACATTAACAGCGAAGCAGATCGAAAACAAAGCC
1 TTGCCTTCCT-CATTAACAGCGAAGCAGATCAAAAACAAAGCC
21328269 TTGCCT
1 TTGCCT
21328275 CCATCGGTTG
Statistics
Matches: 68, Mismatches: 14, Indels: 22
0.65 0.13 0.21
Matches are distributed among these distances:
42 18 0.26
43 19 0.28
44 13 0.19
45 18 0.26
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (42 bp):
TTGCCTTCCTCATTAACAGCGAAGCAGATCAAAAACAAAGCC
Found at i:21328758 original size:45 final size:44
Alignment explanation
Indices: 21328709--21328865 Score: 145
Period size: 44 Copynumber: 3.5 Consensus size: 44
21328699 CTTATCCCGA
*
21328709 CTGAAGTTGCAGTGGTGCAGATCGAAGATGACCAATCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATCGAAGATGA-CAATCTTATCTCC
* * * * * *
21328754 CTGAAATTACATTGGAGCAGATTGAAGCTGATAATCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATCGAAGATGACAATCTTATCTCC
* * * ** * * *
21328798 CTGAAGTTGTAGTTGAGCGGATTAAAG-TAATAGATCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAGATCGAAGATGACA-ATCTTATCTCC
*
21328842 CTGAAGTTGCAGTAGAGCAGATCG
1 CTGAAGTTGCAGTGGAGCAGATCG
21328866 TATCAAGTCT
Statistics
Matches: 90, Mismatches: 21, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
43 4 0.04
44 61 0.68
45 25 0.28
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (44 bp):
CTGAAGTTGCAGTGGAGCAGATCGAAGATGACAATCTTATCTCC
Found at i:21329945 original size:11 final size:11
Alignment explanation
Indices: 21329929--21329953 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21329919 TTAGTTTAGG
21329929 TTTTTTGTTTT
1 TTTTTTGTTTT
21329940 TTTTTTGTTTT
1 TTTTTTGTTTT
21329951 TTT
1 TTT
21329954 AAAATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:21334278 original size:14 final size:14
Alignment explanation
Indices: 21334259--21334285 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21334249 TAATTTTAAT
21334259 TATGATTTGAAGTA
1 TATGATTTGAAGTA
21334273 TATGATTTGAAGT
1 TATGATTTGAAGT
21334286 TTTGTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TATGATTTGAAGTA
Found at i:21334958 original size:18 final size:18
Alignment explanation
Indices: 21334914--21334960 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
21334904 GTCAATAATT
* *
21334914 AATTAATTATTTTTTTAA
1 AATTAATTAATTTTTAAA
* *
21334932 TATT-TTTAATTTTTAAA
1 AATTAATTAATTTTTAAA
21334949 AATTAATTAATT
1 AATTAATTAATT
21334961 GATAACTTGA
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
AATTAATTAATTTTTAAA
Found at i:21335175 original size:17 final size:16
Alignment explanation
Indices: 21335127--21335175 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 16
21335117 TTAAAAATAG
21335127 AAAAAAAAAA-CAAAAC
1 AAAAAAAAAATC-AAAC
*
21335143 AAAACAAAAATCAAAC
1 AAAAAAAAAATCAAAC
21335159 ATAAAAAAAAATCAAAC
1 A-AAAAAAAAATCAAAC
21335176 TTGTATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 14 0.48
17 15 0.52
ACGTcount: A:0.80, C:0.14, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAAAAAAAATCAAAC
Found at i:21335470 original size:18 final size:18
Alignment explanation
Indices: 21335447--21335482 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21335437 TACTCTTTGC
* *
21335447 TCTTTGCTCTTTGCTGGT
1 TCTTTGCCCTCTGCTGGT
21335465 TCTTTGCCCTCTGCTGGT
1 TCTTTGCCCTCTGCTGGT
21335483 GAGTTTATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.28, G:0.22, T:0.50
Consensus pattern (18 bp):
TCTTTGCCCTCTGCTGGT
Found at i:21336686 original size:20 final size:19
Alignment explanation
Indices: 21336653--21336691 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
21336643 TAATTTTTAG
21336653 TGATTATATATATATATATT
1 TGATTATATATATAT-TATT
* *
21336673 TGATTTTATGTATATTATT
1 TGATTATATATATATTATT
21336692 GGTATTGCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (19 bp):
TGATTATATATATATTATT
Found at i:21338513 original size:18 final size:17
Alignment explanation
Indices: 21338490--21338523 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
21338480 AAAATATGAG
21338490 AAATGATGTTCACATTTC
1 AAATGATGTTCA-ATTTC
21338508 AAATGATGTTCAATTT
1 AAATGATGTTCAATTT
21338524 GATGGAAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
AAATGATGTTCAATTTC
Found at i:21339083 original size:72 final size:72
Alignment explanation
Indices: 21338981--21339129 Score: 212
Period size: 72 Copynumber: 2.1 Consensus size: 72
21338971 TCAGTAGTAA
* * * *
21338981 TTTATGTTTAGTTTTTGGATATTGAATTTATGTTCTACTTATTTATGT-GT-AATCTAGTTTTAT
1 TTTATGTTTAGTCTTTAGATATTGAATTTATGTTCCACTTATTT-TGTACTAAAT-TAGTTTTAT
21339044 TAATAGTTG
64 TAATAGTTG
* *
21339053 TTTATGTTTGGTCTTTAGATATTGAATTTATGTTCCACTTATTTTTTACTAAATTAGTTTTATTA
1 TTTATGTTTAGTCTTTAGATATTGAATTTATGTTCCACTTATTTTGTACTAAATTAGTTTTATTA
21339118 ATAGTTG
66 ATAGTTG
21339125 TTTAT
1 TTTAT
21339130 ATGTGATTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
71 2 0.03
72 64 0.93
73 3 0.04
ACGTcount: A:0.24, C:0.05, G:0.13, T:0.57
Consensus pattern (72 bp):
TTTATGTTTAGTCTTTAGATATTGAATTTATGTTCCACTTATTTTGTACTAAATTAGTTTTATTA
ATAGTTG
Found at i:21341198 original size:13 final size:13
Alignment explanation
Indices: 21341180--21341243 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
21341170 ACACTCAAAA
*
21341180 TTTTCAAAAGTAT
1 TTTTCAAAAGTAC
21341193 TTTTCAAAAGTAC
1 TTTTCAAAAGTAC
* *
21341206 TTTTCTACAA-CAC
1 TTTTC-AAAAGTAC
*
21341219 TTTTAAAAAGTAC
1 TTTTCAAAAGTAC
*
21341232 TTTTTAAAAGTA
1 TTTTCAAAAGTA
21341244 ATAAATAACT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
12 3 0.07
13 36 0.86
14 3 0.07
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (13 bp):
TTTTCAAAAGTAC
Found at i:21344734 original size:17 final size:17
Alignment explanation
Indices: 21344712--21344747 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
21344702 AAATCCTAGA
21344712 TTTTGATACCCATATCT
1 TTTTGATACCCATATCT
21344729 TTTTGATACCCATATCT
1 TTTTGATACCCATATCT
21344746 TT
1 TT
21344748 GACTTTCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (17 bp):
TTTTGATACCCATATCT
Found at i:21349515 original size:13 final size:13
Alignment explanation
Indices: 21349499--21349524 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21349489 TCATATATAA
21349499 TAAAAATTAAACC
1 TAAAAATTAAACC
21349512 TAAAAATTAAACC
1 TAAAAATTAAACC
21349525 CAATATGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (13 bp):
TAAAAATTAAACC
Found at i:21352968 original size:20 final size:20
Alignment explanation
Indices: 21352943--21352980 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
21352933 AAGTTTATGC
21352943 TAAGTAAATGAAATGGAAAG
1 TAAGTAAATGAAATGGAAAG
21352963 TAAGTAAATGAAATGGAA
1 TAAGTAAATGAAATGGAA
21352981 TGGTAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (20 bp):
TAAGTAAATGAAATGGAAAG
Found at i:21352976 original size:25 final size:25
Alignment explanation
Indices: 21352948--21352997 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
21352938 TATGCTAAGT
*
21352948 AAATGAAATGGAAAGTAAGTAAATG
1 AAATGAAATGGAAAGAAAGTAAATG
* *
21352973 AAATGGAATGGTAAGAAAGTAAATG
1 AAATGAAATGGAAAGAAAGTAAATG
21352998 GAGTGGTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.26, T:0.20
Consensus pattern (25 bp):
AAATGAAATGGAAAGAAAGTAAATG
Found at i:21359541 original size:44 final size:44
Alignment explanation
Indices: 21359483--21359591 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 44
21359473 TACTCTACAG
* * *
21359483 CAACTTCAGAGAGATAAGATCT-GTGGATTTAATCCGCTCCACTG
1 CAACTTTAGGGAGATAAGAT-TAGTGGATTTAATCCGCTCCACTA
* * * * * *
21359527 TAACTTTAGGGAGATAGGATTATTGGCTTTAATCTGCTCTACTA
1 CAACTTTAGGGAGATAAGATTAGTGGATTTAATCCGCTCCACTA
21359571 CAACTTTAGGGAGATAAGATT
1 CAACTTTAGGGAGATAAGATT
21359592 CGCCATCTTC
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 1 0.02
44 52 0.98
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (44 bp):
CAACTTTAGGGAGATAAGATTAGTGGATTTAATCCGCTCCACTA
Found at i:21360142 original size:133 final size:133
Alignment explanation
Indices: 21359935--21360969 Score: 1631
Period size: 133 Copynumber: 7.8 Consensus size: 133
21359925 TGCCGGTGCA
* * * *
21359935 GGAAGGCAAGATCTACTTCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCT
* * * * * *
21359999 TTGATCTACTTCATGCCAATACATGAAGATAATATCTGCTTTTTTCGATCTACTTCACCACCAGT
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
21360064 ATG
131 ATG
* *
21360067 GGAAGACAAGATCTGCGTCTTCGATCCACTTCACTACCAATATAGGAAGACAGGATCTGTTATCT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCT
*
21360132 TCGATCTACTTCACGCCCATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
21360197 ATG
131 ATG
* * *
21360200 GGTAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGAATATGTTATCT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCT
* * * * *
21360265 TGGATCTACTTCACGCCAATACATAAAGACAAGATCTACTTTCTTCGATCTACTTCACCACCAAT
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
21360330 ATG
131 ATG
* **
21360333 GGAAGACAAGATCTACATCTTCGATCCACTTCGCTACCAATATAGGAAGACAAAATCTGTTATCT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCT
* * *
21360398 TGGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACAAGT
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
21360463 ATG
131 ATG
* * *
21360466 GGAAGACAAGATCTACATCTTCGATCCACTTCGCTACCAATATAGGAAAATAGGATCTGTTATCT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCT
* * *
21360531 TCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTTCTTCGTTCTAATTCGCCACCAGT
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
21360596 ATG
131 ATG
*
21360599 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGATAGGATCTGTTATCT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCT
*
21360664 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTTGCCACCAGT
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
*
21360729 ATT
131 ATG
* * *
21360732 GGAAGGCAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAAATAGGATCTGTTATCT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCT
* ** * *
21360797 TCGATCTACTTTACGCCAATACATGAAGACAATTTCTGCTTTCTTTGATCTACTTCGCCACTAGT
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
*
21360862 ACG
131 ATG
*
21360865 GGAAGACAATATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCT
* *
21360930 TGGATCTACTTCATGCCAATACATGAAGACAAGATCTGCT
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
21360970 ATTTTTTAGC
Statistics
Matches: 836, Mismatches: 66, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
132 29 0.03
133 807 0.97
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (133 bp):
GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCT
TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
ATG
Found at i:21392243 original size:70 final size:70
Alignment explanation
Indices: 21392143--21392290 Score: 197
Period size: 70 Copynumber: 2.1 Consensus size: 70
21392133 AAAATCAAGG
* * * * * * *
21392143 CAGTGTCGTGATACCATATCTCCATGTCGTGACATTGTACTTCAAACCTAGAAACTTCTCAAATT
1 CAGTGTCGTGACACCACATCCCCATGTCGTGACAATGCACTTCAAACCTAAAAACTTCTCAAATG
21392208 CCATA
66 CCATA
* * *
21392213 CAGTGTCGTGACACCACATCCCCCTGTCGTGACAATGCACTTCGAACTTAAAAACTTCTCAAATG
1 CAGTGTCGTGACACCACATCCCCATGTCGTGACAATGCACTTCAAACCTAAAAACTTCTCAAATG
*
21392278 CCATC
66 CCATA
21392283 CAGTGTCG
1 CAGTGTCG
21392291 CGAAATTGAA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (70 bp):
CAGTGTCGTGACACCACATCCCCATGTCGTGACAATGCACTTCAAACCTAAAAACTTCTCAAATG
CCATA
Found at i:21399610 original size:24 final size:26
Alignment explanation
Indices: 21399583--21399631 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
21399573 ATGATATGAA
21399583 AAATA-ATATAAAA-AC-ATTTAAATC
1 AAATACAT-TAAAACACTATTTAAATC
21399607 AAATACATTAAAACACTATTTAAAT
1 AAATACATTAAAACACTATTTAAAT
21399632 GTACGAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 10 0.45
25 4 0.18
26 8 0.36
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (26 bp):
AAATACATTAAAACACTATTTAAATC
Found at i:21405716 original size:14 final size:15
Alignment explanation
Indices: 21405689--21405717 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21405679 AGTACATATG
21405689 CTCTTTTCTTTTCTT
1 CTCTTTTCTTTTCTT
21405704 CTCTTTT-TTTTCTT
1 CTCTTTTCTTTTCTT
21405718 TTATTGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
CTCTTTTCTTTTCTT
Found at i:21421528 original size:36 final size:36
Alignment explanation
Indices: 21421488--21421558 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
21421478 AGAGTTGCTA
* *
21421488 CGAGGGTGTCGCTTGGGCAGGAGGAAACAACAACCT
1 CGAGGGTGCCGCTTAGGCAGGAGGAAACAACAACCT
*
21421524 CGAGGGTGCCGCTTAGGTAGGAGGAAACAACAACC
1 CGAGGGTGCCGCTTAGGCAGGAGGAAACAACAACC
21421559 CCTGGCCGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.30, C:0.23, G:0.35, T:0.13
Consensus pattern (36 bp):
CGAGGGTGCCGCTTAGGCAGGAGGAAACAACAACCT
Found at i:21431943 original size:28 final size:28
Alignment explanation
Indices: 21431911--21431969 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
21431901 GGATAGTGTA
21431911 AGCCATAGATTCGATCCGTCCAAACGTC
1 AGCCATAGATTCGATCCGTCCAAACGTC
21431939 AGCCATAGATTCGATCCGTCCAAACGTC
1 AGCCATAGATTCGATCCGTCCAAACGTC
21431967 AGC
1 AGC
21431970 AACAACGATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.20
Consensus pattern (28 bp):
AGCCATAGATTCGATCCGTCCAAACGTC
Found at i:21432174 original size:40 final size:40
Alignment explanation
Indices: 21432117--21432246 Score: 181
Period size: 41 Copynumber: 3.2 Consensus size: 40
21432107 CATAAGTGCT
*
21432117 ATTCAGGGGTACTGAAGTACAAACAGGGGACGTATGTGTA
1 ATTCAGGGGTACTGAAGTACAAACAGGGCACGTATGTGTA
21432157 ATTCAGGGGTA-TCGAAGTACAAACAAGGGCACGTATGTGTA
1 ATTCAGGGGTACT-GAAGTACAAAC-AGGGCACGTATGTGTA
* ** *
21432198 ATTTAAAGGTACTGAAGTACAAATAAGGGCACGTATGTGTA
1 ATTCAGGGGTACTGAAGTACAAA-CAGGGCACGTATGTGTA
21432239 ATTCAGGG
1 ATTCAGGG
21432247 AATAATTAAG
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
39 1 0.01
40 22 0.28
41 54 0.69
42 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (40 bp):
ATTCAGGGGTACTGAAGTACAAACAGGGCACGTATGTGTA
Found at i:21435785 original size:17 final size:17
Alignment explanation
Indices: 21435763--21435795 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21435753 ATCAACCATT
21435763 TGTTCT-TTATATTTTAG
1 TGTTCTCTT-TATTTTAG
21435780 TGTTCTCTTTATTTTA
1 TGTTCTCTTTATTTTA
21435796 TTATCCTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.15, C:0.09, G:0.09, T:0.67
Consensus pattern (17 bp):
TGTTCTCTTTATTTTAG
Found at i:21436861 original size:94 final size:93
Alignment explanation
Indices: 21436668--21436856 Score: 288
Period size: 94 Copynumber: 2.0 Consensus size: 93
21436658 TTGATTGGTT
*
21436668 TAATTTTGATTTTGATTAAGATATATGATTATTACAAAATATGAGTAAAAATACTTGTCATGAAC
1 TAATTTTGATTTTGATTAAGATATATGATTATTACAAAATACGAGTAAAAATACTTGTCATGAAC
*
21436733 TTTCAGATATTCACCTTGTCTTGATTGTT
66 TTTCAGATATTCACCTTGTCTTGA-TGTA
21436762 TAATTTTGATTTTGATTAAGATATATGATTATTACAAAATACGAGTAAAAATACTTACTTGTCAT
1 TAATTTTGATTTTGATTAAGATATATGATTATTACAAAATACGAGT-AAAA-A--TACTTGTCAT
**
21436827 GAACTTTGGGATATTCACCTTGTCTGTGAT
62 GAACTTTCAGATATTCACCTTGTCT-TGAT
21436857 AATTTCATAT
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
94 45 0.52
95 4 0.05
96 1 0.01
98 34 0.39
99 3 0.03
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (93 bp):
TAATTTTGATTTTGATTAAGATATATGATTATTACAAAATACGAGTAAAAATACTTGTCATGAAC
TTTCAGATATTCACCTTGTCTTGATGTA
Found at i:21446665 original size:13 final size:13
Alignment explanation
Indices: 21446643--21446674 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
21446633 GCAAGTTTTC
*
21446643 TTTTTCTTTTGTT
1 TTTTTTTTTTGTT
21446656 TTTTTTTTTTGTT
1 TTTTTTTTTTGTT
21446669 TTTTTT
1 TTTTTT
21446675 GGGGGGGGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.00, C:0.03, G:0.06, T:0.91
Consensus pattern (13 bp):
TTTTTTTTTTGTT
Found at i:21450942 original size:8 final size:8
Alignment explanation
Indices: 21450929--21450953 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
21450919 TGCTATCAGG
21450929 AGTACCAA
1 AGTACCAA
21450937 AGTACCAA
1 AGTACCAA
21450945 AGTACCAA
1 AGTACCAA
21450953 A
1 A
21450954 ACTTAGTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.24, G:0.12, T:0.12
Consensus pattern (8 bp):
AGTACCAA
Found at i:21458767 original size:37 final size:37
Alignment explanation
Indices: 21458717--21458795 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
21458707 TTATTACGAA
* * *
21458717 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
21458754 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
21458791 GTCTT
1 GTCTT
21458796 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:21459039 original size:49 final size:47
Alignment explanation
Indices: 21458914--21459195 Score: 424
Period size: 47 Copynumber: 5.9 Consensus size: 47
21458904 CCCTTCGGGA
* * * * *
21458914 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* *
21458961 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21459008 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
21459057 CTTATCACATATATACAC-TTCATTTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21459103 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21459152 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
21459196 CGCCATACTA
Statistics
Matches: 216, Mismatches: 13, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
46 36 0.17
47 89 0.41
48 10 0.05
49 81 0.38
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21459122 original size:95 final size:96
Alignment explanation
Indices: 21458914--21459195 Score: 455
Period size: 95 Copynumber: 3.0 Consensus size: 96
21458904 CCCTTCGGGA
* * * * * *
21458914 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCA-GCCCTGTCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCA-TTAGGCCTTATCACATATATA
21458976 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
21459008 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
**
21459073 AC-TTCATTTTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
21459103 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
21459168 ACTTTCACATTCATCACATCGGCCATTA
66 ACTTTCACATTCATCACATCGGCCATTA
21459196 CGCCATACTA
Statistics
Matches: 174, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
94 10 0.06
95 96 0.55
96 68 0.39
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21465822 original size:30 final size:30
Alignment explanation
Indices: 21465786--21465887 Score: 143
Period size: 30 Copynumber: 3.4 Consensus size: 30
21465776 CGAGAATAAA
* * *
21465786 TTGCTCACACAAGCTGAAAGTATATCAGGG
1 TTGCTCACACAAGCTGACATTATAACAGGG
*
21465816 TTGCTCACACAAGCTGACATTATAACAGTG
1 TTGCTCACACAAGCTGACATTATAACAGGG
* *
21465846 TTGCTCACACAAGCT-ACATTATAGCAAGG
1 TTGCTCACACAAGCTGACATTATAACAGGG
21465875 TTGCTCACACAAG
1 TTGCTCACACAAG
21465888 TTGAGATCAT
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
29 24 0.37
30 41 0.63
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.25
Consensus pattern (30 bp):
TTGCTCACACAAGCTGACATTATAACAGGG
Found at i:21486266 original size:104 final size:104
Alignment explanation
Indices: 21486144--21486367 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
21486134 AATGGATATC
21486144 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
21486209 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
21486248 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
21486313 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
21486352 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
21486368 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:21486733 original size:30 final size:30
Alignment explanation
Indices: 21486699--21486759 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
21486689 TCCACCACCC
**
21486699 AACTTTTTGAAAATTACAATTTTGCCCCCA
1 AACTTTTACAAAATTACAATTTTGCCCCCA
* * *
21486729 AACTTTTACATAATTACACTTTTGTCCCCA
1 AACTTTTACAAAATTACAATTTTGCCCCCA
21486759 A
1 A
21486760 GCTCGGAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCCA
Found at i:21493747 original size:71 final size:71
Alignment explanation
Indices: 21493626--21493776 Score: 241
Period size: 71 Copynumber: 2.1 Consensus size: 71
21493616 GGGGAATCAT
* *
21493626 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTTCATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
21493691 ATATCG
66 ATATCG
***
21493697 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAA-CCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATACAATG
21493761 GATATCG
65 GATATCG
21493768 CACTTAGCA
1 CACTTAGCA
21493777 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 7 0.09
71 67 0.91
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:21493806 original size:103 final size:104
Alignment explanation
Indices: 21493696--21493918 Score: 369
Period size: 104 Copynumber: 2.2 Consensus size: 104
21493686 AATGGATATC
21493696 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAA-CCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
21493760 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
21493799 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
21493864 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
21493903 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
21493919 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 38 0.34
104 73 0.65
105 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:21493812 original size:76 final size:70
Alignment explanation
Indices: 21493626--21493814 Score: 227
Period size: 71 Copynumber: 2.6 Consensus size: 70
21493616 GGGGAATCAT
* * *
21493626 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTTCATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCCGGGGAATCAGCACATAGCAA-CCCCTTTACATTTCAAAGATACAATGG
21493691 ATATCG
65 ATATCG
* ***
21493697 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATATGGTGG
1 CACTTAGCAACCCCTCCGGGGAATCAGCACATAGCAACCCCTTT-ACATTTCAAAGATACAATGG
21493762 ATATCG
65 ATATCG
*
21493768 CACTTAGC-ACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCT
1 CACTTAGCAACC-CC--T---CCGGGGAATCAGCACATAGCAACCCCT
21493815 CGGGGGAATC
Statistics
Matches: 104, Mismatches: 7, Indels: 9
0.87 0.06 0.08
Matches are distributed among these distances:
70 10 0.10
71 68 0.65
73 1 0.01
76 25 0.24
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (70 bp):
CACTTAGCAACCCCTCCGGGGAATCAGCACATAGCAACCCCTTTACATTTCAAAGATACAATGGA
TATCG
Found at i:21494280 original size:29 final size:29
Alignment explanation
Indices: 21494247--21494310 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
21494237 TAATCCACCA
21494247 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
21494276 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
21494306 CCCAA
1 CCCAA
21494311 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:21494284 original size:30 final size:30
Alignment explanation
Indices: 21494254--21494310 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
21494244 CCACCCAACT
21494254 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
21494283 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
21494311 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:21496620 original size:15 final size:15
Alignment explanation
Indices: 21496596--21496627 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
21496586 TATGCATGCA
*
21496596 AAATATAAAAGACAT
1 AAATACAAAAGACAT
21496611 AAATACAAAAGACAT
1 AAATACAAAAGACAT
21496626 AA
1 AA
21496628 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:21497191 original size:12 final size:12
Alignment explanation
Indices: 21497174--21497198 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21497164 ATCAAATTAT
21497174 TTAAAATTAATA
1 TTAAAATTAATA
21497186 TTAAAATTAATA
1 TTAAAATTAATA
21497198 T
1 T
21497199 GATATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TTAAAATTAATA
Found at i:21497660 original size:58 final size:59
Alignment explanation
Indices: 21497580--21497707 Score: 188
Period size: 58 Copynumber: 2.2 Consensus size: 59
21497570 TTCAAAAATA
* * * *
21497580 ATTATTTTAAT-ATATTTAATATTAAATTTAATTTAATACTTATCTTAATAA-TATTTT
1 ATTAATTTAATAAGATTTAATATTAAATTTAATATAATACTTATCTTAATAAGTATTAT
* *
21497637 ATTAATTTAATAAGATTTAATATTAAATTTAATATAATATTTATCTTGATAAGTATTAT
1 ATTAATTTAATAAGATTTAATATTAAATTTAATATAATACTTATCTTAATAAGTATTAT
21497696 ATTAATTTAATA
1 ATTAATTTAATA
21497708 TTAAAGTGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 10 0.16
58 36 0.57
59 17 0.27
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (59 bp):
ATTAATTTAATAAGATTTAATATTAAATTTAATATAATACTTATCTTAATAAGTATTAT
Found at i:21497678 original size:24 final size:20
Alignment explanation
Indices: 21497624--21497707 Score: 63
Period size: 19 Copynumber: 4.3 Consensus size: 20
21497614 AATACTTATC
21497624 TTAATAATATTT-TATTAAT
1 TTAATAATATTTATATTAAT
*
21497643 TTAATAAGATTTAATATTAAAT
1 TTAATAATATTT-ATATT-AAT
*
21497665 TTAAT-ATA---ATATTTAT
1 TTAATAATATTTATATTAAT
*
21497681 CTTGATAAGTA-TTATATTAAT
1 -TTAATAA-TATTTATATTAAT
21497702 TTAATA
1 TTAATA
21497708 TTAAAGTGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
16 2 0.04
17 9 0.18
18 1 0.02
19 13 0.25
20 5 0.10
21 13 0.25
22 8 0.16
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (20 bp):
TTAATAATATTTATATTAAT
Found at i:21497731 original size:58 final size:57
Alignment explanation
Indices: 21497580--21497732 Score: 152
Period size: 58 Copynumber: 2.6 Consensus size: 57
21497570 TTCAAAAATA
* * * *
21497580 ATTATTTTAATATATTTAATATTAAATTTAATT-TAATACTTATCTTAATAATATTTT
1 ATTAATTTAATA-ATTAAATATTAAAGTTAATTATAATACTTATCTTAATAATATTAT
* * * *
21497637 ATTAATTTAATAAGATTTAATATTAAATTTAA-TATAATATTTATCTTGATAAGTATTAT
1 ATTAATTTAAT-A-ATTAAATATTAAAGTTAATTATAATACTTATCTTAATAA-TATTAT
21497696 ATTAATTTAAT-ATTAAAGTGATT-AAGTTAATTATAAT
1 ATTAATTTAATAATTAAA-T-ATTAAAGTTAATTATAAT
21497733 TGAACTCTCT
Statistics
Matches: 83, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
56 5 0.06
57 18 0.22
58 44 0.53
59 16 0.19
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (57 bp):
ATTAATTTAATAATTAAATATTAAAGTTAATTATAATACTTATCTTAATAATATTAT
Found at i:21498268 original size:23 final size:22
Alignment explanation
Indices: 21498206--21498276 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 22
21498196 GTATTCTAGT
* *
21498206 ACTTCGATGCAATTCATTTTTGC
1 ACTTCGGTGCAATTCA-TTCTGC
** * *
21498229 ACTTTAGTGTAACTCATTCTGAC
1 ACTTCGGTGCAATTCATTCTG-C
21498252 ACTTCGGTGCAATTCATTCTAGC
1 ACTTCGGTGCAATTCATTCT-GC
21498275 AC
1 AC
21498277 CCTATTTCAC
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
22 4 0.11
23 31 0.86
24 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (22 bp):
ACTTCGGTGCAATTCATTCTGC
Found at i:21498376 original size:9 final size:9
Alignment explanation
Indices: 21498350--21498391 Score: 66
Period size: 9 Copynumber: 4.4 Consensus size: 9
21498340 TTAATATATT
21498350 TAATTTTTA
1 TAATTTTTA
21498359 TAAAATTTTTA
1 T--AATTTTTA
21498370 TAATTTTTA
1 TAATTTTTA
21498379 TAATTTTTA
1 TAATTTTTA
21498388 TAAT
1 TAAT
21498392 ATTATAGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
9 22 0.71
11 9 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TAATTTTTA
Found at i:21498396 original size:17 final size:18
Alignment explanation
Indices: 21498362--21498402 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
21498352 ATTTTTATAA
*
21498362 AATTTTTATAATTTTTAT
1 AATTTTTATAATTATTAT
21498380 AATTTTTATAA-TATTAT
1 AATTTTTATAATTATTAT
*
21498397 AGTTTT
1 AATTTT
21498403 GTACTCATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
AATTTTTATAATTATTAT
Found at i:21498519 original size:22 final size:22
Alignment explanation
Indices: 21498489--21498530 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
21498479 TTCTAGATGT
21498489 ATATATATTTATTATTTTTTAA
1 ATATATATTTATTATTTTTTAA
* *
21498511 ATATTTATTTTTTATTTTTT
1 ATATATATTTATTATTTTTT
21498531 GTTGATGTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
ATATATATTTATTATTTTTTAA
Found at i:21504077 original size:15 final size:15
Alignment explanation
Indices: 21504057--21504108 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
21504047 ACTACAAAAC
21504057 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
21504072 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
21504091 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
21504106 ATT
1 ATT
21504109 AATATTGAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:21504449 original size:20 final size:21
Alignment explanation
Indices: 21504419--21504470 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
21504409 AAATGAGCTC
21504419 TTTTTCGAAAA-GTGACTTACG
1 TTTTTC-AAAAGGTGACTTACG
21504440 TTTTTCAAAAGGTGACTTACG
1 TTTTTCAAAAGGTGACTTACG
21504461 TTTTTCAAAA
1 TTTTTCAAAA
21504471 AGATAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.40
Consensus pattern (21 bp):
TTTTTCAAAAGGTGACTTACG
Found at i:21504780 original size:6 final size:6
Alignment explanation
Indices: 21504769--21504807 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
21504759 AATTCTTTTC
21504769 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTT
21504808 AAAAGCACCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTAA
Found at i:21505004 original size:42 final size:42
Alignment explanation
Indices: 21504955--21505037 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
21504945 TATAATTTAT
21504955 GTAACACTTATCCACCAACAAATTGGCATTTAAGAGGTTCAA
1 GTAACACTTATCCACCAACAAATTGGCATTTAAGAGGTTCAA
21504997 GTAACACTTATCCACCAACAAATTGGCATTTAAGAGGTTCA
1 GTAACACTTATCCACCAACAAATTGGCATTTAAGAGGTTCA
21505038 TGTGAAGGAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (42 bp):
GTAACACTTATCCACCAACAAATTGGCATTTAAGAGGTTCAA
Found at i:21509919 original size:17 final size:17
Alignment explanation
Indices: 21509886--21509919 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21509876 TTTAAAGAGC
* *
21509886 TTTTATTTTTCATAATT
1 TTTTATTTTTAAAAATT
21509903 TTTTATTTTTAAAAATT
1 TTTTATTTTTAAAAATT
21509920 ATAATTTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTATTTTTAAAAATT
Found at i:21516290 original size:31 final size:31
Alignment explanation
Indices: 21516255--21516319 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
21516245 AACCATAAGA
*
21516255 TAAGTAGATTGCCATGTATAAACACATAATT
1 TAAGTAGATTGCCATGTAAAAACACATAATT
* * *
21516286 TAAGTAGATTTCTATGTAAAAACACATCATT
1 TAAGTAGATTGCCATGTAAAAACACATAATT
21516317 TAA
1 TAA
21516320 CTCATCAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (31 bp):
TAAGTAGATTGCCATGTAAAAACACATAATT
Found at i:21519896 original size:20 final size:20
Alignment explanation
Indices: 21519871--21519911 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
21519861 TATTTGTGAT
*
21519871 CAGAGGCATTGAAGTGCAAA
1 CAGAGGCATCGAAGTGCAAA
21519891 CAGAGGCATCGAAGTGCAAA
1 CAGAGGCATCGAAGTGCAAA
21519911 C
1 C
21519912 CCACAAGCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.20, G:0.29, T:0.12
Consensus pattern (20 bp):
CAGAGGCATCGAAGTGCAAA
Found at i:21523789 original size:50 final size:49
Alignment explanation
Indices: 21523731--21523889 Score: 158
Period size: 50 Copynumber: 3.4 Consensus size: 49
21523721 TTAAGGGAAT
* *
21523731 GAGGTCCCATGTAAGACCATGTTTGGGTCATGGCATTGACACCGAGATAA
1 GAGGTCCCATGTAAGACCATGTTTGGG-CATGGCATTGGCACCGAGATGA
21523781 GAGGTCCCATGTAAGACCA----T-GGC---G--TTGGCACCGAGATGA
1 GAGGTCCCATGTAAGACCATGTTTGGGCATGGCATTGGCACCGAGATGA
** * *
21523820 GAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGA
1 GAGGTCCCATGTAAGACCATGTTTGGG-CATGGCATTGGCACCGAGATGA
**
21523870 GAACTCCCATGTAAGACCAT
1 GAGGTCCCATGTAAGACCAT
21523890 ATCTAGGATA
Statistics
Matches: 88, Mismatches: 10, Indels: 22
0.73 0.08 0.18
Matches are distributed among these distances:
39 30 0.34
41 1 0.01
43 1 0.01
44 3 0.03
45 3 0.03
46 1 0.01
48 1 0.01
50 48 0.55
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (49 bp):
GAGGTCCCATGTAAGACCATGTTTGGGCATGGCATTGGCACCGAGATGA
Found at i:21523803 original size:39 final size:39
Alignment explanation
Indices: 21523759--21523840 Score: 119
Period size: 39 Copynumber: 2.1 Consensus size: 39
21523749 ATGTTTGGGT
*
21523759 CATGGCATTGACACCGAGATAAGAGGTCCCATGTAAGAC
1 CATGGCATTGACACCGAGATAAGAGGTCCCACGTAAGAC
* * * *
21523798 CATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGAC
1 CATGGCATTGACACCGAGATAAGAGGTCCCACGTAAGAC
21523837 CATG
1 CATG
21523841 TTTGGGACAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.28, C:0.26, G:0.29, T:0.17
Consensus pattern (39 bp):
CATGGCATTGACACCGAGATAAGAGGTCCCACGTAAGAC
Found at i:21523903 original size:50 final size:50
Alignment explanation
Indices: 21523798--21523910 Score: 118
Period size: 50 Copynumber: 2.3 Consensus size: 50
21523788 CATGTAAGAC
* * ** * * * *
21523798 CATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTTTGGGA
1 CATGGCATGGGCACCGAGATGAGAACTCCCACGTAAGACCATATCTAGGA
* *
21523848 CATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATCTAGGA
1 CATGGCATGGGCACCGAGATGAGAACTCCCACGTAAGACCATATCTAGGA
* *
21523898 TATGGCATTGGCA
1 CATGGCATGGGCA
21523911 GTACAAGAAA
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
CATGGCATGGGCACCGAGATGAGAACTCCCACGTAAGACCATATCTAGGA
Found at i:21527735 original size:35 final size:35
Alignment explanation
Indices: 21527698--21528001 Score: 182
Period size: 35 Copynumber: 8.5 Consensus size: 35
21527688 GATTCGTTCA
* *
21527698 ACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCA
1 ACTAGCGCTGGGCGCAAATATCGTCGGTTTATCCG
* * *
21527733 ACTAGAGCTGGGCTCATTAATTATTCGTCGGTTTATCTG
1 ACTAGCGCTGGGCGCA--AA-TA-TCGTCGGTTTATCCG
* * * * **
21527772 ATTAGCGCTGGGCGCAACTTTCGTCAGTTTATTTG
1 ACTAGCGCTGGGCGCAAATATCGTCGGTTTATCCG
* * * * * *
21527807 ACTAGTGATGGACACACAT-TCGTTGGTTTATCCG
1 ACTAGCGCTGGGCGCAAATATCGTCGGTTTATCCG
* * * *
21527841 ACTAGCGCTGGGTGCAAATATTGTTGGTTTATCCA
1 ACTAGCGCTGGGCGCAAATATCGTCGGTTTATCCG
* * * *
21527876 ACTAGAGCTGGGCTCACTAATTATTCATCGGTTTATCTG
1 ACTAGCGCTGGGCGCA--AA-TA-TCGTCGGTTTATCCG
* ** *
21527915 ACTAGCGCTGGGCGC-AATCTCCGTCAATTTATCTG
1 ACTAGCGCTGGGCGCAAATAT-CGTCGGTTTATCCG
* * * * * *
21527950 ACTAGTGCTGGGCACACAT-TTGTTGGTATATCCG
1 ACTAGCGCTGGGCGCAAATATCGTCGGTTTATCCG
*
21527984 ACTAGCACTGGGCGCAAA
1 ACTAGCGCTGGGCGCAAA
21528002 CTCTTTTGCG
Statistics
Matches: 200, Mismatches: 58, Indels: 23
0.71 0.21 0.08
Matches are distributed among these distances:
34 47 0.23
35 91 0.46
36 5 0.03
37 5 0.03
38 4 0.02
39 48 0.24
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.32
Consensus pattern (35 bp):
ACTAGCGCTGGGCGCAAATATCGTCGGTTTATCCG
Found at i:21527783 original size:74 final size:73
Alignment explanation
Indices: 21527698--21527931 Score: 260
Period size: 74 Copynumber: 3.2 Consensus size: 73
21527688 GATTCGTTCA
21527698 ACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCATTAATTATTCGTCG
1 ACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCA-TAATTATTCGTCG
21527763 GTTTATCTG
65 GTTTATCTG
* * * ** *** * * * * * *
21527772 ATTAGCGCTGGGCGCAACTTTCGTCAGTTTATTTGACTAGTGAT-GG-ACA-CA-CATTCGTTGG
1 ACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCATAATTATTCGTCGG
*
21527833 TTTATCCG
66 TTTATCTG
* * *
21527841 ACTAGCGCTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCATCG
1 ACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCA-TAATTATTCGTCG
21527906 GTTTATCTG
65 GTTTATCTG
21527915 ACTAGCGCTGGGCGCAA
1 ACTAGCGCTGGGCGCAA
21527932 TCTCCGTCAA
Statistics
Matches: 121, Mismatches: 34, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
69 47 0.39
70 3 0.02
71 2 0.02
72 2 0.02
73 3 0.02
74 64 0.53
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.33
Consensus pattern (73 bp):
ACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCATAATTATTCGTCGG
TTTATCTG
Found at i:21527954 original size:74 final size:74
Alignment explanation
Indices: 21527698--21527962 Score: 254
Period size: 74 Copynumber: 3.6 Consensus size: 74
21527688 GATTCGTTCA
** *
21527698 ACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCATTAATTATTCGTCG
1 ACTAGCGCTGGGCGCAAATATCGTCAGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCGTCG
21527763 GTTTATCTG
66 GTTTATCTG
* * * *** * * * * *
21527772 ATTAGCGCTGGGCGCAACTTTCGTCAGTTTATTTGACTAGTGAT-GG-ACAC--A-CATTCGTTG
1 ACTAGCGCTGGGCGCAAATATCGTCAGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCGTCG
*
21527832 GTTTATCCG
66 GTTTATCTG
* * ** *
21527841 ACTAGCGCTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCATCG
1 ACTAGCGCTGGGCGCAAATATCGTCAGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCGTCG
21527906 GTTTATCTG
66 GTTTATCTG
* * ** *
21527915 ACTAGCGCTGGGCGC-AATCTCCGTCAATTTATCTGACTAGTGCTGGGC
1 ACTAGCGCTGGGCGCAAATAT-CGTCAGTTTATCCAACTAGAGCTGGGC
21527963 ACACATTTGT
Statistics
Matches: 144, Mismatches: 41, Indels: 12
0.73 0.21 0.06
Matches are distributed among these distances:
69 47 0.33
70 3 0.02
71 3 0.02
72 2 0.01
73 7 0.05
74 82 0.57
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (74 bp):
ACTAGCGCTGGGCGCAAATATCGTCAGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCGTCG
GTTTATCTG
Found at i:21527956 original size:143 final size:143
Alignment explanation
Indices: 21527698--21528001 Score: 475
Period size: 143 Copynumber: 2.1 Consensus size: 143
21527688 GATTCGTTCA
* *
21527698 ACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCATTAATTATTCGTCG
1 ACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCATCG
* * * *
21527763 GTTTATCTGATTAGCGCTGGGCGCAACTTTCGTCAGTTTATTTGACTAGTGATGGACACACATTC
66 GTTTATCTGACTAGCGCTGGGCGCAACTTCCGTCAATTTATCTGACTAGTGATGGACACACATTC
*
21527828 GTTGGTTTATCCG
131 GTTGGTATATCCG
* *
21527841 ACTAGCGCTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCATCG
1 ACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCATCG
* *
21527906 GTTTATCTGACTAGCGCTGGGCGCAA-TCTCCGTCAATTTATCTGACTAGTGCTGGGCACACATT
66 GTTTATCTGACTAGCGCTGGGCGCAACT-TCCGTCAATTTATCTGACTAGTGATGGACACACATT
*
21527970 TGTTGGTATATCCG
130 CGTTGGTATATCCG
*
21527984 ACTAGCACTGGGCGCAAA
1 ACTAGCGCTGGGCGCAAA
21528002 CTCTTTTGCG
Statistics
Matches: 146, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
142 1 0.01
143 145 0.99
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.32
Consensus pattern (143 bp):
ACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCATCG
GTTTATCTGACTAGCGCTGGGCGCAACTTCCGTCAATTTATCTGACTAGTGATGGACACACATTC
GTTGGTATATCCG
Found at i:21540870 original size:20 final size:22
Alignment explanation
Indices: 21540845--21540884 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
21540835 TTGCTTGAAT
21540845 ACATTTT-GTT-GCATTTTAGG
1 ACATTTTAGTTAGCATTTTAGG
21540865 ACATTTTAGTTAGCATTTTA
1 ACATTTTAGTTAGCATTTTA
21540885 AATATTGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (22 bp):
ACATTTTAGTTAGCATTTTAGG
Found at i:21556653 original size:42 final size:42
Alignment explanation
Indices: 21556590--21556674 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
21556580 ATTAAGCAAA
*
21556590 CATAGCTCTTGAATGTGGATGAATGAACGGCAGCCCATCAGC
1 CATAGCTCTTGAATGTAGATGAATGAACGGCAGCCCATCAGC
21556632 CATAGCTCTTGAATGTAGATGAATGAACGGCAGCCCATCAGC
1 CATAGCTCTTGAATGTAGATGAATGAACGGCAGCCCATCAGC
21556674 C
1 C
21556675 TTGTGTAGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (42 bp):
CATAGCTCTTGAATGTAGATGAATGAACGGCAGCCCATCAGC
Found at i:21558545 original size:40 final size:40
Alignment explanation
Indices: 21558454--21558623 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
21558444 TCCTCGTTCA
* * * * *
21558454 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
21558493 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
21558533 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
21558573 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
21558613 AAGGCCTTCGG
1 AATGCCTTCGG
21558624 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:21566542 original size:40 final size:40
Alignment explanation
Indices: 21566360--21566528 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
21566350 TCCTCGTTCA
* * * * *
21566360 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
21566399 -ATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
21566438 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
21566478 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
21566518 AAGGCCTTCGG
1 AATGCCTTCGG
21566529 ATCTTAGTCC
Statistics
Matches: 114, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
38 32 0.28
40 82 0.72
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:21568611 original size:23 final size:24
Alignment explanation
Indices: 21568583--21568629 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
21568573 CAAACTAAAC
21568583 AAAAAACAAAATAAAAAT-AGAAA
1 AAAAAACAAAATAAAAATAAGAAA
*
21568606 AAAAAACAAACTAAAAATAAGAAA
1 AAAAAACAAAATAAAAATAAGAAA
21568630 TAAACATGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.81, C:0.06, G:0.04, T:0.09
Consensus pattern (24 bp):
AAAAAACAAAATAAAAATAAGAAA
Found at i:21573139 original size:29 final size:29
Alignment explanation
Indices: 21573084--21573207 Score: 142
Period size: 29 Copynumber: 4.2 Consensus size: 29
21573074 GTGTGCTAAA
21573084 CGATGGTCGAAACCAT-CCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* * **
21573112 TGATTGTCGTCACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
*
21573141 CGATGGTCGAAACCATCCATTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* * *
21573170 CGATAGGCGTCGATACTATCCATTTTCATATT
1 CGAT--G-GTCGAAACCATCCCTTTTCATATT
21573202 CGATGG
1 CGATGG
21573208 GCATCGATAC
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
28 12 0.15
29 41 0.51
30 1 0.01
31 1 0.01
32 26 0.32
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATATT
Found at i:21573191 original size:32 final size:31
Alignment explanation
Indices: 21573126--21573218 Score: 118
Period size: 32 Copynumber: 3.0 Consensus size: 31
21573116 TGTCGTCACC
* * *
21573126 ATCCCTTTTCATATTCGAT-G-GTCGAAACC
1 ATCCATTTTCATATTCGATGGCGTCGATACT
21573155 ATCCATTTTCATATTCGATAGGCGTCGATACT
1 ATCCATTTTCATATTCGAT-GGCGTCGATACT
*
21573187 ATCCATTTTCATATTCGATGGGCATCGATACT
1 ATCCATTTTCATATTCGAT-GGCGTCGATACT
21573219 TCATTGGATT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
29 18 0.32
31 1 0.02
32 37 0.66
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.37
Consensus pattern (31 bp):
ATCCATTTTCATATTCGATGGCGTCGATACT
Found at i:21580117 original size:28 final size:28
Alignment explanation
Indices: 21580051--21580203 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
21580041 ATATTAAGTC
* * *
21580051 CGCACACTCAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
21580078 CGCACACCTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
21580106 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
21580134 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
21580162 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
21580189 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21580204 GCACAATTTA
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 38 0.33
28 78 0.67
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:21580155 original size:83 final size:83
Alignment explanation
Indices: 21580051--21580203 Score: 236
Period size: 83 Copynumber: 1.8 Consensus size: 83
21580041 ATATTAAGTC
* *
21580051 CGCACACTCAGTGCTATATAATC-AGCTCGCACACCTAGTGCTACATAATCAAACTCGCACACTT
1 CGCACACTCAGTGCTACATAATCAAACTCGCACACCTAGTGCTACATAATC-AACTCGCACACTT
21580115 AGTGCTACATAGTCAAACT
65 AGTGCTACATAGTCAAACT
* * * *
21580134 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAATTCGCACACTTA
1 CGCACACTCAGTGCTACATAATCAAACTCGCACACCTAGTGCTACATAATCAACTCGCACACTTA
21580199 GTGCT
66 GTGCT
21580204 GCACAATTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
83 39 0.62
84 24 0.38
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.25
Consensus pattern (83 bp):
CGCACACTCAGTGCTACATAATCAAACTCGCACACCTAGTGCTACATAATCAACTCGCACACTTA
GTGCTACATAGTCAAACT
Found at i:21580222 original size:56 final size:55
Alignment explanation
Indices: 21580050--21580228 Score: 232
Period size: 56 Copynumber: 3.2 Consensus size: 55
21580040 CATATTAAGT
* * * * *
21580050 CCGCACACTCAGTGCTATATAATCAGCTCGCACACCTAGTGCTACATAATCAAAC
1 CCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAAC
*
21580105 TCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAATCAAAC
1 CCGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAATCAAAC
* * * * *
21580161 TCGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAAC
1 CCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAAC
*
21580217 CCGCACTCTTAG
1 CCGCACACTTAG
21580229 CGCCAATCTC
Statistics
Matches: 110, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
55 42 0.38
56 68 0.62
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.25
Consensus pattern (55 bp):
CCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAAC
Found at i:21595226 original size:35 final size:35
Alignment explanation
Indices: 21595180--21595248 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
21595170 ACTGATACTT
* *
21595180 TGATTTGCATGTTAAGCATGTTATTATTTTGATTA
1 TGATTTGCATGTTAAGCATGCTATTATTCTGATTA
*
21595215 TGATTTGCATGTTGAGCATGCTATTATTCTGATT
1 TGATTTGCATGTTAAGCATGCTATTATTCTGATT
21595249 CTGAATCACA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.23, C:0.09, G:0.19, T:0.49
Consensus pattern (35 bp):
TGATTTGCATGTTAAGCATGCTATTATTCTGATTA
Found at i:21595268 original size:35 final size:35
Alignment explanation
Indices: 21595187--21595270 Score: 96
Period size: 35 Copynumber: 2.4 Consensus size: 35
21595177 CTTTGATTTG
* * * **
21595187 CATGTTAAGCATGTTATTATTTTGATTATGATTTG
1 CATGTTAAGCATGCTATTATTCTGATTATGAATCA
* *
21595222 CATGTTGAGCATGCTATTATTCTGATTCTGAATCA
1 CATGTTAAGCATGCTATTATTCTGATTATGAATCA
*
21595257 CATTTTAAGCATGC
1 CATGTTAAGCATGC
21595271 CACTGTGTTA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (35 bp):
CATGTTAAGCATGCTATTATTCTGATTATGAATCA
Found at i:21600015 original size:80 final size:79
Alignment explanation
Indices: 21599919--21600088 Score: 207
Period size: 79 Copynumber: 2.1 Consensus size: 79
21599909 GGACTAAGAT
* * *
21599919 CCGAAGGCATTTGTGCGAGATA-CAAATTCTGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTCGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
21599983 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * *
21599999 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
21600064 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
21600078 CCGAAGGCATT
1 CCGAAGGCATT
21600089 TGAACGAGGA
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 37 0.48
80 37 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:21600070 original size:39 final size:39
Alignment explanation
Indices: 21599866--21600088 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
21599856 TTGAATGCTG
* * * * * *
21599866 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** *
21599906 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
* * * *
21599945 TTCTGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
21599986 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
21600026 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
21600065 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
21600089 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 40 0.26
40 103 0.67
41 11 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:21600108 original size:79 final size:80
Alignment explanation
Indices: 21599949--21600123 Score: 185
Period size: 79 Copynumber: 2.2 Consensus size: 80
21599939 TACAAATTCT
* * * * **
21599949 GGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTG
1 GGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAA
* *
21600014 CGAGTTATTAAATCC
66 CGAGTGACTAAATCC
* * * * *
21600029 GGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAA
1 GGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAA
*
21600093 CGAG-GAGCTATATCC
66 CGAGTGA-CTAAATCC
*
21600108 -GGTTAAATCCCGAAGG
1 GGGTTAAGTCCCGAAGG
21600124 TACGTGATTT
Statistics
Matches: 78, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.62
80 15 0.19
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
GGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAA
CGAGTGACTAAATCC
Found at i:21602026 original size:139 final size:139
Alignment explanation
Indices: 21601674--21602096 Score: 528
Period size: 139 Copynumber: 3.0 Consensus size: 139
21601664 AAAATAGGTT
* * * * * * *
21601674 TATGATGACACTTTTGGGTTGACACTTTCTTAACTGTCGGGATAGACTTGCCAACGTACTCTTTG
1 TATGCTGACACTTTTGGGTT-ACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACACTTTG
* * * * * * *
21601739 GCCAACTCTTT-AATAAGAGTCGGGATATGCATGCCTAAGGCAGCCCTTAAATAAGGGTCGGCTT
65 GCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGACTT
21601803 TGTCCAACAC
130 TGTCCAACAC
* * * *
21601813 CATG-TCGACACTTTTGGGTCGACACTTTCCTAAGTATTGGGATAGACTTGCTGACATACACTTT
1 TATGCT-GACACTTTTGGGT-TACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACACTTT
*
21601877 GGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGACT
64 GGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGACT
21601942 TTGTCCAACAC
129 TTGTCCAACAC
* * * * *
21601953 TATGCTGACACTTTTGGGTTTCACTTTCCTAAGTGTTGAGATAGACTTACCGACATGCGCTTTGG
1 TATGCTGACACTTTTGGGTTACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACACTTTGG
* * * *
21602018 CCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGACAACATTTAACTAAGAGTCGGCCTT
66 CCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTC-GACTT
*
21602083 AG-CCAACAC
130 TGTCCAACAC
21602092 TATGC
1 TATGC
21602097 CAACTTTTGT
Statistics
Matches: 247, Mismatches: 32, Indels: 10
0.85 0.11 0.03
Matches are distributed among these distances:
138 1 0.00
139 168 0.68
140 77 0.31
141 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (139 bp):
TATGCTGACACTTTTGGGTTACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACACTTTGG
CCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGACTTT
GTCCAACAC
Found at i:21604172 original size:16 final size:16
Alignment explanation
Indices: 21604151--21604182 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21604141 GTTTTGTTGC
*
21604151 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
21604167 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
21604183 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:21604469 original size:51 final size:51
Alignment explanation
Indices: 21604411--21604601 Score: 235
Period size: 51 Copynumber: 3.8 Consensus size: 51
21604401 CCGGTTCACA
* * *
21604411 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTACACG
* * * *
21604462 TAGTAGCCTGCACATAGTACTACACACGTGATCA-AAGCTATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCA-CTATCTGGTACACG
* *
21604513 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCTGGTACACG
* * *
21604563 TAATAGCCTGCACATAGTACTACAAACATGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
21604602 TTCACTTTCA
Statistics
Matches: 118, Mismatches: 18, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
49 4 0.03
50 39 0.33
51 73 0.62
52 1 0.01
53 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTACACG
Found at i:21604617 original size:101 final size:102
Alignment explanation
Indices: 21604404--21604596 Score: 264
Period size: 101 Copynumber: 1.9 Consensus size: 102
21604394 AATGATACCG
* *
21604404 GTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGC
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAATAGC
* * * **
21604469 CTGCACATAGTACTACACACGTGATCAAAGCTATCTG
66 CTGCACATAGTACTACAAACATGACCAAAGCTATCAC
* * * *
21604506 GTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAATAG
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAATAG
21604569 CCTGCACATAGTACTACAAACATGACCA
65 CCTGCACATAGTACTACAAACATGACCA
21604597 TCACTTTCAC
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
101 39 0.48
102 38 0.47
103 4 0.05
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (102 bp):
GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAATAGC
CTGCACATAGTACTACAAACATGACCAAAGCTATCAC
Found at i:21608894 original size:73 final size:69
Alignment explanation
Indices: 21608774--21609118 Score: 282
Period size: 73 Copynumber: 4.8 Consensus size: 69
21608764 TCTTAGACCT
* * * *
21608774 GTCTATCCCAACATTTTTAAGGTTGCTTTAGGCA-AGTCTATCCTAACCTTTTTTAAAGGTTGCT
1 GTCTATCCCAACCTTTTTAAGGTTGCCTTA-G-ATGGTCTATCCCAACC-TTTTT-AAGGTTGCT
21608838 TTAGACAAG
62 TTAGAC-AG
* ** *
21608847 GTCTATCTCAACCTTTTTAAGGTTGCCTTAGATGTGTCTATCTTAACCTTTTTAAGGATGCTTTA
1 GTCTATCCCAACCTTTTTAAGGTTGCCTTAGATG-GTCTATCCCAACCTTTTTAAGGTTGCTTTA
21608912 GACAAG
65 GAC-AG
* * * *
21608918 GTCTACCCCAACTTTCTTTAAAGGTTGCTTTAGATAAGGTCTATCCCAACCTTTCTAAGGTTGCT
1 GTCTATCCCAACCTT-TTT-AAGGTTGCCTTAGAT--GGTCTATCCCAACCTTTTTAAGGTTGCT
* *
21608983 TTAGGCGG
62 TTAGACAG
** * * *
21608991 GTCTATCCCAATTGTTTTTAAAGGTTGCCTTAGACAAGGTCTATTCCAA-CTTTAATAAGGTTG-
1 GTCTATCCCAA-CCTTTTT-AAGGTTGCCTTAG--ATGGTCTATCCCAACCTTT-TTAAGGTTGC
21609054 TCTTAGACAG
61 T-TTAGACAG
* * * * * *
21609064 GTTTATCCCAACCTTTTTAAGGTTGCCTCAAACGGGTTTATCCAAACCTTTTTAA
1 GTCTATCCCAACCTTTTTAAGGTTGCCTTAGA-TGGTCTATCCCAACCTTTTTAA
21609119 AATGTTGGCC
Statistics
Matches: 224, Mismatches: 35, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
69 1 0.00
70 12 0.05
71 45 0.20
72 19 0.08
73 115 0.51
74 30 0.13
75 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (69 bp):
GTCTATCCCAACCTTTTTAAGGTTGCCTTAGATGGTCTATCCCAACCTTTTTAAGGTTGCTTTAG
ACAG
Found at i:21608960 original size:109 final size:107
Alignment explanation
Indices: 21608765--21609118 Score: 372
Period size: 108 Copynumber: 3.3 Consensus size: 107
21608755 AAAAAAATTT
* * *
21608765 CTTAGACCTGTCTATCCCAACATTTTTAAGGTTGCTTTAGGCAA-GTCTATCCTAACCTTTTTTA
1 CTTAGACGTGTCTATCCCAACATTTTTAAGGTTGCTTTAGACAAGGTCTATCCCAA-CTTTTTTA
*
21608829 AAGGTTGCTTTAGACAAGGTCTATCTCAACCTTTTTAAGGTTGC
65 AAGGTTGCTTTAGA-AAGGTCTATCCCAACCTTTTTAAGGTTGC
* ** * * *
21608873 CTTAGATGTGTCTATCTTAACCTTTTTAAGGATGCTTTAGACAAGGTCTACCCCAACTTTCTTTA
1 CTTAGACGTGTCTATCCCAACATTTTTAAGGTTGCTTTAGACAAGGTCTATCCCAACTTT-TTTA
*
21608938 AAGGTTGCTTTAGATAAGGTCTATCCCAACCTTTCTAAGGTTGC
65 AAGGTTGCTTTAGA-AAGGTCTATCCCAACCTTTTTAAGGTTGC
* * * ** * * **
21608982 TTTAGGCGGGTCTATCCCAATTGTTTTTAAAGGTTGCCTTAGACAAGGTCTATTCCAACTTTAAT
1 CTTAGACGTGTCTATCCCAA-CATTTTT-AAGGTTGCTTTAGACAAGGTCTATCCCAACTTTTTT
* *
21609047 -AAGGTTG-TCTTAGACAGGTTTATCCCAACCTTTTTAAGGTTGC
64 AAAGGTTGCT-TTAGAAAGGTCTATCCCAACCTTTTTAAGGTTGC
* * * * * *
21609090 CTCAAACGGGTTTATCCAAACCTTTTTAA
1 CTTAGACGTGTCTATCCCAACATTTTTAA
21609119 AATGTTGGCC
Statistics
Matches: 204, Mismatches: 37, Indels: 12
0.81 0.15 0.05
Matches are distributed among these distances:
106 2 0.01
107 5 0.02
108 82 0.40
109 80 0.39
110 6 0.03
111 29 0.14
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.38
Consensus pattern (107 bp):
CTTAGACGTGTCTATCCCAACATTTTTAAGGTTGCTTTAGACAAGGTCTATCCCAACTTTTTTAA
AGGTTGCTTTAGAAAGGTCTATCCCAACCTTTTTAAGGTTGC
Found at i:21609102 original size:35 final size:35
Alignment explanation
Indices: 21608765--21609118 Score: 289
Period size: 35 Copynumber: 9.8 Consensus size: 35
21608755 AAAAAAATTT
** *
21608765 CTTAGACCTGTCTATCCCAACATTTTTAAGGTTGC
1 CTTAGACAGGTCTATCCCAACCTTTTTAAGGTTGC
* * * *
21608800 TTTAGGCAAGTCTATCCTAACCTTTTTTAAAGGTTGC
1 CTTAGACAGGTCTATCCCAACC-TTTTT-AAGGTTGC
* *
21608837 TTTAGACAAGGTCTATCTCAACCTTTTTAAGGTTGC
1 CTTAGAC-AGGTCTATCCCAACCTTTTTAAGGTTGC
* ** *
21608873 CTTAGA-TGTGTCTATCTTAACCTTTTTAAGGATGC
1 CTTAGACAG-GTCTATCCCAACCTTTTTAAGGTTGC
* * *
21608908 TTTAGACAAGGTCTACCCCAACTTTCTTTAAAGGTTGC
1 CTTAGAC-AGGTCTATCCCAACCTT-TTT-AAGGTTGC
* * *
21608946 TTTAGATAAGGTCTATCCCAACCTTTCTAAGGTTGC
1 CTTAGA-CAGGTCTATCCCAACCTTTTTAAGGTTGC
* * * **
21608982 TTTAGGCGGGTCTATCCCAATTGTTTTTAAAGGTTGC
1 CTTAGACAGGTCTATCCCAA-CCTTTTT-AAGGTTGC
* * *
21609019 CTTAGACAAGGTCTATTCCAA-CTTTAATAAGGTTGT
1 CTTAGAC-AGGTCTATCCCAACCTTT-TTAAGGTTGC
*
21609055 CTTAGACAGGTTTATCCCAACCTTTTTAAGGTTGC
1 CTTAGACAGGTCTATCCCAACCTTTTTAAGGTTGC
* * * * *
21609090 CTCAAACGGGTTTATCCAAACCTTTTTAA
1 CTTAGACAGGTCTATCCCAACCTTTTTAA
21609119 AATGTTGGCC
Statistics
Matches: 259, Mismatches: 46, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
34 1 0.00
35 101 0.39
36 67 0.26
37 39 0.15
38 51 0.20
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.38
Consensus pattern (35 bp):
CTTAGACAGGTCTATCCCAACCTTTTTAAGGTTGC
Found at i:21611058 original size:29 final size:29
Alignment explanation
Indices: 21611026--21611233 Score: 184
Period size: 29 Copynumber: 7.1 Consensus size: 29
21611016 AGCTTCAGCT
21611026 ATCAATTATGAAAAGGGATGGTGACGACC
1 ATCAATTATGAAAAGGGATGGTGACGACC
* * * *
21611055 ATCAACTATGAAAACGTATAGTGACGACC
1 ATCAATTATGAAAAGGGATGGTGACGACC
** * * * *
21611084 ATCAAAAATGAAGAGGGATAGCT-TCGACT
1 ATCAATTATGAAAAGGGAT-GGTGACGACC
* *
21611113 ATCAATTATGAAAAGGGATGGTAACAACC
1 ATCAATTATGAAAAGGGATGGTGACGACC
* *
21611142 ATCAACTATGAAATGGGATGGTGACGACC
1 ATCAATTATGAAAAGGGATGGTGACGACC
* ** **
21611171 ATCGATTAATGAAAAGGGATATTTTCGACC
1 ATCAATT-ATGAAAAGGGATGGTGACGACC
* * * *
21611201 ATCAAATATGAAAAGGGACGGTTATGACC
1 ATCAATTATGAAAAGGGATGGTGACGACC
21611230 ATCA
1 ATCA
21611234 TTTAACACAC
Statistics
Matches: 138, Mismatches: 38, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
28 2 0.01
29 113 0.82
30 23 0.17
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (29 bp):
ATCAATTATGAAAAGGGATGGTGACGACC
Found at i:21611143 original size:87 final size:88
Alignment explanation
Indices: 21611005--21611218 Score: 288
Period size: 87 Copynumber: 2.4 Consensus size: 88
21610995 TCATCGATTT
* *
21611005 TGAAAAGGGATAGCTTC-AGCTATCAATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAA
1 TGAAAAGGGATAGCTTCGA-CTATCAATTATGAAAAGGGATGGTAACAACCATCAACTATGAAAA
*
21611069 CGTATAGTGACGACCATC-AAAAA
65 CGGATAGTGACGACCATCGAAAAA
* **
21611092 TGAAGAGGGATAGCTTCGACTATCAATTATGAAAAGGGATGGTAACAACCATCAACTATGAAATG
1 TGAAAAGGGATAGCTTCGACTATCAATTATGAAAAGGGATGGTAACAACCATCAACTATGAAAAC
* **
21611157 GGATGGTGACGACCATCGATTAA
66 GGATAGTGACGACCATCGAAAAA
** * *
21611180 TGAAAAGGGATATTTTCGACCATCAAATATGAAAAGGGA
1 TGAAAAGGGATAGCTTCGACTATCAATTATGAAAAGGGA
21611219 CGGTTATGAC
Statistics
Matches: 111, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
87 73 0.66
88 38 0.34
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (88 bp):
TGAAAAGGGATAGCTTCGACTATCAATTATGAAAAGGGATGGTAACAACCATCAACTATGAAAAC
GGATAGTGACGACCATCGAAAAA
Found at i:21615534 original size:29 final size:29
Alignment explanation
Indices: 21615479--21615545 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
21615469 ATCGAAAATA
** **
21615479 AAAAGGGATAGCTTCGGTTATGGATTACG
1 AAAAGGGATAGCTTCGGCCATCAATTACG
* *
21615508 AAAAGGGATAGGTTCGGCCATCAATTATG
1 AAAAGGGATAGCTTCGGCCATCAATTACG
21615537 AAAAGGGAT
1 AAAAGGGAT
21615546 GGTGGCAACC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.36, C:0.10, G:0.30, T:0.24
Consensus pattern (29 bp):
AAAAGGGATAGCTTCGGCCATCAATTACG
Found at i:21615627 original size:29 final size:29
Alignment explanation
Indices: 21615507--21615631 Score: 87
Period size: 29 Copynumber: 4.3 Consensus size: 29
21615497 TATGGATTAC
* *
21615507 GAAAAGGGATAGG-TTCGGCCATCAATTAT
1 GAAAAGGGAT-GGTTTCGACCATCAACTAT
** *
21615536 GAAAAGGGATGGTGGCAACCATCAACTAT
1 GAAAAGGGATGGTTTCGACCATCAACTAT
* * * * *
21615565 GAAAAAGGATGGTGAT-GACTATCGATTAAT
1 GAAAAGGGATGGT-TTCGACCATCAACT-AT
*
21615595 -AAAATGGATGGTTTCGACCATCGAA-TAT
1 GAAAAGGGATGGTTTCGACCATC-AACTAT
21615623 GAAAAGGGA
1 GAAAAGGGA
21615632 CGTTACGACC
Statistics
Matches: 73, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
28 5 0.07
29 65 0.89
30 3 0.04
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.22
Consensus pattern (29 bp):
GAAAAGGGATGGTTTCGACCATCAACTAT
Found at i:21626544 original size:35 final size:35
Alignment explanation
Indices: 21626454--21626545 Score: 112
Period size: 35 Copynumber: 2.6 Consensus size: 35
21626444 TTACTGATAC
* *
21626454 TTTGATTCGCATGTTAAGCATGCTATTCTTCTTAT
1 TTTGATTCGCATGTTAAGCATGCTATTATTCTAAT
* ** *
21626489 TATGATTTTCATGTTGAGCATGCTATTATTCTAAT
1 TTTGATTCGCATGTTAAGCATGCTATTATTCTAAT
* *
21626524 TTTGAATCGCTTGTTAAGCATG
1 TTTGATTCGCATGTTAAGCATG
21626546 TCACTATGTT
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (35 bp):
TTTGATTCGCATGTTAAGCATGCTATTATTCTAAT
Found at i:21627813 original size:45 final size:46
Alignment explanation
Indices: 21627739--21627838 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 46
21627729 GGGCTAGTAC
* *
21627739 TCTGCGATGTCTTTATGGCATATTCTGTGATGCC-TTATGGTGTAT
1 TCTGTGATGTCTTTATGGCATATTCTGTGATGCCTTTATGGCGTAT
* * *
21627784 TCTGTGATGTCTTTGTGGCATATTTTGTGATGCCTTTGTGGCGTAT
1 TCTGTGATGTCTTTATGGCATATTCTGTGATGCCTTTATGGCGTAT
*
21627830 TATGTGATG
1 TCTGTGATG
21627839 CCTAAGTGGC
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 31 0.65
46 17 0.35
ACGTcount: A:0.14, C:0.13, G:0.27, T:0.46
Consensus pattern (46 bp):
TCTGTGATGTCTTTATGGCATATTCTGTGATGCCTTTATGGCGTAT
Found at i:21627839 original size:23 final size:23
Alignment explanation
Indices: 21627739--21627841 Score: 109
Period size: 23 Copynumber: 4.5 Consensus size: 23
21627729 GGGCTAGTAC
* *
21627739 TCTGCGATGTCTTTATGGCATAT
1 TCTGTGATGCCTTTATGGCATAT
**
21627762 TCTGTGATGCC-TTATGGTGTAT
1 TCTGTGATGCCTTTATGGCATAT
* *
21627784 TCTGTGATGTCTTTGTGGCATAT
1 TCTGTGATGCCTTTATGGCATAT
* * *
21627807 TTTGTGATGCCTTTGTGGCGTAT
1 TCTGTGATGCCTTTATGGCATAT
*
21627830 TATGTGATGCCT
1 TCTGTGATGCCT
21627842 AAGTGGCTAG
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
22 19 0.28
23 48 0.72
ACGTcount: A:0.14, C:0.15, G:0.26, T:0.46
Consensus pattern (23 bp):
TCTGTGATGCCTTTATGGCATAT
Found at i:21634959 original size:40 final size:40
Alignment explanation
Indices: 21634913--21635104 Score: 206
Period size: 40 Copynumber: 4.8 Consensus size: 40
21634903 TATAACCACA
** *
21634913 AGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAGTAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * *
21634953 CA-CACAAATGCCTTCGGATCTTAGTCCGGATAAAATCACT
1 -AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * * * **
21634993 AGCACAATTGCCTTTGGGTCTTAACCCGGGTATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * *
21635033 CGCACAAATGCCTTCGGGTCTTAGTCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* *
21635073 AGCACAATTGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATA
21635105 TCATTCAAAT
Statistics
Matches: 120, Mismatches: 30, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 118 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
Found at i:21635033 original size:80 final size:80
Alignment explanation
Indices: 21634894--21635105 Score: 309
Period size: 80 Copynumber: 2.7 Consensus size: 80
21634884 TCTTCAGAAT
* * * * * *
21634894 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAGTAACTCACAC
1 TTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCACAC
21634958 AAATGCCTTCGGATC
66 AAATGCCTTCGGATC
* * * *
21634973 TTAGTCCGGATAAAATCACTAGCACAATTGCCTTTGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCACAC
*
21635038 AAATGCCTTCGGGTC
66 AAATGCCTTCGGATC
*
21635053 TTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
21635106 CATTCAAATG
Statistics
Matches: 117, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 4 0.03
80 113 0.97
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (80 bp):
TTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCACAC
AAATGCCTTCGGATC
Found at i:21647725 original size:13 final size:13
Alignment explanation
Indices: 21647707--21647731 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21647697 TAATGGTATA
21647707 TTGAATCCATGAC
1 TTGAATCCATGAC
21647720 TTGAATCCATGA
1 TTGAATCCATGA
21647732 AAATTTAGTA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:21649473 original size:49 final size:49
Alignment explanation
Indices: 21649417--21649683 Score: 386
Period size: 47 Copynumber: 5.6 Consensus size: 49
21649407 TATTTGAATA
21649417 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
21649466 AATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
21649515 AATGTGAAAGTG--TATATACGTGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
21649562 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
21649609 AATGTGGAAGTGTACATATATGTGA-AGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
21649657 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
21649684 TCCCGAAGGG
Statistics
Matches: 198, Mismatches: 17, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
46 6 0.03
47 91 0.46
48 31 0.16
49 70 0.35
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:21649546 original size:96 final size:95
Alignment explanation
Indices: 21649417--21649683 Score: 396
Period size: 96 Copynumber: 2.8 Consensus size: 95
21649407 TATTTGAATA
*
21649417 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
21649482 CATATGTGATAAGGCCTAATGGCCGATGTGATG
64 -ATATGTGATAAGGCCTAATGGCCGATGTGATG
*
21649515 AATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT-AT
1 AATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAAT
21649579 ATGTGATAAGGCCTAATGGCCGATGTGATG
66 ATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
21649609 AATGTGGAAGTGTACATATATGTGA-AGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
1 AATGTGAAAGTGT--ATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
21649673 A-ATGTGATAAG
64 ATATGTGATAAG
21649684 TCCCGAAGGG
Statistics
Matches: 157, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
94 44 0.28
95 43 0.27
96 58 0.37
98 12 0.08
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (95 bp):
AATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAAT
ATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:21649858 original size:37 final size:37
Alignment explanation
Indices: 21649802--21649880 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
21649792 CCGAGCTCTA
* * * *
21649802 AAGACCCGATGACTACGTGTGGGGATTTTGTTCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
21649839 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
21649876 AAGAC
1 AAGAC
21649881 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:21656037 original size:22 final size:22
Alignment explanation
Indices: 21656009--21656050 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
21655999 CTATCACTGC
* *
21656009 ACCTTCCAGTGTCAGTGACCGT
1 ACCTTCCAATATCAGTGACCGT
21656031 ACCTTCCAATATCAGTGACC
1 ACCTTCCAATATCAGTGACC
21656051 ACAATAACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (22 bp):
ACCTTCCAATATCAGTGACCGT
Found at i:21658261 original size:25 final size:24
Alignment explanation
Indices: 21658228--21658321 Score: 98
Period size: 25 Copynumber: 3.8 Consensus size: 24
21658218 GCTGTAAATG
21658228 GGAAGCTCATGTGAGCTAGATAACA
1 GGAAGCTCATGTGAGCTA-ATAACA
* *
21658253 GGAAGCTCATGTGACCTAAATAACG
1 GGAAGCTCATGTGAGCT-AATAACA
* *
21658278 GGAAGCTCATGCGAGCTAAGTATCA
1 GGAAGCTCATGTGAGCTAA-TAACA
* **
21658303 GAAAGCTCATAAGAGCTAA
1 GGAAGCTCATGTGAGCTAA
21658322 AATCGGTGAC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
24 2 0.03
25 55 0.95
26 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.19
Consensus pattern (24 bp):
GGAAGCTCATGTGAGCTAATAACA
Found at i:21658322 original size:50 final size:50
Alignment explanation
Indices: 21658227--21658322 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
21658217 AGCTGTAAAT
* * **
21658227 GGGAAGCTCATGTGAGCTAGATAACAGGAAGCTCATGTGACCTAAATAAC
1 GGGAAGCTCATGCGAGCTAGATAACAGAAAGCTCATAAGACCTAAATAAC
* *
21658277 GGGAAGCTCATGCGAGCTA-AGTATCAGAAAGCTCATAAGAGCTAAA
1 GGGAAGCTCATGCGAGCTAGA-TAACAGAAAGCTCATAAGACCTAAA
21658323 ATCGGTGACC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
49 1 0.03
50 38 0.97
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.19
Consensus pattern (50 bp):
GGGAAGCTCATGCGAGCTAGATAACAGAAAGCTCATAAGACCTAAATAAC
Found at i:21659085 original size:16 final size:16
Alignment explanation
Indices: 21659064--21659095 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21659054 TGAGCAAAAT
21659064 AAGCTTGTCCAAATTA
1 AAGCTTGTCCAAATTA
21659080 AAGCTTGTCCAAATTA
1 AAGCTTGTCCAAATTA
21659096 CTAACTTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (16 bp):
AAGCTTGTCCAAATTA
Found at i:21661363 original size:21 final size:21
Alignment explanation
Indices: 21661339--21661382 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
21661329 CTCTTCAATT
21661339 GACACTCACAGCAGACTCAAA
1 GACACTCACAGCAGACTCAAA
*
21661360 GACACTCACAGTAGACTCAAA
1 GACACTCACAGCAGACTCAAA
21661381 GA
1 GA
21661383 AGCTCTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.30, G:0.16, T:0.11
Consensus pattern (21 bp):
GACACTCACAGCAGACTCAAA
Found at i:21687701 original size:27 final size:27
Alignment explanation
Indices: 21687671--21687848 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
21687661 ATATTGAGCC
* *
21687671 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
21687698 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
21687725 CGCACACTTAGTGCTACATAGTCAGGCT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
21687753 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
21687780 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
21687807 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
21687834 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
21687849 GTACAATTTA
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 99 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:21687810 original size:82 final size:81
Alignment explanation
Indices: 21687692--21687847 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
21687682 TGCTATATAA
* * * **
21687692 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGGCTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
21687757 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
21687774 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
21687838 CCCTTAGTGC
65 CACTTAGTGC
21687848 TGTACAATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:21700911 original size:21 final size:21
Alignment explanation
Indices: 21700857--21700924 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
21700847 CAAAACAAAT
*
21700857 AAATATGTGGACA-ACCACCA
1 AAATATGTGGATATACCACCA
* *
21700877 AAAT-TGTAGATATACTACCA
1 AAATATGTGGATATACCACCA
*
21700897 AAATATGTGGATATACCACTA
1 AAATATGTGGATATACCACCA
*
21700918 GAATATG
1 AAATATG
21700925 CAAATCATTA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
19 6 0.15
20 14 0.36
21 19 0.49
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (21 bp):
AAATATGTGGATATACCACCA
Found at i:21707715 original size:14 final size:15
Alignment explanation
Indices: 21707696--21707734 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
21707686 TGCCTTAAAT
21707696 CCCATATTT-TGATA
1 CCCATATTTCTGATA
21707710 CCCATATCTTTCTGATA
1 CCCATA--TTTCTGATA
21707727 CCCATATT
1 CCCATATT
21707735 ATTTGACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.27
15 2 0.09
16 3 0.14
17 11 0.50
ACGTcount: A:0.26, C:0.28, G:0.05, T:0.41
Consensus pattern (15 bp):
CCCATATTTCTGATA
Found at i:21711288 original size:17 final size:17
Alignment explanation
Indices: 21711266--21711298 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
21711256 TCTCATATTT
21711266 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
21711283 TGATACCCATATCTTT
1 TGATACCCATATCTTT
21711299 GACTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:21715883 original size:53 final size:53
Alignment explanation
Indices: 21715739--21715890 Score: 184
Period size: 53 Copynumber: 2.9 Consensus size: 53
21715729 CCATGGGATT
* *
21715739 GAAGACCATATCGTGTAAAACCA-TAACTGGTGGGTTATGGCAT-ATATAGTAA
1 GAAGACCATATCGTGTAAGA-CAGTAACTGGTGGGTTATGGCATCATATAGGAA
* * * * *
21715791 GAAGACCATATCGTGTAAGACTGTAATTGGT-GATATATGGAATCATATGGGAA
1 GAAGACCATATCGTGTAAGACAGTAACTGGTGGGT-TATGGCATCATATAGGAA
* *
21715844 GAAGATCATATAGTGTAAGACAGTAACTGGTGGGTTATGGCATCATA
1 GAAGACCATATCGTGTAAGACAGTAACTGGTGGGTTATGGCATCATA
21715891 CGAAAAATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
51 3 0.04
52 33 0.40
53 45 0.54
54 2 0.02
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.28
Consensus pattern (53 bp):
GAAGACCATATCGTGTAAGACAGTAACTGGTGGGTTATGGCATCATATAGGAA
Found at i:21716115 original size:28 final size:29
Alignment explanation
Indices: 21716038--21716115 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 29
21716028 AAAATTCTGG
* ** * *
21716038 AAGGATAAACCTTTGTGGCAAACCTGTTA
1 AAGGATAAGCCTTTGTGATAAAACTGCTA
* **
21716067 AAAGAT-AGCCTTTGTCCTAAAACT-CTA
1 AAGGATAAGCCTTTGTGATAAAACTGCTA
21716094 AAGGATAAGCCTTTGTGATAAA
1 AAGGATAAGCCTTTGTGATAAA
21716116 CCTATTACTG
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
27 7 0.18
28 26 0.68
29 5 0.13
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (29 bp):
AAGGATAAGCCTTTGTGATAAAACTGCTA
Found at i:21716153 original size:56 final size:56
Alignment explanation
Indices: 21716018--21716165 Score: 147
Period size: 56 Copynumber: 2.6 Consensus size: 56
21716008 AAAAGAACAA
* * * *
21716018 CCTTTGTGGAAAAATTCTGGAAGGATAAACCTTTGTGGCAAACCTGTTAAAAGATAG
1 CCTTTGTGGAAAAATTCT-AAAGGATAAGCCTTTGTGACAAACCTATTAAAAGATAG
*** * * ***
21716075 CCTTTGTCCTAAAACTCTAAAGGATAAGCCTTTGTGATAAACCTATTACTGGAT-G
1 CCTTTGTGGAAAAATTCTAAAGGATAAGCCTTTGTGACAAACCTATTAAAAGATAG
*
21716130 CCTTTGTGGAAAAATTCTAAAAGGA-AAGACTTTGTG
1 CCTTTGTGGAAAAATTCT-AAAGGATAAGCCTTTGTG
21716166 GTGAGTACTT
Statistics
Matches: 73, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
55 25 0.34
56 34 0.47
57 14 0.19
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (56 bp):
CCTTTGTGGAAAAATTCTAAAGGATAAGCCTTTGTGACAAACCTATTAAAAGATAG
Found at i:21727346 original size:21 final size:21
Alignment explanation
Indices: 21727322--21727369 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
21727312 ATTTTATAAA
21727322 ACCACTTGACTTTAAAGTCTT
1 ACCACTTGACTTTAAAGTCTT
21727343 ACCACTTGACTTTAAAGTCTT
1 ACCACTTGACTTTAAAGTCTT
21727364 ACCACT
1 ACCACT
21727370 AGAACTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.35
Consensus pattern (21 bp):
ACCACTTGACTTTAAAGTCTT
Found at i:21731832 original size:19 final size:21
Alignment explanation
Indices: 21731810--21731854 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
21731800 AAAAGTATTA
21731810 ATACCCAT-AAAAAT-TATCG
1 ATACCCATAAAAAATATATCG
*
21731829 ATACCTATAAAAAATATATCG
1 ATACCCATAAAAAATATATCG
21731850 ATACC
1 ATACC
21731855 TTTTATCAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.30
20 6 0.26
21 10 0.43
ACGTcount: A:0.49, C:0.20, G:0.04, T:0.27
Consensus pattern (21 bp):
ATACCCATAAAAAATATATCG
Found at i:21738131 original size:12 final size:12
Alignment explanation
Indices: 21738106--21738144 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
21738096 ACTCGCTTCT
* *
21738106 TTACTTACTCAC
1 TTACTTGCTTAC
*
21738118 TTACTTGTTTAC
1 TTACTTGCTTAC
21738130 TTACTTGCTTAC
1 TTACTTGCTTAC
21738142 TTA
1 TTA
21738145 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:21738486 original size:50 final size:49
Alignment explanation
Indices: 21738414--21738583 Score: 175
Period size: 50 Copynumber: 3.4 Consensus size: 49
21738404 CATCCCAGAT
** * * *
21738414 ATGGTCTTACATGGG-AGTTCTCATATCAGTGCCCATGCCATGTCCTAGAC
1 ATGGTCTTACA-GGGAACCTCTCATCTC-GTGCCAACGCCATGTCCTAGAC
21738464 ATGGTCTTAC-GGGAGACCTCTCATCTCGATGCCAACGCCATGT-CTCAGAC
1 ATGGTCTTACAGGGA-ACCTCTCATCTCG-TGCCAACGCCATGTCCT-AGAC
** * *
21738514 ATTATCTTACATGGAACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACAGGGAACCTCTCATCTC-GTGCCAACGCCATGTCCTAGAC
*
21738564 ATGGTCTTACATGGAACCTC
1 ATGGTCTTACAGGGAACCTC
21738584 ACATAATCTC
Statistics
Matches: 102, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
48 3 0.03
49 3 0.03
50 91 0.89
51 5 0.05
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (49 bp):
ATGGTCTTACAGGGAACCTCTCATCTCGTGCCAACGCCATGTCCTAGAC
Found at i:21746059 original size:50 final size:50
Alignment explanation
Indices: 21745988--21746182 Score: 275
Period size: 50 Copynumber: 3.9 Consensus size: 50
21745978 TTTTCTGTAC
* * ** *
21745988 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
21746038 TGCCCATGCCATGTCCCAGACATGGTCTTACGA-GGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTCGG
*
21746088 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
21746138 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGATCTCTCAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
21746183 AATCTCAATG
Statistics
Matches: 133, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
49 1 0.01
50 131 0.98
51 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:21746180 original size:100 final size:101
Alignment explanation
Indices: 21745939--21746182 Score: 298
Period size: 100 Copynumber: 2.4 Consensus size: 101
21745929 TGATAATACA
* * * * * *
21745939 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGT-T-TTCTGTACTGCCAATGTCATGT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTGTACTGCCAACGCCATGT
**
21746002 CCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
66 CCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * **
21746038 TGCCCATGCCATGTCCCAGACATGGTCTTACGA-GGGACCTCTCATCT-TGGTGCCAACGCCATG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTAC-ATGGGATCTCTCATCTGTACTGCCAACGCCATG
* *
21746101 TCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
65 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
21746138 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGATCTCTCAT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCAT
21746183 AATCTCAATG
Statistics
Matches: 122, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
99 33 0.27
100 86 0.70
101 3 0.02
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (101 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTGTACTGCCAACGCCATGT
CCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:21746207 original size:56 final size:52
Alignment explanation
Indices: 21745938--21746234 Score: 244
Period size: 50 Copynumber: 5.8 Consensus size: 52
21745928 CTGATAATAC
* * * *
21745938 ATGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGT-T-T--TC-TG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCTAATCTTG
* *
21745985 TACTGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGT-TCTC-ATATC--G
1 -A-TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-TCTCTCTA-ATCTTG
* * * *
21746037 GTGCCCATGCCATGTCCCAGACATGGTCTTACGA-GGGA-C-CTCTCATCTTG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTAC-ATGGGATCTCTCTAATCTTG
* *
21746087 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-C-CTCTCATCTTG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCTAATCTTG
* *
21746137 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGAGATCTCTCATAATCTCAATG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTC-TAATCT---TG
** * * *
21746193 ATGTTAATGCCATGTCCCAGACAAGGTATTACATGGGATCTC
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTC
21746235 ATTCCCTTAA
Statistics
Matches: 211, Mismatches: 19, Indels: 30
0.81 0.07 0.12
Matches are distributed among these distances:
48 7 0.03
49 35 0.17
50 119 0.56
51 2 0.01
52 4 0.02
53 7 0.03
56 37 0.18
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (52 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCTAATCTTG
Found at i:21749539 original size:62 final size:62
Alignment explanation
Indices: 21749442--21749569 Score: 238
Period size: 62 Copynumber: 2.1 Consensus size: 62
21749432 ATCAATTGGA
*
21749442 TTTACCTCTATAATTATAGATGGTTCAATTTGAAATTTTAGTGTCCAACTCTACTCGAGTTT
1 TTTACCTCTATAATTATAGATGGTTCAATTTGAAATTTTAGTATCCAACTCTACTCGAGTTT
*
21749504 TTTACCTCTATAATTATAGATGGTTCAATTTGAAATTTTAGTATCTAACTCTACTCGAGTTT
1 TTTACCTCTATAATTATAGATGGTTCAATTTGAAATTTTAGTATCCAACTCTACTCGAGTTT
21749566 TTTA
1 TTTA
21749570 TTAATCAATA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (62 bp):
TTTACCTCTATAATTATAGATGGTTCAATTTGAAATTTTAGTATCCAACTCTACTCGAGTTT
Done.