Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 105 of 141
Found at i:34010122 original size:87 final size:87
Alignment explanation
Indices: 34009971--34010216 Score: 348
Period size: 87 Copynumber: 2.8 Consensus size: 87
34009961 AGATCGGTGA
* * *
34009971 AGATTGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTAGAGCTGGTTAAATATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* ***
34010036 CTTCCTGCATTAACAGCGAAGC
66 CTTCCTACATTAACAAAAAAGC
* **
34010058 AGATCGAAAACAAAACCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
34010123 CTTCCTACATTAACAAAAAATC
66 CTTCCTACATTAACAAAAAAGC
* * * * *
34010145 AGATCGAAAACGAAGTCTTGCCTCTATCGATTGTAGCGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
34010210 CTTCCTA
66 CTTCCTA
34010217 AGCACTAGTG
Statistics
Matches: 140, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 140 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTACATTAACAAAAAAGC
Found at i:34012364 original size:27 final size:26
Alignment explanation
Indices: 34012332--34012386 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
34012322 TTACTGTTTC
* *
34012332 AAGTTATTTTATATGTCATTTTATTTT
1 AAGTTATTTTACATATCA-TTTATTTT
*
34012359 AAGTTATTTTACATATTATTTATTTT
1 AAGTTATTTTACATATCATTTATTTT
34012385 AA
1 AA
34012387 AATTAACCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (26 bp):
AAGTTATTTTACATATCATTTATTTT
Found at i:34016528 original size:29 final size:29
Alignment explanation
Indices: 34016495--34016558 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
34016485 ACGAACGCAT
* ** *
34016495 CTTTTGATAGAGATTTCCACAAAGGCTTC
1 CTTTTAATAGAGATCACCACAAAAGCTTC
34016524 CTTTTAATAGAGATCACCACAAAAGCTTC
1 CTTTTAATAGAGATCACCACAAAAGCTTC
*
34016553 CATTTA
1 CTTTTA
34016559 GAAATAGCCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (29 bp):
CTTTTAATAGAGATCACCACAAAAGCTTC
Found at i:34017211 original size:27 final size:27
Alignment explanation
Indices: 34017181--34017240 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
34017171 TAACATACTA
34017181 ACCATTTAGATTAAT-ATTAAGACCAGG
1 ACCATTTAGATT-ATCATTAAGACCAGG
* *
34017208 ACCATTTGGATTATCATTGAGACCAGG
1 ACCATTTAGATTATCATTAAGACCAGG
*
34017235 ATCATT
1 ACCATT
34017241 CCCGTTTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (27 bp):
ACCATTTAGATTATCATTAAGACCAGG
Found at i:34018147 original size:25 final size:25
Alignment explanation
Indices: 34018117--34018166 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
34018107 TTAAGGGCAT
* *
34018117 GTTGCAGAGTCGTCTATGTCTAGGG
1 GTTGCACAGTCATCTATGTCTAGGG
34018142 GTTGCACAGTCATCTATGTCTAGGG
1 GTTGCACAGTCATCTATGTCTAGGG
34018167 ACTGCACTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (25 bp):
GTTGCACAGTCATCTATGTCTAGGG
Found at i:34018172 original size:25 final size:25
Alignment explanation
Indices: 34018119--34018173 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
34018109 AAGGGCATGT
* * **
34018119 TGCAGAGTCGTCTATGTCTAGGGGT
1 TGCACAGTCATCTATGTCTAGGGAC
34018144 TGCACAGTCATCTATGTCTAGGGAC
1 TGCACAGTCATCTATGTCTAGGGAC
34018169 TGCAC
1 TGCAC
34018174 TCATACAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (25 bp):
TGCACAGTCATCTATGTCTAGGGAC
Found at i:34020964 original size:23 final size:23
Alignment explanation
Indices: 34020938--34020993 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
34020928 TATGACATCA
*
34020938 TTTATGTCACGTGTCATAATCTT
1 TTTATGCCACGTGTCATAATCTT
*
34020961 TTTATGCCATGTGTCATAATCTT
1 TTTATGCCACGTGTCATAATCTT
* *
34020984 ATTCTGCCAC
1 TTTATGCCAC
34020994 TAGTCCTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.45
Consensus pattern (23 bp):
TTTATGCCACGTGTCATAATCTT
Found at i:34025417 original size:17 final size:17
Alignment explanation
Indices: 34025395--34025427 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34025385 AATTCACATG
*
34025395 CTTTTTTTTTCCTTTTT
1 CTTTTTTTGTCCTTTTT
34025412 CTTTTTTTGTCCTTTT
1 CTTTTTTTGTCCTTTT
34025428 GCACACTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (17 bp):
CTTTTTTTGTCCTTTTT
Found at i:34038735 original size:42 final size:42
Alignment explanation
Indices: 34038580--34038736 Score: 160
Period size: 42 Copynumber: 3.7 Consensus size: 42
34038570 ATGTGATTTT
*
34038580 GTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGA-GATTTAC
1 GTGTAAGACCACGTCTAGGACGTTGGCATCG-TTT-ATGA-TTAC
* * *
34038624 GTGTAAGACCATGTCTAGGACATTGGCATCGTATATGATTAC
1 GTGTAAGACCACGTCTAGGACGTTGGCATCGTTTATGATTAC
** *
34038666 GTGTAAGACC-CTGTCCGGGAC-TGTGGCATCGTTGTTTG-TTAC
1 GTGTAAGACCAC-GTCTAGGACGT-TGGCATCGTT-TATGATTAC
*
34038708 ATGTAAGACCACGTCTAGGACGTTGGCAT
1 GTGTAAGACCACGTCTAGGACGTTGGCAT
34038737 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 12, Indels: 14
0.79 0.10 0.12
Matches are distributed among these distances:
41 1 0.01
42 57 0.60
43 9 0.09
44 28 0.29
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCACGTCTAGGACGTTGGCATCGTTTATGATTAC
Found at i:34059099 original size:23 final size:23
Alignment explanation
Indices: 34059071--34059116 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
34059061 TTGATACTAT
*
34059071 TTAAAAATGT-AAAATTAAAATA
1 TTAAAAATCTAAAAATTAAAATA
*
34059093 TTAAAAATCTAAAAATTATAATA
1 TTAAAAATCTAAAAATTAAAATA
34059116 T
1 T
34059117 CATCCAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (23 bp):
TTAAAAATCTAAAAATTAAAATA
Found at i:34062875 original size:23 final size:22
Alignment explanation
Indices: 34062828--34062875 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
34062818 CGATTATGAA
*
34062828 AAACATTAAAAAATTTAATTTT
1 AAACATTAAAAAATTTAATTAT
*
34062850 AAACGATTAATAAATATT-ATTAT
1 AAAC-ATTAAAAAAT-TTAATTAT
34062873 AAA
1 AAA
34062876 ATGTTTGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 4 0.18
23 16 0.73
24 2 0.09
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (22 bp):
AAACATTAAAAAATTTAATTAT
Found at i:34063236 original size:31 final size:31
Alignment explanation
Indices: 34063201--34063301 Score: 93
Period size: 31 Copynumber: 3.2 Consensus size: 31
34063191 AATTGAAATG
34063201 TATTTAATATTCTTACACCAATGTATTTACA
1 TATTTAATATTCTTACACCAATGTATTTACA
* **
34063232 TATTTAAATTTATAT-TTACTCACAAT-T-TAAAC-
1 TATTT-AA--TAT-TCTTACAC-CAATGTATTTACA
*
34063264 TATTTAATATTCTTACACCGATGTATTTACA
1 TATTTAATATTCTTACACCAATGTATTTACA
34063295 TATTTAA
1 TATTTAA
34063302 ATTTATATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 18
0.68 0.09 0.23
Matches are distributed among these distances:
28 4 0.07
29 9 0.17
30 3 0.06
31 14 0.26
32 7 0.13
33 3 0.06
34 9 0.17
35 5 0.09
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.47
Consensus pattern (31 bp):
TATTTAATATTCTTACACCAATGTATTTACA
Found at i:34063300 original size:63 final size:63
Alignment explanation
Indices: 34063201--34063328 Score: 247
Period size: 63 Copynumber: 2.0 Consensus size: 63
34063191 AATTGAAATG
34063201 TATTTAATATTCTTACACCAATGTATTTACATATTTAAATTTATATTTACTCACAATTTAAAC
1 TATTTAATATTCTTACACCAATGTATTTACATATTTAAATTTATATTTACTCACAATTTAAAC
*
34063264 TATTTAATATTCTTACACCGATGTATTTACATATTTAAATTTATATTTACTCACAATTTAAAC
1 TATTTAATATTCTTACACCAATGTATTTACATATTTAAATTTATATTTACTCACAATTTAAAC
34063327 TA
1 TA
34063329 ACTTATTTTA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.38, C:0.14, G:0.02, T:0.46
Consensus pattern (63 bp):
TATTTAATATTCTTACACCAATGTATTTACATATTTAAATTTATATTTACTCACAATTTAAAC
Found at i:34073739 original size:53 final size:53
Alignment explanation
Indices: 34073637--34073789 Score: 173
Period size: 53 Copynumber: 2.9 Consensus size: 53
34073627 GGCGCTAAAG
* * **
34073637 ACCATATCGTGTAAGA-TGTAACTGGTGAGTTATGACATCATATAAAAAGAAA
1 ACCATATCGTGTAAGACCGTAACTGGTGGGTTATGACATCATATGGAAAGAAA
** *
34073689 ATGATATCGTGTAAGACCGTAACTGGTGGGTTATGACATCATATGGAAAGAAT
1 ACCATATCGTGTAAGACCGTAACTGGTGGGTTATGACATCATATGGAAAGAAA
* * * ** * *
34073742 ACCATATTGTATAAGACCATAGTTGGTGGGTTATGGCATTATATGGAA
1 ACCATATCGTGTAAGACCGTAACTGGTGGGTTATGACATCATATGGAA
34073790 GAATTTAATG
Statistics
Matches: 84, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
52 14 0.17
53 70 0.83
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (53 bp):
ACCATATCGTGTAAGACCGTAACTGGTGGGTTATGACATCATATGGAAAGAAA
Found at i:34076063 original size:34 final size:34
Alignment explanation
Indices: 34076025--34076090 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
34076015 AGTAACAAAC
34076025 AATATGCTCATAAC-GATTCAATTTAGTAGCAATT
1 AATATGCTCATAACAGA-TCAATTTAGTAGCAATT
** *
34076059 AATATGCTTGTGACAGATCAATTTAGTAGCAA
1 AATATGCTCATAACAGATCAATTTAGTAGCAA
34076091 AAATCATGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (34 bp):
AATATGCTCATAACAGATCAATTTAGTAGCAATT
Found at i:34078858 original size:119 final size:122
Alignment explanation
Indices: 34078728--34078960 Score: 355
Period size: 119 Copynumber: 1.9 Consensus size: 122
34078718 TTTACTAAGT
* * *
34078728 TAAAATTAGAATAATCTAGAGTTTTCATCTTTGAATAGTTTTAAAATCTAAAAAAAAAATAATGA
1 TAAAATTAGAATAATCTAAAGTTTTCATCTTTAAATAGTTTTAAAATCTAAAAAAAAAATAATAA
*
34078793 TAATTTTATAAAATCTAAAA-TT-TT-TTATTATTATTTTTTTAGAAAATATAATTG
66 GAATTTTATAAAATCTAAAAGTTGTTATTATTATTATTTTTTTAGAAAATATAATTG
* ****
34078847 TAAAATTAGAATAATCTAAAGTTTTCATCTTTAAATAGTTTTAAAATCTAAACAACTTTTAATAA
1 TAAAATTAGAATAATCTAAAGTTTTCATCTTTAAATAGTTTTAAAATCTAAAAAAAAAATAATAA
*
34078912 GAATTTTATAATATCTAAAAGTTGTTATTATTATTATTTTTTTAGAAAA
66 GAATTTTATAAAATCTAAAAGTTGTTATTATTATTATTTTTTTAGAAAA
34078961 ATGGAATTCT
Statistics
Matches: 101, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
119 75 0.74
120 2 0.02
121 2 0.02
122 22 0.22
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.44
Consensus pattern (122 bp):
TAAAATTAGAATAATCTAAAGTTTTCATCTTTAAATAGTTTTAAAATCTAAAAAAAAAATAATAA
GAATTTTATAAAATCTAAAAGTTGTTATTATTATTATTTTTTTAGAAAATATAATTG
Found at i:34079722 original size:49 final size:50
Alignment explanation
Indices: 34079621--34079725 Score: 149
Period size: 49 Copynumber: 2.1 Consensus size: 50
34079611 TATGGGTAGT
* ** *
34079621 GTTTTAGTGTTTAGGGTTAGGATGTTTGAAAAAATAAATTTGGGTTTAGG
1 GTTTTAGGGTTTAGCATTAGGATGTTTGAAAAAATAAATTAGGGTTTAGG
* *
34079671 GTTTTAGGGTTTAGCATTAGGGTTTTTG-AAAAATAAATTAGGGTTTAGG
1 GTTTTAGGGTTTAGCATTAGGATGTTTGAAAAAATAAATTAGGGTTTAGG
34079720 GTTTTA
1 GTTTTA
34079726 AAAAAATAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
49 26 0.53
50 23 0.47
ACGTcount: A:0.28, C:0.01, G:0.29, T:0.43
Consensus pattern (50 bp):
GTTTTAGGGTTTAGCATTAGGATGTTTGAAAAAATAAATTAGGGTTTAGG
Found at i:34080085 original size:126 final size:126
Alignment explanation
Indices: 34079823--34080481 Score: 795
Period size: 126 Copynumber: 5.3 Consensus size: 126
34079813 TTGTACAGTT
* * * * * *
34079823 AGCAAAAGCACTGAAAAAAGCTCTCAACTGGACACTTTTTTTGTATAGTTGTTTCT-GAAAAATA
1 AGCAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTCTTTTTGTACAGTTGTTTCTAAAAAAATA
* * * * * * *
34079887 ATTTTGAGAAGATGGATAT-AAAAAATATGTTGAAAAATGATTCAAGCAAGATGCATTGCC
66 ATTTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAATGCTTCAAGCAGGATGCACTGTC
* * * * * ** *
34079947 AGCAAAATTACTGAAAGAAGCTCTCAGTTGGACGCTCTTTTTGTATGGTTGCTTCTAAAAAAATA
1 AGCAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTCTTTTTGTACAGTTGTTTCTAAAAAAATA
* * *
34080012 ATTTTGAGAAGATGGTTTTGAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTATC
66 ATTTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAATGCTTCAAGCAGGATGCACTGTC
* * * * * * * * *
34080073 AGAAAAAATACTGAAAAAAGTTCCCAGCTAGACATTTTTTTTGTACAATTGTTTCTGAAAGAATA
1 AGCAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTCTTTTTGTACAGTTGTTTCTAAAAAAATA
* * * *
34080138 ATTTTAAGAAGATGGTTCTGAAAAAATAGGTTGAAAAATGTTTCAAGTAGGATGCACTGTT
66 ATTTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAATGCTTCAAGCAGGATGCACTGTC
* * * * *
34080199 AGCAAATGTACTGAAAAAAGCTCCTAGCAGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATA
1 AGCAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTCTTTTTGTACAGTTGTTTCTAAAAAAATA
* * * * *
34080264 ATTTTGAGAAGATGGTTCTGAAAAAATAGGTTAAAAAACGCTTCAAACAAGATGCACTATC
66 ATTTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAATGCTTCAAGCAGGATGCACTGTC
* * *
34080325 AGCAAAAGTACT-AAAAAAGATCCCAACTAGACACTCTTTTTGTACAGTTGTTTCTAAAAAAATA
1 AGCAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTCTTTTTGTACAGTTGTTTCTAAAAAAATA
* *
34080389 ATTTCGAGAAGATGGTTTTGAAAAAATAGGTTGAAAAATGCTTCAAGCAGGATTG-ACTGTC
66 ATTTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAATGCTTCAAGCAGGA-TGCACTGTC
* *
34080450 AGCAGAAGTACTGAAAAAAGCTCCCAACTGGA
1 AGCAAAAGTACTGAAAAAAGCTCCCAGCTGGA
34080482 TGCTTTTTTC
Statistics
Matches: 450, Mismatches: 81, Indels: 6
0.84 0.15 0.01
Matches are distributed among these distances:
124 47 0.10
125 131 0.29
126 272 0.60
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (126 bp):
AGCAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTCTTTTTGTACAGTTGTTTCTAAAAAAATA
ATTTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAATGCTTCAAGCAGGATGCACTGTC
Found at i:34102220 original size:84 final size:84
Alignment explanation
Indices: 34102079--34102243 Score: 258
Period size: 84 Copynumber: 2.0 Consensus size: 84
34102069 TGTTTCGAAG
* * *
34102079 CATTATAGGGAAGAAGGTGCAGATCACCTACCTGTTGGTTGGAACTCGGTGAGAGAAAGATAATT
1 CATTATAGGGAAGAAGGTGCAGATCACATACCTATTGGTTGGAACTCAGTGAGAGAAAGATAATT
34102144 GGTCTTGACTTCGTACAAA
66 GGTCTTGACTTCGTACAAA
* ** * *
34102163 CATTATAGGGAAGAAGGTGCAGATCATATACCTATTGGTTTTAACTCAGTGATAGAAAGTTAATT
1 CATTATAGGGAAGAAGGTGCAGATCACATACCTATTGGTTGGAACTCAGTGAGAGAAAGATAATT
34102228 GGTCTTGACTTCGTAC
66 GGTCTTGACTTCGTAC
34102244 GAGAAACAGA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 73 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (84 bp):
CATTATAGGGAAGAAGGTGCAGATCACATACCTATTGGTTGGAACTCAGTGAGAGAAAGATAATT
GGTCTTGACTTCGTACAAA
Found at i:34106979 original size:11 final size:10
Alignment explanation
Indices: 34106948--34106986 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
34106938 GAAAATGATC
*
34106948 AAAATTAATC
1 AAAATTAATT
*
34106958 AAAATTTATT
1 AAAATTAATT
34106968 ATAAATTAATT
1 A-AAATTAATT
34106979 AAAATTAA
1 AAAATTAA
34106987 ACATGTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAATTAATT
Found at i:34107271 original size:37 final size:37
Alignment explanation
Indices: 34107221--34107350 Score: 104
Period size: 37 Copynumber: 3.4 Consensus size: 37
34107211 ATTCTTCCCA
34107221 AAATTATGAATTTAGTATACTTATGCCCAAGAACAAG
1 AAATTATGAATTTAGTATACTTATGCCCAAGAACAAG
* ** ** * *
34107258 AAATT-TGATATTTATGCTACTTAATTATAG-ATATCATTCAAA
1 AAATTATGA-ATTTA-G-TA--TACTTAT-GCCCAAGA-ACAAG
34107300 AAATTATGAATTTAGTATACTTATGCCCAAGAACAAG
1 AAATTATGAATTTAGTATACTTATGCCCAAGAACAAG
34107337 AAATT-TGATATTTA
1 AAATTATGA-ATTTA
34107351 TGCTACTTAA
Statistics
Matches: 69, Mismatches: 14, Indels: 20
0.67 0.14 0.19
Matches are distributed among these distances:
36 6 0.09
37 24 0.35
38 9 0.13
39 2 0.03
40 2 0.03
41 9 0.13
42 14 0.20
43 3 0.04
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (37 bp):
AAATTATGAATTTAGTATACTTATGCCCAAGAACAAG
Found at i:34107351 original size:79 final size:79
Alignment explanation
Indices: 34107220--34107378 Score: 309
Period size: 79 Copynumber: 2.0 Consensus size: 79
34107210 AATTCTTCCC
34107220 AAAATTATGAATTTAGTATACTTATGCCCAAGAACAAGAAATTTGATATTTATGCTACTTAATTA
1 AAAATTATGAATTTAGTATACTTATGCCCAAGAACAAGAAATTTGATATTTATGCTACTTAATTA
*
34107285 TAGATATCATTCAA
66 TACATATCATTCAA
34107299 AAAATTATGAATTTAGTATACTTATGCCCAAGAACAAGAAATTTGATATTTATGCTACTTAATTA
1 AAAATTATGAATTTAGTATACTTATGCCCAAGAACAAGAAATTTGATATTTATGCTACTTAATTA
34107364 TACATATCATTCAA
66 TACATATCATTCAA
34107378 A
1 A
34107379 TTAATCTCAA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (79 bp):
AAAATTATGAATTTAGTATACTTATGCCCAAGAACAAGAAATTTGATATTTATGCTACTTAATTA
TACATATCATTCAA
Found at i:34122021 original size:36 final size:36
Alignment explanation
Indices: 34121974--34122045 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
34121964 GGTTTAAGTA
34121974 TTCTCAAACTTCTCTACTATTTTATTGATTACTGTT
1 TTCTCAAACTTCTCTACTATTTTATTGATTACTGTT
34122010 TTCTCAAACTTCTCTACTATTTTATTGATTACTGTT
1 TTCTCAAACTTCTCTACTATTTTATTGATTACTGTT
34122046 CATACTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.19, G:0.06, T:0.53
Consensus pattern (36 bp):
TTCTCAAACTTCTCTACTATTTTATTGATTACTGTT
Found at i:34126655 original size:13 final size:13
Alignment explanation
Indices: 34126637--34126664 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
34126627 TTTGTATGAA
34126637 ATTAATTTATTAT
1 ATTAATTTATTAT
34126650 ATTAATTTATTAT
1 ATTAATTTATTAT
34126663 AT
1 AT
34126665 AGATCAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTAATTTATTAT
Found at i:34126904 original size:40 final size:40
Alignment explanation
Indices: 34126846--34126991 Score: 186
Period size: 40 Copynumber: 3.6 Consensus size: 40
34126836 AACTATTGAA
* * *
34126846 TGTTTGCACATTCATGCCCCTGTCTGTACTTTGGTACCCT
1 TGTTTGCACATACATGCCCCTGTTTGTACTTTAGTACCCT
* * ** *
34126886 TATTTGCATATATGTGCCCATGTTTGTACTTTAGTA-CCT
1 TGTTTGCACATACATGCCCCTGTTTGTACTTTAGTACCCT
* *
34126925 CTGTTTGCACATACATGCCCCTGTTTGTACTTCAGTACCCC
1 -TGTTTGCACATACATGCCCCTGTTTGTACTTTAGTACCCT
34126966 TGTTTGCACATACATGCCCCTGTTTG
1 TGTTTGCACATACATGCCCCTGTTTG
34126992 CACATACATG
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.03
40 84 0.94
41 2 0.02
ACGTcount: A:0.16, C:0.27, G:0.16, T:0.40
Consensus pattern (40 bp):
TGTTTGCACATACATGCCCCTGTTTGTACTTTAGTACCCT
Found at i:34126929 original size:20 final size:20
Alignment explanation
Indices: 34126906--34126971 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
34126896 TATGTGCCCA
*
34126906 TGTTTGTACTTTAGTACCTC
1 TGTTTGTACTTTAGTACCCC
* * * *
34126926 TGTTTGCAC-ATACATGCCCC
1 TGTTTGTACTTTA-GTACCCC
*
34126946 TGTTTGTACTTCAGTACCCC
1 TGTTTGTACTTTAGTACCCC
34126966 TGTTTG
1 TGTTTG
34126972 CACATACATG
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 2 0.06
20 31 0.91
21 1 0.03
ACGTcount: A:0.15, C:0.26, G:0.17, T:0.42
Consensus pattern (20 bp):
TGTTTGTACTTTAGTACCCC
Found at i:34126985 original size:20 final size:20
Alignment explanation
Indices: 34126925--34127091 Score: 196
Period size: 20 Copynumber: 8.3 Consensus size: 20
34126915 TTTAGTACCT
34126925 CTGTTTGCACATACATGCCC
1 CTGTTTGCACATACATGCCC
* * *
34126945 CTGTTTGTAC-TTCAGTACCC
1 CTGTTTGCACATACA-TGCCC
34126965 CTGTTTGCACATACATGCCC
1 CTGTTTGCACATACATGCCC
34126985 CTGTTTGCACATACATGCCC
1 CTGTTTGCACATACATGCCC
* *
34127005 CTGTTTGCAC-TTCAATACCC
1 CTGTTTGCACATAC-ATGCCC
34127025 CTGTTTGCACATACATGCCC
1 CTGTTTGCACATACATGCCC
* * *
34127045 ATGTTTGCAC-TTCAGTACCC
1 CTGTTTGCACATACA-TGCCC
*
34127065 CTGTTTGCACATACGTGCCC
1 CTGTTTGCACATACATGCCC
*
34127085 CTATTTG
1 CTGTTTG
34127092 TACTTCGGTA
Statistics
Matches: 123, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
19 8 0.07
20 108 0.88
21 7 0.06
ACGTcount: A:0.19, C:0.33, G:0.15, T:0.34
Consensus pattern (20 bp):
CTGTTTGCACATACATGCCC
Found at i:34126999 original size:60 final size:60
Alignment explanation
Indices: 34126925--34127074 Score: 239
Period size: 60 Copynumber: 2.5 Consensus size: 60
34126915 TTTAGTACCT
* *
34126925 CTGTTTGCACATACATGCCCCTGTTTGTACTTCAGTACCCCTGTTTGCACATACATGCCC
1 CTGTTTGCACATACATGCCCCTGTTTGCACTTCAATACCCCTGTTTGCACATACATGCCC
34126985 CTGTTTGCACATACATGCCCCTGTTTGCACTTCAATACCCCTGTTTGCACATACATGCCC
1 CTGTTTGCACATACATGCCCCTGTTTGCACTTCAATACCCCTGTTTGCACATACATGCCC
* * *
34127045 ATGTTTGCAC-TTCAGTACCCCTGTTTGCAC
1 CTGTTTGCACATACA-TGCCCCTGTTTGCAC
34127075 ATACGTGCCC
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
59 3 0.04
60 81 0.96
ACGTcount: A:0.19, C:0.33, G:0.15, T:0.33
Consensus pattern (60 bp):
CTGTTTGCACATACATGCCCCTGTTTGCACTTCAATACCCCTGTTTGCACATACATGCCC
Found at i:34132132 original size:46 final size:46
Alignment explanation
Indices: 34132065--34132158 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
34132055 TCCAACGGCC
34132065 TACCCCCTAATGTAAAATATTTTAGACCTCCAAAATACCTATTTCT
1 TACCCCCTAATGTAAAATATTTTAGACCTCCAAAATACCTATTTCT
34132111 TACCCCCTAATGTAAAATATTTTAGACCTCCAAAATACCTATTTCT
1 TACCCCCTAATGTAAAATATTTTAGACCTCCAAAATACCTATTTCT
34132157 TA
1 TA
34132159 ACCTAAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (46 bp):
TACCCCCTAATGTAAAATATTTTAGACCTCCAAAATACCTATTTCT
Found at i:34132154 original size:22 final size:22
Alignment explanation
Indices: 34132082--34132154 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
34132072 TAATGTAAAA
34132082 TATTTTAGACCTCCAAAATACC
1 TATTTTAGACCTCCAAAATACC
* * ** **
34132104 TATTTCT-TACCCCCTAATGTAAAA
1 TATTT-TAGACCTCC-AAAAT-ACC
34132128 TATTTTAGACCTCCAAAATACC
1 TATTTTAGACCTCCAAAATACC
34132150 TATTT
1 TATTT
34132155 CTTAACCTAA
Statistics
Matches: 35, Mismatches: 12, Indels: 8
0.64 0.22 0.15
Matches are distributed among these distances:
22 16 0.46
23 8 0.23
24 11 0.31
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (22 bp):
TATTTTAGACCTCCAAAATACC
Found at i:34141051 original size:25 final size:25
Alignment explanation
Indices: 34141011--34141099 Score: 99
Period size: 25 Copynumber: 3.6 Consensus size: 25
34141001 CATGTACATG
* *
34141011 TATGCTCACACAAGTTATAAAACGA
1 TATGCTCACACGAGTTATAAATCGA
* * *
34141036 TATGCTCTCACGAGTTGTAAATCGG
1 TATGCTCACACGAGTTATAAATCGA
*
34141061 TATGCTCACACGAGCTATAAATC-A
1 TATGCTCACACGAGTTATAAATCGA
*
34141085 GTATGCTCTCACGAG
1 -TATGCTCACACGAG
34141100 ATGTGGGTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (25 bp):
TATGCTCACACGAGTTATAAATCGA
Found at i:34146585 original size:17 final size:17
Alignment explanation
Indices: 34146563--34146597 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
34146553 CTGAAAAACA
34146563 ATAAAGATTCACTAATT
1 ATAAAGATTCACTAATT
*
34146580 ATAAAGATTCATTAATT
1 ATAAAGATTCACTAATT
34146597 A
1 A
34146598 CTATCTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.37
Consensus pattern (17 bp):
ATAAAGATTCACTAATT
Found at i:34147594 original size:10 final size:9
Alignment explanation
Indices: 34147579--34147617 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
34147569 TATCAAACTT
34147579 ATAATATAA
1 ATAATATAA
34147588 CATAATATAA
1 -ATAATATAA
*
34147598 ATATTATAA
1 ATAATATAA
34147607 ATAATTATAA
1 ATAA-TATAA
34147617 A
1 A
34147618 ACAAATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 11 0.42
10 15 0.58
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (9 bp):
ATAATATAA
Found at i:34147822 original size:29 final size:29
Alignment explanation
Indices: 34147780--34147841 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
34147770 ATATCAGATG
34147780 TTACCACACATAAACACTTAGCAAAAATT
1 TTACCACACATAAACACTTAGCAAAAATT
34147809 TTACCACACATAAACACTTAGCAAAAATT
1 TTACCACACATAAACACTTAGCAAAAATT
34147838 TTAC
1 TTAC
34147842 AACCAGCGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.47, C:0.24, G:0.03, T:0.26
Consensus pattern (29 bp):
TTACCACACATAAACACTTAGCAAAAATT
Found at i:34165208 original size:38 final size:39
Alignment explanation
Indices: 34165154--34165229 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 39
34165144 ATAAAATTAT
*
34165154 CCAATTACCCAACCCAATAAAACTAAAACTAAAGTCTAC
1 CCAATTACCCAACCCAATAAAAATAAAACTAAAGTCTAC
34165193 CCAATTA-CCAACCCAATAAAAATAAAACTAAAGTCTA
1 CCAATTACCCAACCCAATAAAAATAAAACTAAAGTCTA
34165230 ACTCTAAGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 29 0.81
39 7 0.19
ACGTcount: A:0.51, C:0.28, G:0.03, T:0.18
Consensus pattern (39 bp):
CCAATTACCCAACCCAATAAAAATAAAACTAAAGTCTAC
Found at i:34165414 original size:9 final size:9
Alignment explanation
Indices: 34165400--34165439 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
34165390 GTAGTGATTC
34165400 AATTCGGGT
1 AATTCGGGT
*
34165409 AATTCGGTT
1 AATTCGGGT
*
34165418 AATTCAGGT
1 AATTCGGGT
*
34165427 AATTCGGTT
1 AATTCGGGT
34165436 AATT
1 AATT
34165440 TTTAACCAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.40
Consensus pattern (9 bp):
AATTCGGGT
Found at i:34165427 original size:18 final size:18
Alignment explanation
Indices: 34165400--34165439 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
34165390 GTAGTGATTC
*
34165400 AATTCGGGTAATTCGGTT
1 AATTCAGGTAATTCGGTT
34165418 AATTCAGGTAATTCGGTT
1 AATTCAGGTAATTCGGTT
34165436 AATT
1 AATT
34165440 TTTAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.40
Consensus pattern (18 bp):
AATTCAGGTAATTCGGTT
Found at i:34165531 original size:24 final size:24
Alignment explanation
Indices: 34165504--34165559 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
34165494 ATTAACCGAA
*
34165504 AAAAATTTGGTTCGATTAATGTTT
1 AAAAATTTGGTTCGATTAATGGTT
*** *
34165528 AAAAAAACGGTTCGGTTAATGGTT
1 AAAAATTTGGTTCGATTAATGGTT
34165552 AAAAATTT
1 AAAAATTT
34165560 TAGAAGGTCG
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.38
Consensus pattern (24 bp):
AAAAATTTGGTTCGATTAATGGTT
Found at i:34165707 original size:39 final size:38
Alignment explanation
Indices: 34165663--34165761 Score: 99
Period size: 38 Copynumber: 2.6 Consensus size: 38
34165653 GTCAACATAA
** *
34165663 GCCGACCCTTATTGAAAGGTTGGGAAATACCTAGTCAAG
1 GCCGACCCTTA-AAAAAGGTTGGGAAAGACCTAGTCAAG
* * *
34165702 GCCGACCTTTAAAAAAGGTTGGGATAGACCTAGTTAAG
1 GCCGACCCTTAAAAAAGGTTGGGAAAGACCTAGTCAAG
* * * *
34165740 GCCAACCTTTGAAAATGGTTGG
1 GCCGACCCTTAAAAAAGGTTGG
34165762 CATAGACCCG
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
38 41 0.80
39 10 0.20
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (38 bp):
GCCGACCCTTAAAAAAGGTTGGGAAAGACCTAGTCAAG
Found at i:34165799 original size:73 final size:73
Alignment explanation
Indices: 34165713--34166158 Score: 433
Period size: 72 Copynumber: 6.1 Consensus size: 73
34165703 CCGACCTTTA
* * * * * *
34165713 AAAAAGGTTGGGATAGACCTAGT-TAAGGCCAACCTTTGAAAATGGTTGGCATAGACCCGTTTAA
1 AAAAAGGTTGGGATAGACCTAGTCTAA-GACAACCTTTAAAAAAGGTTGGGATAGACCCATCTAA
34165777 GGCAACCTT
65 GGCAACCTT
* *
34165786 AAAAAGGTTGGGATAGACC-AGTCTAAGATAACCTTTAAAAAACGTTGGGATAGACCTCATCTAA
1 AAAAAGGTTGGGATAGACCTAGTCTAAGACAACCTTTAAAAAAGGTTGGGATAGACC-CATCTAA
**
34165850 AACAACCTTT
65 GGCAACC-TT
** ** * * * * *
34165860 AAAATATATTAAGATAGACCTA-TCTAAGGCAACC-TTAAAAAAAGTTGGGATAGGCTCATTTAA
1 AAAA-AGGTTGGGATAGACCTAGTCTAAGACAACCTTTAAAAAAGGTTGGGATAGACCCATCTAA
34165923 GGCAACCTT
65 GGCAACCTT
* * *
34165932 AAAAAGGTTGGGATAGACCTTA-TTTAAGGCAAGCC-TTAAAAAAGGTTGGGATAAACCCATCTA
1 AAAAAGGTTGGGATAGACC-TAGTCTAAGACAA-CCTTTAAAAAAGGTTGGGATAGACCCATCTA
* *
34165995 AAGCAACCCT
64 AGGCAACCTT
* * **** *
34166005 AAAAAGGTTGGGATAGACCTTGTCTAAGACAACCTTT-AAAAAGGTTGAGATAGAGTTGTCTAAT
1 AAAAAGGTTGGGATAGACCTAGTCTAAGACAACCTTTAAAAAAGGTTGGGATAGACCCATCTAAG
*
34166069 ACAACCTT
66 GCAACCTT
* * *
34166077 AAAAAGGTTGGGATATACCTTA-TCTAAGAAAACCTTT-AAAAAGGTTGGGATAGACCCGTCTAA
1 AAAAAGGTTGGGATAGACC-TAGTCTAAGACAACCTTTAAAAAAGGTTGGGATAGACCCATCTAA
*
34166140 GGCAGCCTT
65 GGCAACCTT
*
34166149 TAAAAGGTTG
1 AAAAAGGTTG
34166159 AGCTAAACCT
Statistics
Matches: 306, Mismatches: 57, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
71 11 0.04
72 142 0.46
73 106 0.35
74 25 0.08
75 21 0.07
76 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (73 bp):
AAAAAGGTTGGGATAGACCTAGTCTAAGACAACCTTTAAAAAAGGTTGGGATAGACCCATCTAAG
GCAACCTT
Found at i:34165802 original size:35 final size:35
Alignment explanation
Indices: 34165713--34166214 Score: 349
Period size: 35 Copynumber: 13.9 Consensus size: 35
34165703 CCGACCTTTA
*
34165713 AAAAAGGTTGGGATAGACCTAGT-TAAGGCCAACCTTT
1 AAAAAGGTTGGGATAGACC-CGTCTAAGG-CAACC-TT
* * *
34165750 GAAAATGGTTGGCATAGACCCGTTTAAGGCAACCTT
1 -AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
* **
34165786 AAAAAGGTTGGGATAGACCAGTCTAAGATAACCTTT
1 AAAAAGGTTGGGATAGACCCGTCTAAGGCAACC-TT
* * **
34165822 AAAAAACGTTGGGATAGACCTCATCTAAAACAACCTTT
1 -AAAAAGGTTGGGATAGACC-CGTCTAAGGCAACC-TT
** ** **
34165860 AAAATATATTAAGATAGACCTATCTAAGGCAACCTT
1 AAAA-AGGTTGGGATAGACCCGTCTAAGGCAACCTT
* * * * *
34165896 AAAAAAAGTTGGGATAGGCTCATTTAAGGCAACCTT
1 -AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
** *
34165932 AAAAAGGTTGGGATAGACCTTATTTAAGGCAAGCCTT
1 AAAAAGGTTGGGATAGACC-CGTCTAAGGCAA-CCTT
* * * *
34165969 AAAAAAGGTTGGGATAAACCCATCTAAAGCAACCCT
1 -AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
* *
34166005 AAAAAGGTTGGGATAGACCTTGTCTAAGACAACCTTT
1 AAAAAGGTTGGGATAGACC-CGTCTAAGGCAACC-TT
* *** **
34166042 AAAAAGGTTGAGATAGAGTTGTCTAATACAACCTT
1 AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
* ** **
34166077 AAAAAGGTTGGGATATACCTTATCTAAGAAAACCTTT
1 AAAAAGGTTGGGATAGACC-CGTCTAAGGCAACC-TT
*
34166114 AAAAAGGTTGGGATAGACCCGTCTAAGGCAGCCTT
1 AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
* * * * * * **
34166149 TAAAAGGTTGAGCTAAACCTGTTTAAGGCAGTCTT
1 AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
* * * *
34166184 AAAAATGTTGGAATAAACACGTCTAAGGCAA
1 AAAAAGGTTGGGATAGACCCGTCTAAGGCAA
34166215 TTTTTTTTCT
Statistics
Matches: 374, Mismatches: 77, Indels: 29
0.78 0.16 0.06
Matches are distributed among these distances:
35 130 0.35
36 86 0.23
37 94 0.25
38 64 0.17
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (35 bp):
AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
Found at i:34165833 original size:110 final size:106
Alignment explanation
Indices: 34165706--34166153 Score: 384
Period size: 109 Copynumber: 4.1 Consensus size: 106
34165696 GTCAAGGCCG
34165706 ACCTTTAAAAAAGGTTGGGATAGACCTAGTTAAGGCCAACCTTTGAAAATGGTTGGCATAGACCC
1 ACCTTTAAAAAAGGTTGGGATAGACCTA-TTAAGG-CAACCTTT-AAAATGGTTGG-ATAGACCC
* * *
34165771 GTTTAAGGCAACCTTAAAAAGGTTGGGATAGACCAGTCTAAGATA
62 ATCTAAGGCAACCTTAAAAAGGTTGGGATAGACCAGTCTAAGACA
* ** ** * *
34165816 ACCTTTAAAAAACGTTGGGATAGACCTCATCTAAAACAACCTTTAAAATATATTAAGATAGACCT
1 ACCTTTAAAAAAGGTTGGGATAGACCT-AT-TAAGGCAACCTTTAAAAT-GGTT-GGATAGACCC
* * * *
34165881 ATCTAAGGCAACCTTAAAAAAAGTTGGGATAGGCTCA-TTTAAGGCA
62 ATCTAAGGCAACCTT-AAAAAGGTTGGGATAGAC-CAGTCTAAGACA
* * *
34165927 ACC-TT-AAAAAGGTTGGGATAGACCTTATTTAAGGCAAGCCTTAAAAAAGGTTGGGATAAACCC
1 ACCTTTAAAAAAGGTTGGGATAGACC-TA-TTAAGGCAA-CCTTTAAAATGGTT-GGATAGACCC
* * *
34165990 ATCTAAAGCAACCCTAAAAAGGTTGGGATAGACCTTGTCTAAGACA
62 ATCTAAGGCAACCTTAAAAAGGTTGGGATAGACC-AGTCTAAGACA
* ** * ** * * *
34166036 ACCTTT-AAAAAGGTTGAGATAGAGTTGTCTAATACAACC-TTAAAAAGGTTGGGATATACCTTA
1 ACCTTTAAAAAAGGTTGGGATAGACCTAT-TAAGGCAACCTTTAAAATGGTT-GGATAGACC-CA
** * *
34166099 TCTAAGAAAACCTTTAAAAAGGTTGGGATAGACCCGTCTAAGGCA
63 TCTAAGGCAACC-TTAAAAAGGTTGGGATAGACCAGTCTAAGACA
*
34166144 GCCTTTAAAA
1 ACCTTTAAAA
34166154 GGTTGAGCTA
Statistics
Matches: 274, Mismatches: 48, Indels: 33
0.77 0.14 0.09
Matches are distributed among these distances:
107 20 0.07
108 43 0.16
109 92 0.34
110 87 0.32
111 30 0.11
112 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (106 bp):
ACCTTTAAAAAAGGTTGGGATAGACCTATTAAGGCAACCTTTAAAATGGTTGGATAGACCCATCT
AAGGCAACCTTAAAAAGGTTGGGATAGACCAGTCTAAGACA
Found at i:34165912 original size:36 final size:36
Alignment explanation
Indices: 34165677--34166158 Score: 370
Period size: 38 Copynumber: 13.2 Consensus size: 36
34165667 ACCCTTATTG
* * *
34165677 AAAGGTTGGGAAATACCTAGTC-AAGGCCGACCTTTAAA
1 AAAGGTTGGGATAGACCTA-TCTAAGG-CAACC-TTAAA
*
34165715 AAAGGTTGGGATAGACCTAGT-TAAGGCCAACCTTTGAA
1 AAAGGTTGGGATAGACCTA-TCTAAGG-CAACC-TTAAA
* * ** *
34165753 AATGGTTGGCATAGACCCGTTTAAGGCAACCTT-AA
1 AAAGGTTGGGATAGACCTATCTAAGGCAACCTTAAA
**
34165788 AAAGGTTGGGATAGACC-AGTCTAAGATAACCTTTAAA
1 AAAGGTTGGGATAGACCTA-TCTAAGGCAACC-TTAAA
* **
34165825 AAACGTTGGGATAGACCTCATCTAAAACAACCTTTAAA
1 AAAGGTTGGGATAGACCT-ATCTAAGGCAACC-TTAAA
* ** **
34165863 ATATATTAAGATAGACCTATCTAAGGCAACCTTAAA
1 AAAGGTTGGGATAGACCTATCTAAGGCAACCTTAAA
* * *
34165899 AAAAGTTGGGATAG-GCTCATTTAAGGCAACCTT-AA
1 AAAGGTTGGGATAGACCT-ATCTAAGGCAACCTTAAA
*
34165934 AAAGGTTGGGATAGACCTTATTTAAGGCAAGCCTTAAA
1 AAAGGTTGGGATAGACC-TATCTAAGGCAA-CCTTAAA
* * * *
34165972 AAAGGTTGGGATAAACCCATCTAAAGCAACCCT-AA
1 AAAGGTTGGGATAGACCTATCTAAGGCAACCTTAAA
* * *
34166007 AAAGGTTGGGATAGACCTTGTCTAAGACAACCTTTAA
1 AAAGGTTGGGATAGACC-TATCTAAGGCAACCTTAAA
* ** * **
34166044 AAAGGTTGAGATAGAGTTGTCTAATACAACCTT-AA
1 AAAGGTTGGGATAGACCTATCTAAGGCAACCTTAAA
* ** *
34166079 AAAGGTTGGGATATACCTTATCTAAGAAAACCTTTAA
1 AAAGGTTGGGATAGACC-TATCTAAGGCAACCTTAAA
** * *
34166116 AAAGGTTGGGATAGACCCGTCTAAGGCAGCCTT-TA
1 AAAGGTTGGGATAGACCTATCTAAGGCAACCTTAAA
34166151 AAAGGTTG
1 AAAGGTTG
34166159 AGCTAAACCT
Statistics
Matches: 366, Mismatches: 62, Indels: 35
0.79 0.13 0.08
Matches are distributed among these distances:
35 85 0.23
36 97 0.27
37 83 0.23
38 100 0.27
39 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (36 bp):
AAAGGTTGGGATAGACCTATCTAAGGCAACCTTAAA
Found at i:34167794 original size:22 final size:22
Alignment explanation
Indices: 34167764--34167805 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
34167754 ACACCAAAAC
*
34167764 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
34167786 AGGCCTTTAGCGGCGCTTTT
1 AGGCCTTTAGCGGCGCTTTT
34167806 AAGCGCCGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.10, C:0.21, G:0.29, T:0.40
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:34168044 original size:43 final size:43
Alignment explanation
Indices: 34167880--34168119 Score: 182
Period size: 43 Copynumber: 5.6 Consensus size: 43
34167870 CATTTTTTAT
* * * * *
34167880 CTTTGACCACAAACGCCACTAAAGAACCC-AATCTTTAGCGACG
1 CTTTCACCAAAAACGCCGCTAAAG-ACCCTGATCTTTAGCGGCG
* * *
34167923 CTTTTC-CCTAAAACACCGCTATAA-ACCCTGATCTATAGCGGCG
1 C-TTTCACCAAAAACGCCGCTA-AAGACCCTGATCTTTAGCGGCG
* * * *
34167966 C-TTCGACCACAAAATGCCACTAAAGAACCTAATCTTTAGCGGCG
1 CTTTC-ACCA-AAAACGCCGCTAAAGACCCTGATCTTTAGCGGCG
* * *
34168010 CTTTCCCCAAAAACGCCGCTAAAGACCATGATCTTTAGTGGCG
1 CTTTCACCAAAAACGCCGCTAAAGACCCTGATCTTTAGCGGCG
* ** * * * *
34168053 ATTTTTCCACAAACGCTGCTACAGACCCTTATCTTTAGCGGCG
1 CTTTCACCAAAAACGCCGCTAAAGACCCTGATCTTTAGCGGCG
* * *
34168096 CTTTGACAAAAAACGCCACTAAAG
1 CTTTCACCAAAAACGCCGCTAAAG
34168120 GCCAACAACA
Statistics
Matches: 150, Mismatches: 39, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
41 3 0.02
42 4 0.03
43 106 0.71
44 34 0.23
45 3 0.02
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.23
Consensus pattern (43 bp):
CTTTCACCAAAAACGCCGCTAAAGACCCTGATCTTTAGCGGCG
Found at i:34168063 original size:87 final size:86
Alignment explanation
Indices: 34167884--34168119 Score: 249
Period size: 87 Copynumber: 2.7 Consensus size: 86
34167874 TTTTATCTTT
* * * * *
34167884 GACCACAAACGCCACTAAAGAACCCAATCTTTAGCGACGCTTTTCCCTAAAACACCGCTATAA-A
1 GACCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTA-AAGA
* *
34167948 CCCTGATCTATAGCGGCGCTTC
65 CCATGATCTATAGCGGCGATTC
*
34167970 GACCACAAAATGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGA
1 GACCAC-AAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGA
* * *
34168035 CCATGATCTTTAGTGGCGATTT
65 CCATGATCTATAGCGGCGATTC
** ** * * * ** * *
34168057 TTCCACAAACGCTGCTACAGACCCTTATCTTTAGCGGCGCTTTGACAAAAAACGCCACTAAAG
1 GACCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAG
34168120 GCCAACAACA
Statistics
Matches: 125, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
86 55 0.44
87 70 0.56
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.22
Consensus pattern (86 bp):
GACCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGAC
CATGATCTATAGCGGCGATTC
Found at i:34180255 original size:84 final size:83
Alignment explanation
Indices: 34180110--34180379 Score: 256
Period size: 76 Copynumber: 3.3 Consensus size: 83
34180100 CCGTAAAGGC
* * *
34180110 AAAACGGCACCGTTTTGTTTAAAAAACCCGAAACTTTGCGGCGTTTTCACCATAGCGCCACTAAT
1 AAAACGACACCGTTTGGTTTAAAAAACCCGAAACTTTGCGGCCTTTTCACCATAGCGCCACTAAT
* *
34180175 GTCGTTAATGTGCCAGGG
66 GCCCTTAATGTGCCAGGG
34180193 AAAACGACACCGTTTGGTTTAAAAAACCCGAAAACTTTGCGGCACTTTT-ACCATAGCGCCACTA
1 AAAACGACACCGTTTGGTTTAAAAAACCCG-AAACTTTGCGGC-CTTTTCACCATAGCGCCACTA
34180257 ATGCCCTTAATGT-------
64 ATGCCCTTAATGTGCCAGGG
** * * ** * **
34180270 -AAACGACACCGTTTCATTAAAAAAACCCCGACAA-TTTGCGGCATTTTCGGCGTAATGCCACTA
1 AAAACGACACCGTTTGGTTTAAAAAA-CCCGA-AACTTTGCGGCCTTTTCACCATAGCGCCACTA
* * *
34180333 ATGCCATTAATATGCCAGGC
64 ATGCCCTTAATGTGCCAGGG
34180353 AAAACGACACCGCTTT-GTTTACAAAAA
1 AAAACGACACCG-TTTGGTTTA-AAAAA
34180380 TGATAAAATT
Statistics
Matches: 154, Mismatches: 18, Indels: 28
0.77 0.09 0.14
Matches are distributed among these distances:
75 4 0.03
76 52 0.34
77 6 0.04
83 28 0.18
84 52 0.34
85 12 0.08
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (83 bp):
AAAACGACACCGTTTGGTTTAAAAAACCCGAAACTTTGCGGCCTTTTCACCATAGCGCCACTAAT
GCCCTTAATGTGCCAGGG
Found at i:34180718 original size:20 final size:20
Alignment explanation
Indices: 34180673--34180725 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
34180663 AAAAATTAAA
*
34180673 AATTTTAGAGTTTTTATATTT
1 AATTTT-GATTTTTTATATTT
*
34180694 CATTTTGATTTTTGTAT-TTT
1 AATTTTGATTTTT-TATATTT
*
34180714 AATTTTAATTTT
1 AATTTTGATTTT
34180726 AATTTTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.66
Consensus pattern (20 bp):
AATTTTGATTTTTTATATTT
Found at i:34181199 original size:15 final size:16
Alignment explanation
Indices: 34181168--34181200 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
34181158 GACCAACCCT
34181168 TAATCCCTAATATCCA
1 TAATCCCTAATATCCA
34181184 TAATCCCTAA-ATCCA
1 TAATCCCTAATATCCA
34181199 TA
1 TA
34181201 TATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.39, C:0.30, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATCCCTAATATCCA
Found at i:34182110 original size:114 final size:114
Alignment explanation
Indices: 34181946--34182370 Score: 620
Period size: 114 Copynumber: 3.7 Consensus size: 114
34181936 TAAAACCTAT
* * * * * * *
34181946 ACTAATGTCACCAAAGTGTCTCCAAACGAAGTCGTTTGGGTTTTAGTTTTTCCGGCGTTTTTGTA
1 ACTAATGTCACCGAAGTGTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATA
* *
34182011 GAAACGCCGCTAATACTCATATTATTAGCGGGGCTAGTAGAAAAACGCC
66 GAAACGCCGCTAATACTCATATTATTAGCGGCGCTATTAGAAAAACGCC
* * *
34182060 ACTAAAGTCACCGAAGTATCTCCAAACGACTTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATA
1 ACTAATGTCACCGAAGTGTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATA
*
34182125 GAAACGCCGCTAATACTCATATTATTAGCGGTGCTATTCA-AAAAACGCC
66 GAAACGCCGCTAATACTCATATTATTAGCGGCGCTATT-AGAAAAACGCC
* ** * *
34182174 ACTAATGTCACCGAAGTGTCCCCAAACGACGTCGTCTCAGTTTTAGTTTTTGCGGCATTTTTACA
1 ACTAATGTCACCGAAGTGTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATA
* * *
34182239 GAAACGCCGCTAATTCTCATATTATTAGCGGCGCTATTCGAAAAATGCC
66 GAAACGCCGCTAATACTCATATTATTAGCGGCGCTATTAGAAAAACGCC
* *
34182288 ACTAATGTCACCGAAGTTTCTCCAAACGACGTCGTCT-GGGTTTAGTTTTTGCGGCGTTTTTATA
1 ACTAATGTCACCGAAGTGTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATA
34182352 GAAACGCCGCTAATACTCA
66 GAAACGCCGCTAATACTCA
34182371 ATCGGTTGCG
Statistics
Matches: 278, Mismatches: 31, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
113 41 0.15
114 236 0.85
115 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (114 bp):
ACTAATGTCACCGAAGTGTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATA
GAAACGCCGCTAATACTCATATTATTAGCGGCGCTATTAGAAAAACGCC
Found at i:34186575 original size:45 final size:45
Alignment explanation
Indices: 34186506--34186850 Score: 179
Period size: 45 Copynumber: 7.6 Consensus size: 45
34186496 TTTAATCTGT
* *
34186506 TCCACTGCAACTTCAG-GAAAATAAGATTCGCTATCTTCAGTCTAC
1 TCCACTGCAACTTCAGAG-AGATAAGATTCGTTATCTTCAGTCTAC
* ** *
34186551 TCCACTGCAACTTCAGAGAGATAAGACTCGTTATGGT-AGATTTAATCC
1 TCCACTGCAACTTCAGAGAGATAAGATTCGTTATCTTCAG-TCT-A--C
* * * * * * * **
34186599 GACCTACTGCAACTTCAGAG-GTATAGGATACATCAT-TTTAATCCGC
1 -TCC-ACTGCAACTTCAGAGAG-ATAAGATTCGTTATCTTCAGTCTAC
* ** * * *
34186645 TCCACTGCAACTTCATG-GAGATAGGATT-AATAGCTTCAATCTGC
1 TCCACTGCAACTTCA-GAGAGATAAGATTCGTTATCTTCAGTCTAC
* * * *
34186689 TCCACTGCAACTTCAGGGAGATAA-AGTTGGTTATTTTCAGTCTGC
1 TCCACTGCAACTTCAGAGAGATAAGA-TTCGTTATCTTCAGTCTAC
* * * *
34186734 TCCACTACAACTTCAGGGAGATAAGACTT-GTTATGGTGTGA-TCTAC
1 TCCACTGCAACTTCAGAGAGATAAGA-TTCGTTAT-CT-TCAGTCTAC
* *
34186780 TCTACTGCAACTTCAGAGAGATAAGA-TCTGCTATCTTCAGTCTAC
1 TCCACTGCAACTTCAGAGAGATAAGATTC-GTTATCTTCAGTCTAC
* * * *
34186825 TCTACTGCAACCTCAGTGAGACAAGA
1 TCCACTGCAACTTCAGAGAGATAAGA
34186851 CTTGTAGCTT
Statistics
Matches: 235, Mismatches: 44, Indels: 42
0.73 0.14 0.13
Matches are distributed among these distances:
43 4 0.02
44 56 0.24
45 104 0.44
46 38 0.16
47 2 0.01
48 1 0.00
49 5 0.02
50 25 0.11
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (45 bp):
TCCACTGCAACTTCAGAGAGATAAGATTCGTTATCTTCAGTCTAC
Found at i:34187041 original size:45 final size:45
Alignment explanation
Indices: 34186932--34187059 Score: 123
Period size: 45 Copynumber: 2.8 Consensus size: 45
34186922 GATCCATCAT
* **
34186932 TTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTGGTTTTA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTGGA
* * * ** *
34186977 GTTAGTCTGCTTCTTTGCAACTTCAGGGAGATAAGACTT-GTTGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTTGGA
* * **
34187022 TTTAATCTACTCCACTGCAACTTTAACGAGATAAGATT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
34187060 TGCTATGATA
Statistics
Matches: 64, Mismatches: 18, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
44 2 0.03
45 60 0.94
46 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (45 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTGGA
Found at i:34187143 original size:105 final size:105
Alignment explanation
Indices: 34186994--34187228 Score: 357
Period size: 105 Copynumber: 2.2 Consensus size: 105
34186984 TGCTTCTTTG
* * *
34186994 CAACTTCAGGGAGATAAGACTTGTTGGCTTTAATCTACTCCACTGCAACTTTAACGAGATAAGAT
1 CAACTTTAAGGAGATAAGACTTGTTGGCTTTAATCTACTCCACTGCAACTTCAACGAGATAAGAT
34187059 TTGCTATGATAAGATCCGCTATCTACAGTCTT-CTCCACTA
66 TTGCTATGATAAGATCCGCTATCTACAGT-TTGCTCCACTA
* * **
34187099 CAA-TTTTAGAGAGATAAGACTTGTTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 CAACTTTAAG-GAGATAAGACTTGTTGGCTTTAATCTACTCCACTGCAACTTCAACGAGATAAGA
* *
34187163 TTTGCTATGGTAAGATCTGCTATCTACAGTTTGCTCCACTA
65 TTTGCTATGATAAGATCCGCTATCTACAGTTTGCTCCACTA
34187204 CAACTTTAAGGAGATAAGACTTGTT
1 CAACTTTAAGGAGATAAGACTTGTT
34187229 ATGATAGATT
Statistics
Matches: 117, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
104 5 0.04
105 107 0.91
106 5 0.04
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (105 bp):
CAACTTTAAGGAGATAAGACTTGTTGGCTTTAATCTACTCCACTGCAACTTCAACGAGATAAGAT
TTGCTATGATAAGATCCGCTATCTACAGTTTGCTCCACTA
Found at i:34187341 original size:41 final size:43
Alignment explanation
Indices: 34187284--34187400 Score: 166
Period size: 44 Copynumber: 2.7 Consensus size: 43
34187274 TCATCATATT
*
34187284 AATCTGCTCCACTGCAACTTCAGGGAGATAGGA-T-TAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAGCTTC
* *
34187325 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAGCTTC
* *
34187369 AACCTGCTCTACTGCAACTTCAGGGAGATAAG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAG
34187401 GTTTGTTATC
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 31 0.46
42 1 0.01
44 35 0.52
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (43 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAGCTTC
Found at i:34188671 original size:21 final size:21
Alignment explanation
Indices: 34188627--34188673 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
34188617 GGTACAACAA
*
34188627 GATCAACATATGGCCCAATTT
1 GATCAACATATGGCCCAATCT
* * *
34188648 GATCAACATTTGGGCCACTCT
1 GATCAACATATGGCCCAATCT
34188669 GATCA
1 GATCA
34188674 CCTCGTGCCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (21 bp):
GATCAACATATGGCCCAATCT
Found at i:34195854 original size:18 final size:19
Alignment explanation
Indices: 34195825--34195860 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
34195815 GTGAAAATTT
*
34195825 TGAAATTTAGGGATTTAAG
1 TGAAATTTAGGGAGTTAAG
34195844 TGAAA-TTAGGGAGTTAA
1 TGAAATTTAGGGAGTTAA
34195861 ATTTAGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (19 bp):
TGAAATTTAGGGAGTTAAG
Found at i:34197363 original size:18 final size:19
Alignment explanation
Indices: 34197334--34197369 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
34197324 GTGAAAATTT
*
34197334 TGAAATTTAGGGATTTAAG
1 TGAAATTTAGGGAGTTAAG
34197353 TGAAA-TTAGGGAGTTAA
1 TGAAATTTAGGGAGTTAA
34197370 ATTTAGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (19 bp):
TGAAATTTAGGGAGTTAAG
Found at i:34197961 original size:41 final size:41
Alignment explanation
Indices: 34197894--34198006 Score: 144
Period size: 41 Copynumber: 2.9 Consensus size: 41
34197884 GGATTTCTTC
34197894 AATTCGATGAGACACTGGGTGTCAATTTACTACTTCAGATT
1 AATTCGATGAGACACTGGGTGTCAATTTACTACTTCAGATT
* ** * *
34197935 AATTCGATGAGGCACTACGTGCCAA-TT--TACTTCAGTTT
1 AATTCGATGAGACACTGGGTGTCAATTTACTACTTCAGATT
*
34197973 AA-CCGATGAGACACTGGGTGTCAATTTACTACTT
1 AATTCGATGAGACACTGGGTGTCAATTTACTACTT
34198007 TGAAGTATCT
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
37 17 0.29
38 14 0.24
40 7 0.12
41 21 0.36
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (41 bp):
AATTCGATGAGACACTGGGTGTCAATTTACTACTTCAGATT
Found at i:34197998 original size:37 final size:38
Alignment explanation
Indices: 34197898--34198002 Score: 122
Period size: 37 Copynumber: 2.7 Consensus size: 38
34197888 TTCTTCAATT
*
34197898 CGATGAGACACTGGGTGTCAATTTACTACTTCAGATTAATT
1 CGATGAGACACTGGGTGTCAA-TT--TACTTCAGATTAATC
* ** * *
34197939 CGATGAGGCACTACGTGCCAATTTACTTCAGTTTAA-C
1 CGATGAGACACTGGGTGTCAATTTACTTCAGATTAATC
34197976 CGATGAGACACTGGGTGTCAATTTACT
1 CGATGAGACACTGGGTGTCAATTTACT
34198003 ACTTTGAAGT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
37 23 0.43
38 12 0.22
40 2 0.04
41 17 0.31
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAATTTACTTCAGATTAATC
Found at i:34207142 original size:40 final size:40
Alignment explanation
Indices: 34207098--34207369 Score: 386
Period size: 40 Copynumber: 6.7 Consensus size: 40
34207088 GAACCACAGA
* * *
34207098 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCCTGAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
34207138 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
* *
34207178 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GCATCA-AG
* *
34207219 ATCTTATCTCTCTAAGCAGTAGTGGAGCAAATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
* *
34207260 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GCATCA-AG
34207301 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
*
34207342 TCTTATCTCCCTAAGCAATAGTGGAGCA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCA
34207370 AACGAAACCA
Statistics
Matches: 208, Mismatches: 16, Indels: 16
0.87 0.07 0.07
Matches are distributed among these distances:
39 2 0.01
40 130 0.62
41 8 0.04
42 66 0.32
43 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
Found at i:34207240 original size:122 final size:125
Alignment explanation
Indices: 34207083--34207371 Score: 430
Period size: 122 Copynumber: 2.4 Consensus size: 125
34207073 CAGTGGGATG
* * * *
34207083 GATCAGAACCACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCCTGAAGTCTTATCTCC
1 GATCAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGCATCAAGTCTTATCTCC
* *
34207148 CTAAGCAGTAGTGGAGCAGATC-GCATCA-AG-TCTTATCTCCCTAAGCAGTAGTGGAGCA
66 CTAAGCAGTAGTGGAGCAGA-CAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCA
*
34207206 GA-CAGAACCACAGATCTTATCTCTCTAAGCAGTAGTGGAGCAAATCGCATCAAGTCTTATCTCC
1 GATCAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGCATCAAGTCTTATCTCC
34207270 CTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCA
66 CTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCA
* * *
34207330 GATC-GCATCA-AG-TCTTATCTCCCTAAGCAATAGTGGAGCAAA
1 GATCAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAA
34207372 CGAAACCAAC
Statistics
Matches: 151, Mismatches: 11, Indels: 9
0.88 0.06 0.05
Matches are distributed among these distances:
121 1 0.01
122 109 0.72
123 6 0.04
124 34 0.23
125 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (125 bp):
GATCAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGCATCAAGTCTTATCTCC
CTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCA
Found at i:34207379 original size:82 final size:82
Alignment explanation
Indices: 34207098--34207369 Score: 446
Period size: 82 Copynumber: 3.3 Consensus size: 82
34207088 GAACCACAGA
*
34207098 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATC-G--CCTGA-AG-TCTTATCTCCCTAAGCAGTA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACC--ACAGATCTTATCTCCCTAAGCAGTA
34207158 GTGGAGCAGATCGCATCAAG
63 GTGGAGCAGATCGCATCAAG
*
34207178 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCTCTAAGCAGTAGTG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTG
*
34207243 GAGCAAATCGCATCAAG
66 GAGCAGATCGCATCAAG
34207260 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTG
34207325 GAGCAGATCGCATCAAG
66 GAGCAGATCGCATCAAG
*
34207342 TCTTATCTCCCTAAGCAATAGTGGAGCA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCA
34207370 AACGAAACCA
Statistics
Matches: 181, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
79 1 0.01
80 31 0.17
81 2 0.01
82 147 0.81
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (82 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCGCATCAAG
Found at i:34209670 original size:40 final size:40
Alignment explanation
Indices: 34209626--34209942 Score: 391
Period size: 40 Copynumber: 7.8 Consensus size: 40
34209616 GAACCACAGA
* * *
34209626 TCTTATCTCCCTAAGCGGTAGTGGAGTAGATCGCATCAAG
1 TCTTATCTCCCTAAGCAGTACTGGAGCAGATCGCATCAAG
* * *
34209666 TCTTATCTCCCTAAGCAGTACTGGAGCAGATAGAACCACAG
1 TCTTATCTCCCTAAGCAGTACTGGAGCAGATCGCATCA-AG
* * *
34209707 ATCTTATCTCCCTAAGCGGTAGTGGAGTAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTACTGGAGCAGATCGCATCAAG
* * *
34209748 TCTTATCTCCCTAAGCAGTACTGGAGCAGATAGAACCACAG
1 TCTTATCTCCCTAAGCAGTACTGGAGCAGATCGCATCA-AG
* * *
34209789 ATCTTATCTCCCTAAGCGGTAGTGGAGTAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTACTGGAGCAGATCGCATCAAG
* * *
34209830 TCTTATCTCCCTAAGCAGTACTGGAGCAGATAGAACCACAG
1 TCTTATCTCCCTAAGCAGTACTGGAGCAGATCGCATCA-AG
* * *
34209871 ATCTTATCTCCCTAAGCGGTAGTGGAGTAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTACTGGAGCAGATCGCATCAAG
34209912 TCTTATCTCCCTAAGCAGTACTGGAGCAGAT
1 TCTTATCTCCCTAAGCAGTACTGGAGCAGAT
34209943 AGAACCATCG
Statistics
Matches: 232, Mismatches: 39, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
40 124 0.53
41 12 0.05
42 96 0.41
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTACTGGAGCAGATCGCATCAAG
Found at i:34209752 original size:82 final size:82
Alignment explanation
Indices: 34209615--34209949 Score: 670
Period size: 82 Copynumber: 4.1 Consensus size: 82
34209605 GGGATGGATC
34209615 AGAACCACAGATCTTATCTCCCTAAGCGGTAGTGGAGTAGATCGCATCAAGTCTTATCTCCCTAA
1 AGAACCACAGATCTTATCTCCCTAAGCGGTAGTGGAGTAGATCGCATCAAGTCTTATCTCCCTAA
34209680 GCAGTACTGGAGCAGAT
66 GCAGTACTGGAGCAGAT
34209697 AGAACCACAGATCTTATCTCCCTAAGCGGTAGTGGAGTAGATCGCATCAAGTCTTATCTCCCTAA
1 AGAACCACAGATCTTATCTCCCTAAGCGGTAGTGGAGTAGATCGCATCAAGTCTTATCTCCCTAA
34209762 GCAGTACTGGAGCAGAT
66 GCAGTACTGGAGCAGAT
34209779 AGAACCACAGATCTTATCTCCCTAAGCGGTAGTGGAGTAGATCGCATCAAGTCTTATCTCCCTAA
1 AGAACCACAGATCTTATCTCCCTAAGCGGTAGTGGAGTAGATCGCATCAAGTCTTATCTCCCTAA
34209844 GCAGTACTGGAGCAGAT
66 GCAGTACTGGAGCAGAT
34209861 AGAACCACAGATCTTATCTCCCTAAGCGGTAGTGGAGTAGATCGCATCAAGTCTTATCTCCCTAA
1 AGAACCACAGATCTTATCTCCCTAAGCGGTAGTGGAGTAGATCGCATCAAGTCTTATCTCCCTAA
34209926 GCAGTACTGGAGCAGAT
66 GCAGTACTGGAGCAGAT
34209943 AGAACCA
1 AGAACCA
34209950 TCGTAGACCA
Statistics
Matches: 253, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 253 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (82 bp):
AGAACCACAGATCTTATCTCCCTAAGCGGTAGTGGAGTAGATCGCATCAAGTCTTATCTCCCTAA
GCAGTACTGGAGCAGAT
Found at i:34212418 original size:24 final size:22
Alignment explanation
Indices: 34212394--34212436 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
34212384 TTCAAAAATA
34212394 AAACATAATATAATATTTATCAT
1 AAACATAA-ATAATATTTATCAT
*
34212417 AAAGATAAATAATATTTATC
1 AAACATAAATAATATTTATC
34212437 TTAATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.37
Consensus pattern (22 bp):
AAACATAAATAATATTTATCAT
Found at i:34213413 original size:18 final size:18
Alignment explanation
Indices: 34213390--34213429 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
34213380 ACTTGAGATT
34213390 AATATTTCAATATTTT-TA
1 AATATTTCAAT-TTTTCTA
*
34213408 AATATTTTAATTTTTCTA
1 AATATTTCAATTTTTCTA
34213426 AATA
1 AATA
34213430 CCGTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (18 bp):
AATATTTCAATTTTTCTA
Found at i:34219981 original size:105 final size:105
Alignment explanation
Indices: 34219863--34220072 Score: 393
Period size: 105 Copynumber: 2.0 Consensus size: 105
34219853 CCAAAATTTA
*
34219863 AAAATAAATATATGAGCTAATTGCACCTTATGACCCTCATTCTAAATTGATCCCTAAATTTCAAG
1 AAAATAAATATATGAGCTAATTGCACCTTATGACCCTCATTCTAAATTGATACCTAAATTTCAAG
34219928 TCATTCTAATTACATCTCAAACTATCAAGGTCATATCAAT
66 TCATTCTAATTACATCTCAAACTATCAAGGTCATATCAAT
*
34219968 AAAATAAATATATGAGCTAATTGCACCTTATGACCCTCATTCTAAATTGGTACCTAAATTTCAAG
1 AAAATAAATATATGAGCTAATTGCACCTTATGACCCTCATTCTAAATTGATACCTAAATTTCAAG
*
34220033 TCATTCTAATTACATCTCCAACTATCAAGGTCATATCAAT
66 TCATTCTAATTACATCTCAAACTATCAAGGTCATATCAAT
34220073 TAAGCCATTT
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 102 1.00
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (105 bp):
AAAATAAATATATGAGCTAATTGCACCTTATGACCCTCATTCTAAATTGATACCTAAATTTCAAG
TCATTCTAATTACATCTCAAACTATCAAGGTCATATCAAT
Found at i:34244440 original size:11 final size:11
Alignment explanation
Indices: 34244415--34244450 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
34244405 AATAATAAAG
34244415 TTTTTATATTATT
1 TTTTTA-ATT-TT
34244428 TTTTTAATTTT
1 TTTTTAATTTT
34244439 TTTTTAATTTT
1 TTTTTAATTTT
34244450 T
1 T
34244451 ATGGGAACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 14 0.61
12 3 0.13
13 6 0.26
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTAATTTT
Found at i:34249324 original size:19 final size:19
Alignment explanation
Indices: 34249300--34249336 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
34249290 TGCATGCATA
34249300 AATCGGTAGCATGTAACCC
1 AATCGGTAGCATGTAACCC
34249319 AATCGGTAGCATGTAACC
1 AATCGGTAGCATGTAACC
34249337 TAGAATCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (19 bp):
AATCGGTAGCATGTAACCC
Found at i:34250795 original size:68 final size:71
Alignment explanation
Indices: 34250667--34250804 Score: 192
Period size: 68 Copynumber: 2.0 Consensus size: 71
34250657 TGATTAAACT
* *
34250667 TAATCACTTTAATATTAAAATAATATAATACTTATCTACAAGATAAATATTAAACTAAATTTAAT
1 TAATCACTTTAATAGTAAAATAATAAAATACTTATCTA-AAGATAAATATTAAACTAAATTTAAT
34250732 ATTAAGA
65 ATTAAGA
* * * *
34250739 TAATTACTTTAATAGTAAATTAATAAAATAC-TAT-T-AAGATAAGTATTAAATTAAATTTAATA
1 TAATCACTTTAATAGTAAAATAATAAAATACTTATCTAAAGATAAATATTAAACTAAATTTAATA
34250801 TTAA
66 TTAA
34250805 AACTATTAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
68 29 0.48
70 1 0.02
71 3 0.05
72 27 0.45
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (71 bp):
TAATCACTTTAATAGTAAAATAATAAAATACTTATCTAAAGATAAATATTAAACTAAATTTAATA
TTAAGA
Found at i:34265404 original size:28 final size:27
Alignment explanation
Indices: 34265362--34265422 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 27
34265352 CTATTTAGTG
* *
34265362 ACAGTACAGTGTGGGCCTTAGTCCAAT
1 ACAGTACAATGTGGGCCTTAGCCCAAT
34265389 ACAGTAGCAATGTGGGCCTTAGCCCAAT
1 ACAGTA-CAATGTGGGCCTTAGCCCAAT
34265417 ACAGTA
1 ACAGTA
34265423 TCGGTATAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 6 0.19
28 25 0.81
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (27 bp):
ACAGTACAATGTGGGCCTTAGCCCAAT
Found at i:34265806 original size:27 final size:27
Alignment explanation
Indices: 34265785--34265982 Score: 231
Period size: 27 Copynumber: 7.3 Consensus size: 27
34265775 AGGGGTATAA
*
34265785 CAGTCATTTTACCCTATTGGGGTAATT
1 CAGTCATTTTACCCTATAGGGGTAATT
* * *
34265812 CGGTCATTTTACCCTGTGGGGGTAATT
1 CAGTCATTTTACCCTATAGGGGTAATT
*
34265839 C-GATCATTTTACCCTATAAGGGTAATT
1 CAG-TCATTTTACCCTATAGGGGTAATT
* *
34265866 AAGTCATTTTACCCTATAAGGGTAATT
1 CAGTCATTTTACCCTATAGGGGTAATT
*
34265893 CAATCATTTTACCCTAT-GAGGGTAATT
1 CAGTCATTTTACCCTATAG-GGGTAATT
* *
34265920 TAGTCATTTTACCCTATGGGGGTAATT
1 CAGTCATTTTACCCTATAGGGGTAATT
* * *
34265947 CGGTCATTTTACCTTGTAGGGGTAATT
1 CAGTCATTTTACCCTATAGGGGTAATT
34265974 C-GATCATTT
1 CAG-TCATTT
34265983 ATTGACCTCT
Statistics
Matches: 149, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
26 2 0.01
27 145 0.97
28 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (27 bp):
CAGTCATTTTACCCTATAGGGGTAATT
Found at i:34265900 original size:81 final size:81
Alignment explanation
Indices: 34265786--34265982 Score: 261
Period size: 81 Copynumber: 2.4 Consensus size: 81
34265776 GGGGTATAAC
* * * *
34265786 AGTCATTTTACCCTATTGGGGTAATTCGGTCATTTTACCCTGTGGGGGTAATTCGA-TCATTTTA
1 AGTCATTTTACCCTATAGGGGTAATTCGATCATTTTACCCTATGAGGGTAATT-GAGTCATTTTA
34265850 CCCTATAAGGGTAATTA
65 CCCTATAAGGGTAATTA
* * *
34265867 AGTCATTTTACCCTATAAGGGTAATTCAATCATTTTACCCTATGAGGGTAATTTAGTCATTTTAC
1 AGTCATTTTACCCTATAGGGGTAATTCGATCATTTTACCCTATGAGGGTAATTGAGTCATTTTAC
** *
34265932 CCTATGGGGGTAATTC
66 CCTATAAGGGTAATTA
* * *
34265948 GGTCATTTTACCTTGTAGGGGTAATTCGATCATTT
1 AGTCATTTTACCCTATAGGGGTAATTCGATCATTT
34265983 ATTGACCTCT
Statistics
Matches: 100, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 1 0.01
81 99 0.99
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (81 bp):
AGTCATTTTACCCTATAGGGGTAATTCGATCATTTTACCCTATGAGGGTAATTGAGTCATTTTAC
CCTATAAGGGTAATTA
Found at i:34269009 original size:25 final size:23
Alignment explanation
Indices: 34268980--34269050 Score: 79
Period size: 25 Copynumber: 2.9 Consensus size: 23
34268970 TCATCCCAAA
* *
34268980 TTTACCCGGTAAATTCTTTGTCAAT
1 TTTACCCGGTAAAAT-TTTGAC-AT
34269005 TTTACCCGCGATAAAATTTTGACAT
1 TTTACCCG-G-TAAAATTTTGACAT
34269030 TTTACCCTGGTAAAATTTTGA
1 TTTACCC-GGTAAAATTTTGA
34269051 GAAAATTCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 11 0.27
25 18 0.44
26 7 0.17
27 5 0.12
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (23 bp):
TTTACCCGGTAAAATTTTGACAT
Found at i:34277366 original size:107 final size:109
Alignment explanation
Indices: 34277233--34277450 Score: 422
Period size: 107 Copynumber: 2.0 Consensus size: 109
34277223 TAATATGTAT
34277233 AATATGAAATATTATAAACAATTATAAAATAAATATAAAAGATGAGAAATTAAAATAAAATTGCC
1 AATATGAAATATTATAAACAATTATAAAATAAATATAAAAGATGAGAAATTAAAATAAAATTGCC
34277298 AGCTATTTCCATGGTTCTATTTCTAGAAAATAAATGAAAAATAA
66 AGCTATTTCCATGGTTCTATTTCTAGAAAATAAATGAAAAATAA
34277342 AATAT-AAATA-TATAAACAATTATAAAATAAATATAAAAGATGAGAAATTAAAATAAAATTGCC
1 AATATGAAATATTATAAACAATTATAAAATAAATATAAAAGATGAGAAATTAAAATAAAATTGCC
34277405 AGCTATTTCCATGGTTCTATTTCTAGAAAATAAATGAAAAATAA
66 AGCTATTTCCATGGTTCTATTTCTAGAAAATAAATGAAAAATAA
34277449 AA
1 AA
34277451 CTTACACAAT
Statistics
Matches: 109, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
107 99 0.91
108 5 0.05
109 5 0.05
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.30
Consensus pattern (109 bp):
AATATGAAATATTATAAACAATTATAAAATAAATATAAAAGATGAGAAATTAAAATAAAATTGCC
AGCTATTTCCATGGTTCTATTTCTAGAAAATAAATGAAAAATAA
Found at i:34279123 original size:18 final size:18
Alignment explanation
Indices: 34279079--34279123 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
34279069 CATTCGTTTC
*
34279079 CAAAACATTATTCATTTA
1 CAAAACGTTATTCATTTA
*
34279097 CAAATCGTTATTCAATTT-
1 CAAAACGTTATTC-ATTTA
34279115 CAAAACGTT
1 CAAAACGTT
34279124 TTTCTTATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (18 bp):
CAAAACGTTATTCATTTA
Found at i:34279201 original size:105 final size:105
Alignment explanation
Indices: 34279071--34279274 Score: 338
Period size: 105 Copynumber: 1.9 Consensus size: 105
34279061 AATCACGCCA
*
34279071 TTCGTTTCCAAAACATTATTCATTTACAAATCGTTATTCAATTTCAAAACGTTTTTCTTATTGCG
1 TTCGTTTCCAAAACATTAGTCATTTACAAATCGTTATTCAATTTCAAAACG-TTTTCTTATTGCG
* *
34279136 GAAGCTTTTAAATAGTTTGCAT-TTCGTGGTATTTCTGTCG
65 GAAGCTGTTAAACAGTTTGCATATTCGTGGTATTTCTGTCG
*
34279176 TTCGTTTCCAAAACATTAGTCATTTACAAATCGTTATTCAATTTCAAAATGTTTTCTTATTGCGG
1 TTCGTTTCCAAAACATTAGTCATTTACAAATCGTTATTCAATTTCAAAACGTTTTCTTATTGCGG
* *
34279241 AAGCTGTTAAACAGTTTGCGTATTCTTGGTATTT
66 AAGCTGTTAAACAGTTTGCATATTCGTGGTATTT
34279275 TTGATAAAAC
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
104 32 0.35
105 60 0.65
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (105 bp):
TTCGTTTCCAAAACATTAGTCATTTACAAATCGTTATTCAATTTCAAAACGTTTTCTTATTGCGG
AAGCTGTTAAACAGTTTGCATATTCGTGGTATTTCTGTCG
Found at i:34284888 original size:15 final size:17
Alignment explanation
Indices: 34284868--34284909 Score: 61
Period size: 15 Copynumber: 2.5 Consensus size: 17
34284858 AAATATAGTA
34284868 ATATATTATT-TA-ATT
1 ATATATTATTATATATT
34284883 ATATATTATTATATATT
1 ATATATTATTATATATT
34284900 ATTATATTAT
1 A-TATATTAT
34284910 CATGTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.42
16 2 0.08
17 4 0.17
18 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATATATTATTATATATT
Found at i:34284895 original size:10 final size:10
Alignment explanation
Indices: 34284880--34284906 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
34284870 ATATTATTTA
34284880 ATTATATATT
1 ATTATATATT
34284890 ATTATATATT
1 ATTATATATT
34284900 ATTATAT
1 ATTATAT
34284907 TATCATGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTATATATT
Found at i:34286492 original size:16 final size:16
Alignment explanation
Indices: 34286471--34286509 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
34286461 TTATGTGTAT
34286471 GGTAAG-CAAATAATAA
1 GGTAAGTCAAAT-ATAA
*
34286487 GGTAAGTGAAATATAA
1 GGTAAGTCAAATATAA
34286503 GGTAAGT
1 GGTAAGT
34286510 ATTATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.49, C:0.03, G:0.26, T:0.23
Consensus pattern (16 bp):
GGTAAGTCAAATATAA
Found at i:34286810 original size:23 final size:23
Alignment explanation
Indices: 34286783--34286828 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
34286773 GCTTTGCCGA
34286783 TCAGGCACTTTATGTGTCATATC
1 TCAGGCACTTTATGTGTCATATC
*
34286806 TCAGGCACTTTATGTGTCGTATC
1 TCAGGCACTTTATGTGTCATATC
34286829 AGGCAACTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCATATC
Found at i:34286832 original size:21 final size:21
Alignment explanation
Indices: 34286782--34286868 Score: 81
Period size: 23 Copynumber: 4.1 Consensus size: 21
34286772 GGCTTTGCCG
*
34286782 ATCAGGCACTTTATGTGTCAT
1 ATCAGGCACTTTATGTGTCGT
34286803 ATCTCAGGCACTTTATGTGTCGT
1 A--TCAGGCACTTTATGTGTCGT
*
34286826 ATCAGGCAACTCGT-T-TGTCGT
1 ATCAGGC-ACT-TTATGTGTCGT
* *
34286847 TTCAGGCAC-TTATATGTCGT
1 ATCAGGCACTTTATGTGTCGT
34286867 AT
1 AT
34286869 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
18 1 0.02
19 1 0.02
20 9 0.16
21 19 0.35
22 4 0.07
23 21 0.38
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (21 bp):
ATCAGGCACTTTATGTGTCGT
Found at i:34287944 original size:24 final size:24
Alignment explanation
Indices: 34287915--34287964 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
34287905 TGTGTGTCGT
* *
34287915 GTGTGACAGCCTGTGTCCCAGGCC
1 GTGTGACAACCCGTGTCCCAGGCC
34287939 GTGTGACAACCCGTGTCCCAGGCC
1 GTGTGACAACCCGTGTCCCAGGCC
34287963 GT
1 GT
34287965 ATGCTGCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.14, C:0.34, G:0.32, T:0.20
Consensus pattern (24 bp):
GTGTGACAACCCGTGTCCCAGGCC
Found at i:34289353 original size:5 final size:5
Alignment explanation
Indices: 34289343--34289583 Score: 482
Period size: 5 Copynumber: 48.2 Consensus size: 5
34289333 GCTCTTGATC
34289343 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
34289393 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
34289443 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
34289493 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
34289543 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
34289584 TATTAGCCTA
Statistics
Matches: 236, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 236 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:34295681 original size:24 final size:24
Alignment explanation
Indices: 34295653--34295716 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 24
34295643 TGTGTATATG
34295653 TATTTACACTATGTAATTGAGATA
1 TATTTACACTATGTAATTGAGATA
*
34295677 TATTTTTAAACTATGTAATTGAGATA
1 TA--TTTACACTATGTAATTGAGATA
*
34295703 TATTTGCATCTATG
1 TATTTACA-CTATG
34295717 ATATGTATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 6 0.18
25 5 0.15
26 23 0.68
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.45
Consensus pattern (24 bp):
TATTTACACTATGTAATTGAGATA
Found at i:34295684 original size:26 final size:26
Alignment explanation
Indices: 34295655--34295707 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
34295645 TGTATATGTA
*
34295655 TTTACACTATGTAATTGAGATATATT
1 TTTAAACTATGTAATTGAGATATATT
34295681 TTTAAACTATGTAATTGAGATATATT
1 TTTAAACTATGTAATTGAGATATATT
34295707 T
1 T
34295708 GCATCTATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (26 bp):
TTTAAACTATGTAATTGAGATATATT
Found at i:34312423 original size:27 final size:27
Alignment explanation
Indices: 34312396--34312859 Score: 414
Period size: 27 Copynumber: 17.1 Consensus size: 27
34312386 TATAACAGTT
* * *
34312396 ATTTTATCCTATGAGGGTATTTCGGTT
1 ATTTTACCCTATGAGGGTAATTCGGTC
* * * *
34312423 ATTTTACCCTATAACGGTATTTCAGTC
1 ATTTTACCCTATGAGGGTAATTCGGTC
* * *
34312450 ATTTTACCTTATGAGGGTATTTCAGTC
1 ATTTTACCCTATGAGGGTAATTCGGTC
* ** *
34312477 ATTTTACCCTATGAGGGTATTTTAGTT
1 ATTTTACCCTATGAGGGTAATTCGGTC
* *
34312504 ATTTTACCTTATTGAGGG-ATTTCGGTC
1 ATTTTACCCTA-TGAGGGTAATTCGGTC
* * *
34312531 ATTTTACCCTGT-AGAGGTAGTTCGGTT
1 ATTTTACCCTATGAG-GGTAATTCGGTC
* *
34312558 ATTTTACCCTATGGGGGTAGTTCGGTC
1 ATTTTACCCTATGAGGGTAATTCGGTC
*
34312585 ATTTTACCCTGTG-GTGGTAATTCGGTC
1 ATTTTACCCTATGAG-GGTAATTCGGTC
* * *
34312612 ATTTTACCCTGTGGGGGTAATTCGATC
1 ATTTTACCCTATGAGGGTAATTCGGTC
* * *
34312639 ATTGTACCCCATGAGGGTAATTCGATC
1 ATTTTACCCTATGAGGGTAATTCGGTC
* * *
34312666 ATTTTACCCTGTGGGGGTAATTCAGTC
1 ATTTTACCCTATGAGGGTAATTCGGTC
* * *
34312693 ATTTTACCCCATGGGGGTAATTTGGTC
1 ATTTTACCCTATGAGGGTAATTCGGTC
* * *
34312720 ATTTTTACCCTGTGGGGGTAATTCGATC
1 A-TTTTACCCTATGAGGGTAATTCGGTC
*
34312748 ATTTTACCCTGTGAGGGTAATTCGGTC
1 ATTTTACCCTATGAGGGTAATTCGGTC
* * * *
34312775 GTTTTACTCTGTGGGGGTAATTCGGTC
1 ATTTTACCCTATGAGGGTAATTCGGTC
** * *
34312802 ATTTTACCCCGTGGGGGTAATTCAGAT-
1 ATTTTACCCTATGAGGGTAATTC-GGTC
* **
34312829 ATTTTACCCTGTGTTGGTAATTCGGTC
1 ATTTTACCCTATGAGGGTAATTCGGTC
34312856 ATTT
1 ATTT
34312860 ATTGACCTTT
Statistics
Matches: 372, Mismatches: 56, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
25 2 0.01
26 6 0.02
27 331 0.89
28 33 0.09
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (27 bp):
ATTTTACCCTATGAGGGTAATTCGGTC
Found at i:34314276 original size:16 final size:18
Alignment explanation
Indices: 34314246--34314282 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
34314236 GATTTTGGGG
34314246 AAAGTAAAAAAATGAA-A
1 AAAGTAAAAAAATGAACA
*
34314263 AAAG-AAAAAGATGAACA
1 AAAGTAAAAAAATGAACA
34314280 AAA
1 AAA
34314283 TATTTGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.76, C:0.03, G:0.14, T:0.08
Consensus pattern (18 bp):
AAAGTAAAAAAATGAACA
Found at i:34331592 original size:9 final size:9
Alignment explanation
Indices: 34331575--34331611 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
34331565 TGAGTTTTCG
34331575 AATTCGAAT
1 AATTCGAAT
*
34331584 AACTCGAAT
1 AATTCGAAT
34331593 AATTCGAAT
1 AATTCGAAT
34331602 AATTCGAAT
1 AATTCGAAT
34331611 A
1 A
34331612 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:34332332 original size:5 final size:5
Alignment explanation
Indices: 34332322--34332347 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
34332312 CTCGAAAATT
34332322 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
34332348 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:34335989 original size:246 final size:244
Alignment explanation
Indices: 34335504--34335990 Score: 764
Period size: 246 Copynumber: 2.0 Consensus size: 244
34335494 GCCAATTACT
* * *
34335504 AGTATGGGTGAGATACAGTAAATTTTGGAGCACATAACAAGCTAGGCTTGAACAACTATATATAT
1 AGTATGGGTGAGATACAGTAAAATTTGGAGCACATAACAAGCCAGGCTTAAACAACTATATATAT
*
34335569 TGGTATATTCTTTTCTTGATAGTTTATAAGTATAAATATATGTACAAGTAATTAAAAAAATAAAA
66 TGGTATATTCTTTACTTGATAGTTTATAAGTATAAATATATGTACAAGTAATTAAAAAAATAAAA
* ** * *
34335634 TCAAACCAATAAAAAACACAAGCAATTTAAATAAAATCCACTCCGAACAACTGTATATGATAGAA
131 TAAAACCAATAAAAAACACAAAAAATTTAAATAAAATCCACACAGAACAACTGTATATGATAGAA
* * * *
34335699 CTATAGACTCATATATAACAATTGTACACATAAATACTCAAACACCACA
196 CTACAAACTCATATATAAAAACTGTACACATAAATACTCAAACACCACA
34335748 AGTATGGGTGAGATACAGTAAAATTTGGAGCACATAACAAGCCAGGCTTAAACAACTATATATTT
1 AGTATGGGTGAGATACAGTAAAATTTGGAGCACATAACAAGCCAGGCTTAAACAAC--TATA--T
*
34335813 ATATTGGTATATTCTTTACTTGATAGTTTATAAGTATAAATATATGTACAAGTAATT-ACAAAAT
62 ATATTGGTATATTCTTTACTTGATAGTTTATAAGTATAAATATATGTACAAGTAATTAAAAAAAT
* *
34335877 AAAATAAAATCAATAAAAAACACAAAAAATTTAAAT-AAATCCACACTAG-ACAACTTTATATGA
127 AAAATAAAACCAATAAAAAACACAAAAAATTTAAATAAAATCCACAC-AGAACAACTGTATATGA
34335940 TAGAACTACAAACTCATATATAAAAACTGTACACATAAATACTCAAACACC
191 TAGAACTACAAACTCATATATAAAAACTGTACACATAAATACTCAAACACC
34335991 CATAACTTGG
Statistics
Matches: 222, Mismatches: 16, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
244 53 0.24
246 73 0.33
247 39 0.18
248 57 0.26
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (244 bp):
AGTATGGGTGAGATACAGTAAAATTTGGAGCACATAACAAGCCAGGCTTAAACAACTATATATAT
TGGTATATTCTTTACTTGATAGTTTATAAGTATAAATATATGTACAAGTAATTAAAAAAATAAAA
TAAAACCAATAAAAAACACAAAAAATTTAAATAAAATCCACACAGAACAACTGTATATGATAGAA
CTACAAACTCATATATAAAAACTGTACACATAAATACTCAAACACCACA
Found at i:34336845 original size:16 final size:18
Alignment explanation
Indices: 34336810--34336847 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
34336800 ATCCTTATTT
34336810 AAATAAAATACAATAGTA
1 AAATAAAATACAATAGTA
34336828 AAATAAAATA-AA-AGTA
1 AAATAAAATACAATAGTA
34336844 AAAT
1 AAAT
34336848 CAATATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAATAGTA
Found at i:34337039 original size:33 final size:33
Alignment explanation
Indices: 34337002--34337067 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
34336992 TAAACATAGT
34337002 CTACTCCTCTTGTAATCATTTGAATTCGACATA
1 CTACTCCTCTTGTAATCATTTGAATTCGACATA
*
34337035 CTACTCGTCTTGTAATCATTTGAATTCGACATA
1 CTACTCCTCTTGTAATCATTTGAATTCGACATA
34337068 GTGAATTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (33 bp):
CTACTCCTCTTGTAATCATTTGAATTCGACATA
Found at i:34337541 original size:16 final size:18
Alignment explanation
Indices: 34337506--34337543 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
34337496 ATCCTTATTT
34337506 AAATAAAATACAATAGTA
1 AAATAAAATACAATAGTA
34337524 AAATAAAATA-AA-AGTA
1 AAATAAAATACAATAGTA
34337540 AAAT
1 AAAT
34337544 CAATATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAATAGTA
Found at i:34337735 original size:33 final size:33
Alignment explanation
Indices: 34337698--34337763 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
34337688 TAAACATAGT
34337698 CTACTCCTCTTGTAATCATTTGAATTCGACATA
1 CTACTCCTCTTGTAATCATTTGAATTCGACATA
*
34337731 CTACTCGTCTTGTAATCATTTGAATTCGACATA
1 CTACTCCTCTTGTAATCATTTGAATTCGACATA
34337764 GTGAATTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (33 bp):
CTACTCCTCTTGTAATCATTTGAATTCGACATA
Found at i:34337808 original size:696 final size:696
Alignment explanation
Indices: 34336477--34337868 Score: 2768
Period size: 696 Copynumber: 2.0 Consensus size: 696
34336467 TAGGAAGAAG
34336477 CTTGATCTTCCATATGGGAATTAGGAGCACAATGATAGGCTCTTTTGTTTATCTTCTTGGTTTTC
1 CTTGATCTTCCATATGGGAATTAGGAGCACAATGATAGGCTCTTTTGTTTATCTTCTTGGTTTTC
34336542 ATCTATATTTCTTTAGTTTTGCATCAACTTATGAAAAATAAATTTACAATAAACCTATCTTTAAA
66 ATCTATATTTCTTTAGTTTTGCATCAACTTATGAAAAATAAATTTACAATAAACCTATCTTTAAA
34336607 TTGCATAGTTAAGTAATATCTTTTTTTTATAGAAGCTTATCATTATTTGAATTAATCTGTTTAAG
131 TTGCATAGTTAAGTAATATCTTTTTTTTATAGAAGCTTATCATTATTTGAATTAATCTGTTTAAG
34336672 GGTCAAATCTAAATTCCTCTTTAAATCATTATTTGAGCTATTAACTTAATAACTTTTTTAAAATT
196 GGTCAAATCTAAATTCCTCTTTAAATCATTATTTGAGCTATTAACTTAATAACTTTTTTAAAATT
34336737 AAAGTTTAAATTTATTTTGATCTAAGTTATGCCTGAACTTTGTGTTAGAATTAAGTGACATGAAT
261 AAAGTTTAAATTTATTTTGATCTAAGTTATGCCTGAACTTTGTGTTAGAATTAAGTGACATGAAT
34336802 CCTTATTTAAATAAAATACAATAGTAAAATAAAATAAAAGTAAAATCAATATAGAACTACACTTT
326 CCTTATTTAAATAAAATACAATAGTAAAATAAAATAAAAGTAAAATCAATATAGAACTACACTTT
34336867 TTTATTTTATTTTAGAATAAGGTTTTTTAAAACCTTATTAAACTCCATCTATTTGATATTGATTA
391 TTTATTTTATTTTAGAATAAGGTTTTTTAAAACCTTATTAAACTCCATCTATTTGATATTGATTA
34336932 GAATAAGGTGATTCAATATTACTACGCTCCTATTAGAATATGGTTTTACAAGCCTATAAATAAAC
456 GAATAAGGTGATTCAATATTACTACGCTCCTATTAGAATATGGTTTTACAAGCCTATAAATAAAC
34336997 ATAGTCTACTCCTCTTGTAATCATTTGAATTCGACATACTACTCGTCTTGTAATCATTTGAATTC
521 ATAGTCTACTCCTCTTGTAATCATTTGAATTCGACATACTACTCGTCTTGTAATCATTTGAATTC
34337062 GACATAGTGAATTTTCTTCTCCTTTGCCCATGGTTTTTTCTCAAAAGGGTTTCTACATAAAAATT
586 GACATAGTGAATTTTCTTCTCCTTTGCCCATGGTTTTTTCTCAAAAGGGTTTCTACATAAAAATT
34337127 TGTGTTCTTTATTTTTCTTTCTCTTTTC-TTTGCGATATATTGTCAT
651 TGTGTTCTTTATTTTTCTTTCTCTTTTCTTTTGCGATATA-TGTCAT
34337173 CTTGATCTTCCATATGGGAATTAGGAGCACAATGATAGGCTCTTTTGTTTATCTTCTTGGTTTTC
1 CTTGATCTTCCATATGGGAATTAGGAGCACAATGATAGGCTCTTTTGTTTATCTTCTTGGTTTTC
34337238 ATCTATATTTCTTTAGTTTTGCATCAACTTATGAAAAATAAATTTACAATAAACCTATCTTTAAA
66 ATCTATATTTCTTTAGTTTTGCATCAACTTATGAAAAATAAATTTACAATAAACCTATCTTTAAA
34337303 TTGCATAGTTAAGTAATATCTTTTTTTTATAGAAGCTTATCATTATTTGAATTAATCTGTTTAAG
131 TTGCATAGTTAAGTAATATCTTTTTTTTATAGAAGCTTATCATTATTTGAATTAATCTGTTTAAG
34337368 GGTCAAATCTAAATTCCTCTTTAAATCATTATTTGAGCTATTAACTTAATAACTTTTTTAAAATT
196 GGTCAAATCTAAATTCCTCTTTAAATCATTATTTGAGCTATTAACTTAATAACTTTTTTAAAATT
34337433 AAAGTTTAAATTTATTTTGATCTAAGTTATGCCTGAACTTTGTGTTAGAATTAAGTGACATGAAT
261 AAAGTTTAAATTTATTTTGATCTAAGTTATGCCTGAACTTTGTGTTAGAATTAAGTGACATGAAT
34337498 CCTTATTTAAATAAAATACAATAGTAAAATAAAATAAAAGTAAAATCAATATAGAACTACACTTT
326 CCTTATTTAAATAAAATACAATAGTAAAATAAAATAAAAGTAAAATCAATATAGAACTACACTTT
34337563 TTTATTTTATTTTAGAATAAGGTTTTTTAAAACCTTATTAAACTCCATCTATTTGATATTGATTA
391 TTTATTTTATTTTAGAATAAGGTTTTTTAAAACCTTATTAAACTCCATCTATTTGATATTGATTA
34337628 GAATAAGGTGATTCAATATTACTACGCTCCTATTAGAATATGGTTTTACAAGCCTATAAATAAAC
456 GAATAAGGTGATTCAATATTACTACGCTCCTATTAGAATATGGTTTTACAAGCCTATAAATAAAC
34337693 ATAGTCTACTCCTCTTGTAATCATTTGAATTCGACATACTACTCGTCTTGTAATCATTTGAATTC
521 ATAGTCTACTCCTCTTGTAATCATTTGAATTCGACATACTACTCGTCTTGTAATCATTTGAATTC
34337758 GACATAGTGAATTTTCTTCTCCTTTGCCCATGGTTTTTTCTCAAAAGGGTTTCTACATAAAAATT
586 GACATAGTGAATTTTCTTCTCCTTTGCCCATGGTTTTTTCTCAAAAGGGTTTCTACATAAAAATT
34337823 TGTGTTCTTTATTTTTCTTTCTCTTTTCTTTTGCGATATATGTCAT
651 TGTGTTCTTTATTTTTCTTTCTCTTTTCTTTTGCGATATATGTCAT
34337869 TACCGACATT
Statistics
Matches: 695, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
696 684 0.98
697 11 0.02
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (696 bp):
CTTGATCTTCCATATGGGAATTAGGAGCACAATGATAGGCTCTTTTGTTTATCTTCTTGGTTTTC
ATCTATATTTCTTTAGTTTTGCATCAACTTATGAAAAATAAATTTACAATAAACCTATCTTTAAA
TTGCATAGTTAAGTAATATCTTTTTTTTATAGAAGCTTATCATTATTTGAATTAATCTGTTTAAG
GGTCAAATCTAAATTCCTCTTTAAATCATTATTTGAGCTATTAACTTAATAACTTTTTTAAAATT
AAAGTTTAAATTTATTTTGATCTAAGTTATGCCTGAACTTTGTGTTAGAATTAAGTGACATGAAT
CCTTATTTAAATAAAATACAATAGTAAAATAAAATAAAAGTAAAATCAATATAGAACTACACTTT
TTTATTTTATTTTAGAATAAGGTTTTTTAAAACCTTATTAAACTCCATCTATTTGATATTGATTA
GAATAAGGTGATTCAATATTACTACGCTCCTATTAGAATATGGTTTTACAAGCCTATAAATAAAC
ATAGTCTACTCCTCTTGTAATCATTTGAATTCGACATACTACTCGTCTTGTAATCATTTGAATTC
GACATAGTGAATTTTCTTCTCCTTTGCCCATGGTTTTTTCTCAAAAGGGTTTCTACATAAAAATT
TGTGTTCTTTATTTTTCTTTCTCTTTTCTTTTGCGATATATGTCAT
Found at i:34344160 original size:6 final size:6
Alignment explanation
Indices: 34344149--34344187 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
34344139 TAAGTCTAAG
* *
34344149 AAAATA ACAATA AACATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
34344188 CAAATAAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:34347699 original size:18 final size:19
Alignment explanation
Indices: 34347666--34347701 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
34347656 AATAAAAGAA
*
34347666 AAACTAGAAAAGAAAAATT
1 AAACTAGAAAACAAAAATT
34347685 AAACTA-AAAACAAAAAT
1 AAACTAGAAAACAAAAAT
34347702 AAAATGCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.72, C:0.08, G:0.06, T:0.14
Consensus pattern (19 bp):
AAACTAGAAAACAAAAATT
Found at i:34351334 original size:30 final size:30
Alignment explanation
Indices: 34351300--34351361 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
34351290 GCTTTTTGAA
*
34351300 AATATTTACAAAAAGAGGC-ATCTAATTTTT
1 AATATTTACAAAAAGA-GCAATCAAATTTTT
34351330 AATATTTACAAAAAGAGCAATCAAATTTTT
1 AATATTTACAAAAAGAGCAATCAAATTTTT
34351360 AA
1 AA
34351362 AAATAATTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 2 0.07
30 28 0.93
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGAGCAATCAAATTTTT
Found at i:34360469 original size:14 final size:14
Alignment explanation
Indices: 34360450--34360480 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
34360440 AAGTGAGAGA
*
34360450 TGAGAGAAGAGTTG
1 TGAGAGAAGAGATG
34360464 TGAGAGAAGAGATG
1 TGAGAGAAGAGATG
34360478 TGA
1 TGA
34360481 ATGAGGGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.42, T:0.19
Consensus pattern (14 bp):
TGAGAGAAGAGATG
Found at i:34376018 original size:17 final size:17
Alignment explanation
Indices: 34375996--34376059 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
34375986 ATTAGAGTTC
34375996 TAATTGTATACAGCTTT
1 TAATTGTATACAGCTTT
* * *
34376013 TAATTGTGTAATCCTAGAGTTC
1 TAA-T-TGT-ATAC-AG-CTTT
34376035 TAATTGTATACAGCTTT
1 TAATTGTATACAGCTTT
34376052 TAATTGTA
1 TAATTGTA
34376060 GCCATTGATG
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
17 13 0.36
18 3 0.08
19 6 0.17
20 6 0.17
21 3 0.08
22 5 0.14
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (17 bp):
TAATTGTATACAGCTTT
Found at i:34376357 original size:49 final size:48
Alignment explanation
Indices: 34376285--34376381 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 48
34376275 TGAGGGAATT
* * *
34376285 CTGTTGAATCCTTTATCGTTGCGAGATTAGGCTGACTTAGGTGTTTTTA
1 CTGTTGAATCCATTATCATTGCGAG-TTAGGCTGACTTAGGCGTTTTTA
34376334 CTGTTGAATCCATTATCATTGCGAGTTAGGCTGACTTAGGCGTTTTTA
1 CTGTTGAATCCATTATCATTGCGAGTTAGGCTGACTTAGGCGTTTTTA
34376382 AGCAAAGAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
48 22 0.49
49 23 0.51
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.41
Consensus pattern (48 bp):
CTGTTGAATCCATTATCATTGCGAGTTAGGCTGACTTAGGCGTTTTTA
Found at i:34381150 original size:39 final size:39
Alignment explanation
Indices: 34381096--34381174 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
34381086 GATATGATTA
34381096 TGTAATCTTAGAGTTCTAATTGTATACAACTTTTAATTG
1 TGTAATCTTAGAGTTCTAATTGTATACAACTTTTAATTG
*
34381135 TGTAATCTTAGAGTTCTAATTGTATACAGCTTTTAATTG
1 TGTAATCTTAGAGTTCTAATTGTATACAACTTTTAATTG
34381174 T
1 T
34381175 AACCATTGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (39 bp):
TGTAATCTTAGAGTTCTAATTGTATACAACTTTTAATTG
Found at i:34381154 original size:22 final size:22
Alignment explanation
Indices: 34381096--34381157 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
34381086 GATATGATTA
34381096 TGTAATCTTAGAGTTCTAATTG
1 TGTAATCTTAGAGTTCTAATTG
* * *
34381118 TAT-A-C--A-ACTTTTAATTG
1 TGTAATCTTAGAGTTCTAATTG
34381135 TGTAATCTTAGAGTTCTAATTG
1 TGTAATCTTAGAGTTCTAATTG
34381157 T
1 T
34381158 ATACAGCTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 10
0.64 0.13 0.22
Matches are distributed among these distances:
17 11 0.38
18 2 0.07
19 1 0.03
20 1 0.03
21 2 0.07
22 12 0.41
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.47
Consensus pattern (22 bp):
TGTAATCTTAGAGTTCTAATTG
Found at i:34381496 original size:48 final size:49
Alignment explanation
Indices: 34381404--34381497 Score: 127
Period size: 48 Copynumber: 1.9 Consensus size: 49
34381394 GGGAATTCTG
* * * **
34381404 TTGATTCCTTTATCGTTGCGAGATTAGGCTGACTTAGGTGTTTTTACTA
1 TTGAATCCGTTATCATTGCGAGATTAGGCTGACTTAGGCATTTTTACTA
*
34381453 TTGAATCCGTTATCATTGTGAG-TTAGGCTGACTTAGGCATTTTTA
1 TTGAATCCGTTATCATTGCGAGATTAGGCTGACTTAGGCATTTTTA
34381498 AGCAAAGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 21 0.54
49 18 0.46
ACGTcount: A:0.20, C:0.14, G:0.22, T:0.44
Consensus pattern (49 bp):
TTGAATCCGTTATCATTGCGAGATTAGGCTGACTTAGGCATTTTTACTA
Found at i:34381998 original size:15 final size:17
Alignment explanation
Indices: 34381969--34382000 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
34381959 AGTTTTTTTA
34381969 TTTATTCTTTAATAATT
1 TTTATTCTTTAATAATT
34381986 TTTATT-TTT-ATAATT
1 TTTATTCTTTAATAATT
34382001 CCATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTATTCTTTAATAATT
Found at i:34394689 original size:18 final size:18
Alignment explanation
Indices: 34394645--34394692 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
34394635 AAGCTTCCGC
*
34394645 GATAAGTAACGTTTTGAAA
1 GATAA-TAACTTTTTGAAA
*
34394664 -ATTTATAACTTTTTGAAA
1 GA-TAATAACTTTTTGAAA
34394682 GATAATAACTT
1 GATAATAACTT
34394693 ATGTATATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (18 bp):
GATAATAACTTTTTGAAA
Found at i:34414148 original size:27 final size:27
Alignment explanation
Indices: 34414062--34414630 Score: 585
Period size: 27 Copynumber: 21.2 Consensus size: 27
34414052 GGTATAACAA
* * **
34414062 TCATTTTACCCTATAGAGGTATTTCAA
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
34414089 TCATTTTACCCTATGGGGGTTATTTTGA
1 TCATTTTACCCTATGGGGG-TATTTCGG
* *
34414117 TCATTTTACCTTATAGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
34414144 CCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
34414171 TTATTCTACCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
34414198 TTATTTTACCCTATAGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
34414225 TTATTTTACCCTATGAGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * * *
34414252 TTATTCTACCCTATGAGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
34414279 TTATTTTACCCTATTGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
34414306 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
34414333 TCAATTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* **
34414360 TCATTTTACCTTATGGGGGTATTTCAA
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
34414387 TCATTCTACCCTATGGGAGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
*
34414414 TCATTCTACCCTA------TACTTT-GG
1 TCATTTTACCCTATGGGGGTA-TTTCGG
* *
34414435 TCTTTTTACCCTATAGGGGGTATTTCGA
1 TCATTTTACCCTAT-GGGGGTATTTCGG
*
34414463 TCATTTTACCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* ** *
34414490 TCATTCTATGCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
34414517 TCATTTTACCCAATGAGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * * * *
34414544 TTATTTTACCCTATGAGTGTATTTTGA
1 TCATTTTACCCTATGGGGGTATTTCGG
34414571 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
34414598 TCATTTTATCTTATGGGGTTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
34414625 TTATTT
1 TCATTT
34414631 ATTGACCTCT
Statistics
Matches: 457, Mismatches: 75, Indels: 20
0.83 0.14 0.04
Matches are distributed among these distances:
21 14 0.03
22 3 0.01
27 401 0.88
28 39 0.09
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGG
Found at i:34421354 original size:102 final size:103
Alignment explanation
Indices: 34421223--34421433 Score: 406
Period size: 102 Copynumber: 2.1 Consensus size: 103
34421213 ACAAAAACAC
34421223 AAAAATTTTAAGAAATAATCAAGAATTGAACTTAATTGCAGCAAAAATATGAAAACCAGCTTAAG
1 AAAAATTTTAAGAAATAATCAAGAATTGAACTTAATTGCAGCAAAAATATGAAAACCAGCTTAAG
34421288 GAAACCCTTCTATGGTGTTTTTTCTGATGAGAATGCAG
66 GAAACCCTTCTATGGTGTTTTTTCTGATGAGAATGCAG
34421326 AAAAATTTT-AGAAATAATCAAGAATTGAACTTAATTGCAGCAAAAATATGAAAACCAGCTTAAG
1 AAAAATTTTAAGAAATAATCAAGAATTGAACTTAATTGCAGCAAAAATATGAAAACCAGCTTAAG
*
34421390 GAAACCCTTCTATGGTGTTTTTTCTGGTGAGAATGCAG
66 GAAACCCTTCTATGGTGTTTTTTCTGATGAGAATGCAG
34421428 AAAAAT
1 AAAAAT
34421434 AAAGAGAAAT
Statistics
Matches: 107, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
102 98 0.92
103 9 0.08
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (103 bp):
AAAAATTTTAAGAAATAATCAAGAATTGAACTTAATTGCAGCAAAAATATGAAAACCAGCTTAAG
GAAACCCTTCTATGGTGTTTTTTCTGATGAGAATGCAG
Found at i:34424721 original size:18 final size:18
Alignment explanation
Indices: 34424698--34424736 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
34424688 AGTTTATTTG
* *
34424698 TTTTACTTTTATTTTTAT
1 TTTTACGTTTATTGTTAT
34424716 TTTTACGTTTATTGTTAT
1 TTTTACGTTTATTGTTAT
34424734 TTT
1 TTT
34424737 CTTAGACTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.74
Consensus pattern (18 bp):
TTTTACGTTTATTGTTAT
Found at i:34429376 original size:23 final size:23
Alignment explanation
Indices: 34429333--34429383 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
34429323 CATCAATTAG
*
34429333 AAGAAGATCTAAAGAGGCACTCA
1 AAGAAGATCTAAAGAGACACTCA
* *
34429356 AAGAAGAT-TGAAGAGAACACTCG
1 AAGAAGATCTAAAGAG-ACACTCA
34429379 AAGAA
1 AAGAA
34429384 CACCATCAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.51, C:0.14, G:0.24, T:0.12
Consensus pattern (23 bp):
AAGAAGATCTAAAGAGACACTCA
Found at i:34435029 original size:17 final size:18
Alignment explanation
Indices: 34435007--34435043 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
34434997 CATCACATAT
34435007 AAAT-AATTTTAAATTAA
1 AAATAAATTTTAAATTAA
*
34435024 AAATAAATTTTGAATTAA
1 AAATAAATTTTAAATTAA
34435042 AA
1 AA
34435044 GTTCATACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
AAATAAATTTTAAATTAA
Found at i:34436925 original size:93 final size:93
Alignment explanation
Indices: 34436823--34437010 Score: 376
Period size: 93 Copynumber: 2.0 Consensus size: 93
34436813 AAAAAAGAAA
34436823 AGAAATTAGACTATAAATATATATATGTGAAAAATACTTGAAAATGTAGATAAACCTGAAATACT
1 AGAAATTAGACTATAAATATATATATGTGAAAAATACTTGAAAATGTAGATAAACCTGAAATACT
34436888 AAATCAAGATATACTAGTACTGCCAATG
66 AAATCAAGATATACTAGTACTGCCAATG
34436916 AGAAATTAGACTATAAATATATATATGTGAAAAATACTTGAAAATGTAGATAAACCTGAAATACT
1 AGAAATTAGACTATAAATATATATATGTGAAAAATACTTGAAAATGTAGATAAACCTGAAATACT
34436981 AAATCAAGATATACTAGTACTGCCAATG
66 AAATCAAGATATACTAGTACTGCCAATG
34437009 AG
1 AG
34437011 GCCTTGGCAC
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 95 1.00
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.28
Consensus pattern (93 bp):
AGAAATTAGACTATAAATATATATATGTGAAAAATACTTGAAAATGTAGATAAACCTGAAATACT
AAATCAAGATATACTAGTACTGCCAATG
Found at i:34438568 original size:34 final size:34
Alignment explanation
Indices: 34438497--34438570 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
34438487 AATGCCAGTA
* ** *
34438497 ATCAGTAGGGCCTTTGTCCAATTTCAGTAGTAGT
1 ATCAGTAGGGCCTTTGGCCAATAACAGTAATAGT
*
34438531 ATCAGTAGGGCC-TTGGCCCATAACAGTAATAGAT
1 ATCAGTAGGGCCTTTGGCCAATAACAGTAATAG-T
34438565 ATCAGT
1 ATCAGT
34438571 CATGCAGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 15 0.44
34 19 0.56
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (34 bp):
ATCAGTAGGGCCTTTGGCCAATAACAGTAATAGT
Found at i:34439065 original size:27 final size:27
Alignment explanation
Indices: 34439035--34439178 Score: 227
Period size: 27 Copynumber: 5.4 Consensus size: 27
34439025 GGTATAACAA
34439035 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
34439062 TCATTTTACCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
34439089 TCATTTTACCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
34439116 TTATTTTACCTTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
34439143 TCATTTTACCCTA-CGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
34439169 TCATTTTACC
1 TCATTTTACC
34439179 TATTACAGTG
Statistics
Matches: 109, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
26 21 0.19
27 88 0.81
ACGTcount: A:0.16, C:0.17, G:0.23, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGG
Found at i:34442551 original size:27 final size:26
Alignment explanation
Indices: 34442493--34442582 Score: 99
Period size: 27 Copynumber: 3.4 Consensus size: 26
34442483 GCCATAACAA
*
34442493 TCATTTTACCCTATGGGGTATTTCAG
1 TCATTTTACCCTATGGGGTATTTTAG
* *
34442519 TAATTTTACCCTATGAGGGTATTTTGG
1 TCATTTTACCCTATG-GGGTATTTTAG
** * *
34442546 TCATTTTACTTTAAGGGTGTATTTTCG
1 TCATTTTACCCTATGGG-GTATTTTAG
34442573 TCATTTTACC
1 TCATTTTACC
34442583 TATTTTAGGG
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
26 16 0.30
27 37 0.70
ACGTcount: A:0.20, C:0.16, G:0.18, T:0.47
Consensus pattern (26 bp):
TCATTTTACCCTATGGGGTATTTTAG
Found at i:34447595 original size:17 final size:18
Alignment explanation
Indices: 34447573--34447607 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
34447563 ATTTGGGTCA
34447573 TGTGGGCC-ACATGGGCG
1 TGTGGGCCTACATGGGCG
34447590 TGTGGGCCTACATGGGCG
1 TGTGGGCCTACATGGGCG
34447608 AACATTATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.11, C:0.23, G:0.46, T:0.20
Consensus pattern (18 bp):
TGTGGGCCTACATGGGCG
Found at i:34451828 original size:26 final size:27
Alignment explanation
Indices: 34451771--34451828 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
34451761 TAATTTATCC
* * * *
34451771 ATTTTTATTTTATTTTTTATATTTTCA
1 ATTTTTAGTTTAATTTTTACATTCTCA
34451798 A-TTTTAGTTTAATTTTTACATTCT-A
1 ATTTTTAGTTTAATTTTTACATTCTCA
34451823 ATTTTT
1 ATTTTT
34451829 TATTTACTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 2 0.08
26 23 0.88
27 1 0.04
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (27 bp):
ATTTTTAGTTTAATTTTTACATTCTCA
Found at i:34453512 original size:9 final size:9
Alignment explanation
Indices: 34453498--34453524 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
34453488 CAGGTCGGTA
34453498 ACTAGAGTC
1 ACTAGAGTC
34453507 ACTAGAGTC
1 ACTAGAGTC
34453516 ACTAGAGTC
1 ACTAGAGTC
34453525 GCTCCGACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (9 bp):
ACTAGAGTC
Found at i:34458208 original size:16 final size:16
Alignment explanation
Indices: 34458186--34458222 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
34458176 ATATATTTAA
34458186 ATAATTATTATCAAAAT
1 ATAATTATTA-CAAAAT
34458203 -TAATTATTACAAAAT
1 ATAATTATTACAAAAT
34458218 ATAAT
1 ATAAT
34458223 AAAATTGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAATTATTACAAAAT
Done.