Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 212 of 444
Found at i:59255642 original size:99 final size:100
Alignment explanation
Indices: 59255499--59255683 Score: 354
Period size: 99 Copynumber: 1.9 Consensus size: 100
59255489 GGCTATCTGG
*
59255499 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTG
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTA
59255564 CACTTAGTACTACACACGTGATCGAAGTTATCGGA
66 CACTTAGTACTACACACGTGATCGAAGTTATCGGA
59255599 TACGCATAGTAGCCTGCA-TTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTA
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTA
59255663 CACTTAGTACTACACACGTGA
66 CACTTAGTACTACACACGTGA
59255684 CCTCACAATA
Statistics
Matches: 84, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
99 66 0.79
100 18 0.21
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (100 bp):
TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTA
CACTTAGTACTACACACGTGATCGAAGTTATCGGA
Found at i:59255962 original size:27 final size:27
Alignment explanation
Indices: 59255932--59255985 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
59255922 TCATACAACC
* *
59255932 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
59255959 CATGTAACAATAATTTTCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
59255986 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:59261066 original size:27 final size:27
Alignment explanation
Indices: 59261036--59261140 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
59261026 CTGCCAAAAT
** *
59261036 AGATAATGTGATAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
59261063 AGATAATCGTGGCAGAGCCACCAGA-AC
1 AGATAAT-GTGGCAGAGCCACCAGATAC
* *
59261090 AAAAATATGTGGCAGAGCCACCAGAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAC
*
59261117 AGATAATTGTGGCATAGCCACCAG
1 AGATAA-TGTGGCAGAGCCACCAG
59261141 GACGCTTCCT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
26 1 0.02
27 49 0.74
28 16 0.24
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:59261084 original size:28 final size:28
Alignment explanation
Indices: 59261048--59261140 Score: 120
Period size: 27 Copynumber: 3.4 Consensus size: 28
59261038 ATAATGTGAT
* *
59261048 AGAGTCACCAGATACAGATAATCGTGGC
1 AGAGCCACCAGATACAGATAATTGTGGC
*
59261076 AGAGCCACCAGA-ACA-AAAATATGTGGC
1 AGAGCCACCAGATACAGATAAT-TGTGGC
59261103 AGAGCCACCAGAT-CAGATAATTGTGGC
1 AGAGCCACCAGATACAGATAATTGTGGC
*
59261130 ATAGCCACCAG
1 AGAGCCACCAG
59261141 GACGCTTCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
26 4 0.07
27 38 0.67
28 15 0.26
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.15
Consensus pattern (28 bp):
AGAGCCACCAGATACAGATAATTGTGGC
Found at i:59264495 original size:46 final size:45
Alignment explanation
Indices: 59264428--59264601 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
59264418 GTAACCCGCC
59264428 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATT
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCATT
*
59264474 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTCG--TT
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCATT
*** * * * * *
59264519 ACATCTCTCGAACTCGGACTCAACTTAACGAGTTCAGACATTCGCATC
1 -CATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCATT
*
59264567 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
59264602 ATGCCCAAAT
Statistics
Matches: 106, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
45 3 0.03
46 68 0.64
47 32 0.30
48 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCATT
Found at i:59264549 original size:93 final size:93
Alignment explanation
Indices: 59264435--59264606 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
59264425 GCCCATAAGT
* * * *
59264435 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATTCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59264500 CGAGCTCGGATGCCTCGTTACATCTCTC
66 CGAGCTCGGATGCCTCGTTACATCTCTC
* *
59264528 GAACTCGGACTCAACTTAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
59264593 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
59264607 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTCGTTACATCTCTC
Found at i:59264621 original size:46 final size:45
Alignment explanation
Indices: 59264430--59264621 Score: 124
Period size: 46 Copynumber: 4.2 Consensus size: 45
59264420 AACCCGCCCA
* * * *
59264430 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT-TCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTC-GG-ATGCCCATATCC
* *
59264476 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTCGT-TACA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCC-CATAT-CC
*** * * * * *
59264522 TCTCTCGAACTCGGACTCAACTTAACGAGTTCAGACATTCGC--ATCC
1 TAAGT-GAACTCGGACTCAACTCAACGAGCTC-G-GATGCCCATATCC
*
59264568 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCC
1 -TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCC--ATATCC
59264616 T-AGTGA
1 TAAGTGA
59264622 CATGTCACTT
Statistics
Matches: 115, Mismatches: 20, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
44 6 0.05
45 6 0.05
46 66 0.57
47 28 0.24
48 6 0.05
49 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCATATCC
Found at i:59267758 original size:13 final size:13
Alignment explanation
Indices: 59267740--59267765 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59267730 GCCCGAATGT
59267740 CAAAATTTTCAAA
1 CAAAATTTTCAAA
59267753 CAAAATTTTCAAA
1 CAAAATTTTCAAA
59267766 AATTTATTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
CAAAATTTTCAAA
Found at i:59270653 original size:34 final size:35
Alignment explanation
Indices: 59270576--59270675 Score: 100
Period size: 34 Copynumber: 2.9 Consensus size: 35
59270566 ACTCTTTGTT
*
59270576 TGCATACTG-TACTGAAATGGGCTAAGGCCCAGAC
1 TGCATACTGTTACTAAAATGGGCTAAGGCCCAGAC
* *
59270610 TGCCT-CTGTTACTAAAATGGGCTCAA-GCCCAGAT
1 TGCATACTGTTACTAAAATGGGCT-AAGGCCCAGAC
* *
59270644 TG-ATACTGTTTCTGAAAAAGGGGCTAAGGCCC
1 TGCATACTGTTACT--AAAATGGGCTAAGGCCC
59270676 TAACTGGAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
33 4 0.07
34 33 0.61
35 4 0.07
36 13 0.24
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (35 bp):
TGCATACTGTTACTAAAATGGGCTAAGGCCCAGAC
Found at i:59274176 original size:40 final size:40
Alignment explanation
Indices: 59274130--59274313 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 40
59274120 CTCACACAAG
* *
59274130 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
59274170 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
59274210 GCCTTCGGATCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
59274250 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
59274290 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
59274314 CATTCGAATA
Statistics
Matches: 125, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 123 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:59274225 original size:80 final size:80
Alignment explanation
Indices: 59274109--59274313 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 80
59274099 GGATTTAGCT
* * * * *
59274109 GGATATAACCACT--CACACAAGGCCTTCGGGTCTTAGCCCGGATATGGTC-ACTAGCATAAATG
1 GGATATAATCACTAGCACA-AAAGCCTTCGGATCTTAGCCCGGATATAG-CAACTAGCACAAATG
59274171 CCTTCGGGA-CTTAGCCC
64 CCTTC-GGATCTTAGCCC
* * *
59274188 GGATATAATCGCTAGCACAAATGCCTTCGGATCTTAGCCCGGATATAGCAACTCGCACAAATGCC
1 GGATATAATCACTAGCACAAAAGCCTTCGGATCTTAGCCCGGATATAGCAACTAGCACAAATGCC
*
59274253 TTCGGATCTTAGTCC
66 TTCGGATCTTAGCCC
* *
59274268 GGATATAGTCACTAGCATAAAAGCCTTCGGGA-CTTAGCCCGGATAT
1 GGATATAATCACTAGCACAAAAGCCTTC-GGATCTTAGCCCGGATAT
59274314 CATTCGAATA
Statistics
Matches: 109, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
79 15 0.14
80 87 0.80
81 7 0.06
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
GGATATAATCACTAGCACAAAAGCCTTCGGATCTTAGCCCGGATATAGCAACTAGCACAAATGCC
TTCGGATCTTAGCCC
Found at i:59276195 original size:27 final size:26
Alignment explanation
Indices: 59276154--59276254 Score: 121
Period size: 27 Copynumber: 3.8 Consensus size: 26
59276144 CTCAGTTATC
* *
59276154 AGATATTGTGACAGAGTCACCAGATAT
1 AGATATTGTGGCAGAGCCACCAGA-AT
59276181 AGATATTGTGGCAGAGCCACCAGAAT
1 AGATATTGTGGCAGAGCCACCAGAAT
* *
59276207 AGATATTTGTGGCATAGCCACCAGAAAC
1 AGATA-TTGTGGCAGAGCCACCAG-AAT
* *
59276235 AGATAATGTGGCAAAGCCAC
1 AGATATTGTGGCAGAGCCAC
59276255 TTAATAGAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.11
27 52 0.79
28 7 0.11
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.21
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAT
Found at i:59276441 original size:22 final size:22
Alignment explanation
Indices: 59276413--59276455 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
59276403 GCAAATACAT
*
59276413 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
59276435 TTGGCACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
59276456 AAGGCTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.19
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:59276848 original size:27 final size:27
Alignment explanation
Indices: 59276817--59277163 Score: 366
Period size: 27 Copynumber: 13.0 Consensus size: 27
59276807 AAGGTATCTC
*
59276817 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTT
* * *
59276844 AGTAATTCTACCCTA-AAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTT
* **
59276870 GAG-AATTCTATCCTACAGGGGTATTGC
1 G-GTAATTCTACCCTACAGGGGTATTTT
* *
59276897 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTT
* *
59276924 AGTAATTCTACCCTACAGGGGTATTCT
1 GGTAATTCTACCCTACAGGGGTATTTT
*
59276951 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTT
* *
59276978 GGTAATTCTACCCTA-AAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTT
* * *
59277004 GGTAATTTTACACTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTT
*
59277031 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTT
* * *
59277058 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTT
* *
59277085 GATAATT-T-CACCAATCAGGGGTATTTT
1 GGTAATTCTAC-CCTA-CAGGGGTATTTT
* **
59277112 GGTAATTTTA-CAAATCAGGGGTA-TTT
1 GGTAATTCTACCCTA-CAGGGGTATTTT
*
59277138 GGTAATTCTATCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
59277164 CAGTAATTTC
Statistics
Matches: 276, Mismatches: 34, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.00
26 67 0.24
27 207 0.75
28 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTT
Found at i:59276942 original size:107 final size:107
Alignment explanation
Indices: 59276791--59277171 Score: 447
Period size: 107 Copynumber: 3.6 Consensus size: 107
59276781 GGGGCAAAAT
* * *
59276791 GGTAATTTTACCAC-ACA-AGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTAGTAATTCTA
1 GGTAATTTTACC-CTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTA
*
59276854 CCCTA-AAGGGTATTTCGAGAATTCTATCCTACAGGGGTATTGC
65 CCCTACAAGGGTATTTCGAGAATTCTA-CCTACAGGGGTATTTC
* * * * *
59276897 GATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTCTGGTAATTCTAC
1 GGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
* *
59276962 CCTACAGGGGTATTTCG-GTAATTCTACCCTA-AAGGGTATTTC
66 CCTACAAGGGTATTTCGAG-AATTCTA-CCTACAGGGGTATTTC
* *
59277004 GGTAATTTTACACTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTA-TTTCGATAATTCTA
1 GGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAG-TAATTCTA
* * *
59277068 CCCTACAAGGGTATTTCGATAATT-TCACCAATCAGGGGTATTTT
65 CCCTACAAGGGTATTTCGAGAATTCT-ACCTA-CAGGGGTATTTC
** * *
59277112 GGTAATTTTA-CAAATCAGGGGTATTT-GGTAATTCTATCCTACAGGGGTATTTCAGTAATT
1 GGTAATTTTACCCTA-CAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATT
59277172 TCACAATCGA
Statistics
Matches: 235, Mismatches: 29, Indels: 21
0.82 0.10 0.07
Matches are distributed among these distances:
105 1 0.00
106 20 0.09
107 159 0.68
108 55 0.23
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (107 bp):
GGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
CCTACAAGGGTATTTCGAGAATTCTACCTACAGGGGTATTTC
Found at i:59277049 original size:134 final size:135
Alignment explanation
Indices: 59276805--59277171 Score: 475
Period size: 134 Copynumber: 2.7 Consensus size: 135
59276795 ATTTTACCAC
* *
59276805 ACAA-GGTA-TCTCGGTAATTCCACCCTACAGGGGTATTTTAGTAATTCTACCCTAAAGGGTATT
1 ACAAGGGTATTCTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTAAAGGGTATT
* *
59276868 TCGAG-AATTCTATCCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTTC-AGTAATT
66 TCG-GTAATTCTATCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA-TAATT
59276931 CTACCCT
129 CTACCCT
* *
59276938 ACAGGGGTATTCT-GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTAAAGGGTATT
1 ACAAGGGTATTCTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTAAAGGGTATT
*
59277002 TCGGTAATTTTA-CACTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTC
66 TCGGTAATTCTATC-CTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTC
59277066 TACCCT
130 TACCCT
* * * ** * *
59277072 ACAAGGGTATT-TCGATAATT-T-CACCAATCAGGGGTATTTTGGTAATTTTACAAATCAGGGGT
1 ACAAGGGTATTCTCGGTAATTCTAC-CCTA-CAGGGGTATTTTGGTAATTCTAC-CCTAAAGGGT
*
59277134 ATTT-GGTAATTCTATCCTACAGGGGTATTTCAGTAATT
63 ATTTCGGTAATTCTATCCTACAGGGGTATTTCGGTAATT
59277172 TCACAATCGA
Statistics
Matches: 206, Mismatches: 18, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
132 1 0.00
133 10 0.05
134 180 0.87
135 15 0.07
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (135 bp):
ACAAGGGTATTCTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTAAAGGGTATT
TCGGTAATTCTATCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCT
ACCCT
Found at i:59277210 original size:27 final size:27
Alignment explanation
Indices: 59277180--59277331 Score: 180
Period size: 27 Copynumber: 5.7 Consensus size: 27
59277170 TTTCACAATC
*
59277180 GAGGGTAAAACGGTAATTTTGTAAACT
1 GAGGGTAAAACGGTAATTTTGTAAATT
*
59277207 GAGGGTAAAATGGTAATTTTGTAAATT
1 GAGGGTAAAACGGTAATTTTGTAAATT
* * *
59277234 GAGGGTAAAATGGTAATTCTATAAATT
1 GAGGGTAAAACGGTAATTTTGTAAATT
*
59277261 GAGGGTAAAACGGTAATTTTGTAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATT
* * * * *
59277288 GAGAGTGAAACTGTAA-TTTATAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATT
* *
59277314 GAGAGTAAAATGGTAATT
1 GAGGGTAAAACGGTAATT
59277332 CTACTAATCG
Statistics
Matches: 109, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
26 22 0.20
27 87 0.80
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (27 bp):
GAGGGTAAAACGGTAATTTTGTAAATT
Found at i:59277279 original size:81 final size:80
Alignment explanation
Indices: 59277180--59277334 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 80
59277170 TTTCACAATC
* * * *
59277180 GAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGT-AAAATGGTAATTTTGTAAATTGAGGGTAAA
1 GAGGGTAAAACGGTAATTTTGTAAATC-GAGAGTGAAAAT-GTAA-TTTATAAATCGAGAGTAAA
59277243 ATGGTAATTCTATAAATT
63 ATGGTAATTCTATAAATT
*
59277261 GAGGGTAAAACGGTAATTTTGTAAATCGAGAGTGAAACTGTAATTTATAAATCGAGAGTAAAATG
1 GAGGGTAAAACGGTAATTTTGTAAATCGAGAGTGAAAATGTAATTTATAAATCGAGAGTAAAATG
59277326 GTAATTCTA
66 GTAATTCTA
59277335 CTAATCGAGG
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
80 28 0.42
81 34 0.51
82 5 0.07
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (80 bp):
GAGGGTAAAACGGTAATTTTGTAAATCGAGAGTGAAAATGTAATTTATAAATCGAGAGTAAAATG
GTAATTCTATAAATT
Found at i:59277360 original size:80 final size:81
Alignment explanation
Indices: 59277176--59277347 Score: 199
Period size: 80 Copynumber: 2.1 Consensus size: 81
59277166 GTAATTTCAC
* * * * * *
59277176 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTAAATTGAGGGTA
1 AATCGAGGGCAAAACAGTAATTTTGTAAACTGAGAGTAAAATGGTAATTTTATAAATCGAGAGTA
59277241 AAATGGTAATTCTATA
66 AAATGGTAATTCTATA
* * * *
59277257 AATTGAGGGTAAAACGGTAATTTTGTAAA-TCGAGAGTGAAACT-GTAA-TTTATAAATCGAGAG
1 AATCGAGGGCAAAACAGTAATTTTGTAAACT-GAGAGT-AAAATGGTAATTTTATAAATCGAGAG
59277319 TAAAATGGTAATTCTACT-
64 TAAAATGGTAATTCTA-TA
59277337 AATCGAGGGCA
1 AATCGAGGGCA
59277348 TTTCAGTAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
80 38 0.47
81 38 0.47
82 4 0.05
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (81 bp):
AATCGAGGGCAAAACAGTAATTTTGTAAACTGAGAGTAAAATGGTAATTTTATAAATCGAGAGTA
AAATGGTAATTCTATA
Found at i:59277376 original size:26 final size:27
Alignment explanation
Indices: 59277326--59277387 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
59277316 GAGTAAAATG
* *
59277326 GTAATTCTACTAATCGAGGGCATTTCA
1 GTAATTTTACTAATCGACGGCATTTCA
* *
59277353 GTAATTTTAC-AATCGACGGTATTTTA
1 GTAATTTTACTAATCGACGGCATTTCA
59277379 GTAATTTTA
1 GTAATTTTA
59277388 TAAACCGGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 22 0.71
27 9 0.29
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACTAATCGACGGCATTTCA
Found at i:59280259 original size:25 final size:25
Alignment explanation
Indices: 59280231--59280279 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
59280221 TTATAATATG
** *
59280231 AAAAATGACTGTTTTACCCCTAGGT
1 AAAAATGACCATTATACCCCTAGGT
59280256 AAAAATGACCATTATACCCCTAGG
1 AAAAATGACCATTATACCCCTAGG
59280280 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (25 bp):
AAAAATGACCATTATACCCCTAGGT
Found at i:59280342 original size:11 final size:10
Alignment explanation
Indices: 59280310--59280363 Score: 58
Period size: 11 Copynumber: 5.4 Consensus size: 10
59280300 CATGAGATTT
59280310 TGATAT-ACA
1 TGATATGACA
*
59280319 TGATTTGACA
1 TGATATGACA
59280329 TGATATGCACA
1 TGATATG-ACA
*
59280340 TGATATG-TA
1 TGATATGACA
59280349 TGATATGCACA
1 TGATATG-ACA
59280360 TGAT
1 TGAT
59280364 GTATTCATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
9 13 0.35
10 9 0.24
11 15 0.41
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:59280438 original size:25 final size:24
Alignment explanation
Indices: 59280410--59280490 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 24
59280400 GAGGAAGTGC
59280410 AAAAGGGCTATGCCCCAGTTTACTG
1 AAAAGGGCTATGCCCCAGTTTA-TG
* *
59280435 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTATGCCCCAGTTTATG
*
59280458 AAAAGAGGCTAGGCCTCCAGTTATATG
1 AAAAG-GGCTATGCC-CCAGTT-TATG
59280485 ATAAAG
1 A-AAAG
59280491 CAACTATGCT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
23 6 0.13
24 10 0.22
25 21 0.46
26 1 0.02
27 4 0.09
28 4 0.09
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTATGCCCCAGTTTATG
Found at i:59280742 original size:30 final size:31
Alignment explanation
Indices: 59280675--59280757 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
59280665 CGTTTACAGT
59280675 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
59280706 AAAGGCTTCGGCCGAGTGATATGAATAATG-
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
59280736 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
59280758 TTGAGACTGA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
29 5 0.10
30 16 0.32
31 29 0.58
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:59281474 original size:10 final size:10
Alignment explanation
Indices: 59281455--59281489 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
59281445 AATCTGTCGA
59281455 AAAATT-ATC
1 AAAATTAATC
59281464 AAAATTAATC
1 AAAATTAATC
*
59281474 AAAAATAATC
1 AAAATTAATC
59281484 AAAATT
1 AAAATT
59281490 TATTATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.26
10 17 0.74
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAATTAATC
Found at i:59281478 original size:21 final size:20
Alignment explanation
Indices: 59281454--59281514 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
59281444 AAATCTGTCG
59281454 AAAAATTATCAAAATTAATC
1 AAAAATTATCAAAATTAATC
* * *
59281474 AAAAATAATCAAAATTTATT
1 AAAAATTATCAAAATTAATC
*
59281494 ATAAAATTATTTAAAATTAAT
1 A-AAAATTA-TCAAAATTAAT
59281515 TATGTTAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 18 0.55
21 6 0.18
22 9 0.27
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAATTATCAAAATTAATC
Found at i:59285536 original size:33 final size:32
Alignment explanation
Indices: 59285487--59285550 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
59285477 CTCGCTGCTA
* *
59285487 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
59285520 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
59285551 GTGACTTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:59290706 original size:40 final size:40
Alignment explanation
Indices: 59290648--59290825 Score: 270
Period size: 40 Copynumber: 4.5 Consensus size: 40
59290638 CGGATGATAA
* *
59290648 CCGGGCTATGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
59290688 CCGGGATACGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
59290728 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
59290768 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
59290808 CC-GACTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
59290826 TACTTGGGTT
Statistics
Matches: 129, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 16 0.12
40 113 0.88
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:59298779 original size:40 final size:40
Alignment explanation
Indices: 59298724--59298940 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
59298714 CGGATGATAA
* *
59298724 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
59298764 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
59298804 CCGGGCTACGT-CCGAAGGCATTTGTGCGAGTTACTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
59298843 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
59298883 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
59298923 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
59298941 TACTTGGGTT
Statistics
Matches: 166, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
39 54 0.33
40 111 0.67
41 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:59298829 original size:79 final size:79
Alignment explanation
Indices: 59298724--59298940 Score: 332
Period size: 79 Copynumber: 2.7 Consensus size: 79
59298714 CGGATGATAA
*
59298724 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA-TCCGGGCTAAGTCCCGAAGGCATTT
59298788 GTGCGAGTTACTATAT
64 GTGCGAGTTACTATAT
* *
59298804 CCGGGCTACGT-CCGAAGGCATTTGTGCGAGTTACTATGTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTG
59298868 TGCGAGTTACTATAT
65 TGCGAGTTACTATAT
* *
59298883 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATCC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATATCCGGGCTAAGTCCCGAAGG
59298941 TACTTGGGTT
Statistics
Matches: 126, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
79 90 0.71
80 36 0.29
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGTTACTATAT
Found at i:59298938 original size:119 final size:119
Alignment explanation
Indices: 59298724--59298940 Score: 341
Period size: 119 Copynumber: 1.8 Consensus size: 119
59298714 CGGATGATAA
*
59298724 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
* **
59298789 TGCGAGTTACTATATCCGGGCTACGTCCGAAGGCATTTGTGCGAGTTACTATGT
66 AGCGAGTTACTATATCCGGGCTAAATCCGAAGGCATTTGTGCGAGTTACTATGT
*
59298843 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTT
59298907 GAGCGAG-TAGCTATATCC-GGCTAAATCCCGAAGG
65 GAGCGAGTTA-CTATATCCGGGCTAAAT-CCGAAGG
59298941 TACTTGGGTT
Statistics
Matches: 90, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
118 10 0.11
119 80 0.89
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
AGCGAGTTACTATATCCGGGCTAAATCCGAAGGCATTTGTGCGAGTTACTATGT
Found at i:59302771 original size:29 final size:29
Alignment explanation
Indices: 59302737--59302814 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
59302727 GTGACGAGAT
* *
59302737 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
59302766 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
59302795 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
59302815 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:59310578 original size:29 final size:29
Alignment explanation
Indices: 59310544--59310621 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
59310534 GTGACGAGAT
* *
59310544 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
59310573 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
59310602 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
59310622 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:59315015 original size:27 final size:26
Alignment explanation
Indices: 59314971--59315022 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
59314961 CTCGCTGCAA
*
59314971 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
59314998 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
59315023 GCAACCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:59315074 original size:2 final size:2
Alignment explanation
Indices: 59315069--59315094 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
59315059 ACACACACAC
59315069 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
59315095 GTATGTATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59325285 original size:18 final size:19
Alignment explanation
Indices: 59325251--59325286 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
59325241 TCCTAACACA
59325251 AATTAAATTAAACCATATT
1 AATTAAATTAAACCATATT
*
59325270 AATTAAA-TAAATCATAT
1 AATTAAATTAAACCATAT
59325287 CAACATAAAT
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:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (19 bp):
AATTAAATTAAACCATATT
Found at i:59330672 original size:35 final size:35
Alignment explanation
Indices: 59330615--59330688 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 35
59330605 AAAATGGTTA
* * *
59330615 TCTACATGCTCTACGGAGCAACACTGTGAAATTGG
1 TCTACAAGCTCTAAGGACCAACACTGTGAAATTGG
*
59330650 TCTACAAGCTTTAAGGACCAACACTGTGAAATTGG
1 TCTACAAGCTCTAAGGACCAACACTGTGAAATTGG
59330685 TCTA
1 TCTA
59330689 AAGTTCAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (35 bp):
TCTACAAGCTCTAAGGACCAACACTGTGAAATTGG
Found at i:59332422 original size:38 final size:38
Alignment explanation
Indices: 59332380--59332456 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
59332370 ATTGGCCTAG
59332380 CAATGTTGCAAAATTGGTGTAAGCAACGAAATTTTGAA
1 CAATGTTGCAAAATTGGTGTAAGCAACGAAATTTTGAA
*
59332418 CAATGTTGCAAAATTGGTGTAAGTAACGAAATTTTGAA
1 CAATGTTGCAAAATTGGTGTAAGCAACGAAATTTTGAA
59332456 C
1 C
59332457 TTCTAGGGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (38 bp):
CAATGTTGCAAAATTGGTGTAAGCAACGAAATTTTGAA
Found at i:59337678 original size:25 final size:25
Alignment explanation
Indices: 59337650--59337701 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
59337640 TATAAGCAAA
59337650 CATAAAACATCATTTGCATAATCAT
1 CATAAAACATCATTTGCATAATCAT
59337675 CATAAAACATCATTTGCATAATCAT
1 CATAAAACATCATTTGCATAATCAT
59337700 CA
1 CA
59337702 CCAAGACATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.21, G:0.04, T:0.31
Consensus pattern (25 bp):
CATAAAACATCATTTGCATAATCAT
Found at i:59338075 original size:93 final size:93
Alignment explanation
Indices: 59337963--59338133 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
59337953 GCCCATAAGC
* *
59337963 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
59338028 CGAGTTTGGATGCCTAGTTACATCTCAT
66 CGAGTTCGGATGCCTAGTTACATCTCAT
*
59338056 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59338121 CGAGTTCGGATGC
66 CGAGTTCGGATGC
59338134 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAT
Found at i:59338130 original size:46 final size:46
Alignment explanation
Indices: 59337955--59338130 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
59337945 TGTAACCCGC
* * * *
59337955 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
59338001 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
59338051 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
59338094 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59338131 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59340289 original size:41 final size:40
Alignment explanation
Indices: 59340224--59340399 Score: 151
Period size: 41 Copynumber: 4.4 Consensus size: 40
59340214 GGCACTAACG
* * * *
59340224 GAAAAACGCCGCAATAGGTAAAGCAGTAGCAGCTTTTATGA
1 GAAAAACGCCACAAAAGGTCAAGCATTAGC-GCTTTTATGA
* * *
59340265 GAAAAATGCCGCAAAAGGTCAAGCATTAGCGGTGTTTATGA
1 GAAAAACGCCACAAAAGGTCAAGCATTAGCGCT-TTTATGA
* **
59340306 GAAAAATGCCACAAAAGG-CAAGCATTAGCTGC-GCTATGA
1 GAAAAACGCCACAAAAGGTCAAGCATTAGC-GCTTTTATGA
* * * **
59340345 GAAAAACGCTACAAAATGTCAAGCATTAGTG-TCGCTATGA
1 GAAAAACGCCACAAAAGGTCAAGCATTAGCGCT-TTTATGA
*
59340385 GAAAAATGCCACAAA
1 GAAAAACGCCACAAA
59340400 GTATCATTTT
Statistics
Matches: 115, Mismatches: 15, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
39 21 0.18
40 43 0.37
41 51 0.44
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (40 bp):
GAAAAACGCCACAAAAGGTCAAGCATTAGCGCTTTTATGA
Found at i:59340368 original size:40 final size:39
Alignment explanation
Indices: 59340260--59340399 Score: 174
Period size: 40 Copynumber: 3.5 Consensus size: 39
59340250 TAGCAGCTTT
* * * *
59340260 TATGAGAAAAATGCCGCAAAAGGTCAAGCATTAGCGGTGTT
1 TATGAGAAAAATGCCACAAAA-GTCAAGCATTAGCTGCG-C
*
59340301 TATGAGAAAAATGCCACAAAAGGCAAGCATTAGCTGCGC
1 TATGAGAAAAATGCCACAAAAGTCAAGCATTAGCTGCGC
* *
59340340 TATGAGAAAAACGCTACAAAATGTCAAGCATTAG-TGTCGC
1 TATGAGAAAAATGCCACAAAA-GTCAAGCATTAGCTG-CGC
59340380 TATGAGAAAAATGCCACAAA
1 TATGAGAAAAATGCCACAAA
59340400 GTATCATTTT
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 21 0.24
40 46 0.53
41 20 0.23
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.19
Consensus pattern (39 bp):
TATGAGAAAAATGCCACAAAAGTCAAGCATTAGCTGCGC
Found at i:59340821 original size:25 final size:25
Alignment explanation
Indices: 59340792--59340839 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
59340782 CATTAGCTTA
59340792 ATTTTTATTATTTCATTTAACAATT
1 ATTTTTATTATTTCATTTAACAATT
59340817 ATTTTTATTATTTCATTTAACAA
1 ATTTTTATTATTTCATTTAACAA
59340840 AATCCTATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTTTTATTATTTCATTTAACAATT
Found at i:59343136 original size:28 final size:28
Alignment explanation
Indices: 59343103--59343169 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
59343093 CGATATTTCA
59343103 CACACTAAGTGTCATTCTCAACATCTCG
1 CACACTAAGTGTCATTCTCAACATCTCG
* *
59343131 CACACTAAGTGTCATTCTCAATATTTCG
1 CACACTAAGTGTCATTCTCAACATCTCG
* *
59343159 TACACTGAGTG
1 CACACTAAGTG
59343170 CCATATTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (28 bp):
CACACTAAGTGTCATTCTCAACATCTCG
Found at i:59344433 original size:31 final size:31
Alignment explanation
Indices: 59344382--59344465 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
59344372 TTAGTCTTGA
*
59344382 CATAT-ACTGGGCCAAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
* *
59344412 CATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
59344443 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
59344466 ACTGTAAACA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:59344536 original size:42 final size:42
Alignment explanation
Indices: 59344489--59344580 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
59344479 TGGCCCTTAG
*
59344489 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
59344531 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
59344573 GCCCATTT
1 GCCCATTT
59344581 GGGGAGACTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:59344756 original size:25 final size:25
Alignment explanation
Indices: 59344728--59344797 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
59344718 CTCTTTTAAT
*
59344728 AACTGGTGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
59344753 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
59344778 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
59344798 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 37 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:59345571 original size:27 final size:27
Alignment explanation
Indices: 59345541--59345605 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
59345531 GGGCATATTC
59345541 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
59345568 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
59345595 GTCTTTTTACC
1 GTCATTTTACC
59345606 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:59345689 original size:27 final size:27
Alignment explanation
Indices: 59345659--59345766 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
59345649 GTAAATCTAC
59345659 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
59345686 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
59345712 AAAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
59345742 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
59345767 ACAAATTGAG
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
26 1 0.01
27 41 0.60
28 7 0.10
29 18 0.26
30 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:59345764 original size:56 final size:55
Alignment explanation
Indices: 59345663--59345818 Score: 172
Period size: 54 Copynumber: 2.8 Consensus size: 55
59345653 ATCTACAAAC
* *
59345663 CAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAAAAAGT
1 CAAGGGTATTTCAGTAATTTTGTAAACCAGTGGTATTT-TGGTAATTTTTAAAAA-T
* * * *
59345719 CAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAA-TTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTTTAAAAAT
** * ***
59345773 TGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATT
1 CAAGGGTATTTCAGTAATTTTGTAAACCAGTGGTATTTTGGTAATT
59345819 GTACAAACTA
Statistics
Matches: 84, Mismatches: 14, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
54 37 0.44
55 10 0.12
56 37 0.44
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (55 bp):
CAAGGGTATTTCAGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTTTAAAAAT
Found at i:59345808 original size:54 final size:53
Alignment explanation
Indices: 59345721--59345853 Score: 167
Period size: 54 Copynumber: 2.5 Consensus size: 53
59345711 TAAAAAGTCA
* ** * * *
59345721 AGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATT
1 AGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTGGTAATTGTACAAACT
* *
59345774 GAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTGTACAAACT
1 -AGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTGGTAATTGTACAAACT
*
59345828 AGGGGTATTTTGGTAATTTTACAAAC
1 A-GGGTATTTCGGTAATTTTACAAAC
59345854 TAAGGATATT
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 67 0.99
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTGGTAATTGTACAAACT
Found at i:59345853 original size:27 final size:27
Alignment explanation
Indices: 59345722--59345864 Score: 148
Period size: 27 Copynumber: 5.3 Consensus size: 27
59345712 AAAAAGTCAA
**
59345722 GGGTATTTCT-GTAATTTTGTAAA-TCAG
1 GGGTATTT-TGGTAATTTTACAAACT-AG
*
59345749 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
59345775 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
* *
59345803 TGGTATTTTGGTAATTGTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
59345830 GGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
*
59345857 GGATATTT
1 GGGTATTT
59345865 CAGTCATTTC
Statistics
Matches: 97, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
26 2 0.02
27 94 0.97
28 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:59345873 original size:27 final size:27
Alignment explanation
Indices: 59345656--59345873 Score: 84
Period size: 27 Copynumber: 8.0 Consensus size: 27
59345646 TTGGTAAATC
* *
59345656 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAACTAAGGATATTTCAGTAATTT
** *
59345683 TGTAAACCAATGG-TATTTCTA-TAATTTT
1 TACAAACTAA-GGATATTTC-AGTAA-TTT
* * * *
59345711 TAAAAAGTCAAGGGTATTTCTGTAATTT
1 TACAAACT-AAGGATATTTCAGTAATTT
** * * **
59345739 TGTAAA-TCAGGGGTATTTTGGTAATTT
1 TACAAACT-AAGGATATTTCAGTAATTT
* * * *
59345766 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAACTAAGGATATTTCAGTAATTT
* * * ** *
59345793 CACAAAC-CAGTGGTATTTTGGTAATTG
1 TACAAACTAAG-GATATTTCAGTAATTT
* * **
59345820 TACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACTAAGGATATTTCAGTAATTT
*
59345847 TACAAACTAAGGATATTTCAGTCATTT
1 TACAAACTAAGGATATTTCAGTAATTT
59345874 CATAATCGAG
Statistics
Matches: 151, Mismatches: 31, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
26 2 0.01
27 117 0.77
28 21 0.14
29 11 0.07
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (27 bp):
TACAAACTAAGGATATTTCAGTAATTT
Found at i:59346205 original size:27 final size:27
Alignment explanation
Indices: 59345877--59346197 Score: 428
Period size: 27 Copynumber: 11.8 Consensus size: 27
59345867 GTCATTTCAT
*
59345877 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
59345904 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
59345931 AATTGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
59345958 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
59345985 AATCGAGGGTGAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
59346012 AATCGGGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
59346039 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
59346066 AATCGAGGGTAAAATGGTAATTCTGCA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
59346093 AATAGAGGGTAAAAAACGGTAATTCTGTA
1 AATCGAGGGT--AAAACGGTAATTCTGTA
* *
59346122 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
59346149 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
59346176 AATCGATGGTAAAACAGTAATT
1 AATCGAGGGTAAAACGGTAATT
59346198 TTACAAATTG
Statistics
Matches: 263, Mismatches: 27, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
26 1 0.00
27 238 0.90
29 24 0.09
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:59358476 original size:57 final size:57
Alignment explanation
Indices: 59358371--59358478 Score: 130
Period size: 57 Copynumber: 1.9 Consensus size: 57
59358361 CATGCATATG
** **
59358371 GCCCACTAGGCCCAATCTTATTCAAATGGCCCATTTAGCCCAGTTCATATTCTTATA
1 GCCCACTAGGCCCAATCACATTCAAATGGCCCATTTAGCCCAAATCATATTCTTATA
* *
59358428 GCCCACTAGGCCCAATTCACATT-ATATGGCCCA-TTAGGCCTAAATCATATT
1 GCCCACTAGGCCCAA-TCACATTCAAATGGCCCATTTA-GCCCAAATCATATT
59358479 ATATTCATGC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
56 3 0.07
57 35 0.81
58 5 0.12
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.30
Consensus pattern (57 bp):
GCCCACTAGGCCCAATCACATTCAAATGGCCCATTTAGCCCAAATCATATTCTTATA
Found at i:59358479 original size:28 final size:29
Alignment explanation
Indices: 59358365--59358482 Score: 100
Period size: 28 Copynumber: 4.2 Consensus size: 29
59358355 TACATACATG
*
59358365 CATATGGCCCACTAGGCCC-AATCTTATT
1 CATATGGCCCACTAGGCCCAAATCATATT
* * **
59358393 CAAATGGCCCATTTA-GCCCAGTTCATATT
1 CATATGGCCCA-CTAGGCCCAAATCATATT
* * * *
59358422 CTTATAGCCCACTAGGCCCAATTCACATT
1 CATATGGCCCACTAGGCCCAAATCATATT
* *
59358451 -ATATGGCCCATTAGGCCTAAATCATATT
1 CATATGGCCCACTAGGCCCAAATCATATT
59358479 -ATAT
1 CATAT
59358483 TCATGCTCAC
Statistics
Matches: 70, Mismatches: 17, Indels: 6
0.75 0.18 0.06
Matches are distributed among these distances:
28 42 0.60
29 28 0.40
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.31
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAAATCATATT
Found at i:59358584 original size:19 final size:19
Alignment explanation
Indices: 59358551--59358597 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
59358541 TAGGCCCAAC
*
59358551 AGCCCA-TCAGGCCCATTT
1 AGCCCATTCTGGCCCATTT
59358569 AGCCCATTCTGGCCCATTT
1 AGCCCATTCTGGCCCATTT
* *
59358588 GGCCAATTCT
1 AGCCCATTCT
59358598 CAACCCAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.19, C:0.36, G:0.17, T:0.28
Consensus pattern (19 bp):
AGCCCATTCTGGCCCATTT
Found at i:59358723 original size:16 final size:16
Alignment explanation
Indices: 59358702--59358736 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
59358692 ACTTTTGGCA
59358702 TTTCGACATTTCAGCT
1 TTTCGACATTTCAGCT
*
59358718 TTTCGACATTTCGGCT
1 TTTCGACATTTCAGCT
59358734 TTT
1 TTT
59358737 GCCGATTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.49
Consensus pattern (16 bp):
TTTCGACATTTCAGCT
Found at i:59363754 original size:34 final size:34
Alignment explanation
Indices: 59363702--59363768 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
59363692 TACAGTTGAA
* *
59363702 CAGTATTGGGCCTAAGCCCTTTTCAGTATCAGTGG
1 CAGTATTGGGCCTAAGCCCATCTCAGTAT-AGTGG
* *
59363737 CAGT-TTGGGTCTTAGCCCATCTCAGTATAGTG
1 CAGTATTGGGCCTAAGCCCATCTCAGTATAGTG
59363769 TCAAAAATGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 4 0.14
34 20 0.71
35 4 0.14
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.33
Consensus pattern (34 bp):
CAGTATTGGGCCTAAGCCCATCTCAGTATAGTGG
Found at i:59365821 original size:16 final size:17
Alignment explanation
Indices: 59365800--59365831 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
59365790 CATTCTAATA
59365800 TAAACTT-ACCAACAAT
1 TAAACTTAACCAACAAT
59365816 TAAACTTAACCAACAA
1 TAAACTTAACCAACAA
59365832 GCACAAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (17 bp):
TAAACTTAACCAACAAT
Found at i:59366893 original size:72 final size:72
Alignment explanation
Indices: 59366665--59366903 Score: 230
Period size: 72 Copynumber: 3.3 Consensus size: 72
59366655 ATTAATTATC
* * * * ** * *
59366665 AAGTAAAATCATTTATTTAATTATGTGTTTTTAAAAATTTTAATTTAGTTCAATTTATTAAATTT
1 AAGTGAAACCATTTATTCAATTATGAGTTTTTAAAAAGCTTAATTTAGTTTAATTTATTGAATTT
59366730 TGATATT
66 TGATATT
* * * * ** * *
59366737 AAGCGAAACCGTTTATTTAGTTAT-ACATTTTCAAAAGCTTAATTTAGTTTGATTTATTGAAATT
1 AAGTGAAACCATTTATTCAATTATGAGTTTTTAAAAAGCTTAATTTAGTTTAATTTATTG-AATT
*
59366801 TT-ATCTT
65 TTGATATT
* * * * * *
59366808 AAGTAAAAACATTTGTTCAATTATGAGTTTTTAAAAAGGTTAATTTAGTTTAACTTATTGAGTTT
1 AAGTGAAACCATTTATTCAATTATGAGTTTTTAAAAAGCTTAATTTAGTTTAATTTATTGAATTT
59366873 TGATATT
66 TGATATT
* *
59366880 AAGTGGAACCATTTATTCTATTAT
1 AAGTGAAACCATTTATTCAATTAT
59366904 ACAAAGTAAA
Statistics
Matches: 129, Mismatches: 35, Indels: 6
0.76 0.21 0.04
Matches are distributed among these distances:
71 52 0.40
72 77 0.60
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.48
Consensus pattern (72 bp):
AAGTGAAACCATTTATTCAATTATGAGTTTTTAAAAAGCTTAATTTAGTTTAATTTATTGAATTT
TGATATT
Found at i:59367875 original size:9 final size:9
Alignment explanation
Indices: 59367860--59367997 Score: 104
Period size: 9 Copynumber: 15.6 Consensus size: 9
59367850 AACTTTGGAT
59367860 CATAACTTA
1 CATAACTTA
*
59367869 AATAACTTA
1 CATAACTTA
59367878 CATAACTTA
1 CATAACTTA
59367887 CATAA--TA
1 CATAACTTA
*
59367894 CATAA-ATA
1 CATAACTTA
* * *
59367902 TATATCATA
1 CATAACTTA
*
59367911 TCATAAATTA
1 -CATAACTTA
59367921 CATAACTTA
1 CATAACTTA
59367930 CATAACTTA
1 CATAACTTA
*
59367939 CATTACTTA
1 CATAACTTA
*
59367948 CATAA-ATA
1 CATAACTTA
* * *
59367956 TATATCATA
1 CATAACTTA
59367965 TCATAACTTA
1 -CATAACTTA
*
59367975 CAGAACTTA
1 CATAACTTA
*
59367984 CAGAACTTA
1 CATAACTTA
*
59367993 AATAA
1 CATAA
59367998 ACTTTGGATC
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
7 7 0.07
8 10 0.10
9 76 0.73
10 11 0.11
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:59367976 original size:54 final size:52
Alignment explanation
Indices: 59367858--59367997 Score: 208
Period size: 54 Copynumber: 2.7 Consensus size: 52
59367848 AAAACTTTGG
*
59367858 ATCATAACTTAAATAACTTACATAACTTACATAATACATAAATATATATCAT
1 ATCATAACTTACATAACTTACATAACTTACATAATACATAAATATATATCAT
* *
59367910 ATCATAAATTACATAACTTACATAACTTACATTACTTACATAAATATATATCAT
1 ATCATAACTTACATAACTTACATAACTTACA-TA-ATACATAAATATATATCAT
* * *
59367964 ATCATAACTTACAGAACTTACAGAACTTAAATAA
1 ATCATAACTTACATAACTTACATAACTTACATAA
59367998 ACTTTGGATC
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
52 29 0.37
53 4 0.05
54 45 0.58
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.34
Consensus pattern (52 bp):
ATCATAACTTACATAACTTACATAACTTACATAATACATAAATATATATCAT
Found at i:59375210 original size:26 final size:27
Alignment explanation
Indices: 59375165--59375225 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
59375155 AAATTAACCC
* * *
59375165 TAGGGGTATAACGGTCATTTT-ACACG
1 TAGGGGTAAAACGATAATTTTCACACG
* *
59375191 TAGGGGTAAAACGATAATTTTCATACT
1 TAGGGGTAAAACGATAATTTTCACACG
59375218 TAGGGGTA
1 TAGGGGTA
59375226 GTTTAATAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 18 0.62
27 11 0.38
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.31
Consensus pattern (27 bp):
TAGGGGTAAAACGATAATTTTCACACG
Found at i:59377940 original size:26 final size:27
Alignment explanation
Indices: 59377882--59377980 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 27
59377872 CAAACTGTTT
* *
59377882 AAATTACCAAAATACCCCTAATTTGTT
1 AAATTACCAAAATACCCCTAACTTGTA
*
59377909 AAATTACCAAAATACCCC-CACTTGTA
1 AAATTACCAAAATACCCCTAACTTGTA
* * * *
59377935 AAATTACCGAAATAACCTTATA-GTGTA
1 AAATTACCAAAATACCCCTA-ACTTGTA
* *
59377962 AAATTACCGAACTACCCCT
1 AAATTACCAAAATACCCCT
59377981 GTAGGGTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
26 20 0.34
27 38 0.64
28 1 0.02
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.27
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAACTTGTA
Found at i:59377989 original size:27 final size:27
Alignment explanation
Indices: 59377932--59377992 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
59377922 ACCCCCACTT
* *
59377932 GTAAAATTACCGAAATAACCTTATAGT
1 GTAAAATTACCGAAATAACCCTATAGG
* * *
59377959 GTAAAATTACCGAACTACCCCTGTAGG
1 GTAAAATTACCGAAATAACCCTATAGG
59377986 GTAAAAT
1 GTAAAAT
59377993 GACTATTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (27 bp):
GTAAAATTACCGAAATAACCCTATAGG
Found at i:59378417 original size:27 final size:27
Alignment explanation
Indices: 59378387--59378475 Score: 69
Period size: 27 Copynumber: 3.3 Consensus size: 27
59378377 GTGCAACTCG
59378387 TATTTACCAGTGGCTATGTGCCTATCA
1 TATTTACCAGTGGCTATGTGCCTATCA
* * * *
59378414 TATTTATC-GATGACTTTGTG-TTGATCA
1 TATTTACCAG-TGGCTATGTGCCT-ATCA
* *
59378441 TATTTACCCA-TGGCTGTGTGCCTATTA
1 TATTTA-CCAGTGGCTATGTGCCTATCA
59378468 TA-TTACCA
1 TATTTACCA
59378476 TCACTGATGG
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
25 3 0.06
26 5 0.10
27 38 0.79
28 2 0.04
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.42
Consensus pattern (27 bp):
TATTTACCAGTGGCTATGTGCCTATCA
Found at i:59378504 original size:32 final size:32
Alignment explanation
Indices: 59378468--59378528 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
59378458 GTGCCTATTA
* *
59378468 TATTACCA-TCACTGATGGCTTTGTGCCAAACT
1 TATTA-CAGTCACCGATGGCTTCGTGCCAAACT
*
59378500 TATTACAGTTACCGATGGCTTCGTGCCAA
1 TATTACAGTCACCGATGGCTTCGTGCCAA
59378529 TTATAACACC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 2 0.08
32 23 0.92
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (32 bp):
TATTACAGTCACCGATGGCTTCGTGCCAAACT
Found at i:59379929 original size:27 final size:26
Alignment explanation
Indices: 59379887--59379959 Score: 92
Period size: 27 Copynumber: 2.8 Consensus size: 26
59379877 GGCCAAACTG
* *
59379887 TTTAAATTATCGAAATACCCCTAATT
1 TTTAAATTACCGAAATACCCCCAATT
* *
59379913 TGTTAAATTACCAAAATACCCCCACTT
1 T-TTAAATTACCGAAATACCCCCAATT
*
59379940 TTAAAATTACCGAAATACCC
1 TTTAAATTACCGAAATACCC
59379960 TTGTAGTGTA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
26 18 0.45
27 22 0.55
ACGTcount: A:0.40, C:0.25, G:0.04, T:0.32
Consensus pattern (26 bp):
TTTAAATTACCGAAATACCCCCAATT
Found at i:59379980 original size:27 final size:27
Alignment explanation
Indices: 59379941--59380000 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
59379931 CCCCCACTTT
59379941 TAAAATTACCGAAATACCCTTGTAGTG-
1 TAAAATTACCGAAATACCCTTGTAG-GA
* *
59379968 TAAAATTATCGAACTACCCTTGTAGGA
1 TAAAATTACCGAAATACCCTTGTAGGA
59379995 TAAAAT
1 TAAAAT
59380001 GACTATTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTTGTAGGA
Found at i:59380491 original size:27 final size:27
Alignment explanation
Indices: 59380441--59380502 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
59380431 CTATGTGCCT
* *
59380441 ATCATATTTATCGATGACTCTGTGTCG
1 ATCATATTTACCCATGACTCTGTGTCG
* * *
59380468 ATCATATTTACCCATGTCTGTGTGTTG
1 ATCATATTTACCCATGACTCTGTGTCG
*
59380495 ATTATATT
1 ATCATATT
59380503 ACAATCGTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.23, C:0.16, G:0.16, T:0.45
Consensus pattern (27 bp):
ATCATATTTACCCATGACTCTGTGTCG
Found at i:59381826 original size:120 final size:120
Alignment explanation
Indices: 59381613--59381835 Score: 428
Period size: 120 Copynumber: 1.9 Consensus size: 120
59381603 CCGTAAGTTT
59381613 TTGAAATTGTTATTTGTTTTCATTGAAAAGCAGTAGATAGAAATACTGAGATTTCTTTATATATT
1 TTGAAATTGTTATTTGTTTTCATTGAAAAGCAGTAGATAGAAATACTGAGATTTCTTTATATATT
*
59381678 AGACTATATTGCTACACTTGAAATTAGAGTTTGTATTTATTCTGTATTGCTACAC
66 AGACTATATTGCTACACTTGAAACTAGAGTTTGTATTTATTCTGTATTGCTACAC
59381733 TTGAAATTGTTATTTGTTTTCATTGAAAAGCAGTAGATAGAAATACTGAGATTTCTTTATATATT
1 TTGAAATTGTTATTTGTTTTCATTGAAAAGCAGTAGATAGAAATACTGAGATTTCTTTATATATT
*
59381798 AGACTGTATTGCTACACTTGAAACTAGAGTTTGTATTT
66 AGACTATATTGCTACACTTGAAACTAGAGTTTGTATTT
59381836 CTTTATATAT
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 101 1.00
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (120 bp):
TTGAAATTGTTATTTGTTTTCATTGAAAAGCAGTAGATAGAAATACTGAGATTTCTTTATATATT
AGACTATATTGCTACACTTGAAACTAGAGTTTGTATTTATTCTGTATTGCTACAC
Found at i:59381870 original size:27 final size:27
Alignment explanation
Indices: 59381791--59381870 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
59381781 AGATTTCTTT
59381791 ATATATTAGACTGTATTGCTACACTTG
1 ATATATTAGACTGTATTGCTACACTTG
* ** *
59381818 A-A-ACTAGA--GT-TTG-TATTTCTTT
1 ATATATTAGACTGTATTGCTA-CACTTG
59381840 ATATATTAGACTGTATTGCTACACTTG
1 ATATATTAGACTGTATTGCTACACTTG
59381867 ATAT
1 ATAT
59381871 CTATACGCTC
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
21 2 0.05
22 7 0.18
23 3 0.08
24 5 0.13
25 5 0.13
26 3 0.08
27 11 0.29
28 2 0.05
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (27 bp):
ATATATTAGACTGTATTGCTACACTTG
Found at i:59383862 original size:27 final size:26
Alignment explanation
Indices: 59383832--59383900 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 26
59383822 AAAATTGTTT
* * *
59383832 AAATTACCGAAATACCCTTAATTTGTG
1 AAATTACCGAAATACCC-GAACTTGTA
* *
59383859 AAATTACAGAAATAGCCCGCACTTGTA
1 AAATTACCGAAATA-CCCGAACTTGTA
59383886 AAATTACCGAAATAC
1 AAATTACCGAAATAC
59383901 GCTTGTAGTG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
26 1 0.03
27 31 0.89
28 3 0.09
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (26 bp):
AAATTACCGAAATACCCGAACTTGTA
Found at i:59383934 original size:27 final size:27
Alignment explanation
Indices: 59383882--59383935 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
59383872 AGCCCGCACT
* *
59383882 TGTAAAATTACCGAAATACGCTTGTAG
1 TGTAAAATTACCGAAATACCCCTGTAG
*
59383909 TGTAAAATTACCGAACTACCCCTGTAG
1 TGTAAAATTACCGAAATACCCCTGTAG
59383936 GGCAAAATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCCTGTAG
Found at i:59383942 original size:27 final size:27
Alignment explanation
Indices: 59383885--59383943 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
59383875 CCGCACTTGT
* * * *
59383885 AAAATTACCGAAATACGCTTGTAGTGT
1 AAAATTACCGAAATACCCCTGTAGGGC
*
59383912 AAAATTACCGAACTACCCCTGTAGGGC
1 AAAATTACCGAAATACCCCTGTAGGGC
59383939 AAAAT
1 AAAAT
59383944 GATTATTTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTGTAGGGC
Found at i:59385326 original size:46 final size:46
Alignment explanation
Indices: 59385258--59385481 Score: 254
Period size: 46 Copynumber: 4.8 Consensus size: 46
59385248 TGTAACCCGC
* * * *
59385258 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * * * *
59385304 CCATAAGTGAACTCGGAATCAACTCAACAAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCAT
* * * *
59385350 ACATTTCA-TGAACTAGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * *
59385397 CCATAAGTGAACTCAGACTCAACTCAACGAGTTTGGATGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
*
59385443 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
59385482 CCCAAATATC
Statistics
Matches: 147, Mismatches: 26, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
45 2 0.01
46 110 0.75
47 33 0.22
48 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:59385376 original size:93 final size:93
Alignment explanation
Indices: 59385266--59385435 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 93
59385256 GCCCATAAGC
* * ** *
59385266 GAACTCGGACTCAACTCAATGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGAATCAACTCAA
1 GAACTAGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCAGAATCAACTCAA
59385331 CAAGTTCGGATGCCTAGTTACATTTCAT
66 CAAGTTCGGATGCCTAGTTACATTTCAT
* *
59385359 GAACTAGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTAGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCAGAATCAACTCAA
* *
59385424 CGAGTTTGGATG
66 CAAGTTCGGATG
59385436 TTTGCATCCA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (93 bp):
GAACTAGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCAGAATCAACTCAA
CAAGTTCGGATGCCTAGTTACATTTCAT
Found at i:59388599 original size:27 final size:26
Alignment explanation
Indices: 59388569--59388641 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
59388559 CAAACTGTTT
* * *
59388569 AAATTACCCAAATACCCTTAATTTGTG
1 AAATTACCAAAATACCCTT-ACTTGTA
*
59388596 AAATTACAAAAATACCCTGTACTTGTA
1 AAATTACCAAAATACCCT-TACTTGTA
*
59388623 AAATTACCGAAATACCCTT
1 AAATTACCAAAATACCCTT
59388642 GTAGGGTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.03
27 37 0.95
28 1 0.03
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (26 bp):
AAATTACCAAAATACCCTTACTTGTA
Found at i:59388650 original size:27 final size:27
Alignment explanation
Indices: 59388620--59388680 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
59388610 CCCTGTACTT
*
59388620 GTAAAATTACCGAAATACCCTTGTAGG
1 GTAAAATTACCGAAATACCCCTGTAGG
*
59388647 GTAAAATTACCGAACTACCCCTGTAGG
1 GTAAAATTACCGAAATACCCCTGTAGG
59388674 GTAAAAT
1 GTAAAAT
59388681 GATTATTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.25
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCCTGTAGG
Found at i:59389218 original size:39 final size:39
Alignment explanation
Indices: 59389164--59389242 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
59389154 TTTACCCATG
59389164 GCTGTGTGTCAATTATATTACCATCACTGATGGCTATGT
1 GCTGTGTGTCAATTATATTACCATCACTGATGGCTATGT
59389203 GCTGTGTGTCAATTATATTACCATCACTGATGGCTATGT
1 GCTGTGTGTCAATTATATTACCATCACTGATGGCTATGT
59389242 G
1 G
59389243 TCGAACTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (39 bp):
GCTGTGTGTCAATTATATTACCATCACTGATGGCTATGT
Found at i:59393495 original size:29 final size:28
Alignment explanation
Indices: 59393424--59393575 Score: 123
Period size: 29 Copynumber: 5.4 Consensus size: 28
59393414 ACCCCTCCAT
*
59393424 ACATGCATATGGCCCA-CTAGGCCCAATC
1 ACATTCATATGGCCCATC-AGGCCCAATC
* *
59393452 TCA-TCTATATGGCCCATCCGGCCCAATTC
1 ACATTC-ATATGGCCCATCAGGCCCAA-TC
*
59393481 ACATTCATATGGCCCATAAGGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAA-TC
* * * **
59393510 ACATTCGTATGGCGCATTAGGATCAATC
1 ACATTCATATGGCCCATCAGGCCCAATC
* *
59393538 TCATTTATATGGCCCATCCA-GCCCAAATC
1 ACATTCATATGGCCCAT-CAGGCCC-AATC
59393567 ACATT-ATAT
1 ACATTCATAT
59393576 CCATGCTTAC
Statistics
Matches: 99, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
27 1 0.01
28 40 0.40
29 56 0.57
30 2 0.02
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.26
Consensus pattern (28 bp):
ACATTCATATGGCCCATCAGGCCCAATC
Found at i:59400922 original size:26 final size:27
Alignment explanation
Indices: 59400893--59400947 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 27
59400883 ATTCAACACA
* *
59400893 TAGGGGTATTTTGGTCATTTTTC-CCT
1 TAGGGGTATTTCGGTAATTTTTCTCCT
59400919 TAGGGGTATTTCGGTAATTTTTCTCCT
1 TAGGGGTATTTCGGTAATTTTTCTCCT
59400946 TA
1 TA
59400948 TTACGGTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 21 0.81
27 5 0.19
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.49
Consensus pattern (27 bp):
TAGGGGTATTTCGGTAATTTTTCTCCT
Found at i:59401263 original size:28 final size:28
Alignment explanation
Indices: 59401206--59401265 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
59401196 ACATACATGC
*
59401206 ATATAGCCCACTAGGCCCAATCTCATTT
1 ATATAGCCCACTAGGCCCAATATCATTT
*
59401234 ATATGGCCCATCT-GGCCCAA-ATCATATT
1 ATATAGCCCA-CTAGGCCCAATATCAT-TT
59401262 ATAT
1 ATAT
59401266 CCATGCTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 4 0.14
28 22 0.79
29 2 0.07
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (28 bp):
ATATAGCCCACTAGGCCCAATATCATTT
Found at i:59401501 original size:16 final size:16
Alignment explanation
Indices: 59401480--59401518 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
59401470 TCAAACTTTT
59401480 GGCTTTTCGACATTTC
1 GGCTTTTCGACATTTC
**
59401496 GGCTTTTCGGTATTTC
1 GGCTTTTCGACATTTC
59401512 GGCTTTT
1 GGCTTTT
59401519 GCCGATCTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.08, C:0.21, G:0.23, T:0.49
Consensus pattern (16 bp):
GGCTTTTCGACATTTC
Found at i:59409455 original size:27 final size:27
Alignment explanation
Indices: 59409403--59409455 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
59409393 ACATTAGGTG
* **
59409403 TTCTTGGAGATCTTCCCCTTTGAAACC
1 TTCTTGGAAATCTTCCCCTTCAAAACC
59409430 TTCTTGGAAATCTTCCCCTTCAAAAC
1 TTCTTGGAAATCTTCCCCTTCAAAAC
59409456 ATTTCCCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.30, G:0.11, T:0.36
Consensus pattern (27 bp):
TTCTTGGAAATCTTCCCCTTCAAAACC
Found at i:59415351 original size:31 final size:30
Alignment explanation
Indices: 59415315--59415375 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
59415305 ATTTAATACG
*
59415315 AACTTTGGACA-AATTACATTTTTTGCCCCTA
1 AACTTTGG-CATAATTACA-CTTTTGCCCCTA
*
59415346 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCATAATTACACTTTTGCCCCTA
59415376 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (30 bp):
AACTTTGGCATAATTACACTTTTGCCCCTA
Found at i:59424417 original size:6 final size:6
Alignment explanation
Indices: 59424406--59424446 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
59424396 CATTTTTTAT
*
59424406 AAAAGA AAAAGAA AAAAGA AAAA-A AAAA-A AGAAGA AAAAGA
1 AAAAGA AAAAG-A AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
59424447 GCTGGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 9 0.29
6 16 0.52
7 6 0.19
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:59424423 original size:7 final size:7
Alignment explanation
Indices: 59424406--59424443 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
59424396 CATTTTTTAT
59424406 AAAAG-A
1 AAAAGAA
59424412 AAAAGAA
1 AAAAGAA
59424419 AAAAGAA
1 AAAAGAA
59424426 AAAA-AA
1 AAAAGAA
59424432 AAAAGAA
1 AAAAGAA
59424439 GAAAA
1 -AAAA
59424444 AGAGCTGGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 11 0.38
7 14 0.48
8 4 0.14
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:59424424 original size:13 final size:13
Alignment explanation
Indices: 59424406--59424444 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
59424396 CATTTTTTAT
*
59424406 AAAAGAAAAAGAA
1 AAAAGAAAAAAAA
59424419 AAAAGAAAAAAAA
1 AAAAGAAAAAAAA
59424432 AAAAGAAGAAAAA
1 AAAAGAA-AAAAA
59424445 GAGCTGGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 19 0.79
14 5 0.21
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAAA
Found at i:59424440 original size:16 final size:15
Alignment explanation
Indices: 59424411--59424444 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
59424401 TTTATAAAAG
*
59424411 AAAAAGAAAAAAGAA
1 AAAAAAAAAAAAGAA
59424426 AAAAAAAAAAGAAGAA
1 AAAAAAAAAA-AAGAA
59424442 AAA
1 AAA
59424445 GAGCTGGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAGAA
Found at i:59435708 original size:29 final size:27
Alignment explanation
Indices: 59435624--59435727 Score: 109
Period size: 28 Copynumber: 3.7 Consensus size: 27
59435614 TGTAGATAGC
* * *
59435624 CCATTCGGCCCAATCTCTTTCATATGG
1 CCATTAGGCCCAATCACATTCATATGG
* * * *
59435651 CCTAGTACGCCCAATCACATTTATGTGG
1 CC-ATTAGGCCCAATCACATTCATATGG
59435679 CTCATTAGGCCCAAATCACATTCATATGG
1 C-CATTAGGCCC-AATCACATTCATATGG
*
59435708 CCATTAGGCCCAAGCACATT
1 CCATTAGGCCCAATCACATT
59435728 TACAATTATG
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
27 10 0.16
28 36 0.58
29 16 0.26
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (27 bp):
CCATTAGGCCCAATCACATTCATATGG
Found at i:59438810 original size:141 final size:141
Alignment explanation
Indices: 59438627--59438905 Score: 513
Period size: 141 Copynumber: 2.0 Consensus size: 141
59438617 TTCATTTTGT
*
59438627 TTATGGCTATAAGATATGTCTCATTTTGATGAAGGTTGTAAACCTACTAATTGTGCATGTCATAC
1 TTATGGCCATAAGATATGTCTCATTTTGATGAAGGTTGTAAACCTACTAATTGTGCATGTCATAC
* * *
59438692 TTGAATATTTCATGGCATGGTTAATGTGATATACCATGGATGGATATGTGTATTGTGGTTGAATC
66 TTGAATATTTCATGACATGGTTAATATGATATACCATGGATAGATATGTGTATTGTGGTTGAATC
59438757 ACTTGGAGTGG
131 ACTTGGAGTGG
59438768 TTATGGCCATAAGATATGTCTCATTTTGATGAAGGTTGTAAACCTACTAATTGTGCATGTCATAC
1 TTATGGCCATAAGATATGTCTCATTTTGATGAAGGTTGTAAACCTACTAATTGTGCATGTCATAC
*
59438833 TTGAATGTTTCATGACATGGTTAATATGATATACCATGGATAGATATGTGTATTGTGGTTGAATC
66 TTGAATATTTCATGACATGGTTAATATGATATACCATGGATAGATATGTGTATTGTGGTTGAATC
59438898 ACTTGGAG
131 ACTTGGAG
59438906 ATGGCTAGGA
Statistics
Matches: 133, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
141 133 1.00
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (141 bp):
TTATGGCCATAAGATATGTCTCATTTTGATGAAGGTTGTAAACCTACTAATTGTGCATGTCATAC
TTGAATATTTCATGACATGGTTAATATGATATACCATGGATAGATATGTGTATTGTGGTTGAATC
ACTTGGAGTGG
Found at i:59439006 original size:30 final size:30
Alignment explanation
Indices: 59438972--59439038 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
59438962 TGACATGCAA
*
59438972 CATTGAAGTGTTTTTTGAAAACCATGTTTT
1 CATTGAAGTGTTTTTCGAAAACCATGTTTT
59439002 CATTGAAGTGTTTTTCGAAAACCATGTTTT
1 CATTGAAGTGTTTTTCGAAAACCATGTTTT
59439032 CATTGAA
1 CATTGAA
59439039 AACCCTTCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.43
Consensus pattern (30 bp):
CATTGAAGTGTTTTTCGAAAACCATGTTTT
Found at i:59439041 original size:18 final size:18
Alignment explanation
Indices: 59438986--59439042 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 18
59438976 GAAGTGTTTT
59438986 TTGAAAACCATGTTTTCA
1 TTGAAAACCATGTTTTCA
*
59439004 TTG--AA--GTGTTTT--
1 TTGAAAACCATGTTTTCA
*
59439016 TCGAAAACCATGTTTTCA
1 TTGAAAACCATGTTTTCA
59439034 TTGAAAACC
1 TTGAAAACC
59439043 CTTCTTAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 12
0.64 0.09 0.27
Matches are distributed among these distances:
12 2 0.07
14 8 0.28
16 8 0.28
18 11 0.38
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (18 bp):
TTGAAAACCATGTTTTCA
Found at i:59440500 original size:27 final size:27
Alignment explanation
Indices: 59440470--59440569 Score: 134
Period size: 27 Copynumber: 3.7 Consensus size: 27
59440460 TACCCTACAG
59440470 GGGTAGTTT-GGTAATTTTACAAATCGA
1 GGGTA-TTTCGGTAATTTTACAAATCGA
* *
59440497 GGGTATTTCCGTAATTTTACAAA-CTGG
1 GGGTATTTCGGTAATTTTACAAATC-GA
59440524 GGGTATTTCGGTAATTTTACAAAATCGA
1 GGGTATTTCGGTAATTTTAC-AAATCGA
59440552 -GGTATTTCGGTAATTTTA
1 GGGTATTTCGGTAATTTTA
59440570 AACAGTTTGG
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
26 4 0.06
27 56 0.86
28 4 0.06
29 1 0.02
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCGA
Found at i:59448201 original size:40 final size:40
Alignment explanation
Indices: 59448117--59448266 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
59448107 AAATTGAATG
* * *
59448117 ATATCCGGGCTAAG-CCCGAAGACAATATGCTG-GA--AATT
1 ATATCCGGGCTAAGACCCGAAGGCAAT-TG-TGCGAGTGACT
* * *
59448155 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* * *
59448195 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* *
59448235 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
59448267 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
37 2 0.02
38 16 0.18
39 14 0.15
40 57 0.63
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:59458015 original size:81 final size:81
Alignment explanation
Indices: 59457879--59458084 Score: 236
Period size: 81 Copynumber: 2.5 Consensus size: 81
59457869 TTAGTTTACC
* * * * * *
59457879 AAATTACCAAAATACCCTCGATTAGCAAAATTACGAAAATACCCTCGTTTAGCAAAATTACTAGA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTAGTTTAGCAAAATTACCAAA
* *
59457944 ATACCCTTGGTTTATA
66 ATACCCCTGATTTATA
* *
59457960 AAATCACCAAAATACCCAT-GGTTTGTAAAATTACCAAAATACCCTTAGTTT-GCAAAATTACCA
1 AAATTACCAAAATACCC-TCGATTTGTAAAATTACCAAAATACCC-TAGTTTAGCAAAATTACCA
* *
59458023 AAATACCCCTGATTTGTG
64 AAATACCCCTGATTTATA
** * *
59458041 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCC
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCC
59458085 CCGATTTACA
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
80 1 0.01
81 97 0.93
82 6 0.06
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTAGTTTAGCAAAATTACCAAA
ATACCCCTGATTTATA
Found at i:59458137 original size:27 final size:27
Alignment explanation
Indices: 59457873--59458138 Score: 178
Period size: 27 Copynumber: 9.9 Consensus size: 27
59457863 AATACTTTAG
* *
59457873 TTTACCAAATTACCAAAATACCCTCGA
1 TTTACAAAATTACCAAAATACCCTTGA
* *
59457900 -TTAGCAAAATTACGAAAATACCCTCG-
1 TTTA-CAAAATTACCAAAATACCCTTGA
* * *
59457926 TTTAGCAAAATTACTAGAATACCCTTGG
1 TTTA-CAAAATTACCAAAATACCCTTGA
* * * *
59457954 TTTATAAAATCACCAAAATACCCATGG
1 TTTACAAAATTACCAAAATACCCTTGA
**
59457981 TTTGTAAAATTACCAAAATACCCTT-A
1 TTTACAAAATTACCAAAATACCCTTGA
* *
59458007 GTTTGCAAAATTACCAAAATACCCCTGA
1 -TTTACAAAATTACCAAAATACCCTTGA
*** ** *
59458035 TTTGTGAAATTACTGAAATACCCTCGA
1 TTTACAAAATTACCAAAATACCCTTGA
* ** * **
59458062 CTTGTAAAATTACCAAAGTACCCCCGA
1 TTTACAAAATTACCAAAATACCCTTGA
* ****
59458089 TTTACAGAATTACCGTTTTACCCTTGA
1 TTTACAAAATTACCAAAATACCCTTGA
**
59458116 TTTACAAAATTATTAAAATACCC
1 TTTACAAAATTACCAAAATACCC
59458139 CTGTAGGGTA
Statistics
Matches: 189, Mismatches: 45, Indels: 10
0.77 0.18 0.04
Matches are distributed among these distances:
26 3 0.02
27 181 0.96
28 5 0.03
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.30
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTTGA
Found at i:59458161 original size:27 final size:27
Alignment explanation
Indices: 59458131--59458237 Score: 124
Period size: 27 Copynumber: 4.0 Consensus size: 27
59458121 AAAATTATTA
* *
59458131 AAATACCCCTGTAGGGTAGAGTTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * ** *
59458158 AAATACGCTTGTAGCCTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
59458185 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
59458212 AGATACCCTTGTAGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
59458238 ATTTTGCCCC
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:59458618 original size:22 final size:22
Alignment explanation
Indices: 59458585--59458642 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
59458575 CACGTTATCG
59458585 ATGGC-TCTGTGCCATCCTAAAT
1 ATGGCTTC-GTGCCATCCTAAAT
* * *
59458607 ATGGCTTCGTGCCATCTTGACT
1 ATGGCTTCGTGCCATCCTAAAT
*
59458629 ATAGCTTCGTGCCA
1 ATGGCTTCGTGCCA
59458643 AACGTATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 29 0.94
23 2 0.06
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.33
Consensus pattern (22 bp):
ATGGCTTCGTGCCATCCTAAAT
Found at i:59458831 original size:27 final size:27
Alignment explanation
Indices: 59458801--59458865 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
59458791 ATTCTGTTAA
*
59458801 GTGGCTTTGCCAC-ATTATCTGATTCTG
1 GTGGCTTTGCCACAAATATCTG-TTCTG
*
59458828 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTTTGCCACAAATATCTGTTCTG
*
59458855 GAGGCTTTGCC
1 GTGGCTTTGCC
59458866 TCAATTTACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 26 0.79
28 7 0.21
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (27 bp):
GTGGCTTTGCCACAAATATCTGTTCTG
Found at i:59459057 original size:31 final size:31
Alignment explanation
Indices: 59459005--59459128 Score: 117
Period size: 31 Copynumber: 4.0 Consensus size: 31
59458995 GTTGCATTCA
* *
59459005 CATTCTGATTTTTTATTCTGTTACCTGATAAT
1 CATTCTGA-TTCTGATTCTGTTACCTGATAAT
* *
59459037 CATTCTGATTTTGATTCTGTTACCTGATACT
1 CATTCTGATTCTGATTCTGTTACCTGATAAT
* * * * **
59459068 GATTTTGATTCTGATTCTGTCACCTAATTCT
1 CATTCTGATTCTGATTCTGTTACCTGATAAT
*
59459099 GATTCTGATTCTGATTCTAGTT--CTGATAAT
1 CATTCTGATTCTGATTCT-GTTACCTGATAAT
59459129 GTTTCTTATT
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
30 5 0.06
31 63 0.81
32 10 0.13
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (31 bp):
CATTCTGATTCTGATTCTGTTACCTGATAAT
Found at i:59459076 original size:6 final size:6
Alignment explanation
Indices: 59459060--59459125 Score: 55
Period size: 6 Copynumber: 10.8 Consensus size: 6
59459050 ATTCTGTTAC
* * * *
59459060 CTGATA CTGATT TTGATT CTGATT CTG-TCAC CTAATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT
59459109 CTGATT CT-AGTT CTGAT
1 CTGATT CTGA-TT CTGAT
59459126 AATGTTTCTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
5 2 0.04
6 42 0.88
7 3 0.06
8 1 0.02
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:59462378 original size:40 final size:40
Alignment explanation
Indices: 59462316--59462493 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
59462306 AAGCCAAGTA
* * *
59462316 CCTTCGGGATTTA-ACCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59462355 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
59462395 CCTTCGGGAATTAGCCCAGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
59462435 CCTTCGGGACTTAGCCC-AAAACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
59462475 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
59462494 TTATCATCCA
Statistics
Matches: 122, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 14 0.11
40 108 0.89
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59476020 original size:40 final size:40
Alignment explanation
Indices: 59475935--59476085 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
59475925 AATTGAATGA
* * *
59475935 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
59475975 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
59476016 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
59476055 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
59476086 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:59476099 original size:40 final size:40
Alignment explanation
Indices: 59475972--59476101 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
59475962 ATGCTGGAAA
* * * *
59475972 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
59476012 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
59476052 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
59476092 TTATATCCGG
1 TTATATCCGG
59476102 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:59478692 original size:28 final size:28
Alignment explanation
Indices: 59478646--59478714 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
59478636 TTTAAAACCC
*
59478646 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
59478673 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
59478701 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
59478715 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:59480365 original size:20 final size:20
Alignment explanation
Indices: 59480342--59480379 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
59480332 CACATCCAAA
*
59480342 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
59480362 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
59480380 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:59487217 original size:39 final size:40
Alignment explanation
Indices: 59487117--59487304 Score: 221
Period size: 39 Copynumber: 4.8 Consensus size: 40
59487107 TTCGAATGGT
* * *
59487117 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
59487158 ATCCGGG-TAA-T-CCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
59487195 ATCCGGACTAAGT-CCGAAGGCATTTGTGCGAGTT-CCAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
59487233 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTA-TATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
59487273 A-CCGGGCTATGTCCCGAAGGC-TTTGAGCGAGT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
59487305 CGCTATATCC
Statistics
Matches: 129, Mismatches: 13, Indels: 13
0.83 0.08 0.08
Matches are distributed among these distances:
37 14 0.11
38 41 0.32
39 62 0.48
40 5 0.04
41 7 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:59487315 original size:78 final size:77
Alignment explanation
Indices: 59487117--59487328 Score: 233
Period size: 78 Copynumber: 2.8 Consensus size: 77
59487107 TTCGAATGGT
* *
59487117 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGT-GACTAAATCCGGGTAATCCGAAGGCATTT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTCG-CTAAATCCGGGTAATCCGAAGGCATTT
*
59487181 GTGCGAGTTACTAA
64 GTGCGAGCTACTAA
*
59487195 ATCCGGACTAAGT-CCGAAGGCATTTGTGCGAGTTC-C-AAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TCGCTAAATCCGGG-TAA-T-CCGAAGGCAT
59487257 TTGTGCGAGCTA-TATA
62 TTGTGCGAGCTACTA-A
* * *
59487273 A-CCGGGCTATGTCCCGAAGGC-TTTGAGCGAGTCGCTATATCC-GGTAAATCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCGCTAAATCCGGGT-AATCCGAAGG
59487329 TACGTGATTC
Statistics
Matches: 116, Mismatches: 8, Indels: 23
0.79 0.05 0.16
Matches are distributed among these distances:
75 16 0.14
76 10 0.09
77 42 0.36
78 48 0.41
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (77 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCGCTAAATCCGGGTAATCCGAAGGCATTTGT
GCGAGCTACTAA
Found at i:59495178 original size:40 final size:40
Alignment explanation
Indices: 59495112--59495291 Score: 163
Period size: 40 Copynumber: 4.5 Consensus size: 40
59495102 CGGGCTAAGT
* * *
59495112 CCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTC
1 CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTCAATTC
* *
59495153 CCGAAGGCATTTGTGCGAGTTACTAAATCC-GGACTAAGAT-
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTC-AA-TTC
* * * *
59495193 CCGAAGGCATTTGTGCGAGTTCCCAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTCAATTC
* * *
59495233 CCGAAGGCATTTGTGCGAGCTATTATAA-CCGGG-CTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTCAAT-TC
*
59495273 CCGAAGGC-TTTGAGCGAGT
1 CCGAAGGCATTTGTGCGAGT
59495292 CGCTATATCC
Statistics
Matches: 114, Mismatches: 19, Indels: 14
0.78 0.13 0.10
Matches are distributed among these distances:
39 14 0.12
40 80 0.70
41 20 0.18
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTCAATTC
Found at i:59495277 original size:80 final size:78
Alignment explanation
Indices: 59495099--59495291 Score: 226
Period size: 80 Copynumber: 2.4 Consensus size: 78
59495089 TTCGAATGGT
* * *
59495099 ATCCGGGCTAAGTCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCGAAGGC-TTTGTGC-GAGTGACCAAATCCGGGTCAAGTCCCGAAGGCATT
*
59495164 TGTGCGAGTTACTAA
64 TGTGCGAGCTACTAA
* ** *
59495179 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAG-TCCGAAGGC-TTTGTGCGAGTGACCAAATCCGGGTCAAGTCCCGAAGGCATT
*
59495244 TGTGCGAGCTATTATA
64 TGTGCGAGCTACTA-A
* *
59495260 A-CCGGGCTATGTCCCGAAGGCTTTGAGCGAGT
1 ATCCGGGCTAAGT-CCGAAGGCTTTGTGCGAGT
59495292 CGCTATATCC
Statistics
Matches: 97, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
79 11 0.11
80 68 0.70
81 18 0.19
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
ATCCGGGCTAAGTCCGAAGGCTTTGTGCGAGTGACCAAATCCGGGTCAAGTCCCGAAGGCATTTG
TGCGAGCTACTAA
Found at i:59498217 original size:77 final size:80
Alignment explanation
Indices: 59498096--59498272 Score: 247
Period size: 77 Copynumber: 2.2 Consensus size: 80
59498086 CGTTCAAATA
* *
59498096 CCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATTTA
*
59498160 GTAAC-TCGCACAAATG
65 GTAACTTAGCACAAA-G
**
59498176 CCTTC-GG-CTTAGCCCGGAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATTTAG
*
59498238 TCACTTAGCACAAAG
66 TAACTTAGCACAAAG
59498253 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAGCCCGGA
59498273 CATCATTCGA
Statistics
Matches: 87, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
76 3 0.03
77 46 0.53
78 20 0.23
79 13 0.15
80 5 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATTTAG
TAACTTAGCACAAAG
Found at i:59498272 original size:40 final size:40
Alignment explanation
Indices: 59498090--59498272 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
59498080 GCTACTCGTT
* *
59498090 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
59498130 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
59498170 CAAATGCCTTC-GG-CTTAGCCCGGA-TTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
59498207 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
59498248 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59498273 CATCATTCGA
Statistics
Matches: 129, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
37 26 0.20
38 10 0.08
39 12 0.09
40 68 0.53
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:59503458 original size:27 final size:27
Alignment explanation
Indices: 59503342--59503460 Score: 130
Period size: 27 Copynumber: 4.4 Consensus size: 27
59503332 GGGGAAAAAT
* * * *
59503342 GGTAATTTTACCCCACAAGGTTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
59503369 GATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
59503396 GATATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
59503423 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
59503450 GGTAATTCTAC
1 GGTAATTCTAC
59503461 AACTTATCCA
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:59504969 original size:53 final size:51
Alignment explanation
Indices: 59504911--59505156 Score: 174
Period size: 53 Copynumber: 4.6 Consensus size: 51
59504901 TCAGTTTACC
* * * ***
59504911 AAATTACTGAAATACCCCTAGTTGTAAAATTACCAAAGTACCCTTGGTTTATA
1 AAATTACTGAAATACCCCGATTTGTAAAATTACCAAA-TA-CCGTCAATTATA
* *
59504964 AAATTACTGAAATACCTTCGATTTGTAAAATTACTGAAATACCGTCAATTATA
1 AAATTACTGAAATACC-CCGATTTGTAAAATTAC-CAAATACCGTCAATTATA
* * *
59505017 AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAATA-CGCTCAGTT-TGCA
1 AAATTACTGAAATACCC-CGATTTGTAAAATTACCAAATACCG-TCAATTAT--A
* * * * * *
59505070 AAATTACTAAAATACCTTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACC-CCGATTTGTAAAATTAC-CAAATACCGTC-AATTATA
* * *
59505124 AAATTAC-CAAAGTACCCCTGATTTATAGAATTA
1 AAATTACTGAAA-TACCCC-GATTTGTAAAATTA
59505157 TCGTTTTACC
Statistics
Matches: 158, Mismatches: 22, Indels: 25
0.77 0.11 0.12
Matches are distributed among these distances:
51 3 0.02
52 9 0.06
53 92 0.58
54 46 0.29
55 7 0.04
56 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.32
Consensus pattern (51 bp):
AAATTACTGAAATACCCCGATTTGTAAAATTACCAAATACCGTCAATTATA
Found at i:59504979 original size:27 final size:27
Alignment explanation
Indices: 59504911--59505156 Score: 193
Period size: 27 Copynumber: 9.2 Consensus size: 27
59504901 TCAGTTTACC
* *
59504911 AAATTACTGAAATACCCCT-AGTTGTA
1 AAATTACTGAAATACCCTTGATTTGTA
* * *
59504937 AAATTAC-CAAAGTACCCTTGGTTTATA
1 AAATTACTGAAA-TACCCTTGATTTGTA
59504964 AAATTACTGAAATA-CCTTCGATTTGTA
1 AAATTACTGAAATACCCTT-GATTTGTA
* * * *
59504991 AAATTACTGAAATA-CCGTCAATTATA
1 AAATTACTGAAATACCCTTGATTTGTA
* *
59505017 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTTGATTTGTA
* * * *
59505044 AAATTACCG-AATACGC-TCAGTTTGCA
1 AAATTACTGAAATACCCTTGA-TTTGTA
*
59505070 AAATTACTAAAATA-CCTTCGATTTGTA
1 AAATTACTGAAATACCCTT-GATTTGTA
* *
59505097 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTTGATTTGTA
* * *
59505124 AAATTAC-CAAAGTACCCCTGATTTATA
1 AAATTACTGAAA-TACCCTTGATTTGTA
*
59505151 GAATTA
1 AAATTA
59505157 TCGTTTTACC
Statistics
Matches: 171, Mismatches: 38, Indels: 21
0.74 0.17 0.09
Matches are distributed among these distances:
25 4 0.02
26 57 0.33
27 103 0.60
28 7 0.04
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTTGATTTGTA
Found at i:59505046 original size:80 final size:79
Alignment explanation
Indices: 59504901--59505131 Score: 243
Period size: 80 Copynumber: 2.9 Consensus size: 79
59504891 TTAGAATACT
* * * * * * * * * *
59504901 TCAGTTTACCAAATTACTGAAATACCCCTAGTTGTAAAATTACCAAAGTACCCTTGGTTTATAAA
1 TCAGTTTGCAAAATTACTGAAATACCTCGAATTGTAAAATTACTAAAATACCCTCGATTTGTAAA
*
59504966 ATTACTGAAATAC-C
66 ATTACCG-AATACGC
* *
59504980 TTC-GATTTGTAAAATTACTGAAATACCGTC-AATTATAAAATTACTAAAATACCCTCGATTTGT
1 -TCAG-TTTGCAAAATTACTGAAATACC-TCGAATTGTAAAATTACTAAAATACCCTCGATTTGT
59505043 AAAATTACCGAATACGC
63 AAAATTACCGAATACGC
* * * *
59505060 TCAGTTTGCAAAATTACTAAAATACCTTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTAA
1 TCAGTTTGCAAAATTACTGAAATACC-TCGAATTGTAAAATTACTAAAATACCCTCGATTTGTAA
59505125 AATTACC
65 AATTACC
59505132 AAAGTACCCC
Statistics
Matches: 127, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
79 30 0.24
80 96 0.76
81 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (79 bp):
TCAGTTTGCAAAATTACTGAAATACCTCGAATTGTAAAATTACTAAAATACCCTCGATTTGTAAA
ATTACCGAATACGC
Done.