Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 329 of 333
Found at i:106533022 original size:313 final size:313
Alignment explanation
Indices: 106532078--106533022 Score: 1487
Period size: 313 Copynumber: 3.0 Consensus size: 313
106532068 AATTACTTCG
106532078 TGACATTTTTCGAGTAAATTCTATTAATATGTTCCAAATGAATAAAGCCCTGACCAAGCATATCT
1 TGACATTTTTCGAGTAAATTCTATTAATATGTTCCAAATGAATAAAGCCCTGACCAAGCATATCT
106532143 GGCCGTTAAGCGTAGAAGATGGTATTTACTTTAAACACAGTTAATGTTATTTGCTATCAGTGTTC
66 GGCCGTTAAGCGTAGAAGATGGTATTTACTTTAAACACAGTTAATGTTATTTGCTATCAGTGTTC
106532208 ATTTTCTTAAATTTTTTGCCTATGTGACTTATATTTATTTTATCAGGGTGATTTCATTTTGAGTA
131 ATTTTCTTAAATTTTTTGCCTATGTGACTTATATTTATTTTATCAGGGTGATTTCATTTTGAGTA
106532273 CCTTCTATGTCTATACATTGATCATTGCAATCAAACAATTATTCATGAAATGACACTTGGACACA
196 CCTTCTATGTCTATACATTGATCATTGCAATCAAACAATTATTCATGAAATGACACTTGGACACA
106532338 TGACACACGAGGATCTCAAATTCTAACTTTGCTAAAAGTTTTCTCTGTATTTA
261 TGACACACGAGGATCTCAAATTCTAACTTTGCTAAAAGTTTTCTCTGTATTTA
* * * * * ** ** * * * ****
106532391 TTAC----TT---GCAAATACTGTGAGGA-ATGCTGT-CATTCTTTATCATGACTCCTTTATTGC
1 TGACATTTTTCGAGTAAATTCTATTA--ATATG-T-TCCA-AATGAATAAAG-C-CC-TGACCAA
** * * **
106532447 GGTTAATCTGACTGAAAATATTTG-GTGAGAAGATGGTATTTACTTTAAACACAGTTAATGTTAT
58 GCAT-ATCTGGCCG----T-TAAGCGT-AGAAGATGGTATTTACTTTAAACACAGTTAATGTTAT
106532511 TTGCTATCAGTGTTCATTTTCTTAAATTTTTTGCCTATGTGACTTATATTTATTTTATCAGGGTG
116 TTGCTATCAGTGTTCATTTTCTTAAATTTTTTGCCTATGTGACTTATATTTATTTTATCAGGGTG
106532576 ATTTCATTTTGAGTACCTTCTATGTCTATACATTGATCATTGCAATCAAACAATTATTCATGAAA
181 ATTTCATTTTGAGTACCTTCTATGTCTATACATTGATCATTGCAATCAAACAATTATTCATGAAA
106532641 TGACACTTGGACACATGACACACGAGGATCTCAAATTCTAACTTTGCTAAAAGTTTTCTCTGTAT
246 TGACACTTGGACACATGACACACGAGGATCTCAAATTCTAACTTTGCTAAAAGTTTTCTCTGTAT
106532706 TTA
311 TTA
106532709 TGACATTTTTCGAGTAAATTCTATTAATATGTTCCAAATGAATAAAGCCCTGACCAAGCATATCT
1 TGACATTTTTCGAGTAAATTCTATTAATATGTTCCAAATGAATAAAGCCCTGACCAAGCATATCT
106532774 GGCCGTTAAGCGTAGAAGATGGTATTTACTTTAAACACAGTTAATGTTATTTGCTATCAGTGTTC
66 GGCCGTTAAGCGTAGAAGATGGTATTTACTTTAAACACAGTTAATGTTATTTGCTATCAGTGTTC
106532839 ATTTTCTTAAATTTTTTGCCTATGTGACTTATATTTATTTTATCAGGGTGATTTCATTTTGAGTA
131 ATTTTCTTAAATTTTTTGCCTATGTGACTTATATTTATTTTATCAGGGTGATTTCATTTTGAGTA
106532904 CCTTCTATGTCTATACATTGATCATTGCAATCAAACAATTATTCATGAAATGACACTTGGACACA
196 CCTTCTATGTCTATACATTGATCATTGCAATCAAACAATTATTCATGAAATGACACTTGGACACA
106532969 TGACACACGAGGATCTCAAATTCTAACTTTGCTAAAAGTTTTCTCTGTATTTA
261 TGACACACGAGGATCTCAAATTCTAACTTTGCTAAAAGTTTTCTCTGTATTTA
106533022 T
1 T
106533023 TACTTGCAAA
Statistics
Matches: 563, Mismatches: 44, Indels: 50
0.86 0.07 0.08
Matches are distributed among these distances:
306 9 0.02
307 3 0.01
308 4 0.01
309 8 0.01
310 1 0.00
311 2 0.00
312 4 0.01
313 248 0.44
314 3 0.01
317 3 0.01
318 247 0.44
319 4 0.01
320 2 0.00
321 1 0.00
322 8 0.01
323 4 0.01
324 3 0.01
325 9 0.02
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.40
Consensus pattern (313 bp):
TGACATTTTTCGAGTAAATTCTATTAATATGTTCCAAATGAATAAAGCCCTGACCAAGCATATCT
GGCCGTTAAGCGTAGAAGATGGTATTTACTTTAAACACAGTTAATGTTATTTGCTATCAGTGTTC
ATTTTCTTAAATTTTTTGCCTATGTGACTTATATTTATTTTATCAGGGTGATTTCATTTTGAGTA
CCTTCTATGTCTATACATTGATCATTGCAATCAAACAATTATTCATGAAATGACACTTGGACACA
TGACACACGAGGATCTCAAATTCTAACTTTGCTAAAAGTTTTCTCTGTATTTA
Found at i:106533877 original size:66 final size:66
Alignment explanation
Indices: 106533771--106533963 Score: 275
Period size: 66 Copynumber: 3.0 Consensus size: 66
106533761 TGAAGACAAC
* * *
106533771 GATGATTCTGCATCCATGAATGCTGAAAGTGCAAAGGGAGAAGTGAAAGAAGAGGAAAAGGAGGA
1 GATGATTCTGAATCCATGAATGCTGAAAGTGCAAAGGGAGAAGAGAAAGAAGAGGAAAAGGAAGA
106533836 A
66 A
* *
106533837 GATGATTCTGTATCCATGAATGCTGAAAGTGCAAAGGGAGAAGAGAATGAAGAGGAAAAGGAAGA
1 GATGATTCTGAATCCATGAATGCTGAAAGTGCAAAGGGAGAAGAGAAAGAAGAGGAAAAGGAAGA
106533902 A
66 A
** * * *
106533903 GATGATTCTGAATCTTTAAATGCTGAAAATTCAAA---AGAAGAGAAAGAAGAGGAAAAGGAAG
1 GATGATTCTGAATCCATGAATGCTGAAAGTGCAAAGGGAGAAGAGAAAGAAGAGGAAAAGGAAG
106533964 GGGAGCAGGA
Statistics
Matches: 116, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
63 25 0.22
66 91 0.78
ACGTcount: A:0.45, C:0.08, G:0.30, T:0.17
Consensus pattern (66 bp):
GATGATTCTGAATCCATGAATGCTGAAAGTGCAAAGGGAGAAGAGAAAGAAGAGGAAAAGGAAGA
A
Found at i:106536260 original size:13 final size:13
Alignment explanation
Indices: 106536242--106536268 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
106536232 TAGTGTTTAC
106536242 TAGTAGAAATGGA
1 TAGTAGAAATGGA
106536255 TAGTAGAAATGGA
1 TAGTAGAAATGGA
106536268 T
1 T
106536269 GAAATTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (13 bp):
TAGTAGAAATGGA
Found at i:106546950 original size:18 final size:19
Alignment explanation
Indices: 106546917--106546953 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
106546907 AATAATTTTT
106546917 AAAATTTAAAATATTTATA
1 AAAATTTAAAATATTTATA
*
106546936 AAAATTTCAAA-ATTTATA
1 AAAATTTAAAATATTTATA
106546954 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATTTAAAATATTTATA
Found at i:106549290 original size:13 final size:12
Alignment explanation
Indices: 106549249--106549290 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
106549239 TTTCACTTTG
106549249 TTTTTTTATGAAT
1 TTTTTTTATG-AT
*
106549262 TTTTTATATGAT
1 TTTTTTTATGAT
106549274 TTTTTTTATGAT
1 TTTTTTTATGAT
*
106549286 CTTTT
1 TTTTT
106549291 CTCTTTGGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 17 0.65
13 9 0.35
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.71
Consensus pattern (12 bp):
TTTTTTTATGAT
Found at i:106558281 original size:15 final size:15
Alignment explanation
Indices: 106558261--106558291 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
106558251 TGGGTTTAAG
*
106558261 TGTTTGAATCTAATT
1 TGTTTGAATCCAATT
106558276 TGTTTGAATCCAATT
1 TGTTTGAATCCAATT
106558291 T
1 T
106558292 CATTCGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.52
Consensus pattern (15 bp):
TGTTTGAATCCAATT
Found at i:106558720 original size:31 final size:30
Alignment explanation
Indices: 106558663--106558720 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
106558653 ACGATTTAAT
*
106558663 TTGAATTTTAAAAACTAAAAAGTAGAGGGA
1 TTGAATTTTAAAAACTAAAAAATAGAGGGA
* *
106558693 TTGAATTTTTAAAATTAAAAATATAGAG
1 TTGAATTTTAAAAACTAAAAA-ATAGAG
106558721 ACTAAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.50, C:0.02, G:0.16, T:0.33
Consensus pattern (30 bp):
TTGAATTTTAAAAACTAAAAAATAGAGGGA
Found at i:106562476 original size:23 final size:23
Alignment explanation
Indices: 106562450--106562502 Score: 54
Period size: 25 Copynumber: 2.2 Consensus size: 23
106562440 TATAATTCTT
*
106562450 AAATTTACCACATTAA-AATTTGA
1 AAATTTACAAC-TTAAGAATTTGA
*
106562473 AAATAATACAACTTAATGAATTTGA
1 AAAT-TTACAACTTAA-GAATTTGA
106562498 AAATT
1 AAATT
106562503 GTCTTTTCGC
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
23 8 0.33
24 5 0.21
25 11 0.46
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (23 bp):
AAATTTACAACTTAAGAATTTGA
Found at i:106567521 original size:19 final size:19
Alignment explanation
Indices: 106567491--106567527 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
106567481 TCAATTTTAA
106567491 AAAAACTCATTTTAGTATTT
1 AAAAACTCATTTTA-TATTT
106567511 AAAAACT-ATTTTATATT
1 AAAAACTCATTTTATATT
106567528 AATATTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 6 0.35
20 7 0.41
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (19 bp):
AAAAACTCATTTTATATTT
Found at i:106569748 original size:3 final size:3
Alignment explanation
Indices: 106569740--106569793 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
106569730 CTTTCTTTCT
** *
106569740 TTC TTC TTC TTC TTC TTC TAG ATC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
106569788 TAC TTC
1 TTC TTC
106569794 CTTTACAATG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.06, C:0.31, G:0.02, T:0.61
Consensus pattern (3 bp):
TTC
Found at i:106571350 original size:207 final size:202
Alignment explanation
Indices: 106570929--106571484 Score: 680
Period size: 208 Copynumber: 2.7 Consensus size: 202
106570919 CGAAAAAAAA
* * * *
106570929 AAAAAAAACAAATGGTTTGTGTTGTAGTTGATTGCAAACCATTATCTGGGTTTGGTACCATTCAT
1 AAAAAAAACAAATGATTTGTGTTGTAGTTGATTGCAAATCATTATCCGGGTTTGGTACCGTTCAT
* * *
106570994 TCGTATGATAAAAGTGTGTGT-TTTTTGGTAGTCGAGGTGTCCGTTTATTCTAGGAAATAAACGA
66 TCATATGATAAAAGTGTTTGTGTTTTTGGTAGTCGAGGTGT-CG-TTATTCTAGGAAATAAAGGA
* *
106571058 CATTGTTGTGATAATTATAGCCTGTTAACCAATTCGGTGTTTTCTTTTACCAGCTTGTACTTACG
129 CGTTGTTGTGATAATTATAGCCTGTTAACCAATACGGTGTTTTCTTTTACCAGCTTGTACTTACG
106571123 GCTTAACCCCCCC
194 GCTTAA----CCC
* *
106571136 AAAAAAAACAAATGCTTTGTGTTGTAGTTGATTGCAAATCGTTATCCGGGTTTGGTACCGTTCAT
1 AAAAAAAACAAATGATTTGTGTTGTAGTTGATTGCAAATCATTATCCGGGTTTGGTACCGTTCAT
*
106571201 TCATATGATAAAAGTGTTTGTGTTTTTGGTAGTTGAGGTGTCAGATTATTCTAGGAAATAAAGGA
66 TCATATGATAAAAGTGTTTGTGTTTTTGGTAGTCGAGGTGTC-G-TTATTCTAGGAAATAAAGGA
* **
106571266 CGTTGTTGTGATAATTATAGCCTGTTAACTAATACGGTGTTTTCTTTTATTTTACTGGCTTGTAC
129 CGTTGTTGTGATAATTATAGCCTGTTAACCAATACGGTGTTTTC-----TTTTACCAGCTTGTAC
*
106571331 TTATGGCTTAA-CC
189 TTACGGCTTAACCC
** * * *
106571344 AAAAAAAA-AAA-GAAATG-GTTGTAGTTGATTGCGAATCATTATCCGGGTTTGGTATCG-GCAT
1 AAAAAAAACAAATGATTTGTGTTGTAGTTGATTGCAAATCATTATCCGGGTTTGGTACCGTTCAT
* * * * *
106571405 TCACATGATAAAAGTGTTTGTGTTTTTTGCTAGTCGAGGTATC--CATT-TAGGAAATAAAGGAT
66 TCATATGATAAAAGTGTTTGTG-TTTTTGGTAGTCGAGGTGTCGTTATTCTAGGAAATAAAGGAC
*
106571467 GTTGTTGCGATAATTATA
130 GTTGTTGTGATAATTATA
106571485 ATGATGAATT
Statistics
Matches: 311, Mismatches: 30, Indels: 23
0.85 0.08 0.06
Matches are distributed among these distances:
200 31 0.10
201 3 0.01
204 24 0.08
205 54 0.17
206 3 0.01
207 83 0.27
208 89 0.29
213 24 0.08
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.38
Consensus pattern (202 bp):
AAAAAAAACAAATGATTTGTGTTGTAGTTGATTGCAAATCATTATCCGGGTTTGGTACCGTTCAT
TCATATGATAAAAGTGTTTGTGTTTTTGGTAGTCGAGGTGTCGTTATTCTAGGAAATAAAGGACG
TTGTTGTGATAATTATAGCCTGTTAACCAATACGGTGTTTTCTTTTACCAGCTTGTACTTACGGC
TTAACCC
Found at i:106578088 original size:42 final size:42
Alignment explanation
Indices: 106578026--106578107 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
106578016 AACAGATAGC
106578026 ACAACTTACCGAGGAGCCTTGTATCTCATTCATTTTGTTCGG
1 ACAACTTACCGAGGAGCCTTGTATCTCATTCATTTTGTTCGG
** * *
106578068 ACAACTTATTGAGGATCCTTGTATCTCCTTCATTTTGTTC
1 ACAACTTACCGAGGAGCCTTGTATCTCATTCATTTTGTTC
106578108 TTTGGGCAGC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (42 bp):
ACAACTTACCGAGGAGCCTTGTATCTCATTCATTTTGTTCGG
Found at i:106580623 original size:22 final size:24
Alignment explanation
Indices: 106580576--106580636 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 24
106580566 GTAGCGAGGA
*
106580576 AAGAA-AGGAGAGAAGCGAGAGTG
1 AAGAAGAGGAGAGAAGCGAGAGCG
*
106580599 AAGAAGAGGAGAGGAGC-AG-GCG
1 AAGAAGAGGAGAGAAGCGAGAGCG
* *
106580621 AAGAAGATGAAAGAAG
1 AAGAAGAGGAGAGAAG
106580637 AGAAGATGGA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 15 0.47
23 7 0.22
24 10 0.31
ACGTcount: A:0.49, C:0.05, G:0.43, T:0.03
Consensus pattern (24 bp):
AAGAAGAGGAGAGAAGCGAGAGCG
Found at i:106584020 original size:35 final size:35
Alignment explanation
Indices: 106583974--106584045 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
106583964 TATTCTTAAC
106583974 CAGGCTGAAATATTACTTTTGATTTACAATTAAGG
1 CAGGCTGAAATATTACTTTTGATTTACAATTAAGG
106584009 CAGGCTGAAATATTACTTTTGATTTACAATTAAGG
1 CAGGCTGAAATATTACTTTTGATTTACAATTAAGG
106584044 CA
1 CA
106584046 TATGAAATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (35 bp):
CAGGCTGAAATATTACTTTTGATTTACAATTAAGG
Found at i:106587972 original size:96 final size:96
Alignment explanation
Indices: 106587804--106587991 Score: 241
Period size: 96 Copynumber: 2.0 Consensus size: 96
106587794 AAACTAAACT
* * * * * *
106587804 GATACTCTCAGTAGACCGGAAGCTTGCATTTTTCACATCCTCCGATTCTTTCCTAGACAAAACGG
1 GATACTCTCAGTAGACCGAAAACTTGCACTCTGCACATCCTCCGATTCTTTCCTAGACAAAACAG
*
106587869 CACAATTCAACTCGTGAACCAAAACCGAACC
66 CAAAATTCAACTCGTGAACCAAAACCGAACC
* * * * * *
106587900 GATACTCTCGGTAGACCGAAAACTTGCACTCTGCACATCCTCTGGTTCTTTCCTATACAGAACAT
1 GATACTCTCAGTAGACCGAAAACTTGCACTCTGCACATCCTCCGATTCTTTCCTAGACAAAACAG
* *
106587965 CAAAATTCAACTCGTGAGCCGAAACCG
66 CAAAATTCAACTCGTGAACCAAAACCG
106587992 GTCTTCTCCT
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 77 1.00
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (96 bp):
GATACTCTCAGTAGACCGAAAACTTGCACTCTGCACATCCTCCGATTCTTTCCTAGACAAAACAG
CAAAATTCAACTCGTGAACCAAAACCGAACC
Found at i:106588187 original size:120 final size:123
Alignment explanation
Indices: 106587890--106588283 Score: 528
Period size: 123 Copynumber: 3.2 Consensus size: 123
106587880 TCGTGAACCA
* * * * *
106587890 AAACCGAACCGATACTCTCGGTAGACCGAAAACTTGCACTCTGCACATCCTCTGGTTCTTTCCTA
1 AAACCGAACCGATACTCTCAGTAGACCGAAAACTTGCATTCTTCACATCCTCCGGTTCTTTCCCA
*
106587955 TACAGAACATCAAAATTCAACTCGTGAGCCGAAACCGGTCTTCTCCTCCTCGAGT-TAG
66 TACAAAACATCAAAATTCAACTCGTGAGCCGAAACCGGTC-TCTCCTCCTCGAGTCTAG
* * * * * *
106588013 AAACCAAACCGATACTCTCACTAGACCGAAAGCTTACATTTTTTACATCCTCCGGTTCTTTCCCA
1 AAACCGAACCGATACTCTCAGTAGACCGAAAACTTGCATTCTTCACATCCTCCGGTTCTTTCCCA
* * * *
106588078 TGCAAAACAGCACAATTCAACTCGTGAGCCGAATCCGGTC-CT-CTCCTCG-GTCTAG
66 TACAAAACATCAAAATTCAACTCGTGAGCCGAAACCGGTCTCTCCTCCTCGAGTCTAG
*
106588133 AAACCGAACCGATGCTCTCAGTAGACCGAAAACTTGCATTCTTCACATCCTCCGGTTCTTTCCCA
1 AAACCGAACCGATACTCTCAGTAGACCGAAAACTTGCATTCTTCACATCCTCCGGTTCTTTCCCA
** *
106588198 TACAAAACATCATGATTCAACTCGTGAGCCGAAACCGGTCCTCTCCTCCTCGAG-CTCG
66 TACAAAACATCAAAATTCAACTCGTGAGCCGAAACCGGT-CTCTCCTCCTCGAGTCTAG
** *
106588256 AAACCGAACCGACGCTCTCAGTGGACCG
1 AAACCGAACCGATACTCTCAGTAGACCG
106588284 GAGGCTTACA
Statistics
Matches: 235, Mismatches: 31, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
119 2 0.01
120 102 0.43
121 3 0.01
122 2 0.01
123 125 0.53
124 1 0.00
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (123 bp):
AAACCGAACCGATACTCTCAGTAGACCGAAAACTTGCATTCTTCACATCCTCCGGTTCTTTCCCA
TACAAAACATCAAAATTCAACTCGTGAGCCGAAACCGGTCTCTCCTCCTCGAGTCTAG
Found at i:106589019 original size:14 final size:14
Alignment explanation
Indices: 106589008--106589039 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
106588998 ATAGTCAACT
106589008 GTCAACAGTCAATA
1 GTCAACAGTCAATA
*
106589022 GTCAATAGTCAATA
1 GTCAACAGTCAATA
106589036 GTCA
1 GTCA
106589040 TGGATGCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.25
Consensus pattern (14 bp):
GTCAACAGTCAATA
Found at i:106589022 original size:21 final size:21
Alignment explanation
Indices: 106588996--106589039 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
106588986 TTTTATAATA
106588996 CAATAGTCAACT-GTCAACAGT
1 CAATAGTCAA-TAGTCAACAGT
*
106589017 CAATAGTCAATAGTCAATAGT
1 CAATAGTCAATAGTCAACAGT
106589038 CA
1 CA
106589040 TGGATGCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (21 bp):
CAATAGTCAATAGTCAACAGT
Found at i:106589649 original size:21 final size:20
Alignment explanation
Indices: 106589625--106589676 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
106589615 TTTTAAATGC
106589625 AATATTAAAAAATTAGATAAA
1 AATATTAAAAAA-TAGATAAA
* *
106589646 AATATTTAAAAAATAGTTTAA
1 AATA-TTAAAAAATAGATAAA
106589667 AATATTAAAA
1 AATATTAAAA
106589677 TCTTGTACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 6 0.21
21 14 0.50
22 8 0.29
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
AATATTAAAAAATAGATAAA
Found at i:106597906 original size:92 final size:93
Alignment explanation
Indices: 106597472--106597906 Score: 330
Period size: 92 Copynumber: 4.8 Consensus size: 93
106597462 AATTATTTTT
* * *
106597472 AATAAAATATAATAAA-AA-AATATTTTACAGTTATTTTGAAAAATATTT-AAAAATATTTTTAC
1 AATAAAATATAATAAATAATAAT-TTTTACAATTATCTCG-AAAAT-TTTAAAAAATATTTTTAC
* * * * *
106597534 ACCACAATACTC-AAGTTTAAGTGC-CTAAA
63 AGCACTATACTCAAAGCTCAAGTGCTCCAAA
* * * * *
106597563 AATAAAATATAATAAATAACAAATTTTACAATTATCTCGAAATGTTTTAAAAAA-A--ATTGCAG
1 AATAAAATATAATAAATAATAATTTTTACAATTATCTCGAAA-ATTTTAAAAAATATTTTTACAG
106597625 CA-TCATACTCAAAGCTCAAGTGCTCCAAA
65 CACT-ATACTCAAAGCTCAAGTGCTCCAAA
* * * * * * * ** **
106597654 AGTGAAATAAAATAAATAATAATTTTAACAGTTATCCCGAAAATTTGCAAAAAA-A-AATT-GGG
1 AATAAAATATAATAAATAATAATTTTTACAATTATCTCGAAAATTT-TAAAAAATATTTTTACAG
* *
106597716 CACTATACTAAAATC-CAAGTGCTCCAAA
65 CACTATACTCAAAGCTCAAGTGCTCCAAA
* * * *
106597744 AATGAAATATAATAAATAATAATTTTTATAATTAT-TCCTTAAAA-TTAAAAAAATATTTTTGAC
1 AATAAAATATAATAAATAATAATTTTTACAATTATCT-C-GAAAATTTTAAAAAATATTTTT-AC
** *
106597807 -GTGCTATACTCAAA-CACAAGTGC-CCTAAA
63 AGCACTATACTCAAAGCTCAAGTGCTCC-AAA
* * *
106597836 AATAAAATATATTAAATAATAATTTTTATAATTATCTCGAAAATTTTAAAAAATATTTTTACACC
1 AATAAAATATAATAAATAATAATTTTTACAATTATCTCGAAAATTTTAAAAAATATTTTTACAGC
106597901 ACTATA
66 ACTATA
106597907 ATGCCTCGAA
Statistics
Matches: 276, Mismatches: 47, Indels: 41
0.76 0.13 0.11
Matches are distributed among these distances:
89 18 0.07
90 60 0.22
91 95 0.34
92 100 0.36
93 3 0.01
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.33
Consensus pattern (93 bp):
AATAAAATATAATAAATAATAATTTTTACAATTATCTCGAAAATTTTAAAAAATATTTTTACAGC
ACTATACTCAAAGCTCAAGTGCTCCAAA
Found at i:106598371 original size:95 final size:95
Alignment explanation
Indices: 106598283--106598504 Score: 238
Period size: 95 Copynumber: 2.3 Consensus size: 95
106598273 AATAATTTCT
* * * *
106598283 TTTTACAGTTATCTTAGAATATATAAAAAA-AT-TATTTTTGCAACAACATAT-TCAAACCCAAG
1 TTTTACAGTTATCTCAAAAAAT-TAAAAAATATATATTTTTGC-ACAACA-ATCTCAAACCCAAA
*
106598345 TGCTCCGGAAATGAAATATAATAAATAA-TAAA
63 TGCTCCGAAAATGAAATATAATAAATAATTAAA
***
106598377 TTTTACAGTTATCTCAAAAAATTAAAAAATATATATTTTTGCACAACAATCCTCTTGCCCAAATG
1 TTTTACAGTTATCTCAAAAAATTAAAAAATATATATTTTTGCACAACAAT-CTCAAACCCAAATG
* * *
106598442 CTTCTAAAATGAAATATAATAAATAA-TAAT
65 CTCCGAAAATGAAATATAATAAATAATTAAA
** *
106598472 TTTTACAACTATCCTTAAAAAATTAAAAAATAT
1 TTTTACAGTTAT-CTCAAAAAATTAAAAAATAT
106598505 CACCACCATA
Statistics
Matches: 109, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
93 9 0.08
94 27 0.25
95 54 0.50
96 19 0.17
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.34
Consensus pattern (95 bp):
TTTTACAGTTATCTCAAAAAATTAAAAAATATATATTTTTGCACAACAATCTCAAACCCAAATGC
TCCGAAAATGAAATATAATAAATAATTAAA
Found at i:106599350 original size:126 final size:126
Alignment explanation
Indices: 106599133--106599671 Score: 776
Period size: 126 Copynumber: 4.3 Consensus size: 126
106599123 AAAAGCTTCT
* *
106599133 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCACAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
106599198 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * **
106599259 ATGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTATGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * *
106599324 ATAGTGT-AAAAAGCGCTTCAATCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAACTTCC
66 ATAGTGTCAAAAA-CGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * *
106599385 ACGTGGACGCTCTTTTGTTACAGTAGTCTCTGAAAAAATAATTTTAAGAAGATGTATCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * * * *
106599450 ATAGTGGT-AAAAACACTTCAAGCAGAATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * * * **
106599511 ACATGGATGCTCCTTTGCTACAGTGGTTTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * *
106599576 ATAGTGTCAAAAACGCTTCAAGCAGGATGTATTTTCAGCAAAAGTACTGAAAGAAGCTCTC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
106599637 ACGTGGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
106599672 TAACTTGAGC
Statistics
Matches: 365, Mismatches: 45, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
125 7 0.02
126 351 0.96
127 7 0.02
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:106602860 original size:116 final size:116
Alignment explanation
Indices: 106602685--106603299 Score: 1086
Period size: 116 Copynumber: 5.3 Consensus size: 116
106602675 TTTATATTTT
* * *
106602685 ATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* * *
106602750 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATT
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* * * * *
106602801 ATCACATGAAATAATATAAAAATATTCAAAACGTTGCCTTGTTTAAAACAATTTCCATTTTACTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
106602866 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
106602917 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
106602982 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
106603033 ATTATATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
106603098 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
106603149 ATTACATGAAATAATATAAAAAGATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
106603214 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* *
106603265 ATTATATGAAATAATATAAAAAAATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
106603300 TGCACAAATA
Statistics
Matches: 476, Mismatches: 23, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 476 1.00
ACGTcount: A:0.47, C:0.10, G:0.04, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:106603444 original size:21 final size:21
Alignment explanation
Indices: 106603402--106603444 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
106603392 TTTGTCTAGC
* * *
106603402 TTCCGGCGGGGGTTGTGCTTG
1 TTCCGGCGAGGATTCTGCTTG
*
106603423 TTCCGGCGAGGATTCTGGTTG
1 TTCCGGCGAGGATTCTGCTTG
106603444 T
1 T
106603445 GGGTGTTGGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.05, C:0.19, G:0.42, T:0.35
Consensus pattern (21 bp):
TTCCGGCGAGGATTCTGCTTG
Found at i:106603819 original size:30 final size:30
Alignment explanation
Indices: 106603762--106603827 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
106603752 ATTGAACTGT
* *
106603762 TGGGCCTGGTGACTGTGTAGGTCCTGTT-A
1 TGGGCCGGGTGACTGTGTAGGGCCTGTTGA
*
106603791 CTGGGCCGGGTGATTGTGT-GGGCGCTGTTGA
1 -TGGGCCGGGTGACTGTGTAGGGC-CTGTTGA
106603822 TGGGCC
1 TGGGCC
106603828 TGCGCTGTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 3 0.10
30 27 0.87
31 1 0.03
ACGTcount: A:0.08, C:0.18, G:0.44, T:0.30
Consensus pattern (30 bp):
TGGGCCGGGTGACTGTGTAGGGCCTGTTGA
Found at i:106605539 original size:31 final size:31
Alignment explanation
Indices: 106605495--106605553 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
106605485 AAAAAAATAA
* * *
106605495 TGAGAGTTTTGAGAGGAATTTAAGAGAAATT
1 TGAGAGATCTGAGAGAAATTTAAGAGAAATT
*
106605526 TGAGAGATCTGAGAGAAATTTGAGAGAA
1 TGAGAGATCTGAGAGAAATTTAAGAGAA
106605554 TATTGAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.41, C:0.02, G:0.31, T:0.27
Consensus pattern (31 bp):
TGAGAGATCTGAGAGAAATTTAAGAGAAATT
Found at i:106605559 original size:11 final size:11
Alignment explanation
Indices: 106605502--106605553 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
106605492 TAATGAGAGT
*
106605502 TTTGAGAGGAA
1 TTTGAGAGAAA
*
106605513 TTTAAGAGAAA
1 TTTGAGAGAAA
106605524 TTTGAGAG--A
1 TTTGAGAGAAA
*
106605533 TCTGAGAGAAA
1 TTTGAGAGAAA
106605544 TTTGAGAGAA
1 TTTGAGAGAA
106605554 TATTGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 8 0.24
11 26 0.76
ACGTcount: A:0.42, C:0.02, G:0.29, T:0.27
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:106607105 original size:46 final size:46
Alignment explanation
Indices: 106607038--106607218 Score: 195
Period size: 46 Copynumber: 3.8 Consensus size: 46
106607028 TGTAACCCGC
106607038 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
106607084 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * *
106607134 CTC-TCGAACTCGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCAT
1 C-CAT--AAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
106607183 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
106607219 ATGCCCAAAT
Statistics
Matches: 114, Mismatches: 10, Indels: 22
0.78 0.07 0.15
Matches are distributed among these distances:
46 63 0.55
47 2 0.02
48 4 0.04
49 6 0.05
50 6 0.05
51 4 0.04
52 3 0.03
53 26 0.23
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:106609936 original size:30 final size:30
Alignment explanation
Indices: 106609897--106609953 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
106609887 TTTTATAAAT
106609897 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
106609927 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
106609954 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:106610148 original size:13 final size:13
Alignment explanation
Indices: 106610130--106610180 Score: 68
Period size: 13 Copynumber: 3.9 Consensus size: 13
106610120 CTTAAACCAA
106610130 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
106610143 ACTTTTCTATAA-C
1 ACTTTTC-AAAAGC
*
106610156 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
106610169 ACTTTTCAAAAG
1 ACTTTTCAAAAG
106610181 TATTGCTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 3 0.09
13 26 0.81
14 3 0.09
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:106615453 original size:22 final size:23
Alignment explanation
Indices: 106615428--106615473 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
106615418 AACAAAATTA
106615428 AAATAACATAAAA-GAAAAAAAT
1 AAATAACATAAAATGAAAAAAAT
** *
106615450 AAATTTCTTAAAATGAAAAAAAT
1 AAATAACATAAAATGAAAAAAAT
106615473 A
1 A
106615474 TAGGGACCGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (23 bp):
AAATAACATAAAATGAAAAAAAT
Found at i:106620902 original size:32 final size:33
Alignment explanation
Indices: 106620843--106620911 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 33
106620833 ATATACTAAA
*
106620843 ACTATATGATATAAGTATATATATATAGTTTACC
1 ACTATATGAGATAAG-ATATATATATAGTTTACC
106620877 ACTATATGAGATAAG-TATATATATAGTTTACC
1 ACTATATGAGATAAGATATATATATAGTTTACC
106620909 ACT
1 ACT
106620912 TTTCTAATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 20 0.59
34 14 0.41
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (33 bp):
ACTATATGAGATAAGATATATATATAGTTTACC
Found at i:106629718 original size:2 final size:2
Alignment explanation
Indices: 106629711--106629743 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
106629701 TCAATCTTCA
106629711 TC TC TC TC TC TC T- TGC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC T-C TC TC TC TC TC TC TC TC T
106629744 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 27 0.93
3 1 0.03
ACGTcount: A:0.00, C:0.45, G:0.03, T:0.52
Consensus pattern (2 bp):
TC
Found at i:106631175 original size:30 final size:31
Alignment explanation
Indices: 106631116--106631189 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 31
106631106 ATTAATGAAA
* *
106631116 AAAATTTT-AAAAAAATTAGAGGGCTAAATT
1 AAAATTTTCAAAAAAATTAGAAGGCAAAATT
106631146 AAAATTTTCAAAAAAATTCA-AAGG-AAAATT
1 AAAATTTTCAAAAAAATT-AGAAGGCAAAATT
* * *
106631176 GACATTTCCAAAAA
1 AAAATTTTCAAAAA
106631190 TTTTAAAAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 24 0.65
31 12 0.32
32 1 0.03
ACGTcount: A:0.55, C:0.08, G:0.09, T:0.27
Consensus pattern (31 bp):
AAAATTTTCAAAAAAATTAGAAGGCAAAATT
Found at i:106631798 original size:15 final size:14
Alignment explanation
Indices: 106631768--106631795 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
106631758 TGTTTGGTTC
106631768 TCGAGAAAAAGAAA
1 TCGAGAAAAAGAAA
106631782 TCGAGAAAAAGAAA
1 TCGAGAAAAAGAAA
106631796 ATCAAAAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.07, G:0.21, T:0.07
Consensus pattern (14 bp):
TCGAGAAAAAGAAA
Found at i:106635854 original size:13 final size:14
Alignment explanation
Indices: 106635836--106635868 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
106635826 AAGTTAATAA
*
106635836 TTGAATT-TATCTC
1 TTGAATTATATATC
106635849 TTGAATTATATATC
1 TTGAATTATATATC
106635863 TTGAAT
1 TTGAAT
106635869 ATTTATCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (14 bp):
TTGAATTATATATC
Found at i:106649023 original size:21 final size:18
Alignment explanation
Indices: 106648978--106649015 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
106648968 ATAAGATAAC
106648978 CAATATCATGATGAACTT
1 CAATATCATGATGAACTT
106648996 CAATATCATGATGAACTT
1 CAATATCATGATGAACTT
106649014 CA
1 CA
106649016 CAAATATCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (18 bp):
CAATATCATGATGAACTT
Found at i:106656791 original size:30 final size:30
Alignment explanation
Indices: 106656757--106656824 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
106656747 CTTTGACCTT
106656757 TTAAAAATGAAAAAAA-ATATTTTTAATCTC
1 TTAAAAATGAAAAAAATATA-TTTTAATCTC
* * *
106656787 TTAAACATGATAAAATTATATTTTAATCTC
1 TTAAAAATGAAAAAAATATATTTTAATCTC
*
106656817 TAAAAAAT
1 TTAAAAAT
106656825 TTACAATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 29 0.91
31 3 0.09
ACGTcount: A:0.51, C:0.07, G:0.03, T:0.38
Consensus pattern (30 bp):
TTAAAAATGAAAAAAATATATTTTAATCTC
Found at i:106659031 original size:31 final size:31
Alignment explanation
Indices: 106658973--106659061 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 31
106658963 CTTATAATAT
* ** **
106658973 TTTAAAAAAATTAATTATGCCCCCCAAAA-A
1 TTTAAAAAATTTAATTAAACCTTCCAAAAGA
* * *
106659003 TTTAAAAAGTTCTAATTAAGCCTTCCAAAAGT
1 TTTAAAAAATT-TAATTAAACCTTCCAAAAGA
106659035 TTTAAAAAATTTAATTAAACCTTCCAA
1 TTTAAAAAATTTAATTAAACCTTCCAA
106659062 TATTTTTTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
30 9 0.18
31 30 0.61
32 10 0.20
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (31 bp):
TTTAAAAAATTTAATTAAACCTTCCAAAAGA
Found at i:106659565 original size:30 final size:31
Alignment explanation
Indices: 106659529--106659587 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
106659519 TTTAATTTGA
* * *
106659529 TCAA-TTTAGTCCCTATATTTTTTGAATTAG
1 TCAATTTTAGTCCCCATACTTTTTAAATTAG
106659559 TCAATTTTAGTCCCCATACTTTTTAAATT
1 TCAATTTTAGTCCCCATACTTTTTAAATT
106659588 TTTAACTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.49
Consensus pattern (31 bp):
TCAATTTTAGTCCCCATACTTTTTAAATTAG
Found at i:106664701 original size:17 final size:17
Alignment explanation
Indices: 106664679--106664712 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
106664669 ATCCACTAAT
*
106664679 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
106664696 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
106664713 AATCCACTAC
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:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:106669340 original size:17 final size:17
Alignment explanation
Indices: 106669318--106669351 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
106669308 ATCCACTAAT
*
106669318 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
106669335 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
106669352 AATCCACTAC
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:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:106672684 original size:24 final size:22
Alignment explanation
Indices: 106672644--106672689 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
106672634 AAAATTCTTA
*
106672644 TTTTTAATTTAATATTTAATAT
1 TTTTTAATTTAAAATTTAATAT
*
106672666 TTTTTAATTATTAAAATTTTATAT
1 TTTTTAA-T-TTAAAATTTAATAT
106672690 ACATTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 1 0.05
24 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTTAATTTAAAATTTAATAT
Found at i:106672853 original size:14 final size:14
Alignment explanation
Indices: 106672834--106672880 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
106672824 TATATTTACA
106672834 AATATTAAATAAAT
1 AATATTAAATAAAT
106672848 AATATTAAATAAAT
1 AATATTAAATAAAT
106672862 --T-TTAAATATAA-
1 AATATTAAATA-AAT
106672873 AATATTAA
1 AATATTAA
106672881 TGCACAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
11 7 0.24
12 3 0.10
13 1 0.03
14 18 0.62
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AATATTAAATAAAT
Found at i:106672866 original size:25 final size:25
Alignment explanation
Indices: 106672833--106672880 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
106672823 ATATATTTAC
106672833 AAATATTAAATA-AATAATATTAAAT
1 AAATATTAAATATAA-AATATTAAAT
*
106672858 AAATTTTAAATATAAAATATTAA
1 AAATATTAAATATAAAATATTAA
106672881 TGCACAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AAATATTAAATATAAAATATTAAAT
Found at i:106673026 original size:38 final size:38
Alignment explanation
Indices: 106672982--106673056 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
106672972 CGTACAATTA
*
106672982 AAATTAAACGCGACCAATACAAATCAAAATTTTAATCG
1 AAATTAAACGCGACAAATACAAATCAAAATTTTAATCG
* * **
106673020 AAATTAAACGCGATAAATACGAATTGAAATTTTAATC
1 AAATTAAACGCGACAAATACAAATCAAAATTTTAATC
106673057 TATGCAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.27
Consensus pattern (38 bp):
AAATTAAACGCGACAAATACAAATCAAAATTTTAATCG
Found at i:106673247 original size:7 final size:7
Alignment explanation
Indices: 106673235--106673264 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
106673225 TTAATTTATG
106673235 TTAAATT
1 TTAAATT
106673242 TTAAATT
1 TTAAATT
*
106673249 TTGAATT
1 TTAAATT
106673256 TTAAATT
1 TTAAATT
106673263 TT
1 TT
106673265 TTATAGTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (7 bp):
TTAAATT
Found at i:106677674 original size:38 final size:38
Alignment explanation
Indices: 106677632--106677708 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
106677622 CTCTTCTCCT
106677632 AAGCTTTGATTACCGCCGTTACCTTAAGTTGTGTACAA
1 AAGCTTTGATTACCGCCGTTACCTTAAGTTGTGTACAA
106677670 AAGCTTTGATTACCGCCGTTACCTTAAGTTGTGTACAA
1 AAGCTTTGATTACCGCCGTTACCTTAAGTTGTGTACAA
106677708 A
1 A
106677709 GTGTAACACC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (38 bp):
AAGCTTTGATTACCGCCGTTACCTTAAGTTGTGTACAA
Found at i:106678867 original size:39 final size:39
Alignment explanation
Indices: 106678808--106678908 Score: 166
Period size: 39 Copynumber: 2.6 Consensus size: 39
106678798 ATCGTGATCT
* * *
106678808 GAAGCCCGAAGTCTAGCTGAAGCACATAAATGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAATGCTAAACG
*
106678847 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAATGCTAAACG
106678886 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
106678909 TCATCAGAGC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.38, C:0.25, G:0.26, T:0.12
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAATGCTAAACG
Found at i:106678890 original size:21 final size:21
Alignment explanation
Indices: 106678826--106678890 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
106678816 AAGTCTAGCT
* *
106678826 GAAGCACATAAATGCTAAACG
1 GAAGCACACAAGTGCTAAACG
*
106678847 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACG
106678865 GAAGCACACAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
106678886 GAAGC
1 GAAGC
106678891 CCGAAGGCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.42, C:0.23, G:0.25, T:0.11
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACG
Found at i:106678921 original size:39 final size:39
Alignment explanation
Indices: 106678808--106678923 Score: 155
Period size: 39 Copynumber: 3.0 Consensus size: 39
106678798 ATCGTGATCT
* * *
106678808 GAAGCCCGAAGTCTAGCTGAAGCACAT-AAATGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATCAGA-GCTAAACG
*
106678847 GAAGCCCGAAGGCTAACTGAAGCACA-CAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATC-AGAGCTAAACG
*
106678886 GAAGCCCGAAGGCTAACTGAAGCTCATCAGAGCTAAAC
1 GAAGCCCGAAGGCTAACTGAAGCACATCAGAGCTAAAC
106678924 TGAAACCCCA
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
39 66 0.97
40 2 0.03
ACGTcount: A:0.38, C:0.25, G:0.24, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATCAGAGCTAAACG
Found at i:106681703 original size:5 final size:5
Alignment explanation
Indices: 106681687--106681735 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
106681677 TTTTATTTAA
*
106681687 ATTAT A-TAT ATTGT ATTAT ATTAT ATTAT A-TA- ATTGATT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATT-A-T ATTAT ATTAT
106681736 TAATTGTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
3 1 0.03
4 7 0.19
5 25 0.68
6 1 0.03
7 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (5 bp):
ATTAT
Found at i:106681736 original size:3 final size:3
Alignment explanation
Indices: 106681700--106681787 Score: 71
Period size: 3 Copynumber: 30.7 Consensus size: 3
106681690 ATATATATTG
* *
106681700 TAT TA- TAT TA- TAT TA- TAT AAT TGAT TAT TA- TAT TAT TAAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-AT TAT
** *
106681743 TAT GGT T-T TA- TAT TAT TAT TAT TAT TCT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
106681788 AATAAATTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
2 12 0.18
3 50 0.74
4 6 0.09
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:106682073 original size:33 final size:33
Alignment explanation
Indices: 106682036--106682102 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 33
106682026 TATTTATACA
*
106682036 ATTATAATATT-TTATTTAAATT-AGTAGATATTT
1 ATTAT-ATATTATTATTAAAATTAAG-AGATATTT
*
106682069 ATTATTTATTATTATTAAAATTAAGAGATATTT
1 ATTATATATTATTATTAAAATTAAGAGATATTT
106682102 A
1 A
106682103 ATAATTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 4 0.13
33 24 0.80
34 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (33 bp):
ATTATATATTATTATTAAAATTAAGAGATATTT
Found at i:106683361 original size:39 final size:39
Alignment explanation
Indices: 106683309--106683416 Score: 108
Period size: 45 Copynumber: 2.6 Consensus size: 39
106683299 CAGGCACTTA
* * * *
106683309 TGTGCCGACTACTGTTACTGTTACCGATTCGACACTTTG
1 TGTGTCGAATACTGTTACTGTTACAGATTCAACACTTTG
106683348 TGTGTCGAATACTGTTACCGTTACTGTTACAGATTCAACACTTTG
1 TGTGTCGAATAC---T---GTTACTGTTACAGATTCAACACTTTG
* *
106683393 TGTGTTGAATACTATTACTGTTAC
1 TGTGTCGAATACTGTTACTGTTAC
106683417 TGCTACTGCT
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
39 20 0.35
42 2 0.04
45 35 0.61
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (39 bp):
TGTGTCGAATACTGTTACTGTTACAGATTCAACACTTTG
Found at i:106683389 original size:45 final size:45
Alignment explanation
Indices: 106683322--106683418 Score: 149
Period size: 45 Copynumber: 2.2 Consensus size: 45
106683312 GCCGACTACT
* * *
106683322 GTTACTGTTACCGATTCGACACTTTGTGTGTCGAATACTGTTACC
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTATTACC
* *
106683367 GTTACTGTTACAGATTCAACACTTTGTGTGTTGAATACTATTACT
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTATTACC
106683412 GTTACTG
1 GTTACTG
106683419 CTACTGCTAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (45 bp):
GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTATTACC
Found at i:106686417 original size:148 final size:147
Alignment explanation
Indices: 106686149--106686439 Score: 519
Period size: 148 Copynumber: 2.0 Consensus size: 147
106686139 CCGGATGCCG
*
106686149 GCGGAGGAACGAGGTAATGGTTAGAGCGGTGGAGAGGGTGGCTGTGGTGGAGGAGGCCATGTCGT
1 GCGGAGGAACGAGGTAATGGTTACAGCGGTGGAGAGGGTGGCTGTGGTGGAGGAGGCCATGTCGT
106686214 GAGAGCCGTTAGCAGATGAGTTGATATACAGGGGAAAGTACGGCTGAGGATAAAGAATTGGCTGG
66 GAGAGCCGTTAGCAGATGAGTTGATATACAGGGGAAAGTACGGCTGAGGATAAAGAATTGGCTGG
106686279 TTGTGTGGATTATTGGCA
131 TTGTGTGG-TTATTGGCA
* * *
106686297 GCGGAGGAACGAGGTAATGGTTACAGCGGTGGAGAGGGTGGCTGTTGTGGAGGAGGCCGTGTTGT
1 GCGGAGGAACGAGGTAATGGTTACAGCGGTGGAGAGGGTGGCTGTGGTGGAGGAGGCCATGTCGT
* *
106686362 GAGAGCCGTTAGCAGATGAGTTGATATAGAGGGGAAAGTATGGCTGAGGATAAAGAATTGGCTGG
66 GAGAGCCGTTAGCAGATGAGTTGATATACAGGGGAAAGTACGGCTGAGGATAAAGAATTGGCTGG
106686427 TTGTGTGGTTATT
131 TTGTGTGGTTATT
106686440 ATCTGCCACG
Statistics
Matches: 137, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
147 5 0.04
148 132 0.96
ACGTcount: A:0.24, C:0.09, G:0.43, T:0.24
Consensus pattern (147 bp):
GCGGAGGAACGAGGTAATGGTTACAGCGGTGGAGAGGGTGGCTGTGGTGGAGGAGGCCATGTCGT
GAGAGCCGTTAGCAGATGAGTTGATATACAGGGGAAAGTACGGCTGAGGATAAAGAATTGGCTGG
TTGTGTGGTTATTGGCA
Found at i:106701964 original size:18 final size:21
Alignment explanation
Indices: 106701927--106701969 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 21
106701917 TAAAAATACT
106701927 TTTTATACTCTTTGAAATAA-
1 TTTTATACTCTTTGAAATAAG
*
106701947 TTTTA-ACT-TTTTAAATAAG
1 TTTTATACTCTTTGAAATAAG
106701966 TTTT
1 TTTT
106701970 TTATACATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 9 0.43
19 7 0.33
20 5 0.24
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.56
Consensus pattern (21 bp):
TTTTATACTCTTTGAAATAAG
Found at i:106713912 original size:2 final size:2
Alignment explanation
Indices: 106713905--106713936 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
106713895 TGAATATTGA
106713905 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
106713937 AAGGTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:106713922 original size:15 final size:15
Alignment explanation
Indices: 106713904--106713934 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
106713894 TTGAATATTG
106713904 AATATATATATATAT
1 AATATATATATATAT
106713919 AATATATATATATAT
1 AATATATATATATAT
106713934 A
1 A
106713935 TAAAGGTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATATATATATAT
Found at i:106713925 original size:17 final size:17
Alignment explanation
Indices: 106713905--106713937 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
106713895 TGAATATTGA
106713905 ATATATATATATATAAT
1 ATATATATATATATAAT
106713922 ATATATATATATATAA
1 ATATATATATATATAA
106713938 AGGTTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATATATATATATAAT
Found at i:106720469 original size:31 final size:31
Alignment explanation
Indices: 106720423--106720486 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
106720413 TTACTATAAT
*
106720423 TTGGTCAATTCTAGTCTCTTTATTTTTAGAA
1 TTGGTCAATTCTAGTCTCTGTATTTTTAGAA
* * *
106720454 TTGGTCGATTTTAGTCTCTGTATTTTTTGAA
1 TTGGTCAATTCTAGTCTCTGTATTTTTAGAA
106720485 TT
1 TT
106720487 TCAAAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.19, C:0.11, G:0.16, T:0.55
Consensus pattern (31 bp):
TTGGTCAATTCTAGTCTCTGTATTTTTAGAA
Found at i:106723595 original size:13 final size:13
Alignment explanation
Indices: 106723577--106723608 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
106723567 GAAAGAGAGA
106723577 TTTTAATAATTAT
1 TTTTAATAATTAT
*
106723590 TTTTAATCATTAT
1 TTTTAATAATTAT
106723603 TTTTAA
1 TTTTAA
106723609 ATGTGTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTAATAATTAT
Found at i:106724181 original size:21 final size:20
Alignment explanation
Indices: 106724156--106724194 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
106724146 CAAATAGTAG
*
106724156 TTAAATAAATAATTAAAATAT
1 TTAAAAAAATAA-TAAAATAT
*
106724177 TTAAAAAAATTATAAAAT
1 TTAAAAAAATAATAAAAT
106724195 TTGATTCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TTAAAAAAATAATAAAATAT
Found at i:106727974 original size:18 final size:16
Alignment explanation
Indices: 106727919--106727963 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
106727909 TTTTTTTCTC
*
106727919 AATATATTTTTATTTA-
1 AATA-ATTTATATTTAT
106727935 AA-AA-TTATATTTAT
1 AATAATTTATATTTAT
106727949 AATAATTTATATTTA
1 AATAATTTATATTTA
106727964 ATCACTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
13 8 0.32
14 3 0.12
15 3 0.12
16 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
AATAATTTATATTTAT
Found at i:106736261 original size:21 final size:21
Alignment explanation
Indices: 106736232--106736271 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
106736222 ATTTGATTTT
106736232 TTTAAGATGAAAATATTAAAA
1 TTTAAGATGAAAATATTAAAA
*
106736253 TTTAGGATGAAAATATTAA
1 TTTAAGATGAAAATATTAA
106736272 TGTAGCATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (21 bp):
TTTAAGATGAAAATATTAAAA
Found at i:106737327 original size:30 final size:30
Alignment explanation
Indices: 106737270--106737327 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
106737260 TTAATCATAT
* * *
106737270 TCTTTAAAGCTTTTAGAAAACTTAATTAAG
1 TCTTTAAAGCTTTTAAAAAAATCAATTAAG
106737300 TCTTTAAAAG-TTTTAAAAAAATCAATTA
1 TCTTT-AAAGCTTTTAAAAAAATCAATTA
106737328 GACCTCTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.40
Consensus pattern (30 bp):
TCTTTAAAGCTTTTAAAAAAATCAATTAAG
Found at i:106740072 original size:23 final size:24
Alignment explanation
Indices: 106740031--106740085 Score: 85
Period size: 23 Copynumber: 2.3 Consensus size: 24
106740021 ATATGAGTTG
*
106740031 AATTTTTACACGTCTTTTGCCTGT
1 AATTTTTACACGTCTTTTGCATGT
106740055 AATTTTTACACGTC-TTTGCATGT
1 AATTTTTACACGTCTTTTGCATGT
*
106740078 AACTTTTA
1 AATTTTTA
106740086 AGGTGAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 15 0.52
24 14 0.48
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.49
Consensus pattern (24 bp):
AATTTTTACACGTCTTTTGCATGT
Found at i:106746786 original size:195 final size:192
Alignment explanation
Indices: 106746454--106746843 Score: 672
Period size: 195 Copynumber: 2.0 Consensus size: 192
106746444 CATCCAATCA
106746454 AACAGCTGCAAAAAAATTATCCAAAACAACAAAGAATCAAAGTCCATCCAAACAAAATATCTACT
1 AACAGCTGCAAAAAAATTATCCAAAACAACAAAGAATCAAAGTCCATCCAAACAAAATATCTACT
*
106746519 TTGACATTAAGGATACATAGCAATAGCATACAAACAGGGGTGAAACCAAGGGACAGGCAGGCCTT
66 TTGACATTAAGGATACATAGCAATAGCATACAAACAGGGGTGAAACCAAGGAACAGGCAGGCCTT
**
106746584 CGGTAAATGGAAAATTTGCATTTTAGGCCCTCCCAAGAATTAAAATTTCAATTTAAGACCCTTTT
131 CGGTAAATGGAAAATTTGCATTTT-GGCCCAACCAAGAATTAAAATTTCAATTTAAGA--CTTTT
* *
106746649 AACAGCTGCAAAAAAATTATCCGAAACAACAAAGAATCAAAGTTCATCCAAACAAAATATCTACT
1 AACAGCTGCAAAAAAATTATCCAAAACAACAAAGAATCAAAGTCCATCCAAACAAAATATCTACT
*
106746714 TTGACATTAAGGATACGTAGCAATAGCATACAAACAGGGGTGAAACCAAGGAACAGGCAGGCCTT
66 TTGACATTAAGGATACATAGCAATAGCATACAAACAGGGGTGAAACCAAGGAACAGGCAGGCCTT
* * *
106746779 TGGTAAATGGAAATTTTGCATTTTGGTCCAACCAAGAATTAAAATTTCAATTTAAGACTTTT
131 CGGTAAATGGAAAATTTGCATTTTGGCCCAACCAAGAATTAAAATTTCAATTTAAGACTTTT
106746841 AAC
1 AAC
106746844 GCAAAATTCA
Statistics
Matches: 186, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
192 8 0.04
194 30 0.16
195 148 0.80
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (192 bp):
AACAGCTGCAAAAAAATTATCCAAAACAACAAAGAATCAAAGTCCATCCAAACAAAATATCTACT
TTGACATTAAGGATACATAGCAATAGCATACAAACAGGGGTGAAACCAAGGAACAGGCAGGCCTT
CGGTAAATGGAAAATTTGCATTTTGGCCCAACCAAGAATTAAAATTTCAATTTAAGACTTTT
Found at i:106747878 original size:31 final size:31
Alignment explanation
Indices: 106747843--106747905 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
106747833 TTATCATCCT
**
106747843 AGTAACTTAAATAAAAACTTTTGAATAGTTC
1 AGTAACTTAAATAAAAACTTTCAAATAGTTC
**
106747874 AGTAACTTAAATGGAAACTTTCAAATAGTTC
1 AGTAACTTAAATAAAAACTTTCAAATAGTTC
106747905 A
1 A
106747906 TTTTGTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (31 bp):
AGTAACTTAAATAAAAACTTTCAAATAGTTC
Found at i:106781711 original size:108 final size:107
Alignment explanation
Indices: 106781521--106781717 Score: 295
Period size: 108 Copynumber: 1.8 Consensus size: 107
106781511 AAGCTTTAAG
* *
106781521 AGGATATTTGGCTATTTAGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTAGCTATTTAGTCAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTTCCTCGA
*
106781586 GTTTCCAAACTCGAAATATTGCCTGATTTTGAAATTTTTGAA
66 GTTTCCAAACGCGAAATATTGCCTGATTTTGAAATTTTTGAA
* ** * * *
106781628 AGGATATTTAGCTATTTGGTTGAACGAGAAAATCGACACCCAGTACCTTAGGGCACGTTTTCTCG
1 AGGATATTTAGCTATTTAGTCAAACGAG-AAATCGAAACCCAGCACCTTAGGGCACGTTTCCTCG
*
106781693 AGTTTCCAAACGCTAAATATTGCCT
65 AGTTTCCAAACGCGAAATATTGCCT
106781718 CCATCGAAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
107 24 0.30
108 55 0.70
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (107 bp):
AGGATATTTAGCTATTTAGTCAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTTCCTCGA
GTTTCCAAACGCGAAATATTGCCTGATTTTGAAATTTTTGAA
Found at i:106783577 original size:16 final size:17
Alignment explanation
Indices: 106783546--106783577 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
106783536 CCTCACTGTT
106783546 TTGGGCTAGTGTTGGTA
1 TTGGGCTAGTGTTGGTA
106783563 TTGGGCTAG-GTTGGT
1 TTGGGCTAGTGTTGGT
106783578 TTAGGGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.09, C:0.06, G:0.44, T:0.41
Consensus pattern (17 bp):
TTGGGCTAGTGTTGGTA
Found at i:106784172 original size:6 final size:7
Alignment explanation
Indices: 106784145--106784170 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
106784135 TACTTTTTGT
106784145 AAATTTA
1 AAATTTA
106784152 AAATTTA
1 AAATTTA
106784159 AAATTTA
1 AAATTTA
106784166 AAATT
1 AAATT
106784171 AAATTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTTA
Found at i:106784365 original size:29 final size:28
Alignment explanation
Indices: 106784333--106784400 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
106784323 TAAATTGTGT
106784333 AATTTTGAAATATAAAAAGAAAAAAATTA
1 AATTTT-AAATATAAAAAGAAAAAAATTA
* * *
106784362 AATTCTTAGAA-ATAAAAATATAAAGATTA
1 AATT-TTA-AATATAAAAAGAAAAAAATTA
106784391 AATTTTAAAT
1 AATTTTAAAT
106784401 TTATGAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 2 0.06
28 3 0.09
29 24 0.73
30 4 0.12
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.32
Consensus pattern (28 bp):
AATTTTAAATATAAAAAGAAAAAAATTA
Found at i:106787885 original size:4 final size:4
Alignment explanation
Indices: 106787869--106787899 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
106787859 GAAATCTGAT
*
106787869 ATAC ATGC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
106787900 TATATATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.23, G:0.03, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:106800010 original size:11 final size:11
Alignment explanation
Indices: 106799994--106800022 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
106799984 AAATTATATT
106799994 ATTTTCCCAAA
1 ATTTTCCCAAA
106800005 ATTTTCCCAAA
1 ATTTTCCCAAA
106800016 ATTTTCC
1 ATTTTCC
106800023 ACAATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (11 bp):
ATTTTCCCAAA
Found at i:106801273 original size:145 final size:145
Alignment explanation
Indices: 106801010--106801300 Score: 573
Period size: 145 Copynumber: 2.0 Consensus size: 145
106801000 CCTACACCAC
106801010 TCACCCATACACTATGTCTAAAGGAAACTGTTCAAATAAAGACTTACTACTTGTTCTCCGAAATA
1 TCACCCATACACTATGTCTAAAGGAAACTGTTCAAATAAAGACTTACTACTTGTTCTCCGAAATA
106801075 CCCAAATCCGAATGAAGTCTATAACAATTAAGAAAGTTCAATATCTTCTTCCATTAATGAAATAG
66 CCCAAATCCGAATGAAGTCTATAACAATTAAGAAAGTTCAATATCTTCTTCCATTAATGAAATAG
106801140 CAATCCCTTAACCTT
131 CAATCCCTTAACCTT
106801155 TCACCCATACACTATGTCTAAAGGAAACTGTTCAAATAAAGACTTACTACTTGTTCTCCGAAATA
1 TCACCCATACACTATGTCTAAAGGAAACTGTTCAAATAAAGACTTACTACTTGTTCTCCGAAATA
*
106801220 CCCAAATCCGAATGAAGTCTGTAACAATTAAGAAAGTTCAATATCTTCTTCCATTAATGAAATAG
66 CCCAAATCCGAATGAAGTCTATAACAATTAAGAAAGTTCAATATCTTCTTCCATTAATGAAATAG
106801285 CAATCCCTTAACCTT
131 CAATCCCTTAACCTT
106801300 T
1 T
106801301 TCTTTTTCTG
Statistics
Matches: 145, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 145 1.00
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (145 bp):
TCACCCATACACTATGTCTAAAGGAAACTGTTCAAATAAAGACTTACTACTTGTTCTCCGAAATA
CCCAAATCCGAATGAAGTCTATAACAATTAAGAAAGTTCAATATCTTCTTCCATTAATGAAATAG
CAATCCCTTAACCTT
Found at i:106803685 original size:10 final size:10
Alignment explanation
Indices: 106803670--106803710 Score: 50
Period size: 9 Copynumber: 4.3 Consensus size: 10
106803660 AACAATTAAT
106803670 TATTTTATAA
1 TATTTTATAA
*
106803680 TATTTTTTAA
1 TATTTTATAA
*
106803690 T-TTTTAAAA
1 TATTTTATAA
106803699 T-TTTTATAA
1 TATTTTATAA
106803708 TAT
1 TAT
106803711 ATTTTTTTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
9 15 0.58
10 11 0.42
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATTTTATAA
Found at i:106803715 original size:30 final size:32
Alignment explanation
Indices: 106803672--106803745 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 32
106803662 CAATTAATTA
106803672 TTTTAT-A-ATATTTTTTAATTTTTA-AA-AT
1 TTTTATAATATATTTTTTAATTTTTACAACAT
**
106803700 TTTTATAATATATTTTTTTGTTTTTACAACAT
1 TTTTATAATATATTTTTTAATTTTTACAACAT
106803732 TTTTA-AATA-ATTTT
1 TTTTATAATATATTTT
106803746 AATAACTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
28 6 0.15
29 1 0.03
30 20 0.50
31 6 0.15
32 7 0.17
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (32 bp):
TTTTATAATATATTTTTTAATTTTTACAACAT
Found at i:106816099 original size:14 final size:14
Alignment explanation
Indices: 106816082--106816110 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
106816072 GTCCAATAAG
106816082 AATATTAGAAATAT
1 AATATTAGAAATAT
106816096 AATATTAGAAATAT
1 AATATTAGAAATAT
106816110 A
1 A
106816111 TTTTTATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (14 bp):
AATATTAGAAATAT
Found at i:106817292 original size:3 final size:3
Alignment explanation
Indices: 106817286--106817318 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
106817276 CAACAACCTT
106817286 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
106817319 AGAGAGAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:106820291 original size:15 final size:16
Alignment explanation
Indices: 106820271--106820300 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
106820261 GTGTAATAAT
106820271 TTTTTTA-ATTTTAAA
1 TTTTTTAGATTTTAAA
106820286 TTTTTTAGATTTTAA
1 TTTTTTAGATTTTAA
106820301 TGAATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTTTTAGATTTTAAA
Found at i:106824045 original size:30 final size:30
Alignment explanation
Indices: 106824011--106824069 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
106824001 AATTAAAATT
* *
106824011 TATCTTTTTAGTTTTTCATTTAATCCCACC
1 TATCTTTTGAATTTTTCATTTAATCCCACC
106824041 TATCTTTTGAATTTTTCATTTAATCCCAC
1 TATCTTTTGAATTTTTCATTTAATCCCAC
106824070 TTTAATTAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.03, T:0.53
Consensus pattern (30 bp):
TATCTTTTGAATTTTTCATTTAATCCCACC
Found at i:106824088 original size:42 final size:42
Alignment explanation
Indices: 106824041--106824150 Score: 166
Period size: 42 Copynumber: 2.6 Consensus size: 42
106824031 TAATCCCACC
* * * *
106824041 TATCTTTTGAATTTTTCATTTAATCCCACTTTAATTAGGATT
1 TATCTTTTTAATTTTTCATTTAATCCCACCTCAATTACGATT
*
106824083 TATCTTTTTAATTTTTCATTTAACCCCACCTCAATTACGATT
1 TATCTTTTTAATTTTTCATTTAATCCCACCTCAATTACGATT
*
106824125 TATCTTTTTATTTTTTCATTTAATCC
1 TATCTTTTTAATTTTTCATTTAATCC
106824151 GTGTTTGCTA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.25, C:0.18, G:0.04, T:0.54
Consensus pattern (42 bp):
TATCTTTTTAATTTTTCATTTAATCCCACCTCAATTACGATT
Found at i:106828523 original size:29 final size:30
Alignment explanation
Indices: 106828489--106828561 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 30
106828479 ATGGGGACTA
* *
106828489 GATCAAATTAGTCCCTCTATTATT-AAAAG
1 GATCAAATTAGTCCCTATAATATTAAAAAG
* *
106828518 GATCAATTTAGTCCTTATAATATTAAAAAG
1 GATCAAATTAGTCCCTATAATATTAAAAAG
*
106828548 GATCAAATAAGTCC
1 GATCAAATTAGTCC
106828562 AAATTGTAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 20 0.54
30 17 0.46
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (30 bp):
GATCAAATTAGTCCCTATAATATTAAAAAG
Found at i:106830742 original size:16 final size:16
Alignment explanation
Indices: 106830721--106830752 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
106830711 GGAATAAGTG
*
106830721 CTCAAAAACCATTCTA
1 CTCAAAAACCACTCTA
106830737 CTCAAAAACCACTCTA
1 CTCAAAAACCACTCTA
106830753 AGACTGCCTA
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:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (16 bp):
CTCAAAAACCACTCTA
Found at i:106843972 original size:18 final size:17
Alignment explanation
Indices: 106843946--106843980 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
106843936 AAATCAGAAG
106843946 TTTACTAGTTCATATATA
1 TTTACTAGTT-ATATATA
*
106843964 TTTATTAGTTATATATA
1 TTTACTAGTTATATATA
106843981 ATCGATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (17 bp):
TTTACTAGTTATATATA
Found at i:106844048 original size:3 final size:3
Alignment explanation
Indices: 106844040--106844066 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
106844030 ATAGATGATT
106844040 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
106844067 ACCTACCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:106844858 original size:15 final size:15
Alignment explanation
Indices: 106844840--106844871 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
106844830 TCGCCGTGAA
*
106844840 GGTGGATATGGAGGT
1 GGTGGATACGGAGGT
106844855 GGTGGATACGGAGGT
1 GGTGGATACGGAGGT
106844870 GG
1 GG
106844872 ACGCCGTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.56, T:0.22
Consensus pattern (15 bp):
GGTGGATACGGAGGT
Found at i:106855987 original size:22 final size:23
Alignment explanation
Indices: 106855962--106856026 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 23
106855952 TATTGAAAAT
*
106855962 ACATGTTCATAATATATA-TAAA
1 ACATATTCATAATATATATTAAA
106855984 ACATATAT-ATAATATAATATTAAA
1 ACATAT-TCATAATAT-ATATTAAA
*
106856008 ACATTTTACATAATATATA
1 ACATATT-CATAATATATA
106856027 CACATATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
22 12 0.33
23 5 0.14
24 12 0.33
25 7 0.19
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (23 bp):
ACATATTCATAATATATATTAAA
Found at i:106856020 original size:25 final size:23
Alignment explanation
Indices: 106855969--106856024 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 23
106855959 AATACATGTT
106855969 CATAATAT-ATATAAAACATATA
1 CATAATATAATATAAAACATATA
* *
106855991 TATAATATAATATTAAAACATTTTA
1 CATAATATAATA-TAAAACA-TATA
106856016 CATAATATA
1 CATAATATA
106856025 TACACATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.25
23 3 0.11
24 7 0.25
25 11 0.39
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (23 bp):
CATAATATAATATAAAACATATA
Found at i:106856653 original size:3 final size:3
Alignment explanation
Indices: 106856610--106856639 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
106856600 AAGTACATAC
106856610 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
106856640 CAACATCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:106857990 original size:14 final size:15
Alignment explanation
Indices: 106857959--106857993 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
106857949 TACAATAACC
*
106857959 AAAATTAATTAAATT
1 AAAATTAATTAAACT
106857974 AAAATTAA-TAAACT
1 AAAATTAATTAAACT
106857988 AAAATT
1 AAAATT
106857994 CGTAATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAATTAATTAAACT
Found at i:106865693 original size:31 final size:31
Alignment explanation
Indices: 106865655--106865719 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
106865645 GACACTCAGC
106865655 ACCAAAATCAACAGTCATTGTAACTTCATTA
1 ACCAAAATCAACAGTCATTGTAACTTCATTA
*
106865686 ACCAAAATCAACAGTCATTGTAACTTCCTTA
1 ACCAAAATCAACAGTCATTGTAACTTCATTA
106865717 ACC
1 ACC
106865720 TTTGTAAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.40, C:0.26, G:0.06, T:0.28
Consensus pattern (31 bp):
ACCAAAATCAACAGTCATTGTAACTTCATTA
Found at i:106866244 original size:17 final size:17
Alignment explanation
Indices: 106866222--106866255 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
106866212 GATCAATTGT
*
106866222 TTTAAGGATATCATATG
1 TTTAAGGATATAATATG
106866239 TTTAAGGATATAATATG
1 TTTAAGGATATAATATG
106866256 AGATAGTGTA
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:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (17 bp):
TTTAAGGATATAATATG
Found at i:106869518 original size:13 final size:14
Alignment explanation
Indices: 106869494--106869528 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
106869484 CTCTTAGGTT
106869494 TTTTTATTATTATAAA
1 TTTTTATTA-TAT-AA
106869510 TTTTTATTATATAA
1 TTTTTATTATATAA
106869524 TTTTT
1 TTTTT
106869529 TAGCACTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.37
15 3 0.16
16 9 0.47
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTTATTATATAA
Found at i:106869522 original size:15 final size:16
Alignment explanation
Indices: 106869494--106869530 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
106869484 CTCTTAGGTT
106869494 TTTTTATTATTATAAA
1 TTTTTATTATTATAAA
*
106869510 TTTTTATTA-TATAAT
1 TTTTTATTATTATAAA
106869525 TTTTTA
1 TTTTTA
106869531 GCACTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTATTATTATAAA
Found at i:106870100 original size:14 final size:13
Alignment explanation
Indices: 106870079--106870124 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
106870069 TTTGTAATTG
106870079 TGTATTTTTAATA
1 TGTATTTTTAATA
106870092 TGTATTTTTTAATA
1 TGTA-TTTTTAATA
* *
106870106 TATATTATTAATA
1 TGTATTTTTAATA
106870119 TG-ATTT
1 TGTATTT
106870125 AAAAAAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
14 12 0.43
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.61
Consensus pattern (13 bp):
TGTATTTTTAATA
Found at i:106870713 original size:13 final size:13
Alignment explanation
Indices: 106870695--106870719 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106870685 TTAACAATAC
106870695 AAATATTTTATAA
1 AAATATTTTATAA
106870708 AAATATTTTATA
1 AAATATTTTATA
106870720 TATTTTTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATATTTTATAA
Found at i:106872661 original size:30 final size:31
Alignment explanation
Indices: 106872627--106872690 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
106872617 TGTAAATATA
106872627 AACTTAGTAAAGGGAT-AAAACACAGAATTT
1 AACTTAGTAAAGGGATAAAAACACAGAATTT
106872657 AACTTAGTAAAGGGATAAAAACACAGAATTT
1 AACTTAGTAAAGGGATAAAAACACAGAATTT
106872688 AAC
1 AAC
106872691 CAAATTTCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 16 0.48
31 17 0.52
ACGTcount: A:0.52, C:0.11, G:0.16, T:0.22
Consensus pattern (31 bp):
AACTTAGTAAAGGGATAAAAACACAGAATTT
Found at i:106874279 original size:21 final size:20
Alignment explanation
Indices: 106874253--106874292 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
106874243 ATTTATTGAT
106874253 ATTGAT-GAAGACCAAAGAAAA
1 ATTGATGGAAGA--AAAGAAAA
106874274 ATTGATGGAAGAAAAGAAA
1 ATTGATGGAAGAAAAGAAA
106874293 TGGAAAGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 6 0.33
22 5 0.28
ACGTcount: A:0.57, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
ATTGATGGAAGAAAAGAAAA
Found at i:106874382 original size:10 final size:10
Alignment explanation
Indices: 106874367--106874393 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
106874357 GTCTTAGTTT
106874367 TGCAAGTGTA
1 TGCAAGTGTA
106874377 TGCAAGTGTA
1 TGCAAGTGTA
106874387 TGCAAGT
1 TGCAAGT
106874394 TGGATATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.30
Consensus pattern (10 bp):
TGCAAGTGTA
Found at i:106881102 original size:3 final size:3
Alignment explanation
Indices: 106881035--106881093 Score: 75
Period size: 3 Copynumber: 19.7 Consensus size: 3
106881025 TTTGTTAACT
*
106881035 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TCT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* *
106881080 CTA TTA TTA GTA TT
1 TTA TTA TTA TTA TT
106881094 GGTATTATTG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 1 0.02
3 47 0.98
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:106881301 original size:36 final size:36
Alignment explanation
Indices: 106881222--106881301 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
106881212 AATTTGTTTA
* *
106881222 ATATATATACGTATACTCATATTTCTTTTTATATAT
1 ATATATATACATATACTCATATTTATTTTTATATAT
* *
106881258 ATCTATATACATATACAT-ATTTTTATTTTTATA-AGT
1 ATATATATACATATAC-TCATATTTATTTTTATATA-T
106881294 ATATATAT
1 ATATATAT
106881302 TTATATGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.95
37 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.53
Consensus pattern (36 bp):
ATATATATACATATACTCATATTTATTTTTATATAT
Found at i:106886233 original size:8 final size:8
Alignment explanation
Indices: 106886220--106886256 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
106886210 TCTCATGAAT
106886220 TCAAAAAA
1 TCAAAAAA
106886228 TCAAAAAA
1 TCAAAAAA
106886236 TCAAAAAA
1 TCAAAAAA
106886244 TCAAAAAA
1 TCAAAAAA
106886252 TCAAA
1 TCAAA
106886257 GTCAAAATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.73, C:0.14, G:0.00, T:0.14
Consensus pattern (8 bp):
TCAAAAAA
Found at i:106888556 original size:88 final size:88
Alignment explanation
Indices: 106888407--106888840 Score: 703
Period size: 88 Copynumber: 5.0 Consensus size: 88
106888397 ATGAAGTTAC
* * * * *
106888407 AGATCTTGCCTTCCTGCATTGATAGTGAAGCAGGTCGAAGACATAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
106888472 TGATAGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTTGAAGACAAA
106888495 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
*
106888560 TGATAGAGCTGGTT-AA-AGAAA
66 TGATAGAGCTGGTTGAAGACAAA
106888581 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
*
106888646 TGATGGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTTGAAGACAAA
*
106888669 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTATTTCGGTTG
1 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
106888734 TGATAGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTTGAAGACAAA
* * * * *
106888757 GGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
* *
106888822 T-AGTGGAGCTGGTTAAAGA
66 TGA-TAGAGCTGGTTGAAGA
106888841 AGCAGATCGA
Statistics
Matches: 325, Mismatches: 18, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
86 82 0.25
87 5 0.02
88 238 0.73
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (88 bp):
AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
TGATAGAGCTGGTTGAAGACAAA
Found at i:106888697 original size:174 final size:175
Alignment explanation
Indices: 106888407--106888840 Score: 746
Period size: 174 Copynumber: 2.5 Consensus size: 175
106888397 ATGAAGTTAC
* *
106888407 AGATCTTGCCTTCCTGCATTGATAGTGAAGCAGGTCGAAGACATAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTTTCGGTTG
*
106888472 TGATAGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGAC
66 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGAC
*
106888537 ACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTTAAAGA-AA
131 ACAAACCTTGCCTATTTCGGTTGTGATAGAGCTGGTTAAAGACAA
* * *
106888581 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTTTCGGTTG
106888646 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGAC
66 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGAC
*
106888711 ACAAACCTTGCCTATTTCGGTTGTGATAGAGCTGGTTGAAGACAA
131 ACAAACCTTGCCTATTTCGGTTGTGATAGAGCTGGTTAAAGACAA
*
106888756 AGGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
1 A-GATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTTTCGGTT
*
106888821 GT-AGTGGAGCTGGTTAAAGA
65 GTGA-TGGAGCTGGTTGAAGA
106888841 AGCAGATCGA
Statistics
Matches: 244, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
174 164 0.67
175 4 0.02
176 76 0.31
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (175 bp):
AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTTTCGGTTG
TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGAC
ACAAACCTTGCCTATTTCGGTTGTGATAGAGCTGGTTAAAGACAA
Found at i:106888883 original size:55 final size:56
Alignment explanation
Indices: 106888783--106888903 Score: 158
Period size: 55 Copynumber: 2.2 Consensus size: 56
106888773 CATTGACAGT
* * * * *
106888783 GAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTAAA
1 GAAGCAGATCGAAGACACAAACCTTGCATCTCTCGATTGCAGTGGAGCTAGTTAAA
106888839 GAAGCAGATCGAA-A-ACAAAGCCTTGCATC-CATCGATTGCAGTGGAGCTAGTTAAA
1 GAAGCAGATCGAAGACACAAA-CCTTGCATCTC-TCGATTGCAGTGGAGCTAGTTAAA
106888894 GAAGCAGATC
1 GAAGCAGATC
106888904 TTGCCTTCCT
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
54 6 0.10
55 40 0.69
56 12 0.21
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (56 bp):
GAAGCAGATCGAAGACACAAACCTTGCATCTCTCGATTGCAGTGGAGCTAGTTAAA
Found at i:106889256 original size:44 final size:44
Alignment explanation
Indices: 106889159--106889400 Score: 163
Period size: 44 Copynumber: 5.5 Consensus size: 44
106889149 AAAGCCAGAA
* * * * ** *
106889159 ATCTTATCTCCCTG-AGATTACAGCGGAGCAAATTGAAGTCGATA
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAATAAATG
** *
106889203 ATCCAATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAATT
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAATG
* * * * * *
106889247 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGA-TCACAT-CA-G
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAATG
* * ** **
106889288 GTCTTATCTCCCTG-AGATTACAGTGGAACAGACCAAAGA-ATTTCAG
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAA-ATAAAT--G
* *
106889334 ATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGG
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAATG
* *
106889378 ATCTTATCTCTCTGAGGTTACAG
1 ATCTTATCTCCCTGAAGTTACAG
106889401 CAGAGTAGAT
Statistics
Matches: 150, Mismatches: 38, Indels: 20
0.72 0.18 0.10
Matches are distributed among these distances:
40 2 0.01
41 24 0.16
42 2 0.01
43 5 0.03
44 81 0.54
45 3 0.02
46 31 0.21
47 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAATG
Found at i:106889309 original size:41 final size:41
Alignment explanation
Indices: 106889208--106889435 Score: 134
Period size: 44 Copynumber: 5.3 Consensus size: 41
106889198 CGATAATCCA
* * * **
106889208 ATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAATTATCTT
1 ATCTCCCTGAAGTTACAGTAGAGCAGA-TCAAAT-CA-GGTCTT
* * *
106889252 ATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGTCTT
1 ATCTCCCTGAAGTTACAGTAGAGCAGATCAAATCAGGTCTT
* * * *
106889293 ATCTCCCTG-AGATTACAGTGGAACAGACCAAAGAATTTCAGATCTT
1 ATCTCCCTGAAG-TTACAGTAGAGCAGATC--A-AA--TCAGGTCTT
* * * *
106889339 ATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTT
1 ATCTCCCTGAAGTTACAGTAGAGCAGA-TCAAAT-CAGG-TCTT
* * * * **
106889383 ATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAGGTCTT
1 ATCTCCCTGAAGTTACAGTAGAGCAGATCAAATCAGGTCTT
*
106889424 ATTTCCCTGAAG
1 ATCTCCCTGAAG
106889436 GTGCAGTGGA
Statistics
Matches: 140, Mismatches: 34, Indels: 23
0.71 0.17 0.12
Matches are distributed among these distances:
40 2 0.01
41 38 0.27
42 5 0.04
43 10 0.07
44 52 0.37
45 1 0.01
46 30 0.21
47 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (41 bp):
ATCTCCCTGAAGTTACAGTAGAGCAGATCAAATCAGGTCTT
Found at i:106889443 original size:131 final size:131
Alignment explanation
Indices: 106889208--106889446 Score: 381
Period size: 131 Copynumber: 1.8 Consensus size: 131
106889198 CGATAATCCA
** *
106889208 ATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAATTATCTTATCTCTCTGAAGTTACAGTAG
1 ATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAG
*
106889273 AGTAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCT
66 AGTAGATCACATCAGGTCTTATCTCCCTGAGAGTACAGTGGAACAGACCAAAGAATTTCAGATCT
106889338 T
131 T
* *
106889339 ATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAG
1 ATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAG
* * *
106889404 AGTAGATCGCATCAGGTCTTATTTCCCTGA-AGGTGCAGTGGAA
66 AGTAGATCACATCAGGTCTTATCTCCCTGAGA-GTACAGTGGAA
106889447 TAGAATAAAA
Statistics
Matches: 98, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
130 1 0.01
131 97 0.99
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (131 bp):
ATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAG
AGTAGATCACATCAGGTCTTATCTCCCTGAGAGTACAGTGGAACAGACCAAAGAATTTCAGATCT
T
Found at i:106891018 original size:3 final size:3
Alignment explanation
Indices: 106890957--106891009 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
106890947 TTTGTTAACT
* *
106890957 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TCT- TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
*
106891002 TTA GTA TT
1 TTA TTA TT
106891010 GGTATTATTG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 1 0.02
3 41 0.98
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:106891217 original size:36 final size:36
Alignment explanation
Indices: 106891138--106891217 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
106891128 AATTTGTTTA
* *
106891138 ATATATATACGTATACTCATATTTCTTTTTATATAT
1 ATATATATACATATACTCATATTTATTTTTATATAT
* *
106891174 ATCTATATACATATACAT-ATTTTTATTTTTATA-AGT
1 ATATATATACATATAC-TCATATTTATTTTTATATA-T
106891210 ATATATAT
1 ATATATAT
106891218 TTATATGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.95
37 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.53
Consensus pattern (36 bp):
ATATATATACATATACTCATATTTATTTTTATATAT
Found at i:106897445 original size:26 final size:26
Alignment explanation
Indices: 106897416--106897472 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
106897406 TGACTTTTAG
106897416 TCTTTATTCCGACTTGATTTTCATTT
1 TCTTTATTCCGACTTGATTTTCATTT
106897442 TCTTTATTCCGACTTGATTTTCATTT
1 TCTTTATTCCGACTTGATTTTCATTT
106897468 TCTTT
1 TCTTT
106897473 CTTCGTGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.14, C:0.19, G:0.07, T:0.60
Consensus pattern (26 bp):
TCTTTATTCCGACTTGATTTTCATTT
Found at i:106898323 original size:13 final size:12
Alignment explanation
Indices: 106898300--106898346 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
106898290 TCACGTTTTC
106898300 TTTTTTG-TTAT
1 TTTTTTGTTTAT
106898311 TTTTTTGTCTTAT
1 TTTTTTGT-TTAT
*
106898324 TTGTTTTATTTAT
1 TT-TTTTGTTTAT
*
106898337 TTTATTGTTT
1 TTTTTTGTTT
106898347 CTAATTTCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 7 0.23
12 6 0.20
13 12 0.40
14 5 0.17
ACGTcount: A:0.11, C:0.02, G:0.09, T:0.79
Consensus pattern (12 bp):
TTTTTTGTTTAT
Found at i:106904683 original size:7 final size:7
Alignment explanation
Indices: 106904653--106904682 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
106904643 AACACAACAT
106904653 TGGAGCA
1 TGGAGCA
106904660 TGGAGCA
1 TGGAGCA
106904667 TGGAGCA
1 TGGAGCA
*
106904674 TGTAGCA
1 TGGAGCA
106904681 TG
1 TG
106904683 TGCCTTCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.27, C:0.13, G:0.40, T:0.20
Consensus pattern (7 bp):
TGGAGCA
Found at i:106904820 original size:81 final size:81
Alignment explanation
Indices: 106904677--106904926 Score: 344
Period size: 81 Copynumber: 3.1 Consensus size: 81
106904667 TGGAGCATGT
*
106904677 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACTGCAAAAA-AGTTGA
1 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACT-CAAAAAGAGTTGG
*
106904741 AATCAACACAACATTAG
65 AATCAACACAACATTGG
* *
106904758 AGCATGTGCCTTCTAAATGGGAGTTTATTAATTGGACCAACAG-ATGGAACTTAAAAAGAGTTGG
1 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAAC-GCATGGAACTCAAAAAGAGTTGG
*
106904822 AATCAACACAACAATGG
65 AATCAACACAACATTGG
* * * * * *
106904839 CGCATGGGCGTTCTTAATGGGAGTTTATTAATTGGACCAACGCTTGCAACTGC-AATAGAGTTGG
1 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACT-CAAAAAGAGTTGG
*
106904903 AATCAACATAACATTGG
65 AATCAACACAACATTGG
106904920 AGCATGT
1 AGCATGT
106904927 AGCATCTGCC
Statistics
Matches: 148, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
80 6 0.04
81 141 0.95
82 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26
Consensus pattern (81 bp):
AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACTCAAAAAGAGTTGGA
ATCAACACAACATTGG
Found at i:106907011 original size:22 final size:22
Alignment explanation
Indices: 106906986--106907032 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
106906976 AGAATTTAGT
*
106906986 TTTTATATTTTTATT-TTTAAGA
1 TTTTATATTTTT-TTATTTAAAA
*
106907008 TTTTTTATTTTTTTATTTAAAA
1 TTTTATATTTTTTTATTTAAAA
106907030 TTT
1 TTT
106907033 CAGGTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTTATATTTTTTTATTTAAAA
Found at i:106912945 original size:22 final size:21
Alignment explanation
Indices: 106912919--106912970 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
106912909 ATATTATTTT
106912919 TTATTTT-TTTAAAATATTTATA
1 TTATTTTATTT-AAATATTTA-A
*
106912941 TTATTTTATTTTAATATTTAA
1 TTATTTTATTTAAATATTTAA
*
106912962 TAATTTTAT
1 TTATTTTAT
106912971 ATATTCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 9 0.33
22 15 0.56
23 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTATTTTATTTAAATATTTAA
Found at i:106930422 original size:19 final size:19
Alignment explanation
Indices: 106930400--106930438 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
106930390 ATAACCAGAC
106930400 AGTGACACATGAACCTCAT
1 AGTGACACATGAACCTCAT
106930419 AGTGACACATGAACCTCAT
1 AGTGACACATGAACCTCAT
106930438 A
1 A
106930439 TTGATATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (19 bp):
AGTGACACATGAACCTCAT
Done.