Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 132 of 290
Found at i:41556401 original size:23 final size:23
Alignment explanation
Indices: 41556347--41556511 Score: 258
Period size: 23 Copynumber: 7.1 Consensus size: 23
41556337 CCTAGCCTCT
* *
41556347 TTTAATAACTGGGGCAAAAGTCCT
1 TTTAATAACTGGGGCACAAG-CCC
* *
41556371 TTTAATAACTGGGGCATAAACCC
1 TTTAATAACTGGGGCACAAGCCC
* *
41556394 TTTAATAATTGGGGCATAAGCCC
1 TTTAATAACTGGGGCACAAGCCC
41556417 TTTAATAACTGGGGCACAAGCCC
1 TTTAATAACTGGGGCACAAGCCC
41556440 TTTAATAACTGGGGCACAAGCCC
1 TTTAATAACTGGGGCACAAGCCC
41556463 TTTAATAACTGGGGCACAAGCCC
1 TTTAATAACTGGGGCACAAGCCC
*
41556486 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCACAAGCCC
41556509 TTT
1 TTT
41556512 TTCACTTCCT
Statistics
Matches: 133, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
23 115 0.86
24 18 0.14
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.27
Consensus pattern (23 bp):
TTTAATAACTGGGGCACAAGCCC
Found at i:41556627 original size:20 final size:20
Alignment explanation
Indices: 41556571--41556628 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
41556561 CATCACGTGG
*
41556571 ATATCATACATATAATGTGC
1 ATATCATACATATCATGTGC
*
41556591 ATATCATACATGTCATGTGC
1 ATATCATACATATCATGTGC
*
41556611 ATATCATACATACCATGT
1 ATATCATACATATCATGT
41556629 TTATCAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.34
Consensus pattern (20 bp):
ATATCATACATATCATGTGC
Found at i:41562253 original size:92 final size:94
Alignment explanation
Indices: 41562144--41562363 Score: 347
Period size: 94 Copynumber: 2.4 Consensus size: 94
41562134 AATTACCCTA
* * *
41562144 AGTAAGTATGTATTGATAACTTGTTAAGACCAAATGTTGAGCA-AT-TGGTTTATATTCTAAGAG
1 AGTAAGTATGTATTGATAAATTGTTGAGACCAAATGTTGAGCAGATATGGATTATATTCTAAGAG
41562207 TTGAAGGAAGAATA-CTGTAAATACTGAGG
66 TTGAAGGAAGAATATC-GTAAATACTGAGG
* *
41562236 AGTAAGTATGTACTGATAAATTGTTGAGACCAAATGTTGAGCAGTTATGGATTATATTCTAAGAG
1 AGTAAGTATGTATTGATAAATTGTTGAGACCAAATGTTGAGCAGATATGGATTATATTCTAAGAG
* *
41562301 TTGAGGGAAGAATATCGTAATTACTGAGG
66 TTGAAGGAAGAATATCGTAAATACTGAGG
41562330 AGTAAGTATGTATTGATAAATTGTTGAGACCAAA
1 AGTAAGTATGTATTGATAAATTGTTGAGACCAAA
41562364 GTCGATATTT
Statistics
Matches: 117, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
92 40 0.34
93 1 0.01
94 75 0.64
95 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.32
Consensus pattern (94 bp):
AGTAAGTATGTATTGATAAATTGTTGAGACCAAATGTTGAGCAGATATGGATTATATTCTAAGAG
TTGAAGGAAGAATATCGTAAATACTGAGG
Found at i:41564067 original size:18 final size:20
Alignment explanation
Indices: 41564031--41564077 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
41564021 AGTTGTAAGT
41564031 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
41564051 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
41564070 ATGATATA
1 AT-ATATA
41564078 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:41564638 original size:101 final size:100
Alignment explanation
Indices: 41564428--41564717 Score: 273
Period size: 101 Copynumber: 2.9 Consensus size: 100
41564418 GTTGTGAGGA
** * *** * *
41564428 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTA-AG-TCACGTGTGTAGTA
1 CACATGTGTAGTACTAACTGCAGGCTACTACGTGTACCAGAT--TAATAGATCACATGTGTAGTA
* * *
41564491 CTAAGTGCAGGCTATTACGTGTACCAAATTGATAGGT
64 CTAAGTGCAGGCTACTACGTGTACCAAATGGATAAGT
** * * * *
41564528 TGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGA-TAACTTCGATCACATGTGTAGTA
1 CACATGTGTAGTACTAACTGCAGGCTACTACGTGTACCAGATTAA--TAGATCACATGTGTAGTA
* * * *
41564592 CTAAATGCAGGCTGCTACGTGTATCAGATGGATAAGT
64 CTAAGTGCAGGCTACTACGTGTACCAAATGGATAAGT
* * *
41564629 CACGA-GTGTAGTACTAACTGTAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
1 CAC-ATGTGTAGTACTAACTGCAGGCTACTACGTGTACCAGATTAATAGATCACATGTGTAGTAC
* *
41564693 TAAGTGCAGGCTACTATGCGTACCA
65 TAAGTGCAGGCTACTACGTGTACCA
41564718 GAAAGCTTCG
Statistics
Matches: 153, Mismatches: 31, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
97 2 0.01
100 72 0.47
101 76 0.50
102 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (100 bp):
CACATGTGTAGTACTAACTGCAGGCTACTACGTGTACCAGATTAATAGATCACATGTGTAGTACT
AAGTGCAGGCTACTACGTGTACCAAATGGATAAGT
Found at i:41564702 original size:151 final size:151
Alignment explanation
Indices: 41564428--41564716 Score: 443
Period size: 151 Copynumber: 1.9 Consensus size: 151
41564418 GTTGTGAGGA
** * * * *
41564428 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTAAGTCACGTGTGTAGTACT
1 CACATGTGTAGTACTAAATGCAGGCTACTACGTGTATAAGATGGATAAGTCACGAGTGTAGTACT
* * **
41564493 AAGTGCAGGCTATTACGTGTACCAAATTGATAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTA
66 AACTGCAGGCTACTACGTGTACCAAATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
*
41564558 TGTGTACCCGATAACTTCGAT
131 TGCGTACCCGATAACTTCGAT
* *
41564579 CACATGTGTAGTACTAAATGCAGGCTGCTACGTGTATCAGATGGATAAGTCACGAGTGTAGTACT
1 CACATGTGTAGTACTAAATGCAGGCTACTACGTGTATAAGATGGATAAGTCACGAGTGTAGTACT
* *
41564644 AACTGTAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
66 AACTGCAGGCTACTACGTGTACCAAATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
41564709 TGCGTACC
131 TGCGTACC
41564717 AGAAAGCTTC
Statistics
Matches: 123, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
151 123 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (151 bp):
CACATGTGTAGTACTAAATGCAGGCTACTACGTGTATAAGATGGATAAGTCACGAGTGTAGTACT
AACTGCAGGCTACTACGTGTACCAAATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
TGCGTACCCGATAACTTCGAT
Found at i:41564718 original size:50 final size:50
Alignment explanation
Indices: 41564428--41564719 Score: 300
Period size: 50 Copynumber: 5.8 Consensus size: 50
41564418 GTTGTGAGGA
* * *** * * *
41564428 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
* * *
41564478 CACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTACCAAATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
** * * * * *
41564528 TGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGA-TAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAGGT
* * * * *
41564579 CACATGTGTAGTACTAAATGCAGGCTGCTACGTGTATCAGATGGATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
* *
41564629 CACGA-GTGTAGTACTAACTGTAGGCTACTACGTGTACCAGATTGATAGGT
1 CAC-ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
* *
41564679 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
41564720 AAGCTTCGGT
Statistics
Matches: 194, Mismatches: 43, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
49 3 0.02
50 152 0.78
51 38 0.20
52 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
Found at i:41564940 original size:16 final size:16
Alignment explanation
Indices: 41564919--41564950 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
41564909 AGAATGGAGT
41564919 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
41564935 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
41564951 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:41565582 original size:180 final size:180
Alignment explanation
Indices: 41565278--41565602 Score: 501
Period size: 180 Copynumber: 1.8 Consensus size: 180
41565268 CCGAGAGCTG
* * * *
41565278 TACCATGAGATAAATAATTTTTAGTGAAGAGAGGTTGAAACTGTTGGATAGTGAAATAGGGGTAT
1 TACCATGAGATAAATAATTTTTAGTGAAGAGAGGTAGAAACTGTCGGATAGTGAAACAAGGGTAT
* *
41565343 CTTTAATGAATAAAATGTACTAGTTGGCTAAATAAAAAATTCTGAAAATTTTATGGTAAGAATAT
66 ATTTAATGAATAAAATGTACTAGTTGGCTAAACAAAAAATTCTGAAAATTTTATGGTAAGAATAT
41565408 ATATGAGTATAGTTTCTGGAAAAATTAGAAGTTCTCCATTTAGAGTACCA
131 ATATGAGTATAGTTTCTGGAAAAATTAGAAGTTCTCCATTTAGAGTACCA
* *
41565458 TACCATGAGATAAATAATTTTTAGTTAAGAGAGGTCAG-AACTGTCGGGTAGTGAAACAAGGGTA
1 TACCATGAGATAAATAATTTTTAGTGAAGAGAGGT-AGAAACTGTCGGATAGTGAAACAAGGGTA
* * * *
41565522 TATTTAATGAATAAACTGTACTCA-TTGGCTAGACCAAAAATTCTGAAAATTTTGTGGTAAGAAT
65 TATTTAATGAATAAAATGTACT-AGTTGGCTAAACAAAAAATTCTGAAAATTTTATGGTAAGAAT
*
41565586 ATATATGAGTCTAGTTT
129 ATATATGAGTATAGTTT
41565603 TAGATAAAAT
Statistics
Matches: 130, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
180 128 0.98
181 2 0.02
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.33
Consensus pattern (180 bp):
TACCATGAGATAAATAATTTTTAGTGAAGAGAGGTAGAAACTGTCGGATAGTGAAACAAGGGTAT
ATTTAATGAATAAAATGTACTAGTTGGCTAAACAAAAAATTCTGAAAATTTTATGGTAAGAATAT
ATATGAGTATAGTTTCTGGAAAAATTAGAAGTTCTCCATTTAGAGTACCA
Found at i:41569317 original size:164 final size:164
Alignment explanation
Indices: 41568799--41569535 Score: 844
Period size: 164 Copynumber: 4.5 Consensus size: 164
41568789 GTGAAGAAGC
* * * * * *
41568799 ACATTCGTTCCTTCACGTTGATCATTGTAAATATTCTTGTTATATTTTTTACCAATTGTTCTTGC
1 ACATACGTTCCTTCATGTTGATCATTATAAATATTCTTCTTATGTTTTTTACCAGTTGTTCTTGC
* * * * * * * * * *
41568864 CCCAGGGTTGAGGGAATAATACCA-TACTTACCGTGCTGTACGTATATATTGAAAACTAGTTGAG
66 CCAAGAGTTGAGGGAATAATA-CATTAATTACAGCGCGGTAAGTATGTATTGATAACTTGTTGAG
*
41568928 ACTAAATGTTGAGCAATTGTGGTTTATATTCTAAG
130 ACCAAATGTTGAGCAATTGTGGTTTATATTCTAAG
* * * * *
41568963 ACATGCGTTCCTTTATGTTGGTCATTATAAATATTCTTCTTATATTTTTTTTACTAGTTGTTCTT
1 ACATACGTTCCTTCATGTTGATCATTATAAATATTCTTC-T-TATGTTTTTTACCAGTTGTTCTT
* *
41569028 GCTCTAGAGTTGAGGGAATAATA-ATTTAATTACAGCGC----AGTATGTATTGATAACTTGTTG
64 GCCCAAGAGTTGAGGGAATAATACA-TTAATTACAGCGCGGTAAGTATGTATTGATAACTTGTTG
* * **
41569088 AGACCAAATGTTAAGAAATTGCAGTTTATATTCTAAG
128 AGACCAAATGTTGAGCAATTGTGGTTTATATTCTAAG
* * * *
41569125 ACATACATTCTTTCACT-TTAACCATTATAAATATTCTTCTTATGTTTTTTACCAGTTGTTCTTG
1 ACATACGTTCCTTCA-TGTTGATCATTATAAATATTCTTCTTATGTTTTTTACCAGTTGTTCTTG
* * *
41569189 CCCAAGAGTTGAGGGAATAATACATTAATTACAGCACGGTAAGTATGTATTGATAAGTTCTTGAG
65 CCCAAGAGTTGAGGGAATAATACATTAATTACAGCGCGGTAAGTATGTATTGATAACTTGTTGAG
*
41569254 ACCAAATGTTGAGCAATAGTGGTTTATATTCTAAG
130 ACCAAATGTTGAGCAATTGTGGTTTATATTCTAAG
* * * *
41569289 ATATATGTTCCTTCATGTTGATCATTATAAATATTCTTATTATGTTTTTTACCAGTTGTTTTTAA
1 ACATACGTTCCTTCATGTTGATCATTATAAATATTCTTCTTATGTTTTTTACCAGTTGTTCTT--
* * * * *
41569354 CCCCCAA-AGTTGAGGAAATAATACCTTAATTACTGCGCGGTAAGTATG-ATTGATAACTTGTTA
64 -GCCCAAGAGTTGAGGGAATAATACATTAATTACAGCGCGGTAAGTATGTATTGATAACTTGTTG
* * *
41569417 AGACCAAATGTTGAGCAATTGTGGTTTATGTTCCAAA
128 AGACCAAATGTTGAGCAATTGTGGTTTATATTCTAAG
* * *
41569454 ACATACGTTCCTTCATGTTGATCTTTATAAATATTCTTCTTATGTTTTTTTACCAGTTCTTATTG
1 ACATACGTTCCTTCATGTTGATCATTATAAATATTCTTCTTATG-TTTTTTACCAGTTGTTCTTG
* * *
41569519 CTCTAGAGTTGATGGAA
65 CCCAAGAGTTGAGGGAA
41569536 GAAGAACATA
Statistics
Matches: 483, Mismatches: 74, Indels: 32
0.82 0.13 0.05
Matches are distributed among these distances:
160 54 0.11
161 2 0.00
162 80 0.17
163 5 0.01
164 148 0.31
165 86 0.18
166 103 0.21
167 5 0.01
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (164 bp):
ACATACGTTCCTTCATGTTGATCATTATAAATATTCTTCTTATGTTTTTTACCAGTTGTTCTTGC
CCAAGAGTTGAGGGAATAATACATTAATTACAGCGCGGTAAGTATGTATTGATAACTTGTTGAGA
CCAAATGTTGAGCAATTGTGGTTTATATTCTAAG
Found at i:41571068 original size:164 final size:164
Alignment explanation
Indices: 41570429--41571151 Score: 638
Period size: 164 Copynumber: 4.4 Consensus size: 164
41570419 TAAATTTTGG
* * * * * * * *
41570429 TTTATATTACGAGGCATATGTTTCTTTATGTTGATCATTATAAATCTTCTTCTAATTCTTTTTTG
1 TTTATATTTCGAGACATACGTTTATTCATATTGATCATTATAAATCTTCTTCTTATT-TTTTTTA
* * * ** * * * * * * * * * *
41570494 CCAATTATTCTCACTCAAGTGTTGTGAGAAGGATAACGTAAGTACTAC-GCGATAAGTATGCATT
65 CCAGTTGTTTTTGCTCAAGAGTTGAGGGAAGAAGAAAGTAATTAAT-CTGGGGTAAGTATGCATT
* * * *
41570558 GATGACTTATTGAGACCAAATTTTAAGCAATTGTGG
129 GATAACTTGTTGAGACCAAATGTTAAGCAATTGTGA
* * * * *
41570594 TTTATATTTCGAGACAT--GTTCCATT-ATATTGATCATTATAAATCTTCTACTAATGTTTTTTG
1 TTTATATTTCGAGACATACGTT-TATTCATATTGATCATTATAAATCTTCTTCTTATTTTTTTTA
* * * * * *
41570656 CTAGATCTTCTTGCTCCAGAGTTGAGGCAAGAAGAAAGTAATTAATCTGGGGTAAGTATGCATTG
65 CCAGTTGTTTTTGCTCAAGAGTTGAGGGAAGAAGAAAGTAATTAATCTGGGGTAAGTATGCATTG
* * * *
41570721 ATAACTTGTTGAGACCAAATATTGAGCAAATGTGG
130 ATAACTTGTTGAGACCAAATGTTAAGCAATTGTGA
* * *
41570756 TTTATA-TTCTGAGACATACATTTCTTCATATTGATAATTATAAATCTTCTTCTTATGTTTTTTT
1 TTTATATTTC-GAGACATACGTTTATTCATATTGATCATTATAAATCTTCTTCTTAT-TTTTTTT
* * * * ** *** ** *
41570820 ACTAGTTGTTCTTT-CTCTAGAGTTGAGGGAATAA-TACCTGAATTACGGTACGGTAAGTATGTA
64 ACCAGTTGTT-TTTGCTCAAGAGTTGAGGGAAGAAGAAAGT-AATTAATCTGGGGTAAGTATGCA
* *
41570883 TAGATAACTTGTTGAGACCAAATGTTAAGTAATTGTGA
127 TTGATAACTTGTTGAGACCAAATGTTAAGCAATTGTGA
* * * *
41570921 TTTATATTTCGAGACATACGTTCT-TTTATGTTGATCTTTATAAATATTCTTCTTATTTTTTTTA
1 TTTATATTTCGAGACATACGTT-TATTCATATTGATCATTATAAATCTTCTTCTTATTTTTTTTA
* *
41570985 CCAGTTGTTTTTGCTCAAGAGTTGAGGGAAGAAGAAAGTAATTAATCTGGGGTAAGTCTACATTG
65 CCAGTTGTTTTTGCTCAAGAGTTGAGGGAAGAAGAAAGTAATTAATCTGGGGTAAGTATGCATTG
41571050 ATAACTTGTTGAGACCAAATGTTGAAAG-AA-TGTGA
130 ATAACTTGTTGAGACCAAATGTT--AAGCAATTGTGA
* * * * * * *
41571085 TTTATATTCCGAGACACACGTTTATTCATGTTGGTCATTGTAAATCTTCTTCTTGTTTTGTTTAC
1 TTTATATTTCGAGACATACGTTTATTCATATTGATCATTATAAATCTTCTTCTTATTTTTTTTAC
41571150 CA
66 CA
41571152 ATAAATCTTC
Statistics
Matches: 453, Mismatches: 89, Indels: 33
0.79 0.15 0.06
Matches are distributed among these distances:
161 4 0.01
162 95 0.21
163 36 0.08
164 167 0.37
165 142 0.31
166 9 0.02
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (164 bp):
TTTATATTTCGAGACATACGTTTATTCATATTGATCATTATAAATCTTCTTCTTATTTTTTTTAC
CAGTTGTTTTTGCTCAAGAGTTGAGGGAAGAAGAAAGTAATTAATCTGGGGTAAGTATGCATTGA
TAACTTGTTGAGACCAAATGTTAAGCAATTGTGA
Found at i:41571069 original size:329 final size:327
Alignment explanation
Indices: 41570546--41571138 Score: 837
Period size: 329 Copynumber: 1.8 Consensus size: 327
41570536 TACTACGCGA
* * * *
41570546 TAAGTATGCATTGATGACTTATTGAGACCAAATTTTAAGCAATTGTGGTTTATATTTCGAGACAT
1 TAAGTATGCATAGATAACTTATTGAGACCAAATGTTAAGCAATTGTGATTTATATTTCGAGACAT
* * * *
41570611 GTTCCATTATATTGATCATTATAAATCTTCTACTAATGTTTTTTGCTAGATCTTCTTGCTCCAGA
66 GTTCCATTATATTGATCATTATAAATATTCTACTAATGTTTTTTACCAGATCTTCTTGCTCAAGA
*
41570676 GTTGAGGCAAGAAGAAAGTAATTAATCTGGGGTAAGTATGCATTGATAACTTGTTGAGACCAAAT
131 GTTGAGGCAAGAAGAAAGTAATTAATCTGGGGTAAGTATACATTGATAACTTGTTGAGACCAAAT
* * * * *
41570741 ATTGAGCA-AATGTGGTTTATATTCTGAGACATACATTTCTTCATATTGATAATTATAAATCTTC
196 ATTGA-AAGAATGTGATTTATATTCCGAGACACACATTTATTCATATTGATAATTATAAATCTTC
41570805 TTCTTATGTTTTTTTACTAGTTGTTCTTTCTCTAGAGTTGAGGGAATAATACCTGAATTACGGTA
260 TTCTTATGTTTTTTTACTAGTTGTTCTTTCTCTAGAGTTGAGGGAATAATACCTGAATTACGGTA
41570870 CGG
325 CGG
* * *
41570873 TAAGTATGTATAGATAACTTGTTGAGACCAAATGTTAAGTAATTGTGATTTATATTTCGAGACAT
1 TAAGTATGCATAGATAACTTATTGAGACCAAATGTTAAGCAATTGTGATTTATATTTCGAGACAT
** * * * * * * * *
41570938 ACGTTCTTTTATGTTGATCTTTATAAATATTCTTCTTATTTTTTTTACCAGTTGTTTTTGCTCAA
66 --GTTCCATTATATTGATCATTATAAATATTCTACTAATGTTTTTTACCAGATCTTCTTGCTCAA
* *
41571003 GAGTTGAGGGAAGAAGAAAGTAATTAATCTGGGGTAAGTCTACATTGATAACTTGTTGAGACCAA
129 GAGTTGAGGCAAGAAGAAAGTAATTAATCTGGGGTAAGTATACATTGATAACTTGTTGAGACCAA
* * * * * *
41571068 ATGTTGAAAGAATGTGATTTATATTCCGAGACACACGTTTATTCATGTTGGTCATTGTAAATCTT
194 ATATTGAAAGAATGTGATTTATATTCCGAGACACACATTTATTCATATTGATAATTATAAATCTT
41571133 CTTCTT
259 CTTCTT
41571139 GTTTTGTTTA
Statistics
Matches: 228, Mismatches: 35, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
327 58 0.25
328 1 0.00
329 169 0.74
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (327 bp):
TAAGTATGCATAGATAACTTATTGAGACCAAATGTTAAGCAATTGTGATTTATATTTCGAGACAT
GTTCCATTATATTGATCATTATAAATATTCTACTAATGTTTTTTACCAGATCTTCTTGCTCAAGA
GTTGAGGCAAGAAGAAAGTAATTAATCTGGGGTAAGTATACATTGATAACTTGTTGAGACCAAAT
ATTGAAAGAATGTGATTTATATTCCGAGACACACATTTATTCATATTGATAATTATAAATCTTCT
TCTTATGTTTTTTTACTAGTTGTTCTTTCTCTAGAGTTGAGGGAATAATACCTGAATTACGGTAC
GG
Found at i:41571157 original size:28 final size:28
Alignment explanation
Indices: 41571125--41571188 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
41571115 TTGGTCATTG
41571125 TAAATCTTCTTCTTGTTTTGTTTACCAA
1 TAAATCTTCTTCTTGTTTTGTTTACCAA
*
41571153 TAAATCTTCTTCTTGTTTTGTTTACCAG
1 TAAATCTTCTTCTTGTTTTGTTTACCAA
*
41571181 TAATTCTT
1 TAAATCTT
41571189 TCTCCAGAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.20, C:0.17, G:0.08, T:0.55
Consensus pattern (28 bp):
TAAATCTTCTTCTTGTTTTGTTTACCAA
Found at i:41572774 original size:31 final size:31
Alignment explanation
Indices: 41572736--41572811 Score: 143
Period size: 31 Copynumber: 2.5 Consensus size: 31
41572726 CGTATGTAAG
41572736 AGGCCGTGTGGGCCACACGAGCTAGCCATTC
1 AGGCCGTGTGGGCCACACGAGCTAGCCATTC
*
41572767 AGGCCGTGTGGGCCACCCGAGCTAGCCATTC
1 AGGCCGTGTGGGCCACACGAGCTAGCCATTC
41572798 AGGCCGTGTGGGCC
1 AGGCCGTGTGGGCC
41572812 CAAAATTCTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.16, C:0.33, G:0.36, T:0.16
Consensus pattern (31 bp):
AGGCCGTGTGGGCCACACGAGCTAGCCATTC
Found at i:41575680 original size:40 final size:40
Alignment explanation
Indices: 41575596--41575779 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
41575586 TTGAATGCTG
* * * *
41575596 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
* *
41575635 ATCCGGGCTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * **
41575676 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACCAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
41575716 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
41575756 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
41575780 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 112 0.91
41 10 0.08
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:41575733 original size:80 final size:81
Alignment explanation
Indices: 41575596--41575776 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
41575586 TTGAATGCTG
* * * *
41575596 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGGCTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACAATATCCGGGCTAAGATCCGAAGGCATT
* *
41575660 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
*
41575676 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACCAAT-TCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGA-CAATATCCGGGCTAAGAT-CCGAAGGC
41575737 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
41575756 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
41575777 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 3 0.03
80 74 0.83
81 12 0.13
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACAATATCCGGGCTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:41575800 original size:39 final size:39
Alignment explanation
Indices: 41575676--41575826 Score: 117
Period size: 40 Copynumber: 3.8 Consensus size: 39
41575666 AGTTATTAAT
* ** * * *
41575676 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATAC-CAAT
1 TCCGGGTTAAGTCCCGAAGG-CATTGAACGAG-TTCTAAAA
** *
41575716 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTCTAAAA
* **
41575756 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTT-CTAAAA
* *
41575796 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 TCCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
41575827 GAGCTATATC
Statistics
Matches: 93, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 29 0.31
40 64 0.69
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTCTAAAA
Found at i:41578074 original size:20 final size:22
Alignment explanation
Indices: 41578028--41578075 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
41578018 TTTAATAATC
*
41578028 CCAAACCCTTAACCCAAAATAT
1 CCAAACCCTAAACCCAAAATAT
*
41578050 -AAAACCCTAAACCC-AAAT-T
1 CCAAACCCTAAACCCAAAATAT
41578069 CCAAACC
1 CCAAACC
41578076 TATAACTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
19 1 0.05
20 9 0.41
21 12 0.55
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.15
Consensus pattern (22 bp):
CCAAACCCTAAACCCAAAATAT
Found at i:41578924 original size:43 final size:44
Alignment explanation
Indices: 41578838--41578925 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
41578828 TATAAAAAAA
* *
41578838 TAAATTATAATTATTTTTAAATATGTAATTATCACAACTTCTAT
1 TAAATAATAATTATTTTTAAATATATAATTATCACAACTTCTAT
* *
41578882 TAAATAATAATTATTTTTAAAT-TATAATTATCATAATTTCTAT
1 TAAATAATAATTATTTTTAAATATATAATTATCACAACTTCTAT
41578925 T
1 T
41578926 TTACGTCAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 19 0.47
44 21 0.52
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.50
Consensus pattern (44 bp):
TAAATAATAATTATTTTTAAATATATAATTATCACAACTTCTAT
Found at i:41581928 original size:119 final size:121
Alignment explanation
Indices: 41581768--41582005 Score: 435
Period size: 121 Copynumber: 2.0 Consensus size: 121
41581758 AATTGAATTA
41581768 AAAAAATCAATTGAATATATGGTTGAACAAG-TT-TATATATATATTAATAAAATTATAGTAATT
1 AAAAAATCAATTGAATATATGGTTGAACAAGTTTATATATATATATTAATAAAATTATAGTAATT
* * *
41581831 TATTTAATCGAATAATTAAAATTGATTAAATTTATCGAATTGACTTGATTAATTTT
66 TATTTAATCGAACAATTAAAATTGATTAAATTTATCAAATTGACTTAATTAATTTT
41581887 AAAAAATCAATTGAATATATGGTTGAACAAGTTTATATATATATATTAATAAAATTATAGTAATT
1 AAAAAATCAATTGAATATATGGTTGAACAAGTTTATATATATATATTAATAAAATTATAGTAATT
41581952 TATTTAATCGAACAATTAAAATTGATTAAATTTATCAAATTGACTTAATTAATT
66 TATTTAATCGAACAATTAAAATTGATTAAATTTATCAAATTGACTTAATTAATT
41582006 CAATCACTGA
Statistics
Matches: 114, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
119 31 0.27
120 2 0.02
121 81 0.71
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (121 bp):
AAAAAATCAATTGAATATATGGTTGAACAAGTTTATATATATATATTAATAAAATTATAGTAATT
TATTTAATCGAACAATTAAAATTGATTAAATTTATCAAATTGACTTAATTAATTTT
Found at i:41583973 original size:19 final size:18
Alignment explanation
Indices: 41583951--41583999 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 18
41583941 AAACTTAAAA
*
41583951 ATATATTTTTAAATTTTGT
1 ATATATTTTTAAAATTT-T
41583970 ATATATTTTTAAAATTTT
1 ATATATTTTTAAAATTTT
41583988 -TA-ATTTTTAAAA
1 ATATATTTTTAAAA
41584000 ATAATTGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 10 0.34
17 2 0.07
18 1 0.03
19 16 0.55
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
ATATATTTTTAAAATTTT
Found at i:41583979 original size:20 final size:19
Alignment explanation
Indices: 41583951--41583999 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
41583941 AAACTTAAAA
*
41583951 ATATATTTTTAAATTTTGT
1 ATATATTTTAAAATTTTGT
41583970 ATATATTTTTAAAATTTT-T
1 ATATA-TTTTAAAATTTTGT
41583989 A-AT-TTTTAAAA
1 ATATATTTTAAAA
41584000 ATAATTGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 8 0.29
18 2 0.07
19 7 0.25
20 11 0.39
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
ATATATTTTAAAATTTTGT
Found at i:41585372 original size:28 final size:29
Alignment explanation
Indices: 41585341--41585404 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
41585331 CCCCGTTTTC
41585341 TTTTTTCAGTTTTTTCTTTTATT-TATTA
1 TTTTTTCAGTTTTTTCTTTTATTCTATTA
** *
41585369 TTTTCACATTTTTTTCTTTTATTCCTATTA
1 TTTTTTCAGTTTTTTCTTTTATT-CTATTA
41585399 TTTTTT
1 TTTTTT
41585405 AAAATTAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
28 20 0.69
30 9 0.31
ACGTcount: A:0.14, C:0.11, G:0.02, T:0.73
Consensus pattern (29 bp):
TTTTTTCAGTTTTTTCTTTTATTCTATTA
Found at i:41586616 original size:24 final size:24
Alignment explanation
Indices: 41586589--41586640 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
41586579 GATGAAGACA
41586589 AAGACAAAGACAAAGGTGGAGATG
1 AAGACAAAGACAAAGGTGGAGATG
** * *
41586613 AAGATGAAGACGAAGGTTGAGATG
1 AAGACAAAGACAAAGGTGGAGATG
41586637 AAGA
1 AAGA
41586641 TGAAGACGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.48, C:0.06, G:0.35, T:0.12
Consensus pattern (24 bp):
AAGACAAAGACAAAGGTGGAGATG
Found at i:41586641 original size:24 final size:24
Alignment explanation
Indices: 41586595--41586668 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 24
41586585 GACAAAGACA
* *
41586595 AAGACAAAGGTGGAGATGAAGATG
1 AAGACGAAGGTCGAGATGAAGATG
*
41586619 AAGACGAAGGTTGAGATGAAGATG
1 AAGACGAAGGTCGAGATGAAGATG
* * *
41586643 AAGACGAGGGTCAAGATGAAAATG
1 AAGACGAAGGTCGAGATGAAGATG
41586667 AA
1 AA
41586669 TATGGGAGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.46, C:0.05, G:0.35, T:0.14
Consensus pattern (24 bp):
AAGACGAAGGTCGAGATGAAGATG
Found at i:41590035 original size:141 final size:140
Alignment explanation
Indices: 41589710--41590501 Score: 798
Period size: 141 Copynumber: 5.7 Consensus size: 140
41589700 CAAAACAGTG
* * * * *
41589710 CTAAGACGACACTTATGGGGCGACACTTTCCTAAGTGTTGAGATAAACTGGCCAACATACGCTTT
1 CTAAGACGACACTT-TTGGGCGACACTTTCCTAAGTGTTGGGATAGATTTGCCAACATACGCTTT
* *
41589775 GG-CAACTCTTTGTATAAGGGTTGGGATATGCATGACTAAAGCAACACTTAAATAAGAGTTGGC-
65 GGCCAACTCTTTGTATAAGAGTTGGGATATGCATGCCTAAAGCAACACTTAAATAAGAGTTGGCT
41589838 TTTGTCTAGTC
130 TTTGTCTAGTC
* *
41589849 CTAAGACGACACTTTTGAGGCGACACTTTCCTAAGTGTTGGGATAGAGTTGCGAACATACGCTTT
1 CTAAGACGACACTTTTG-GGCGACACTTTCCTAAGTGTTGGGATAGATTTGCCAACATACGCTTT
* * * * *
41589914 GTCGAACTCTTTGTATAAGAGTTGGGATATGTATGCCTAAGGCAACACTTGAATAAGAGTTGGCT
65 GGCCAACTCTTTGTATAAGAGTTGGGATATGCATGCCTAAAGCAACACTTAAATAAGAGTTGGCT
*
41589979 TTTGTGTAGTC
130 TTTGTCTAGTC
* ** * *
41589990 CTAAGATGACACTTTTGTGGCGACACTTTTGTAAGTGTTAGGATAGATTTGCCAACATGCGCTTT
1 CTAAGACGACACTTTTG-GGCGACACTTTCCTAAGTGTTGGGATAGATTTGCCAACATACGCTTT
* ** * * * * *
41590055 GGCCAAATCTTTGCGTAAGGGTTGAGATATGTATGCCTAAAACAACGCTTAAATAAGAGTTGGCT
65 GGCCAACTCTTTGTATAAGAGTTGGGATATGCATGCCTAAAGCAACACTTAAATAAGAGTTGGCT
*
41590120 TTTTTCTAGTC
130 TTTGTCTAGTC
* * *
41590131 CTAAGACGACAGTTTTGGGACTG-TACTTTCCTAAGTGTTGGGATAGATTTGTCAACATACGCTT
1 CTAAGACGACACTTTTGGG-C-GACACTTTCCTAAGTGTTGGGATAGATTTGCCAACATACGCTT
* * * *
41590195 TGACCAACTCTTTGTATAA-AGGTCGAGG-TATGCATGCCTAAGGCAACGCTTAAATAAGAGTTG
64 TGGCCAACTCTTTGTATAAGA-GTTG-GGATATGCATGCCTAAAGCAACACTTAAATAAGAGTTG
*
41590258 G-TTTTGTCCAGTC
127 GCTTTTGTCTAGTC
* * * *
41590271 CTAAGACG--A----T-------ATTTTCCTAAGTGTTGGGACAGACTTGCCGACATACGCTTTG
1 CTAAGACGACACTTTTGGGCGACACTTTCCTAAGTGTTGGGATAGATTTGCCAACATACGCTTTG
* * * * * * * * *
41590323 GTCAACTTTTTGTATAAGGGTTGGGATATGCATACTTAAGGTAACGCTTAAATAAGAGTCGGC-T
66 GCCAACTCTTTGTATAAGAGTTGGGATATGCATGCCTAAAGCAACACTTAAATAAGAGTTGGCTT
* *
41590387 TTGTCCA-AC
131 TTGTCTAGTC
* * * * * * *
41590396 ACTATGACTACACTTTTGGGCCGACACTTTCCCAAGTGTTAGGATAGACTTGCGAACATACACTT
1 -CTAAGACGACACTTTTGGG-CGACACTTTCCTAAGTGTTGGGATAGATTTGCCAACATACGCTT
* * *
41590461 TGGCCAACTATTTGTATAAGGGTTGGTATATGCATGCCTAA
64 TGGCCAACTCTTTGTATAAGAGTTGGGATATGCATGCCTAA
41590502 GGGATTTAGG
Statistics
Matches: 544, Mismatches: 84, Indels: 49
0.80 0.12 0.07
Matches are distributed among these distances:
125 3 0.01
126 100 0.18
128 1 0.00
132 1 0.00
134 1 0.00
138 3 0.01
139 57 0.10
140 144 0.26
141 232 0.43
142 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (140 bp):
CTAAGACGACACTTTTGGGCGACACTTTCCTAAGTGTTGGGATAGATTTGCCAACATACGCTTTG
GCCAACTCTTTGTATAAGAGTTGGGATATGCATGCCTAAAGCAACACTTAAATAAGAGTTGGCTT
TTGTCTAGTC
Found at i:41590390 original size:126 final size:126
Alignment explanation
Indices: 41590157--41590393 Score: 332
Period size: 126 Copynumber: 1.9 Consensus size: 126
41590147 GGGACTGTAC
* * *
41590157 TTTCCTAAGTGTTGGGATAGATTTGTCAACATACGCTTTGACCAACTCTTTGTATAAAGGTCGAG
1 TTTCCTAAGTGTTGGGACAGACTTGCCAACATACGCTTTGACCAACTCTTTGTATAAAGGTCGAG
* * *
41590222 GTATGCATGCCTAAGGCAACGCTTAAATAAGAGTTGGTTTTGTCCAGTCCTAAGACGATAT
66 GTATGCATACCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAGTCCTAAGACGATAT
* ** * * *
41590283 TTTCCTAAGTGTTGGGACAGACTTGCCGACATACGCTTTGGTCAACTTTTTGTATAAGGGTTG-G
1 TTTCCTAAGTGTTGGGACAGACTTGCCAACATACGCTTTGACCAACTCTTTGTATAAAGGTCGAG
* *
41590347 GATATGCATACTTAAGGTAACGCTTAAATAAGAGTCGGCTTTGTCCA
66 G-TATGCATACCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCA
41590394 ACACTATGAC
Statistics
Matches: 96, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
125 2 0.02
126 94 0.98
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (126 bp):
TTTCCTAAGTGTTGGGACAGACTTGCCAACATACGCTTTGACCAACTCTTTGTATAAAGGTCGAG
GTATGCATACCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAGTCCTAAGACGATAT
Found at i:41590532 original size:7 final size:7
Alignment explanation
Indices: 41590522--41590603 Score: 51
Period size: 7 Copynumber: 11.9 Consensus size: 7
41590512 ATTTTAGGGT
41590522 TTTAAGG
1 TTTAAGG
*
41590529 TTTATGG
1 TTTAAGG
*
41590536 TTTAGGG
1 TTTAAGG
*
41590543 TTTAGGG
1 TTTAAGG
41590550 TTTAA-G
1 TTTAAGG
* **
41590556 ATTATTG
1 TTTAAGG
*
41590563 TTTAGGG
1 TTTAAGG
*
41590570 TTTCAGG
1 TTTAAGG
41590577 TTT-AGTG
1 TTTAAG-G
* *
41590584 TTTATGA
1 TTTAAGG
41590591 TTTAAGG
1 TTTAAGG
41590598 TTTAAG
1 TTTAAG
41590604 AATTAGTTTT
Statistics
Matches: 58, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
6 6 0.10
7 51 0.88
8 1 0.02
ACGTcount: A:0.22, C:0.01, G:0.28, T:0.49
Consensus pattern (7 bp):
TTTAAGG
Found at i:41590544 original size:14 final size:14
Alignment explanation
Indices: 41590522--41590601 Score: 65
Period size: 14 Copynumber: 5.8 Consensus size: 14
41590512 ATTTTAGGGT
*
41590522 TTTAAGGTTTATGG
1 TTTAGGGTTTATGG
*
41590536 TTTAGGGTTTAGGG
1 TTTAGGGTTTATGG
* * *
41590550 TTTA-AGATTATTG
1 TTTAGGGTTTATGG
41590563 TTTAGGGTTTCA-GG
1 TTTAGGGTTT-ATGG
* *
41590577 TTTAGTGTTTATGA
1 TTTAGGGTTTATGG
*
41590591 TTTAAGGTTTA
1 TTTAGGGTTTA
41590602 AGAATTAGTT
Statistics
Matches: 50, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
13 10 0.20
14 39 0.78
15 1 0.02
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTATGG
Found at i:41590551 original size:21 final size:20
Alignment explanation
Indices: 41590514--41590601 Score: 68
Period size: 21 Copynumber: 4.2 Consensus size: 20
41590504 GATTTAGGAT
*
41590514 TTTAGGGTTTTAAGGTTTATGG
1 TTTAGGG-TTTAGGGTTTA-GG
*
41590536 TTTAGGGTTTAGGGTTTAAG
1 TTTAGGGTTTAGGGTTTAGG
* **
41590556 ATTATTGTTTAGGGTTTCAGG
1 TTTAGGGTTTAGGGTTT-AGG
* * *
41590577 TTTAGTGTTTATGATTTAAGG
1 TTTAGGGTTTAGGGTTT-AGG
41590598 TTTA
1 TTTA
41590602 AGAATTAGTT
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
20 15 0.28
21 32 0.59
22 7 0.13
ACGTcount: A:0.20, C:0.01, G:0.28, T:0.50
Consensus pattern (20 bp):
TTTAGGGTTTAGGGTTTAGG
Found at i:41590567 original size:27 final size:28
Alignment explanation
Indices: 41590514--41590580 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 28
41590504 GATTTAGGAT
*
41590514 TTTAGGGTTTTAAGGTTTATGGTTTAGGG
1 TTTAGGG-TTTAAGGATTATGGTTTAGGG
*
41590543 TTTAGGGTTTAA-GATTATTGTTTAGGG
1 TTTAGGGTTTAAGGATTATGGTTTAGGG
41590570 TTTCA-GGTTTA
1 TTT-AGGGTTTA
41590581 GTGTTTATGA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 22 0.63
28 6 0.17
29 7 0.20
ACGTcount: A:0.19, C:0.01, G:0.30, T:0.49
Consensus pattern (28 bp):
TTTAGGGTTTAAGGATTATGGTTTAGGG
Found at i:41590572 original size:34 final size:34
Alignment explanation
Indices: 41590528--41590592 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
41590518 GGGTTTTAAG
*
41590528 GTTTATGGTTT-AGGGTTTAGGGTTTAAGATTATT
1 GTTTAGGGTTTCA-GGTTTAGGGTTTAAGATTATT
* *
41590562 GTTTAGGGTTTCAGGTTTAGTGTTTATGATT
1 GTTTAGGGTTTCAGGTTTAGGGTTTAAGATT
41590593 TAAGGTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 26 0.96
35 1 0.04
ACGTcount: A:0.18, C:0.02, G:0.29, T:0.51
Consensus pattern (34 bp):
GTTTAGGGTTTCAGGTTTAGGGTTTAAGATTATT
Found at i:41592083 original size:16 final size:16
Alignment explanation
Indices: 41592062--41592118 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
41592052 TTTGGTTCGC
*
41592062 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
41592078 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
41592094 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
41592110 TGTAATGGA
1 TGTAATGGA
41592119 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:41592385 original size:18 final size:17
Alignment explanation
Indices: 41592364--41592398 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
41592354 TTATTATTAA
*
41592364 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
41592382 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
41592399 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:41592535 original size:16 final size:16
Alignment explanation
Indices: 41592498--41592539 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
41592488 TTAATCATAT
*
41592498 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
41592514 TT-AAATATATTATAA
1 TTAAAATATATTATAA
41592529 TTAAAATATAT
1 TTAAAATATAT
41592540 AATTTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:41592537 original size:154 final size:156
Alignment explanation
Indices: 41592251--41592548 Score: 546
Period size: 154 Copynumber: 1.9 Consensus size: 156
41592241 TAGAATACCC
41592251 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
41592316 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
41592381 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAATAA
* *
41592408 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
41592471 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
41592536 ATATAATTTAATA
131 ATATAATTTAATA
41592549 TGAATTTACT
Statistics
Matches: 138, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 77 0.56
155 1 0.01
157 60 0.43
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAATAA
Found at i:41592546 original size:14 final size:15
Alignment explanation
Indices: 41592507--41592641 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 15
41592497 TTTAAACATA
*
41592507 ATTATTATTAAATAT
1 ATTATAATTAAATAT
41592522 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
41592536 A-TATAATTTAATAT
1 ATTATAATTAAATAT
*
41592550 GAATTTACTCAAATCATAATAT
1 --A-TTA-T--AATTA-AATAT
* *
41592572 ATGATACTGTAAA-AT
1 ATTATAAT-TAAATAT
41592587 A-TA-AATTAACATA-
1 ATTATAATTAA-ATAT
*
41592600 ATTATTATTAAATAT
1 ATTATAATTAAATAT
41592615 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
41592629 A-TATAATTTAATA
1 ATTATAATTAAATA
41592642 AAATTCTTAA
Statistics
Matches: 92, Mismatches: 12, Indels: 33
0.67 0.09 0.24
Matches are distributed among these distances:
12 3 0.03
13 22 0.24
14 16 0.17
15 30 0.33
16 5 0.05
17 1 0.01
18 3 0.03
19 3 0.03
20 1 0.01
21 3 0.03
22 5 0.05
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:41592605 original size:154 final size:155
Alignment explanation
Indices: 41592290--41592605 Score: 401
Period size: 154 Copynumber: 2.0 Consensus size: 155
41592280 ATTGTTATTG
41592290 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATAATTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTA-TATTATCAATAATAAATAATTTAATCATATTTAAACATAAT
* *
41592355 TATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCATAAATT
65 TATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA-TAGCATAAATA
** * * *** **
41592420 TGTTTTGGTAAATTATTATTGTTATTG
129 TGTACTGGTAAAATATAATTAACATAA
41592447 TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAACATAATT
1 TTATTTAAATTTTAATAAGATTATATTATCAATAATAAATAATTTAATCATATTTAAACATAATT
* * *
41592510 ATTATTAAATATATTATAATTAAAATATATAATTTAATATGAA-T-TTACTCAA-ATCATAATAT
66 ATTATTAAATATATTATAATTAAAATATATAATTTAATA-AAATTCTTAAT-AATAGCATAA-AT
41592572 ATGATACT-GTAAAATATAAATTAACATAA
128 ATG-TACTGGTAAAATAT-AATTAACATAA
41592601 TTATT
1 TTATT
41592606 ATTAAATATA
Statistics
Matches: 140, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
152 6 0.04
153 16 0.11
154 92 0.66
155 3 0.02
157 23 0.16
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (155 bp):
TTATTTAAATTTTAATAAGATTATATTATCAATAATAAATAATTTAATCATATTTAAACATAATT
ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATAGCATAAATATG
TACTGGTAAAATATAATTAACATAA
Found at i:41592656 original size:44 final size:43
Alignment explanation
Indices: 41592567--41592657 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
41592557 CTCAAATCAT
* * *
41592567 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
41592610 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
41592654 AATA
1 AATA
41592658 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:41592682 original size:120 final size:119
Alignment explanation
Indices: 41592547--41592765 Score: 336
Period size: 120 Copynumber: 1.8 Consensus size: 119
41592537 TATAATTTAA
* * * *
41592547 TATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-TT-AACATAATTATTATTA
1 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTTCAA-ATAATTAATATCA
41592610 AATAT-ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
64 AATATGATT-TAATT-AAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
41592667 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATCAAA
1 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATCAAA
*
41592732 TATGATTTAATTAAATATATGATTTAATAAAATT
66 TATGATTTAATTAAATATATAATTTAATAAAATT
41592766 TAAAATTATT
Statistics
Matches: 91, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
119 24 0.26
120 62 0.68
121 5 0.05
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (119 bp):
TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATCAAA
TATGATTTAATTAAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
Found at i:41592751 original size:17 final size:17
Alignment explanation
Indices: 41592731--41592764 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
41592721 TTAATATCAA
*
41592731 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
41592748 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
41592765 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:41592906 original size:92 final size:91
Alignment explanation
Indices: 41592797--41592989 Score: 282
Period size: 92 Copynumber: 2.1 Consensus size: 91
41592787 GATTATAGTT
* * *
41592797 TATGAATTTGTATAATTTAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTCA
1 TATGAATTTATACAATTTAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTCA
* *
41592860 TAAAATTCTTGATAATAAAAATTTTCTTA
64 TAAAATTCTTAATAAT-AAAATGTTCTTA
* *
41592889 TATGAATTTATACAATTTAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCATA
1 TATGAATTTATACAATTTAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCATA
41592954 AAATTCTTAATAATAAAATGTTCTTA
66 AAATTCTTAATAATAAAATGTTCTTA
41592980 TATGAATTTA
1 TATGAATTTA
41592990 CTAAAATCAA
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
91 21 0.23
92 67 0.73
93 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TATGAATTTATACAATTTAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCATA
AAATTCTTAATAATAAAATGTTCTTA
Found at i:41593375 original size:14 final size:14
Alignment explanation
Indices: 41593356--41593393 Score: 67
Period size: 14 Copynumber: 2.6 Consensus size: 14
41593346 GAAGGTGGGT
41593356 GGTTGTTAACAAGA
1 GGTTGTTAACAAGA
41593370 GGTTGTTAACAAGA
1 GGTTGTTAACAAGA
41593384 GGTTGCTTAA
1 GGTTG-TTAA
41593394 TAGAATTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.32
Consensus pattern (14 bp):
GGTTGTTAACAAGA
Found at i:41594011 original size:34 final size:34
Alignment explanation
Indices: 41593968--41594035 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
41593958 TCTGAAATTC
41593968 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
1 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
41594002 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
1 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
41594036 CTACATTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (34 bp):
AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
Found at i:41594308 original size:78 final size:78
Alignment explanation
Indices: 41594179--41594335 Score: 215
Period size: 78 Copynumber: 2.0 Consensus size: 78
41594169 TATTAGTCAA
* * *
41594179 GGGGTTAACAAGGAGTGAATTTGCAATTGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
* *
41594244 GGCAGCGACACTC
66 GACAGCAACACTC
** * * * *
41594257 GGGGTTAATGAGGACTGAATTCGCAATGGTGATTCTATCTTATTTGGCTTAGCTTCCTTTGGTAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
41594322 GACAGCAACACTC
66 GACAGCAACACTC
41594335 G
1 G
41594336 AAACTTGCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (78 bp):
GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
GACAGCAACACTC
Found at i:41596961 original size:11 final size:10
Alignment explanation
Indices: 41596945--41596978 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
41596935 GTTGATTCGG
41596945 TTTTGTTTTAT
1 TTTTGTTTT-T
41596956 TTTTG-TTTT
1 TTTTGTTTTT
41596965 TTTTGTTTTT
1 TTTTGTTTTT
41596975 TTTT
1 TTTT
41596979 CTCCTTAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.27
10 11 0.50
11 5 0.23
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (10 bp):
TTTTGTTTTT
Found at i:41607959 original size:18 final size:19
Alignment explanation
Indices: 41607931--41607971 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
41607921 GTTTATTACC
* *
41607931 TTCTGCTGGTATTTATTCT
1 TTCTGCTGGTACTTATTAT
41607950 TTCT-CTGGTACTTATTAT
1 TTCTGCTGGTACTTATTAT
41607968 TTCT
1 TTCT
41607972 TTGATTAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.12, C:0.17, G:0.12, T:0.59
Consensus pattern (19 bp):
TTCTGCTGGTACTTATTAT
Found at i:41612171 original size:37 final size:38
Alignment explanation
Indices: 41612034--41612573 Score: 517
Period size: 38 Copynumber: 14.6 Consensus size: 38
41612024 TGTCTTAAAC
* * * *
41612034 AGGTCAATCCCAACCTTTTCTAAAAGTTTCCTTAGACA
1 AGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACA
* * * *
41612072 AGATCTATCCCAACC-TTTTT-AATGTTACCTTAGATGA
1 AGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGA-CA
* *
41612109 A--TCTATCCCAACC-TTTTT-AAGGTTGCATTAAACA
1 AGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACA
* *
41612143 A-GTCTATCTCAACCTTTTTTTAAGGTTGCCTTTA-ACA
1 AGGTCTATCCCAACCTTTTTTAAAGGTTGCC-TTAGACA
* * * * *
41612180 AGGTCTATCCTAACATTTTTAAAAAGTTGCCTTAGA-T
1 AGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACA
**
41612217 AGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGGTA
1 AGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACA
* *
41612255 AGGTCTATCCCAA-CTATTTTAAAAGGTTGCCTTAGATA
1 AGGTCTATCCCAACCT-TTTTTAAAGGTTGCCTTAGACA
* * *
41612293 AGGTCTATCCCACCCTTTTTTAAAAGTTGCATTAGACA
1 AGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACA
* * *
41612331 AGGTCTATACCAACC-TATTT-AAGGTTGCCTTAGACG
1 AGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACA
* *
41612367 A-TTCTATCCCAATCTTTTTTAAAGGTTG-CTTAGACA
1 AGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACA
* ** * * *
41612403 AGGTTTATCATAACTTTTTTTAAATGTTGCCTTAGATA
1 AGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACA
**
41612441 AGGTCTATCCCAA-CTTTTTTAAAAGGTTATCTTAGAC-
1 AGGTCTATCCCAACCTTTTTT-AAAGGTTGCCTTAGACA
* *
41612478 TGGTCTATCCCAACC-TTTTT-AAGGTTGTCTTAGAC-
1 AGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACA
* *
41612513 AGGTCTATCCCAACCTTTTTCAAAGGTTGGCCTT-GACT
1 AGGTCTATCCCAACCTTTTTTAAAGGTT-GCCTTAGACA
*
41612551 AGGTTTATCCCAACCTTTTTTAA
1 AGGTCTATCCCAACCTTTTTTAA
41612574 TGGTCGGCAT
Statistics
Matches: 415, Mismatches: 67, Indels: 40
0.80 0.13 0.08
Matches are distributed among these distances:
34 2 0.00
35 76 0.18
36 47 0.11
37 117 0.28
38 171 0.41
39 2 0.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (38 bp):
AGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACA
Found at i:41612199 original size:38 final size:37
Alignment explanation
Indices: 41611853--41612573 Score: 485
Period size: 38 Copynumber: 19.7 Consensus size: 37
41611843 ATTAGACATG
* *
41611853 AGACAAAGATCTATCCCAACCTTTTT-AA-GTTGCCTT
1 AGAC-AAGGTCTATCCCAACTTTTTTAAAGGTTGCCTT
* * * *
41611889 AGAC-GGGTTTA-CCCTAACCTTTTT-AAGGTTACCTT
1 AGACAAGGTCTATCCC-AACTTTTTTAAAGGTTGCCTT
* * *
41611924 AGACGA-GTTTATCCCAACTTCTTTT-AA-GTTGTCTT
1 AGACAAGGTCTATCCCAACTT-TTTTAAAGGTTGCCTT
* * * * *
41611959 CGAAAAGGTTTATTCCAACTTTTTT-AGGGTTG--TT
1 AGACAAGGTCTATCCCAACTTTTTTAAAGGTTGCCTT
* * * *
41611993 -GTA-AATGGGTTTATCTCAACATTTTTAACA--TTGTCTT
1 AG-ACAA--GGTCTATCCCAACTTTTTTAA-AGGTTGCCTT
* * * * *
41612030 AAAC-AGGTCAATCCCAACCTTTTCTAAAAGTTTCCTT
1 AGACAAGGTCTATCCCAA-CTTTTTTAAAGGTTGCCTT
* * * *
41612067 AGACAAGATCTATCCCAACCTTTTT-AATGTTACCTT
1 AGACAAGGTCTATCCCAACTTTTTTAAAGGTTGCCTT
* * *
41612103 AGATGAA--TCTATCCCAACCTTTTT-AAGGTTGCATT
1 AGA-CAAGGTCTATCCCAACTTTTTTAAAGGTTGCCTT
* * *
41612138 AAACAA-GTCTATCTCAACCTTTTTTTAAGGTTGCCTTT
1 AGACAAGGTCTATCCCAA-CTTTTTTAAAGGTTGCC-TT
* * *
41612176 A-ACAAGGTCTATCCTAACATTTTTAAAAAGTTGCCTT
1 AGACAAGGTCTATCCCAAC-TTTTTTAAAGGTTGCCTT
*
41612213 AGA-TAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
1 AGACAAGGTCTATCCCAA-CTTTTTTAAAGGTTGCCTT
** *
41612250 AGGTAAGGTCTATCCCAACTATTTTAAAAGGTTGCCTT
1 AGACAAGGTCTATCCCAACT-TTTTTAAAGGTTGCCTT
* * * *
41612288 AGATAAGGTCTATCCCACCCTTTTTTAAAAGTTGCATT
1 AGACAAGGTCTATCCCA-ACTTTTTTAAAGGTTGCCTT
* * *
41612326 AGACAAGGTCTATACCAACCTATTT-AAGGTTGCCTT
1 AGACAAGGTCTATCCCAACTTTTTTAAAGGTTGCCTT
* *
41612362 AGACGA-TTCTATCCCAATCTTTTTTAAAGGTTG-CTT
1 AGACAAGGTCTATCCCAA-CTTTTTTAAAGGTTGCCTT
* ** *
41612398 AGACAAGGTTTATCATAACTTTTTTTAAATGTTGCCTT
1 AGACAAGGTCTATCCCAAC-TTTTTTAAAGGTTGCCTT
* **
41612436 AGATAAGGTCTATCCCAACTTTTTTAAAAGGTTATCTT
1 AGACAAGGTCTATCCCAACTTTTTT-AAAGGTTGCCTT
* * *
41612474 AGAC-TGGTCTATCCCAACCTTTTT-AAGGTTGTCTT
1 AGACAAGGTCTATCCCAACTTTTTTAAAGGTTGCCTT
*
41612509 AGAC-AGGTCTATCCCAACCTTTTTCAAAGGTTGGCCTT
1 AGACAAGGTCTATCCCAA-CTTTTTTAAAGGTT-GCCTT
* *
41612547 -GACTAGGTTTATCCCAACCTTTTTTAA
1 AGACAAGGTCTATCCCAA-CTTTTTTAA
41612574 TGGTCGGCAT
Statistics
Matches: 550, Mismatches: 93, Indels: 82
0.76 0.13 0.11
Matches are distributed among these distances:
33 6 0.01
34 20 0.04
35 134 0.24
36 89 0.16
37 132 0.24
38 167 0.30
39 2 0.00
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.38
Consensus pattern (37 bp):
AGACAAGGTCTATCCCAACTTTTTTAAAGGTTGCCTT
Found at i:41612231 original size:75 final size:74
Alignment explanation
Indices: 41611862--41612570 Score: 506
Period size: 73 Copynumber: 9.7 Consensus size: 74
41611852 GAGACAAAGA
* * *
41611862 TCTATCCCAACC-TTTTT-AA-GTTGCCTTAGAC-GGGTTTA-CCCTAACCTTTTT-AAGGTTAC
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC-AACCTTTTTAAAGGTTGC
*
41611921 CTTAGA-CGAG
65 CTTAGATAG-G
* * * * * * * *
41611931 TTTATCCCAA-CTTCTTTT-AA-GTTGTCTTCGAAAAGGTTTATTCCAA-CTTTTTTAGGGTTG-
1 TCTATCCCAACCTT-TTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAAGGTTGC
* * *
41611991 TTGTAAATGGG
65 CT-TAGATAGG
* * * * * * * *
41612002 TTTATCTCAA-CATTTTTAACA--TTGTCTTAAAC-AGGTCAATCCCAACCTTTTCTAAAAGTTT
1 TCTATCCCAACCTTTTTTAA-AGGTTGCCTTAGACAAGGTCTATCCCAACCTTTT-TAAAGGTTG
* *
41612063 CCTTAGACAAGA
64 CCTTAGA-TAGG
* * *
41612075 TCTATCCCAACC-TTTTT-AATGTTACCTTAGATGAA--TCTATCCCAACCTTTTT-AAGGTTGC
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGA-CAAGGTCTATCCCAACCTTTTTAAAGGTTGC
* * * *
41612135 ATTAAACAAG
65 CTTAGATAGG
* * * * *
41612145 TCTATCTCAACCTTTTTTTAAGGTTGCCTTTA-ACAAGGTCTATCCTAACATTTTTAAAAAGTTG
1 TCTATCCCAACCTTTTTTAAAGGTTGCC-TTAGACAAGGTCTATCCCAACCTTTTT-AAAGGTTG
41612209 CCTTAGATAGG
64 CCTTAGATAGG
**
41612220 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGGTAAGGTCTATCCCAA-CTATTTTAAAAGGTTG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCT-TTTT-AAAGGTTG
41612284 CCTTAGATAAGG
64 CCTTAGAT-AGG
* * * * *
41612296 TCTATCCCACCCTTTTTTAAAAGTTGCATTAGACAAGGTCTATACCAACCTATTT-AAGGTTGCC
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAAGGTTGCC
* *
41612360 TTAGA-CGAT
66 TTAGATAG-G
* * ** * *
41612369 TCTATCCCAATCTTTTTTAAAGGTTG-CTTAGACAAGGTTTATCATAACTTTTTTTAAATGTTGC
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAAC-CTTTTTAAAGGTTGC
41612433 CTTAGATAAGG
65 CTTAGAT-AGG
** * *
41612444 TCTATCCCAA-CTTTTTTAAAAGGTTATCTTAGAC-TGGTCTATCCCAACCTTTTT-AAGGTTGT
1 TCTATCCCAACCTTTTTT-AAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAAGGTTGC
*
41612506 CTTAGACAGG
65 CTTAGATAGG
* * *
41612516 TCTATCCCAACCTTTTTCAAAGGTTGGCCTT-GACTAGGTTTATCCCAACCTTTTT
1 TCTATCCCAACCTTTTTTAAAGGTT-GCCTTAGACAAGGTCTATCCCAACCTTTTT
41612571 TAATGGTCGG
Statistics
Matches: 505, Mismatches: 96, Indels: 74
0.75 0.14 0.11
Matches are distributed among these distances:
68 1 0.00
69 10 0.02
70 48 0.10
71 60 0.12
72 63 0.12
73 121 0.24
74 44 0.09
75 100 0.20
76 56 0.11
77 2 0.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (74 bp):
TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAAGGTTGCC
TTAGATAGG
Found at i:41612476 original size:148 final size:148
Alignment explanation
Indices: 41611862--41612573 Score: 478
Period size: 148 Copynumber: 4.9 Consensus size: 148
41611852 GAGACAAAGA
* * * * *
41611862 TCTATCCCA-ACCTTTTT--AAGTTGCCTTAGACGGGT-T-TACCCTAACCTTTTTAAGGTTACC
1 TCTATCCCACACTTTTTTAAAAGTTGCATTAGACAGGTCTATA-CC-AACCTATTTAAGGTTGCC
* * * * *
41611922 TTAGAC-GAGTTTATCCCAA-CTTCTTTT-AA-GTTGTCTTCGAAAAGGTTTATTCCAAC-TTTT
64 TTAGACAG-GTCTATCCCAACCTT-TTTTAAAGGTTGCCTTAGACAAGGTTTATCCCAACTTTTT
* * * *
41611982 TT-AGGGTTG-TTGTAAAT-GGG
127 TTAAAGGTTGCCT-TAGATAAGG
* * * * * * * * * *
41612002 TTTATCTCA-ACATTTTTAACA-TTGTC-TTAAACAGGTCAATCCCAACCTTTTCTAAAAGTTTC
1 TCTATCCCACACTTTTTTAAAAGTTG-CATTAGACAGGTCTATACCAACCTATT-T-AAGGTTGC
* * * * * *
41612064 CTTAGACAAGATCTATCCCAACC-TTTTT-AATGTTACCTTAGATGAA--TCTATCCCAAC-CTT
63 CTTAGAC-AGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGA-CAAGGTTTATCCCAACTTTT
* * *
41612124 TTT-AAGGTTGCATTAAACAA-G
126 TTTAAAGGTTGCCTTAGATAAGG
* * * * * * *
41612145 TCTATCTCA-ACCTTTTTTTAAGGTTGCCTTTA-ACAAGGTCTAT-CCTAACATTTTTAAAAAGT
1 TCTATCCCACA-CTTTTTTAAAAGTTG-CATTAGAC-AGGTCTATACC-AACCTATTT--AAGGT
* ** * *
41612207 TGCCTTAGATAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGGTAAGGTCTATCCCAACTAT
60 TGCCTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTTTATCCCAACTTT
*
41612272 TTTAAAAGGTTGCCTTAGATAAGG
125 TTTTAAAGGTTGCCTTAGATAAGG
*
41612296 TCTATCCCACCCTTTTTTAAAAGTTGCATTAGACAAGGTCTATACCAACCTATTTAAGGTTGCCT
1 TCTATCCCACACTTTTTTAAAAGTTGCATTAGAC-AGGTCTATACCAACCTATTTAAGGTTGCCT
* * **
41612361 TAGAC-GATTCTATCCCAATCTTTTTTAAAGGTTG-CTTAGACAAGGTTTATCATAACTTTTTTT
65 TAGACAG-GTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTTTATCCCAACTTTTTTT
*
41612424 AAATGTTGCCTTAGATAAGG
129 AAAGGTTGCCTTAGATAAGG
* * * * *
41612444 TCTATCCCA-ACTTTTTTAAAAGGTTATC-TTAGACTGGTCTATCCCAACCTTTTTAAGGTTGTC
1 TCTATCCCACACTTTTTTAAAA-GTT-GCATTAGACAGGTCTATACCAACCTATTTAAGGTTGCC
* * *
41612507 TTAGACAGGTCTATCCCAACCTTTTTCAAAGGTTGGCCTT-GACTAGGTTTATCCCAACCTTTTT
64 TTAGACAGGTCTATCCCAACCTTTTTTAAAGGTT-GCCTTAGACAAGGTTTATCCCAACTTTTTT
41612571 TAA
128 TAA
41612574 TGGTCGGCAT
Statistics
Matches: 461, Mismatches: 75, Indels: 64
0.77 0.12 0.11
Matches are distributed among these distances:
140 14 0.03
141 19 0.04
142 5 0.01
143 54 0.12
144 26 0.06
145 27 0.06
146 38 0.08
147 76 0.16
148 96 0.21
149 46 0.10
150 18 0.04
151 40 0.09
152 2 0.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (148 bp):
TCTATCCCACACTTTTTTAAAAGTTGCATTAGACAGGTCTATACCAACCTATTTAAGGTTGCCTT
AGACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTTTATCCCAACTTTTTTTAA
AGGTTGCCTTAGATAAGG
Found at i:41612532 original size:110 final size:111
Alignment explanation
Indices: 41612027--41612573 Score: 514
Period size: 110 Copynumber: 4.9 Consensus size: 111
41612017 TTAACATTGT
* * * * *
41612027 CTTAAACAGGTCAATCCCAACCTTTTCTAAAAGTTTCCTTAGACAAGATCTATCCCAACC-TTTT
1 CTTAGACAGGTCTATCCCAACCTTTT-TAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTT
* * *
41612091 T-AATGTTACCTTAGATGAA--TCTATCCCAACCTTTTT-AAGGTTGC
65 TAAAAGTTGCCTTAGAT-AAGGTCTATCCCAACTTTTTTAAAGGTTGC
* * * * * * *
41612135 ATTAAACAAGTCTATCTCAACCTTTTTTTAAGGTTGCCTTTA-ACAAGGTCTATCCTAACATTTT
1 CTTAGACAGGTCTATCCCAACC-TTTTTAAAGGTTGCC-TTAGACAAGGTCTATCCCAACCTTTT
*
41612199 TAAAAAGTTGCCTTAGAT-AGGTCTATCCCAACCTTTTTTAAAGGTTGC
64 TTAAAAGTTGCCTTAGATAAGGTCTATCCCAA-CTTTTTTAAAGGTTGC
* *
41612247 CTTAGGTA-AGGTCTATCCCAA-CTATTTTAAAAGGTTGCCTTAGATAAGGTCTATCCCACCCTT
1 CTTA-G-ACAGGTCTATCCCAACCT-TTTT-AAAGGTTGCCTTAGACAAGGTCTATCCCAACCTT
* * * * *
41612310 TTTTAAAAGTTGCATTAGACAAGGTCTATACCAACCTATTT-AAGGTTGC
62 TTTTAAAAGTTGCCTTAGATAAGGTCTATCCCAACTTTTTTAAAGGTTGC
* * * ** *
41612359 CTTAGAC-GATTCTATCCCAATCTTTTTTAAAGGTTG-CTTAGACAAGGTTTATCATAACTTTTT
1 CTTAGACAG-GTCTATCCCAA-CCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTT
* **
41612422 TTAAATGTTGCCTTAGATAAGGTCTATCCCAACTTTTTTAAAAGGTTAT
64 TTAAAAGTTGCCTTAGATAAGGTCTATCCCAACTTTTTT-AAAGGTTGC
* * *
41612471 CTTAGACTGGTCTATCCCAACCTTTTT-AAGGTTGTCTTAGAC-AGGTCTATCCCAACCTTTTTC
1 CTTAGACAGGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTT
* *
41612534 AAAGGTTGGCCTT-GACT-AGGTTTATCCCAACCTTTTTTAA
66 AAAAGTT-GCCTTAGA-TAAGGTCTATCCCAA-CTTTTTTAA
41612574 TGGTCGGCAT
Statistics
Matches: 360, Mismatches: 54, Indels: 48
0.78 0.12 0.10
Matches are distributed among these distances:
108 42 0.12
109 11 0.03
110 124 0.34
111 52 0.14
112 58 0.16
113 60 0.17
114 13 0.04
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (111 bp):
CTTAGACAGGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTT
AAAAGTTGCCTTAGATAAGGTCTATCCCAACTTTTTTAAAGGTTGC
Found at i:41613408 original size:24 final size:23
Alignment explanation
Indices: 41613373--41613421 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
41613363 AAGAACTTAA
* *
41613373 TTTTTTAAAAAAATATGAGTTTT
1 TTTTTTAAAAAAACATGAATTTT
*
41613396 TTTTTTCAGAAAAACATGAATTTT
1 TTTTTT-AAAAAAACATGAATTTT
41613420 TT
1 TT
41613422 CTACATACCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (23 bp):
TTTTTTAAAAAAACATGAATTTT
Found at i:41615112 original size:29 final size:29
Alignment explanation
Indices: 41615073--41615151 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
41615063 CTTAATAATC
*
41615073 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
41615103 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
41615132 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
41615152 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:41623232 original size:35 final size:35
Alignment explanation
Indices: 41623192--41623264 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
41623182 TTGTTGGATT
41623192 TCTTGGAATTCTAGTCTCCATTAACCAAATTGAGA
1 TCTTGGAATTCTAGTCTCCATTAACCAAATTGAGA
41623227 TCTTGGAATTCTAGTCTCCATTAACCAAATTGAGA
1 TCTTGGAATTCTAGTCTCCATTAACCAAATTGAGA
41623262 TCT
1 TCT
41623265 GGTTTTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.36
Consensus pattern (35 bp):
TCTTGGAATTCTAGTCTCCATTAACCAAATTGAGA
Found at i:41626156 original size:16 final size:16
Alignment explanation
Indices: 41626135--41626167 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
41626125 GTTACAAATT
41626135 ATTTACCAGCTTCAAC
1 ATTTACCAGCTTCAAC
*
41626151 ATTTACTAGCTTCAAC
1 ATTTACCAGCTTCAAC
41626167 A
1 A
41626168 CTCCCCCTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.33
Consensus pattern (16 bp):
ATTTACCAGCTTCAAC
Found at i:41628970 original size:26 final size:26
Alignment explanation
Indices: 41628935--41628986 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
41628925 AATGTGAAAG
*
41628935 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
41628961 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
41628987 TTCAGCGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:41629003 original size:103 final size:104
Alignment explanation
Indices: 41628752--41629018 Score: 421
Period size: 105 Copynumber: 2.6 Consensus size: 104
41628742 TTGTATATAA
** * *
41628752 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCAT-ATCCACCATATCTT
41628817 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
41628857 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCAATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGC-ATATCCACCATATCTT
41628922 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
41628960 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGC-ATATCCACCA
41629019 ATAACGGTTA
Statistics
Matches: 151, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
103 59 0.39
104 24 0.16
105 67 0.44
106 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCATATCCACCATATCTTT
GAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:41631398 original size:16 final size:16
Alignment explanation
Indices: 41631373--41631405 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
41631363 ATAACAACGT
*
41631373 ATTTATCAGCTTTAAC
1 ATTTACCAGCTTTAAC
41631389 ATTTACCAGCTTTAAC
1 ATTTACCAGCTTTAAC
41631405 A
1 A
41631406 AAAGAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTTACCAGCTTTAAC
Found at i:41633023 original size:13 final size:13
Alignment explanation
Indices: 41633007--41633039 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
41632997 TTTAATTAAA
*
41633007 TTAGTTAATTAGT
1 TTAGATAATTAGT
41633020 TTAGATAATTAGT
1 TTAGATAATTAGT
41633033 TTA-ATAA
1 TTAGATAA
41633040 ACAAACCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:41638777 original size:49 final size:47
Alignment explanation
Indices: 41638717--41639313 Score: 955
Period size: 47 Copynumber: 12.6 Consensus size: 47
41638707 GATAATTGTG
* * *
41638717 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
41638764 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
41638813 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
41638862 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGGTGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
41638909 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
41638958 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
41639005 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
41639052 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG-TGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
41639098 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
41639147 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
41639194 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * *
41639241 ATGTGAAAGTGTATATATGTGACAGGGCC-AAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAA-TGGCCGATGTGATGA
*
41639288 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
41639314 TCCCGAAGGG
Statistics
Matches: 521, Mismatches: 21, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
46 21 0.04
47 314 0.60
48 27 0.05
49 159 0.31
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:41638819 original size:96 final size:96
Alignment explanation
Indices: 41638717--41639313 Score: 971
Period size: 96 Copynumber: 6.3 Consensus size: 96
41638707 GATAATTGTG
*
41638717 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
41638780 ATATGTGATAAGGCCTAATGGCCGGTGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGGTGTGATGA
41638813 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
41638878 ATGTGATGAGGCCTAATGGCCGGTGTGATGA
66 ATGTGATAAGGCCTAATGGCCGGTGTGATGA
41638909 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
41638974 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGGTGTGATGA
*
41639005 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
41639068 ATGTGATAAGGCCTAATGGCC-GTGTGATGA
66 ATGTGATAAGGCCTAATGGCCGGTGTGATGA
41639098 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
41639163 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGGTGTGATGA
*
41639194 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *** *
41639257 ATGTGACAGGGCC-AAGTGGCCAACGTGATGG
66 ATGTGATAAGGCCTAA-TGGCCGGTGTGATGA
41639288 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
41639314 TCCCGAAGGG
Statistics
Matches: 474, Mismatches: 19, Indels: 18
0.93 0.04 0.04
Matches are distributed among these distances:
93 21 0.04
94 164 0.35
95 72 0.15
96 165 0.35
97 2 0.00
98 50 0.11
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGGTGTGATGA
Found at i:41645879 original size:13 final size:13
Alignment explanation
Indices: 41645863--41645895 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
41645853 TTTAATTAAA
*
41645863 TTAGTTAATTAGT
1 TTAGATAATTAGT
41645876 TTAGATAATTAGT
1 TTAGATAATTAGT
41645889 TTA-ATAA
1 TTAGATAA
41645896 ACAAACCCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:41646385 original size:14 final size:14
Alignment explanation
Indices: 41646341--41646386 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
41646331 GGATTTTAAG
*
41646341 AATTTATATTTGAA
1 AATTTTTATTTGAA
* **
41646355 ATTTTTTATTTCTA
1 AATTTTTATTTGAA
41646369 AATTTTTATTTGAA
1 AATTTTTATTTGAA
41646383 AATT
1 AATT
41646387 AAAATATTTC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (14 bp):
AATTTTTATTTGAA
Found at i:41647917 original size:13 final size:14
Alignment explanation
Indices: 41647869--41647917 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
41647859 AATTTTTTAA
41647869 AACC-TAAACCTTG
1 AACCTTAAACCTTG
*
41647882 AA-CTCTAAACCTCG
1 AACCT-TAAACCTTG
*
41647896 AATCTTAAA-CTTG
1 AACCTTAAACCTTG
41647909 AACCTTAAA
1 AACCTTAAA
41647918 TCCTAAATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 1 0.03
13 13 0.43
14 14 0.47
15 2 0.07
ACGTcount: A:0.41, C:0.27, G:0.06, T:0.27
Consensus pattern (14 bp):
AACCTTAAACCTTG
Found at i:41651541 original size:6 final size:6
Alignment explanation
Indices: 41651530--41651556 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
41651520 TTTTTCTCTC
41651530 TCTATA TCTATA TCTATA TCTATA TCT
1 TCTATA TCTATA TCTATA TCTATA TCT
41651557 GTCTCAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.52
Consensus pattern (6 bp):
TCTATA
Found at i:41654420 original size:5 final size:5
Alignment explanation
Indices: 41654412--41654440 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
41654402 AATAGAGAAG
41654412 AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
41654441 AAAGGGTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:41655083 original size:22 final size:22
Alignment explanation
Indices: 41655058--41655103 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
41655048 TATCTCAGAA
*
41655058 ACTGTGATTCTAACTCATCTTT
1 ACTGTAATTCTAACTCATCTTT
41655080 ACTGTAATTCTAACTCATCTTT
1 ACTGTAATTCTAACTCATCTTT
41655102 AC
1 AC
41655104 ATATATATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.43
Consensus pattern (22 bp):
ACTGTAATTCTAACTCATCTTT
Found at i:41655141 original size:37 final size:37
Alignment explanation
Indices: 41655091--41655166 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
41655081 CTGTAATTCT
*
41655091 AACTCATCTTTACATATATATAGGAGAATAGCAGGAG
1 AACTCATCTTTACATATACATAGGAGAATAGCAGGAG
*
41655128 AACTCATCTTTACATATACATAGGAGAATAGCATGAG
1 AACTCATCTTTACATATACATAGGAGAATAGCAGGAG
41655165 AA
1 AA
41655167 TAGAGAATGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.26
Consensus pattern (37 bp):
AACTCATCTTTACATATACATAGGAGAATAGCAGGAG
Found at i:41655347 original size:14 final size:15
Alignment explanation
Indices: 41655328--41655356 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
41655318 TTAACTGAAC
41655328 ATTTTAAATA-ATTT
1 ATTTTAAATATATTT
41655342 ATTTTAAATATATTT
1 ATTTTAAATATATTT
41655357 TTTAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTTAAATATATTT
Found at i:41655704 original size:26 final size:25
Alignment explanation
Indices: 41655648--41655707 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
41655638 TATGTTTGTA
*
41655648 TATTTTTTTAATTTAAAGGGATTAG
1 TATTTTTTTAATATAAAGGGATTAG
41655673 TATTTTTTTAA-ATAGAAGGGATTAG
1 TATTTTTTTAATATA-AAGGGATTAG
*
41655698 TTTTTTTTTA
1 TATTTTTTTA
41655708 TGTAGTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 2 0.06
25 30 0.94
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (25 bp):
TATTTTTTTAATATAAAGGGATTAG
Found at i:41655811 original size:83 final size:90
Alignment explanation
Indices: 41655713--41655983 Score: 295
Period size: 103 Copynumber: 2.9 Consensus size: 90
41655703 TTTTATGTAG
* *
41655713 TTTTTAATTTATTTTAAAGTTTTTTTGTTAGTAA-T-T-ATTA-TA-A-ATTGTTTGTGTTTAGT
1 TTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTATGATTAGTATATATTGTTTGTGTTTAGT
* *
41655772 TTAGTGTTTATTGTGCTTTTAATTT
66 TTAGTGTTTATTGTGATATTAATTT
41655797 TTTTTAAATT-TTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATATATTGTTTGTGTTT
1 TTTTTAAATTATTTTAAAGTTATTTTGTTAGTAA-TTATGATTA-G-TATATATTGTTTGTGTTT
41655861 AGTTTAGTGTTTATTGTGATATTAATTTTTTTGTTTTT
63 AGTTTAGTGTTTATTGTGATATTAA----------TTT
*
41655899 TTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTT
1 TTTTTAAATTATTTTAAAGTTATTTTGTTAGTAA-TTATGATTA-G-TATATATTGTTTGTGTTT
*
41655964 AGTTTAGTGCTTATTGTGAT
63 AGTTTAGTGTTTATTGTGAT
41655984 TTTTTATAAA
Statistics
Matches: 161, Mismatches: 6, Indels: 21
0.86 0.03 0.11
Matches are distributed among these distances:
83 22 0.14
84 9 0.06
85 1 0.01
86 1 0.01
87 4 0.02
90 2 0.01
91 1 0.01
92 36 0.22
102 13 0.08
103 72 0.45
ACGTcount: A:0.24, C:0.01, G:0.15, T:0.61
Consensus pattern (90 bp):
TTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTATGATTAGTATATATTGTTTGTGTTTAGT
TTAGTGTTTATTGTGATATTAATTT
Found at i:41656028 original size:111 final size:109
Alignment explanation
Indices: 41655794--41656117 Score: 466
Period size: 111 Copynumber: 3.0 Consensus size: 109
41655784 GTGCTTTTAA
*
41655794 TTTTTTTTAAATT-TTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATATATTGTTTGTG
1 TTTTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTG
* * * ***
41655858 TTTAGTTTAGTGTTTATTGTGA-----TATTAAT--TTTTTTGTT
66 TTCAGTTTAGTGCTTATTGTGATTTTTTATAAATGCAAATTT-TT
41655896 TTTTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTG
1 TTTTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTG
* *
41655961 TTTAGTTTAGTGCTTATTGTGATTTTTTATAAATGTAAATTTTT
66 TTCAGTTTAGTGCTTATTGTGATTTTTTATAAATGCAAATTTTT
41656005 TTGTTTTTTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTG
1 TT-TTTTTT-AAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTG
* *
41656070 TGTTCAGTTTAGTGTTTATTGTGATTTTTTATGAATGCAAATTTTT
64 TGTTCAGTTTAGTGCTTATTGTGATTTTTTATAAATGCAAATTTTT
41656116 TT
1 TT
41656118 AAAGTTATTT
Statistics
Matches: 202, Mismatches: 10, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
102 13 0.06
103 71 0.35
108 6 0.03
109 4 0.02
110 9 0.04
111 99 0.49
ACGTcount: A:0.25, C:0.01, G:0.15, T:0.60
Consensus pattern (109 bp):
TTTTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTG
TTCAGTTTAGTGCTTATTGTGATTTTTTATAAATGCAAATTTTT
Found at i:41656035 original size:214 final size:198
Alignment explanation
Indices: 41655788--41656212 Score: 559
Period size: 214 Copynumber: 2.1 Consensus size: 198
41655778 TTTATTGTGC
* *
41655788 TTTTAATTTTTTTT-AAATTTTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATATATTG
1 TTTTATTTTTTTTTAAAATTTTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTG
* * ** **
41655852 TTTGTGTTTAGTTTAGTGTTTATTGTGATATTAATTTTTTTGTTTTTTTTTTAAATTATTTTAAA
66 TTTGTGTTCAGTTTAGTGTTTATTGTG--A-T--TTTTTATG-----AATGCAAATTATTTTAAA
* *
41655917 GTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAGTTTAGTGCT-TATTGT
121 GTTATTTTGTTA-TAATTTATGATTAGGTTATAAATT-ATT-TGTTTAGTTTAATG-TGTATTGT
*
41655981 GATTTTTTATAAATGTAAA
182 GATTTGTTAT-AATGT-AA
41656000 TTTT-TTTGTTTTTTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAAT
1 TTTTATTT-TTTTTTAAAATT-TTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAAT
*
41656064 TGTTTGTGTTCAGTTTAGTGTTTATTGTGATTTTTTATGAATGCAAATTTTTTTAAAGTTATTTT
64 TGTTTGTGTTCAGTTTAGTGTTTATTGTGATTTTTTATGAATGCAAATTATTTTAAAGTTATTTT
41656129 GTTATAATTTATGATTAGGTTATAAATTATTTGTTTAGTTTAATGTGTATTGTGATTTGTTATAA
129 GTTATAATTTATGATTAGGTTATAAATTATTTGTTTAGTTTAATGTGTATTGTGATTTGTTATAA
41656194 TGTAA
194 TGTAA
41656199 TTTTATTTTTTTTT
1 TTTTATTTTTTTTT
41656213 GATTTATTTG
Statistics
Matches: 196, Mismatches: 12, Indels: 23
0.85 0.05 0.10
Matches are distributed among these distances:
199 12 0.06
200 9 0.05
201 28 0.14
202 2 0.01
203 24 0.12
204 25 0.13
209 7 0.04
211 3 0.02
212 11 0.06
213 5 0.03
214 70 0.36
ACGTcount: A:0.26, C:0.01, G:0.14, T:0.60
Consensus pattern (198 bp):
TTTTATTTTTTTTTAAAATTTTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTG
TTTGTGTTCAGTTTAGTGTTTATTGTGATTTTTTATGAATGCAAATTATTTTAAAGTTATTTTGT
TATAATTTATGATTAGGTTATAAATTATTTGTTTAGTTTAATGTGTATTGTGATTTGTTATAATG
TAA
Found at i:41656209 original size:92 final size:93
Alignment explanation
Indices: 41656015--41656195 Score: 289
Period size: 92 Copynumber: 2.0 Consensus size: 93
41656005 TTGTTTTTTA
* *
41656015 AAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTCAGTTT
1 AAATTTTTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTGTTCAGTTT
* * *
41656080 AGTGTTTATTGTGATTTTTTATGAATGC
66 AATGTGTATTGTGATTTGTTATGAATGC
41656108 AAATTTTTTTAAAGTTATTTTGTTA-TAATTTATGATTAGGTTATAAATTATTTGT-TT-AGTTT
1 AAATTTTTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTGTTCAGTTT
41656170 AATGTGTATTGTGATTTGTTAT-AATG
66 AATGTGTATTGTGATTTGTTATGAATG
41656196 TAATTTTATT
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
89 4 0.05
90 24 0.29
91 2 0.02
92 29 0.35
93 24 0.29
ACGTcount: A:0.28, C:0.01, G:0.16, T:0.55
Consensus pattern (93 bp):
AAATTTTTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTGTTCAGTTT
AATGTGTATTGTGATTTGTTATGAATGC
Found at i:41656502 original size:21 final size:22
Alignment explanation
Indices: 41656451--41656503 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
41656441 TTATTGTAAT
* *
41656451 TATATTATTATTGTACTATATT
1 TATAATATTATTGTACTATATG
** *
41656473 TATTGTATTATT-TACTGTATG
1 TATAATATTATTGTACTATATG
41656494 TATAATATTA
1 TATAATATTA
41656504 ATGTGTTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.57
Consensus pattern (22 bp):
TATAATATTATTGTACTATATG
Found at i:41659863 original size:14 final size:13
Alignment explanation
Indices: 41659839--41659873 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
41659829 AAACCTTTAA
*
41659839 TTTTCTCTTCTCT
1 TTTTCTTTTCTCT
41659852 TATTTCTTTTCTCT
1 T-TTTCTTTTCTCT
41659866 TTTTCTTT
1 TTTTCTTT
41659874 CTTCCTTCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTCTTTTCTCT
Found at i:41661256 original size:49 final size:49
Alignment explanation
Indices: 41661197--41661418 Score: 299
Period size: 49 Copynumber: 4.6 Consensus size: 49
41661187 CAAAAATACC
*
41661197 AACTTCGTAATTTAAATTGAGATTCATTGCAACATTAAAAATTGGAACA
1 AACTTCGTAATTTAAATTGAGATTCATTACAACATTAAAAATTGGAACA
41661246 AACTTCGTAATTTAAATTGAGATTCATTACAACATTAAAAATTGGAACA
1 AACTTCGTAATTTAAATTGAGATTCATTACAACATTAAAAATTGGAACA
* * *
41661295 AACTTTGTAATTTAAATTGAGATTCATTACAACATTAAAACTTGGAATA
1 AACTTCGTAATTTAAATTGAGATTCATTACAACATTAAAAATTGGAACA
** * * *
41661344 AACTTTATAGTTTAAATT-AGATTAATTGCAACATTAAAACGA-T-GAACAA
1 AACTTCGTAATTTAAATTGAGATTCATTACAACATTAAAA--ATTGGAAC-A
*
41661393 AAATT-GTAATTTAAATTGAGATTCAT
1 AACTTCGTAATTTAAATTGAGATTCAT
41661419 CAGAGTACAT
Statistics
Matches: 155, Mismatches: 14, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
48 32 0.21
49 123 0.79
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (49 bp):
AACTTCGTAATTTAAATTGAGATTCATTACAACATTAAAAATTGGAACA
Found at i:41666553 original size:28 final size:28
Alignment explanation
Indices: 41666513--41666626 Score: 113
Period size: 28 Copynumber: 4.0 Consensus size: 28
41666503 AGCGTAATTG
*
41666513 TGAATGTGATTTGGGCCTAGT-GGCCATA
1 TGAATGTGA-TTGGGCCTAATGGGCCATA
* *
41666541 TGAATGTGATTTGGGCTTAATGGGCCACA
1 TGAATGTGA-TTGGGCCTAATGGGCCATA
* * **
41666570 TAAATGTGAATGGGCCTAATAAGCCATA
1 TGAATGTGATTGGGCCTAATGGGCCATA
* * *
41666598 TGAAAGAGATTGGGCCTAGTGGGCCATA
1 TGAATGTGATTGGGCCTAATGGGCCATA
41666626 T
1 T
41666627 ATAGGTATGT
Statistics
Matches: 69, Mismatches: 16, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
28 55 0.80
29 14 0.20
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (28 bp):
TGAATGTGATTGGGCCTAATGGGCCATA
Found at i:41666953 original size:27 final size:27
Alignment explanation
Indices: 41666906--41666961 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
41666896 AAAACCGTAA
* * *
41666906 TAAGGGAAAAATTATCGAAAATGCCCC
1 TAAGGGAAAAATTAACCAAAATACCCC
41666933 TAAGGGTAAAAA-TAACCAAAATACCCC
1 TAAGGG-AAAAATTAACCAAAATACCCC
41666960 TA
1 TA
41666962 GGTGTTGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (27 bp):
TAAGGGAAAAATTAACCAAAATACCCC
Found at i:41671061 original size:28 final size:28
Alignment explanation
Indices: 41671023--41671126 Score: 120
Period size: 28 Copynumber: 3.7 Consensus size: 28
41671013 TAAATATGAT
41671023 TTGGGCCTAAT-GGCCATATGAATGTGA
1 TTGGGCCTAATGGGCCATATGAATGTGA
* * *
41671050 TTTGGGCTTAATGGGCCACATAAATGTGA
1 -TTGGGCCTAATGGGCCATATGAATGTGA
* * *
41671079 ATGGGCCTAATGGGCCATATGAAAGAGA
1 TTGGGCCTAATGGGCCATATGAATGTGA
* *
41671107 TTGGGCTTAGTGGGCCATAT
1 TTGGGCCTAATGGGCCATAT
41671127 ATAGGTATGT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
28 49 0.78
29 14 0.22
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.28
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATGTGA
Found at i:41672666 original size:20 final size:20
Alignment explanation
Indices: 41672641--41672680 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
41672631 TGTATTCATA
*
41672641 AAATTTTAGAAATTTTTATT
1 AAATTTTACAAATTTTTATT
*
41672661 AAATTTTACAACTTTTTATT
1 AAATTTTACAAATTTTTATT
41672681 TTAGTCCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (20 bp):
AAATTTTACAAATTTTTATT
Found at i:41677319 original size:22 final size:22
Alignment explanation
Indices: 41677294--41677340 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
41677284 TATGACTAAT
41677294 TAGTAGGCTAAATGTGATATTA
1 TAGTAGGCTAAATGTGATATTA
41677316 TAGTAGGCTAAATGTGATATTA
1 TAGTAGGCTAAATGTGATATTA
41677338 TAG
1 TAG
41677341 ATCAAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.36
Consensus pattern (22 bp):
TAGTAGGCTAAATGTGATATTA
Found at i:41680817 original size:47 final size:47
Alignment explanation
Indices: 41680748--41680972 Score: 189
Period size: 47 Copynumber: 4.8 Consensus size: 47
41680738 TAAGGTACCG
*
41680748 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCAT-ATCTCAAGTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAG-CA
* ** * *
41680795 ATGCCATGTCCCAGATATGGTCTTACACTAACT-ATCATCTCGTAGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTC-AAGC-A
* * * * *
41680843 ATG-CATGTCCCAGACAT-GTCTTACACTGGCTTAT-GTCTTGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATC-TCAAG-CA
* *
41680889 ATG-CATGTCCCAGAGAT-GTCTTACACTAGCTC-TCATCTCAATGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA-G-CA
* *
41680935 ATGCCATGTCCTAGACATGGTCTTACAATGGCTC-TCAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT
41680973 AATGTGGCCG
Statistics
Matches: 143, Mismatches: 25, Indels: 19
0.76 0.13 0.10
Matches are distributed among these distances:
45 3 0.02
46 54 0.38
47 64 0.45
48 22 0.15
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGCA
Found at i:41681004 original size:140 final size:141
Alignment explanation
Indices: 41680745--41681005 Score: 350
Period size: 140 Copynumber: 1.9 Consensus size: 141
41680735 AGGTAAGGTA
* * *
41680745 CCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCATATCTCAAGTCAATGCCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGACAATGCCATGTCCCAGA
* * * *
41680810 TATGGTCTTACACTAACTATCATCTCGTAGCTGATGCATGTCCCAGACATGTCTTACACTGGCTT
66 CATGGTCTTACAATAACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTT
41680875 ATGTCTTGAGG
131 ATGTCTTGAGG
* *
41680886 CCGATG-CATGTCCCAGAGAT-GTCTTACACTAGCTC-TCATCTCAATGACAATGCCATGTCCTA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAA-GACAATGCCATGTCCCA
** * *
41680948 GACATGGTCTTACAATGGCTCTCATAAT-GTGGCCGATGCATGTCCCAGACATGTCTTA
64 GACATGGTCTTACAATAACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTA
41681006 AACTAGCCCA
Statistics
Matches: 104, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
138 1 0.01
139 20 0.19
140 76 0.73
141 7 0.07
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (141 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGACAATGCCATGTCCCAGA
CATGGTCTTACAATAACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTT
ATGTCTTGAGG
Found at i:41682845 original size:25 final size:25
Alignment explanation
Indices: 41682798--41682846 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
41682788 AAATATTAAA
* *
41682798 TTTAATTTAATATTAAGATAATAAT
1 TTTAATTTAATATTAACAAAATAAT
41682823 TTTAATATTAA-ATTAACAAAATAA
1 TTTAAT-TTAATATTAACAAAATAA
41682847 AATCAAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
TTTAATTTAATATTAACAAAATAAT
Found at i:41723461 original size:43 final size:43
Alignment explanation
Indices: 41723375--41723517 Score: 137
Period size: 43 Copynumber: 3.3 Consensus size: 43
41723365 CTGGCACCTC
* * * * * *
41723375 AATGCATCATCGGATAAACCAAAGCGAATATACTGGTACACAT
1 AATGCATCATCGGAAAAATCAAAGCAAATATATTGGCATACAT
* ** *
41723418 AGTGCATCATCGGACGAATCAAAGCAAAT-TCATTGGCGTACAT
1 AATGCATCATCGGAAAAATCAAAGCAAATAT-ATTGGCATACAT
* * *
41723461 AATGCA-CAATCAGAAAAATCAAAGCAAATATATTGGTATACAC
1 AATGCATC-ATCGGAAAAATCAAAGCAAATATATTGGCATACAT
41723504 AATGCATCATCGGA
1 AATGCATCATCGGA
41723518 TAAACCGAAG
Statistics
Matches: 79, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
42 2 0.03
43 75 0.95
44 2 0.03
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.22
Consensus pattern (43 bp):
AATGCATCATCGGAAAAATCAAAGCAAATATATTGGCATACAT
Found at i:41725588 original size:56 final size:56
Alignment explanation
Indices: 41725502--41725645 Score: 227
Period size: 56 Copynumber: 2.6 Consensus size: 56
41725492 GAAGTATATG
* *
41725502 TGGCATCGATATATGATTTCGATACATGTGTGCGAATAAGTCCACGTTTCATACGT
1 TGGCATCGATATGTGATTTCGATATATGTGTGCGAATAAGTCCACGTTTCATACGT
*
41725558 TGGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGTCCACGTTTCATACGT
1 TGGCATCGATATGTGATTTCGATATATGTGTGCGAATAAGTCCACGTTTCATACGT
* *
41725614 TGGCATCAATATGCGA-TTCAGATATATGTGTG
1 TGGCATCGATATGTGATTTC-GATATATGTGTG
41725646 TGAGTAAGAC
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
55 3 0.04
56 79 0.96
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.35
Consensus pattern (56 bp):
TGGCATCGATATGTGATTTCGATATATGTGTGCGAATAAGTCCACGTTTCATACGT
Found at i:41733420 original size:32 final size:32
Alignment explanation
Indices: 41733371--41733446 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 32
41733361 AAAATGGGCT
41733371 CACACGCCC-ATGTGGCC-T-GCTCGTGTGGCC
1 CACACGCCCAATGTGGCCTTGGCT-GTGTGGCC
*
41733401 CACACGACCCAATTTGGCCTTGGCTGTGTGGCC
1 CACACG-CCCAATGTGGCCTTGGCTGTGTGGCC
41733434 CACACGGCCCAAT
1 CACAC-GCCCAAT
41733447 AGGTCAAGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
30 6 0.15
31 3 0.08
32 7 0.17
33 20 0.50
34 4 0.10
ACGTcount: A:0.16, C:0.38, G:0.26, T:0.20
Consensus pattern (32 bp):
CACACGCCCAATGTGGCCTTGGCTGTGTGGCC
Found at i:41734579 original size:31 final size:31
Alignment explanation
Indices: 41734541--41734604 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
41734531 CCTTTTCATA
*
41734541 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
**
41734572 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
41734603 TT
1 TT
41734605 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:41734840 original size:25 final size:23
Alignment explanation
Indices: 41734797--41734990 Score: 237
Period size: 25 Copynumber: 8.0 Consensus size: 23
41734787 TGCTTTATCA
*
41734797 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-CTTT
*
41734821 TAGTAACTGGGGCAAAAGCCCTTTT
1 TA-TAACTGGGGCATAAGCCC-TTT
41734846 TATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
*
41734869 ATCGTAACTGGGGCATAAGCCCTTCAT
1 -T-ATAACTGGGGCATAAGCCCTT--T
*
41734896 CATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
41734919 ATCATAACTGGGGCATAAGCCCTTT
1 -T-ATAACTGGGGCATAAGCCCTTT
*
41734944 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
*
41734967 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
41734990 T
1 T
41734991 GCACTTCCTC
Statistics
Matches: 152, Mismatches: 9, Indels: 19
0.84 0.05 0.11
Matches are distributed among these distances:
23 49 0.32
24 24 0.16
25 78 0.51
27 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:41735062 original size:9 final size:9
Alignment explanation
Indices: 41735048--41735104 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
41735038 ATCTCATGTG
41735048 CATATCATA
1 CATATCATA
*
41735057 CATATCATGTG
1 CATATCA--TA
41735068 CATATCATA
1 CATATCATA
* *
41735077 CATGTCATGTG
1 CATATCA--TA
41735088 CATATCATA
1 CATATCATA
41735097 CATATCAT
1 CATATCAT
41735105 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:41735064 original size:20 final size:20
Alignment explanation
Indices: 41735036--41735106 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
41735026 GCATTTATGA
*
41735036 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
41735056 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
41735076 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
41735096 ACATATCATGT
1 ACATATCATGT
41735107 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:41735071 original size:11 final size:11
Alignment explanation
Indices: 41735041--41735095 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
41735031 TATGAACATC
41735041 TCATGTGCATA
1 TCATGTGCATA
*
41735052 TCA--TACATA
1 TCATGTGCATA
41735061 TCATGTGCATA
1 TCATGTGCATA
* *
41735072 TCA--TACATG
1 TCATGTGCATA
41735081 TCATGTGCATA
1 TCATGTGCATA
41735092 TCAT
1 TCAT
41735096 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:41736439 original size:27 final size:27
Alignment explanation
Indices: 41736348--41736429 Score: 121
Period size: 27 Copynumber: 3.0 Consensus size: 27
41736338 AGGCATATTC
* *
41736348 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
41736375 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
41736402 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
41736429 G
1 G
41736430 CCTTTTTACC
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:41736673 original size:81 final size:81
Alignment explanation
Indices: 41736581--41736775 Score: 250
Period size: 81 Copynumber: 2.4 Consensus size: 81
41736571 TTTGTAAATC
*
41736581 AGGGGAATTTTGGTAATTTTACAAATTGAGGGTATATCGGTAATTTCACAAACC-AGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATATCGGTAATTTCACAAACCAAG-GGTATTT
***
41736645 TGGTAATTTTACAAACT
65 TAACAATTTTACAAACT
* * *
41736662 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATATCGGTAATTTCACAAACCAAGGGTATTTT
*
41736727 AACAATTTTACAGACT
66 AACAATTTTACAAACT
* * ** *
41736743 A-GGGTATTCTAGTAATTTTGTAAATCGAGGGTA
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
41736776 AAATAGTAAT
Statistics
Matches: 100, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 27 0.27
81 71 0.71
82 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATATCGGTAATTTCACAAACCAAGGGTATTTT
AACAATTTTACAAACT
Found at i:41736733 original size:27 final size:27
Alignment explanation
Indices: 41736470--41736761 Score: 160
Period size: 27 Copynumber: 10.8 Consensus size: 27
41736460 TTTCATCCTA
* * *
41736470 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** **
41736497 CAAAGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *** * *
41736524 CAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTACAAA-C
* * ** *
41736553 CAATGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAC
* * *
41736580 CAGGGGAATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** * * *
41736607 TGAGGGTATATCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
41736634 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAAC
* * *
41736661 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
**
41736688 TGAGGGTATTTCT-GTAATTTTACAAAC
1 CAAGGGTATTT-TGGTAATTTTACAAAC
*** *
41736715 CAAGGGTATTTTAACAATTTTACAGA-
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
41736741 CTAGGGTATTCTAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
41736762 GTAAATCGAG
Statistics
Matches: 205, Mismatches: 52, Indels: 17
0.75 0.19 0.06
Matches are distributed among these distances:
26 21 0.10
27 155 0.76
28 15 0.07
29 14 0.07
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:41736782 original size:27 final size:27
Alignment explanation
Indices: 41736754--41736934 Score: 195
Period size: 27 Copynumber: 6.7 Consensus size: 27
41736744 GGGTATTCTA
* *
41736754 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
41736781 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * * *
41736808 GTACTTCTATAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
41736835 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
41736862 GTAATTATGTAAATCG-GGGTTTAAATG
1 GTAATTCTGTAAATCGAGGG-TAAAATG
* * *
41736889 GTAATTATGTAAATTGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
41736916 GTAATTCTGTAAATC-AGGG
1 GTAATTCTGTAAATCGAGGG
41736935 GTACTTTGGT
Statistics
Matches: 131, Mismatches: 21, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
26 6 0.05
27 122 0.93
28 3 0.02
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:41736964 original size:27 final size:27
Alignment explanation
Indices: 41736943--41737032 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
41736933 GGGTACTTTG
*
41736943 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
41736970 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
41736997 GTATTTTTACAAA-CTAAGCGTATTTCG
1 GTAATTTTACAAATCGAAG-GTATTTCA
41737024 GTAATTTTA
1 GTAATTTTA
41737033 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.05
27 52 0.95
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:41737046 original size:27 final size:27
Alignment explanation
Indices: 41736943--41737047 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
41736933 GGGTACTTTG
* *
41736943 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
41736970 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
41736997 GTATTTTTACAAACTAAGCGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
41737024 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
41737048 CTAAACAGGG
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.03
27 54 0.84
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:41743287 original size:17 final size:19
Alignment explanation
Indices: 41743255--41743294 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
41743245 TATGTGGCCT
*
41743255 GCCCGTGTGGGCCTACAC-
1 GCCCGTGTGAGCCTACACA
41743273 GCCCGTGT-AGCCTACACA
1 GCCCGTGTGAGCCTACACA
41743291 GCCC
1 GCCC
41743295 AATTTGGCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.15, C:0.42, G:0.28, T:0.15
Consensus pattern (19 bp):
GCCCGTGTGAGCCTACACA
Found at i:41749639 original size:213 final size:213
Alignment explanation
Indices: 41749272--41749697 Score: 807
Period size: 213 Copynumber: 2.0 Consensus size: 213
41749262 AGAATAAAAT
*
41749272 TCATTTATTATCATGTCAATTTTACATGCGTACAAGAGTTCACTAATATCGTCACACCAATAACC
1 TCATTTATTATCATGTCAATTTTACATGCGTACAAGAGTTCACAAATATCGTCACACCAATAACC
* * * *
41749337 CATCACTTGGACCAATGCAAGCTCAAGCACTATGCAATCACACAAAAAATTTTAATTTTTTTGAA
66 CATCACTTGCACCAATGCAAGCTCAAGCACCATGCAATCACACAAAAAATTTTAAATTTTTTAAA
41749402 AATTTTGCAATTAAAGTTAAACATTCAAAAGCATAAACCACACAAACAAAACAATATGTAAAACC
131 AATTTTGCAATTAAAGTTAAACATTCAAAAGCATAAACCACACAAACAAAACAATATGTAAAACC
41749467 CAACACTTTAGAGTGCAC
196 CAACACTTTAGAGTGCAC
41749485 TCATTTATTATCATGTCAATTTTACATGCGTACAAGAGTTCACAAATATCGTCACACCAATAACC
1 TCATTTATTATCATGTCAATTTTACATGCGTACAAGAGTTCACAAATATCGTCACACCAATAACC
41749550 CATCACTTGCACCAATGCAAGCTCAAGCACCATGCAATCACACAAAAAATTTTAAATTTTTTAAA
66 CATCACTTGCACCAATGCAAGCTCAAGCACCATGCAATCACACAAAAAATTTTAAATTTTTTAAA
41749615 AATTTTGCAATTAAAGTTAAACATTCAAAAGCATAAACCACACAAACAAAACAATATGTAAAACC
131 AATTTTGCAATTAAAGTTAAACATTCAAAAGCATAAACCACACAAACAAAACAATATGTAAAACC
41749680 CAACACTTTAGAGTGCAC
196 CAACACTTTAGAGTGCAC
41749698 ATTGTCCTCA
Statistics
Matches: 208, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
213 208 1.00
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (213 bp):
TCATTTATTATCATGTCAATTTTACATGCGTACAAGAGTTCACAAATATCGTCACACCAATAACC
CATCACTTGCACCAATGCAAGCTCAAGCACCATGCAATCACACAAAAAATTTTAAATTTTTTAAA
AATTTTGCAATTAAAGTTAAACATTCAAAAGCATAAACCACACAAACAAAACAATATGTAAAACC
CAACACTTTAGAGTGCAC
Found at i:41749726 original size:20 final size:20
Alignment explanation
Indices: 41749701--41749740 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
41749691 AGTGCACATT
41749701 GTCCTCAATGCATTCCCATC
1 GTCCTCAATGCATTCCCATC
*
41749721 GTCCTCAATGTATTCCCATC
1 GTCCTCAATGCATTCCCATC
41749741 CTAATAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.38, G:0.10, T:0.33
Consensus pattern (20 bp):
GTCCTCAATGCATTCCCATC
Found at i:41752343 original size:18 final size:18
Alignment explanation
Indices: 41752315--41752349 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
41752305 ACAAAACTAA
41752315 ATTTAAAAAATCTAATTTT
1 ATTTAAAAAATC-AATTTT
41752334 ATTT-AAAAATCAATTT
1 ATTTAAAAAATCAATTT
41752350 ATTATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 7 0.44
19 4 0.25
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTAAAAAATCAATTTT
Found at i:41756119 original size:6 final size:6
Alignment explanation
Indices: 41756108--41756142 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
41756098 GCAAATGACT
*
41756108 CATTTC CATTTC TATTTC CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
41756143 GGAAACCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.17, C:0.29, G:0.00, T:0.54
Consensus pattern (6 bp):
CATTTC
Found at i:41761936 original size:33 final size:33
Alignment explanation
Indices: 41761899--41761964 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
41761889 CCTTTGAGGA
41761899 GAAGCCAATTGTCTTTTTAGACTACCCATTTTT
1 GAAGCCAATTGTCTTTTTAGACTACCCATTTTT
*
41761932 GAAGCTAATTGTCTTTTTAGACTACCCATTTTT
1 GAAGCCAATTGTCTTTTTAGACTACCCATTTTT
41761965 TTTTTACCTT
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:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (33 bp):
GAAGCCAATTGTCTTTTTAGACTACCCATTTTT
Found at i:41767554 original size:197 final size:197
Alignment explanation
Indices: 41767213--41767607 Score: 754
Period size: 197 Copynumber: 2.0 Consensus size: 197
41767203 GGCATTCCAG
41767213 TGGCCAGTAAATGGTCGGTGGTGATGGGTTTTCGGTGGGTGAGCAATGGAAGAATTACACTCCTA
1 TGGCCAGTAAATGGTCGGTGGTGATGGGTTTTCGGTGGGTGAGCAATGGAAGAATTACACTCCTA
*
41767278 CTGAGACTATACTAGAAAATTTGGTATCAGAGTAACTATTTCAAAAATAATATTATTTTAATAGA
66 CTGAGACTATACTAGAAAATTTGGTATCAGAGTAACTATTCCAAAAATAATATTATTTTAATAGA
41767343 TTTAATATTAAATTTAATTTAATACTTATCTTAATAGTATTTTATTAATTTAATATTAAAGTGAT
131 TTTAATATTAAATTTAATTTAATACTTATCTTAATAGTATTTTATTAATTTAATATTAAAGTGAT
41767408 TA
196 TA
*
41767410 TGGCCGGTAAATGGTCGGTGGTGATGGGTTTTCGGTGGGTGAGCAATGGAAGAATTACACTCCTA
1 TGGCCAGTAAATGGTCGGTGGTGATGGGTTTTCGGTGGGTGAGCAATGGAAGAATTACACTCCTA
* *
41767475 TTGAGACTCTACTAGAAAATTTGGTATCAGAGTAACTATTCCAAAAATAATATTATTTTAATAGA
66 CTGAGACTATACTAGAAAATTTGGTATCAGAGTAACTATTCCAAAAATAATATTATTTTAATAGA
41767540 TTTAATATTAAATTTAATTTAATACTTATCTTAATAGTATTTTATTAATTTAATATTAAAGTGAT
131 TTTAATATTAAATTTAATTTAATACTTATCTTAATAGTATTTTATTAATTTAATATTAAAGTGAT
41767605 TA
196 TA
41767607 T
1 T
41767608 CCTAATATTT
Statistics
Matches: 194, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
197 194 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (197 bp):
TGGCCAGTAAATGGTCGGTGGTGATGGGTTTTCGGTGGGTGAGCAATGGAAGAATTACACTCCTA
CTGAGACTATACTAGAAAATTTGGTATCAGAGTAACTATTCCAAAAATAATATTATTTTAATAGA
TTTAATATTAAATTTAATTTAATACTTATCTTAATAGTATTTTATTAATTTAATATTAAAGTGAT
TA
Found at i:41767640 original size:16 final size:17
Alignment explanation
Indices: 41767610--41767648 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
41767600 GTGATTATCC
*
41767610 TAATATTTAATTTAATT
1 TAATATTTAATTTAATA
41767627 TAATATTT-ATTTAATA
1 TAATATTTAATTTAATA
41767643 TAATAT
1 TAATAT
41767649 AATCTAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAATATTTAATTTAATA
Found at i:41769436 original size:20 final size:20
Alignment explanation
Indices: 41769413--41769486 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 20
41769403 ACTTTAGTGT
* * *
41769413 CTCTGTTTGCACTCTGATGC
1 CTCTATTTGCACTATCATGC
* *
41769433 CTCTATTTGTACAATCATGC
1 CTCTATTTGCACTATCATGC
41769453 CTCTATTTGCACT-TCAGTGC
1 CTCTATTTGCACTATCA-TGC
* *
41769473 C-CTAATAGCACTAT
1 CTCTATTTGCACTAT
41769487 GGTGCTCCCT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
19 12 0.28
20 31 0.72
ACGTcount: A:0.20, C:0.28, G:0.14, T:0.38
Consensus pattern (20 bp):
CTCTATTTGCACTATCATGC
Found at i:41772617 original size:28 final size:27
Alignment explanation
Indices: 41772532--41772621 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
41772522 GTTACAGAGT
* *
41772532 CACCAGATATAGATATTTTGTGGCAATGC
1 CACCAGA-ACAGATAATTTGTGGCAA-GC
* *
41772561 CACCAGAACAGAT-ATATGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-AGC
41772588 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCA-AGC
41772616 CACCAG
1 CACCAG
41772622 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCAAGC
Found at i:41781265 original size:40 final size:40
Alignment explanation
Indices: 41781138--41781353 Score: 275
Period size: 40 Copynumber: 5.5 Consensus size: 40
41781128 AAGCCAAGTA
* * *
41781138 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
41781176 CCTTCGGGACATAGCCCGGATATAGTAACT--CACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
41781214 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
41781254 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
41781294 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
41781335 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
41781354 TTATCATCCA
Statistics
Matches: 159, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
37 2 0.01
38 45 0.28
39 13 0.08
40 71 0.45
41 24 0.15
42 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:41789327 original size:40 final size:40
Alignment explanation
Indices: 41789245--41789462 Score: 239
Period size: 40 Copynumber: 5.5 Consensus size: 40
41789235 AAGCCAAGTA
* * * *
41789245 CCTTCGGGATTTA-ACCGGATATAGCT-ACTAGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
41789283 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
41789323 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
41789363 CCTTCGAGACTTAGCCCGGATGTAATAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
41789403 CCTTCGGGACTTAGCTCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
*
41789444 CCTTCGAGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
41789463 TTATCATCCA
Statistics
Matches: 153, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
38 12 0.08
39 16 0.10
40 100 0.65
41 22 0.14
42 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:41791310 original size:47 final size:47
Alignment explanation
Indices: 41791251--41791548 Score: 402
Period size: 47 Copynumber: 6.4 Consensus size: 47
41791241 GATGTACAAG
* * *
41791251 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
* *
41791298 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
*
41791345 GTGTGTATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
* * *
41791392 GTGTATACAAGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
* * * * * *
41791439 CTGTATACATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
** * *
41791486 GTGTATATATGTGATAAGGTCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
*
41791533 --GTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
41791549 TCCCGAAGGG
Statistics
Matches: 227, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 15 0.07
47 212 0.93
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
Found at i:41796546 original size:27 final size:27
Alignment explanation
Indices: 41796476--41796566 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
41796466 ATACAGAAAA
* *
41796476 TGTGACAGAGTCACCAGATACAGATATTT
1 TGTGGCAGGGTCACCAGA-ACAGATA-TT
* * *
41796505 TGTGGCAGTGCCACCAGAACAGATATA
1 TGTGGCAGGGTCACCAGAACAGATATT
*
41796532 TGTGGCTGGGTCACCAGAACAGATAATT
1 TGTGGCAGGGTCACCAGAACAGAT-ATT
41796560 TGTGGCA
1 TGTGGCA
41796567 TAGCCACCAG
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 22 0.42
28 15 0.29
29 15 0.29
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (27 bp):
TGTGGCAGGGTCACCAGAACAGATATT
Found at i:41796574 original size:28 final size:27
Alignment explanation
Indices: 41796487--41796576 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 27
41796477 GTGACAGAGT
*
41796487 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* *
41796516 CACCAGAACAGAT-ATATGTGGC-TGGGT
1 CACCAGAACAGATAATTTGTGGCAT--GC
41796543 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
41796571 CACCAG
1 CACCAG
41796577 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
25 1 0.02
27 21 0.41
28 21 0.41
29 8 0.16
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:41796731 original size:29 final size:28
Alignment explanation
Indices: 41796683--41796750 Score: 100
Period size: 29 Copynumber: 2.4 Consensus size: 28
41796673 AAATTAACCC
*
41796683 TAGGGGTATAAAGGTCATTTTGCATACAA
1 TAGGGGTATAAAGGTAATTTTGCATAC-A
* *
41796712 TAGGGGTATTATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
41796740 TAGGGGTATAA
1 TAGGGGTATAA
41796751 TAGTACATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
28 11 0.31
29 24 0.69
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:41799196 original size:27 final size:29
Alignment explanation
Indices: 41799166--41799219 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
41799156 TTGAAGAATT
* *
41799166 TGAGTAATT-TGGG-CTAAATTGTGAAAA
1 TGAGTAATTGAGGGACTAAAATGTGAAAA
41799193 TGAGTAATTGAGGGACTAAAATGTGAA
1 TGAGTAATTGAGGGACTAAAATGTGAA
41799220 TTAAATGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 9 0.39
28 3 0.13
29 11 0.48
ACGTcount: A:0.39, C:0.04, G:0.28, T:0.30
Consensus pattern (29 bp):
TGAGTAATTGAGGGACTAAAATGTGAAAA
Found at i:41808224 original size:29 final size:29
Alignment explanation
Indices: 41808185--41808261 Score: 127
Period size: 29 Copynumber: 2.7 Consensus size: 29
41808175 ATTCATATTC
*
41808185 ATATGGCCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACATGT
*
41808214 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
*
41808243 ATATGGCCCGTTAGGCCCA
1 ATATGGCCCATTAGGCCCA
41808262 GTTACATTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:41808528 original size:16 final size:16
Alignment explanation
Indices: 41808480--41808529 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
41808470 CTACCTTAGC
*
41808480 CAAACTTTCGGCTTTT
1 CAAAATTTCGGCTTTT
*
41808496 CAAAATTTTGGCTTTT
1 CAAAATTTCGGCTTTT
* * *
41808512 CGATATTTCGGCATTT
1 CAAAATTTCGGCTTTT
41808528 CA
1 CA
41808530 GCTTTTGCCG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (16 bp):
CAAAATTTCGGCTTTT
Found at i:41813328 original size:18 final size:19
Alignment explanation
Indices: 41813307--41813342 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
41813297 CTTGGCGGCA
41813307 GCTGACCACC-CCTTGGTG
1 GCTGACCACCACCTTGGTG
*
41813325 GCTGAGCACCACCTTGGT
1 GCTGACCACCACCTTGGT
41813343 CTACTACTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.14, C:0.36, G:0.28, T:0.22
Consensus pattern (19 bp):
GCTGACCACCACCTTGGTG
Done.