Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 190 of 255
Found at i:63164085 original size:68 final size:68
Alignment explanation
Indices: 63163976--63164111 Score: 245
Period size: 68 Copynumber: 2.0 Consensus size: 68
63163966 TTCTTCGTTG
* * *
63163976 TTCATTGCGACGATTGTACGATTGTTGTGTAAGTTCTATCATTATTTCATTTCGTTTCTGTGAGT
1 TTCATTGCGACAATTGTACGATTGTTGTGTAAGCTCTATCATTATTTCATTCCGTTTCTGTGAGT
63164041 TTT
66 TTT
63164044 TTCATTGCGACAATTGTACGATTGTTGTGTAAGCTCTATCATTATTTCATTCCGTTTCTGTGAGT
1 TTCATTGCGACAATTGTACGATTGTTGTGTAAGCTCTATCATTATTTCATTCCGTTTCTGTGAGT
63164109 TTT
66 TTT
63164112 CATCTTGTTA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.49
Consensus pattern (68 bp):
TTCATTGCGACAATTGTACGATTGTTGTGTAAGCTCTATCATTATTTCATTCCGTTTCTGTGAGT
TTT
Found at i:63165074 original size:43 final size:43
Alignment explanation
Indices: 63165008--63165093 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
63164998 GAATTGTGAG
*
63165008 TATGTAAATGGATACAAAATATCATAACTGTTGATGACATTGA
1 TATGCAAATGGATACAAAATATCATAACTGTTGATGACATTGA
*
63165051 TATGCAAATGGATACAAAATATCATGACTGTTGATGACATTGA
1 TATGCAAATGGATACAAAATATCATAACTGTTGATGACATTGA
63165094 CCTGTACTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.31
Consensus pattern (43 bp):
TATGCAAATGGATACAAAATATCATAACTGTTGATGACATTGA
Found at i:63176359 original size:47 final size:47
Alignment explanation
Indices: 63176296--63176425 Score: 152
Period size: 47 Copynumber: 2.8 Consensus size: 47
63176286 GTGTGAATAA
* * ** *
63176296 TACCTTGATTTGGCTACGGGCCATGATATACGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATACGTACTCCGAGAGAAGT
* * * * *
63176343 TACCTAGATTTGGCTACAGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATACGTACTCCGAGAGAAGT
* *
63176390 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATACGTACT
63176426 TATCGTTTGT
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATACGTACTCCGAGAGAAGT
Found at i:63178228 original size:36 final size:36
Alignment explanation
Indices: 63178179--63178253 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
63178169 TTATGGTAAA
63178179 TGATCCATATTGTTTGGTATTGTTTTGGCATCTAAT
1 TGATCCATATTGTTTGGTATTGTTTTGGCATCTAAT
* * *
63178215 TGATTCATGTTGTTTGGTATTGTTTTGGCATGTAAT
1 TGATCCATATTGTTTGGTATTGTTTTGGCATCTAAT
63178251 TGA
1 TGA
63178254 CTAAGTCAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.19, C:0.08, G:0.23, T:0.51
Consensus pattern (36 bp):
TGATCCATATTGTTTGGTATTGTTTTGGCATCTAAT
Found at i:63189574 original size:3 final size:3
Alignment explanation
Indices: 63189568--63189601 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
63189558 AGCATATGTT
*
63189568 ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
63189602 ATGAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:63190454 original size:16 final size:15
Alignment explanation
Indices: 63190433--63190462 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
63190423 GTGAGTTGGA
63190433 TATATATATGTATAAT
1 TATATATA-GTATAAT
63190449 TATATATAGTATAA
1 TATATATAGTATAA
63190463 ATGTGAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (15 bp):
TATATATAGTATAAT
Found at i:63191950 original size:18 final size:18
Alignment explanation
Indices: 63191909--63192191 Score: 149
Period size: 18 Copynumber: 15.3 Consensus size: 18
63191899 GAACAATTAT
*
63191909 TTATTCAGTAATAGTCAG
1 TTATTCAGTAATAATCAG
* * *
63191927 TCATTCGGTAATAATCAA
1 TTATTCAGTAATAATCAG
*
63191945 TTATTCAATAATAATCAG
1 TTATTCAGTAATAATCAG
*
63191963 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---AT--A---ATCAG
* * * *
63191989 TTATCCAGTAACAGTCAA
1 TTATTCAGTAATAATCAG
63192007 TTATTCAGTAA-AATCAG
1 TTATTCAGTAATAATCAG
* * *
63192024 ATATTCAGTAACAATTAAG
1 TTATTCAGTAATAA-TCAG
* *
63192043 TTATTCAGTAACAGTCA-
1 TTATTCAGTAATAATCAG
** *
63192060 TTCATTCAGCGACAATCAG
1 TT-ATTCAGTAATAATCAG
* *
63192079 TTATTCAGTAATGATCAA
1 TTATTCAGTAATAATCAG
*
63192097 TTATTCAGTAATATTCAG
1 TTATTCAGTAATAATCAG
* *
63192115 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAATAATC-AG
* * * *
63192133 ATATCCAGTAACAATCAA
1 TTATTCAGTAATAATCAG
* * * * * *
63192151 TTATCCGGTAACAGTAAA
1 TTATTCAGTAATAATCAG
63192169 TTATTCAGTAATAATCAG
1 TTATTCAGTAATAATCAG
63192187 TTATT
1 TTATT
63192192 TTATACCTTT
Statistics
Matches: 202, Mismatches: 49, Indels: 28
0.72 0.18 0.10
Matches are distributed among these distances:
17 17 0.08
18 149 0.74
19 18 0.09
21 3 0.01
23 2 0.01
26 13 0.06
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAATAATCAG
Found at i:63192124 original size:72 final size:71
Alignment explanation
Indices: 63191990--63192191 Score: 210
Period size: 72 Copynumber: 2.8 Consensus size: 71
63191980 ATTGATCGGT
* * * *
63191990 TATCCAGTAACAGTCAATTATTCAGTAAAATCAGA-TATTCAGTAACAATTAAGTTATTCAGTAA
1 TATCCAGCAACAATCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAGTAA
*
63192054 CAGTC-AT
64 CAGTCTAA
* * * *
63192061 TCATTCAGCGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGCAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTAA
63192126 CAGTCTAA
64 CAGTCTAA
* * * * * *
63192134 TATCCAGTAACAATCAATTATCCGGTAACAGTAAATTATTCAGTAATAATCAGTTATT
1 TATCCAGCAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATT
63192192 TTATACCTTT
Statistics
Matches: 107, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
71 1 0.01
72 90 0.84
73 16 0.15
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (71 bp):
TATCCAGCAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACA
GTCTAA
Found at i:63192405 original size:45 final size:45
Alignment explanation
Indices: 63192354--63192462 Score: 157
Period size: 45 Copynumber: 2.4 Consensus size: 45
63192344 ATAAATCCGG
*
63192354 AACAGTAACAGTAACAGTATTCAACACATAAAGTG-CTGAATCGAT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGAC-GAATCGAT
* * *
63192399 AACAGTAACAATAACAGTATTCGACACACAAAGTGACGAATCGGT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGACGAATCGAT
*
63192444 AACAGTAACGGTAACAGTA
1 AACAGTAACAGTAACAGTA
63192463 ATAGTAGTCG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 56 0.98
46 1 0.02
ACGTcount: A:0.45, C:0.18, G:0.17, T:0.19
Consensus pattern (45 bp):
AACAGTAACAGTAACAGTATTCAACACACAAAGTGACGAATCGAT
Found at i:63194154 original size:18 final size:16
Alignment explanation
Indices: 63194120--63194160 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
63194110 AACCCCCAAT
*
63194120 TTTCCCTTTTTTTTTC
1 TTTCCTTTTTTTTTTC
63194136 TTTCCTTTTTTTTCCTTC
1 TTTCCTTTTTTTT--TTC
63194154 TTTCCTT
1 TTTCCTT
63194161 CCCTTATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.55
18 10 0.45
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTCCTTTTTTTTTTC
Found at i:63194332 original size:24 final size:25
Alignment explanation
Indices: 63194278--63194332 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
63194268 TAATTATATA
*
63194278 ATTAT-ATTACACATGTATGTATTT
1 ATTATCATTACACATGTATATATTT
*
63194302 AAT-TCATTACACATGTATAT-TTT
1 ATTATCATTACACATGTATATATTT
63194325 ATTATCAT
1 ATTATCAT
63194333 ACATTTGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (25 bp):
ATTATCATTACACATGTATATATTT
Found at i:63194378 original size:15 final size:15
Alignment explanation
Indices: 63194360--63194399 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
63194350 ATTTATTTCA
63194360 TAATAAATATCAAT-T
1 TAATAAATAT-AATAT
*
63194375 TAATAAAAATAATAT
1 TAATAAATATAATAT
63194390 TAATAAATAT
1 TAATAAATAT
63194400 TAAATGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
TAATAAATATAATAT
Found at i:63198874 original size:18 final size:18
Alignment explanation
Indices: 63198853--63198908 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
63198843 TAATAGTCAG
*
63198853 TTATTCGATAACAATCAA
1 TTATTCAATAACAATCAA
* *
63198871 TTATTCAATAATAACCAA
1 TTATTCAATAACAATCAA
* *
63198889 TTATTCAATATCGATCAA
1 TTATTCAATAACAATCAA
63198907 TT
1 TT
63198909 GATCGGTTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.43, C:0.16, G:0.04, T:0.38
Consensus pattern (18 bp):
TTATTCAATAACAATCAA
Found at i:63198875 original size:36 final size:36
Alignment explanation
Indices: 63198822--63199051 Score: 110
Period size: 36 Copynumber: 6.7 Consensus size: 36
63198812 TCATTAACAC
* * *
63198822 TCAG-AACAATTATTTATTCAGTAATAGTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAATAATCAGTTAT
* * *
63198857 TC-GATAACAATCAATTATTCAATAATAACCAATTAT
1 TCAG-TAACAATCAATTATTCAGTAATAATCAGTTAT
* * * *
63198893 TCAATATCGATC-A--ATT--G-----ATCGGTTAT
1 TCAGTAACAATCAATTATTCAGTAATAATCAGTTAT
* * *
63198919 CCAGTAACAGTCAATTATTCAGTAA-AATCAGATAT
1 TCAGTAACAATCAATTATTCAGTAATAATCAGTTAT
* * *
63198954 TCAGTAACAATTAAGTTATTCAGTAACAGTCA-TTCAT
1 TCAGTAACAATCAA-TTATTCAGTAATAATCAGTT-AT
** * * * *
63198991 TCAGCGACAATCAGTTATTTAGTAATGATCAATTAT
1 TCAGTAACAATCAATTATTCAGTAATAATCAGTTAT
* * *
63199027 TCAGTAATATTCAGTTATTCAGTAA
1 TCAGTAACAATCAATTATTCAGTAA
63199052 CAGTCTAATA
Statistics
Matches: 141, Mismatches: 38, Indels: 31
0.67 0.18 0.15
Matches are distributed among these distances:
26 13 0.09
27 1 0.01
29 3 0.02
31 1 0.01
33 3 0.02
34 1 0.01
35 21 0.15
36 80 0.57
37 18 0.13
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.36
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAATAATCAGTTAT
Found at i:63198941 original size:18 final size:18
Alignment explanation
Indices: 63198915--63199105 Score: 142
Period size: 18 Copynumber: 10.6 Consensus size: 18
63198905 AATTGATCGG
*
63198915 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
*
63198933 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAGTCA-A
* *
63198951 -TATTCAGTAACAATTAA
1 TTATTCAGTAACAGTCAA
63198968 GTTATTCAGTAACAGTC-A
1 -TTATTCAGTAACAGTCAA
** * *
63198986 TTCATTCAGCGACAATCAG
1 TT-ATTCAGTAACAGTCAA
* *
63199005 TTATTTAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* * *
63199023 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAA
63199041 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAGTC-AA
*
63199060 -TA-TCTAGTAATAGTCAA
1 TTATTC-AGTAACAGTCAA
* *
63199077 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
63199095 TTATTCAGTAA
1 TTATTCAGTAA
63199106 TAATCAGTTA
Statistics
Matches: 133, Mismatches: 28, Indels: 24
0.72 0.15 0.13
Matches are distributed among these distances:
17 21 0.16
18 95 0.71
19 17 0.13
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:63198956 original size:17 final size:19
Alignment explanation
Indices: 63198934--63198981 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
63198924 AACAGTCAAT
*
63198934 TATTCAGTAA-AA-TCAGA
1 TATTCAGTAACAATTAAGA
*
63198951 TATTCAGTAACAATTAAGT
1 TATTCAGTAACAATTAAGA
63198970 TATTCAGTAACA
1 TATTCAGTAACA
63198982 GTCATTCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 10 0.37
18 2 0.07
19 15 0.56
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.33
Consensus pattern (19 bp):
TATTCAGTAACAATTAAGA
Found at i:63198978 original size:54 final size:54
Alignment explanation
Indices: 63198915--63199117 Score: 189
Period size: 54 Copynumber: 3.8 Consensus size: 54
63198905 AATTGATCGG
* *
63198915 TTATCCAGTAACAGTCAATTATTCAGTAA-AATCAGATATTCAGTAACAATTAA
1 TTATCCAGTAACAGTCAATTATTCAGTAACAATCAGATATTCAGTAATAATCAA
* ** * * *
63198968 GTTATTCAGTAACAGTC-ATTCATTCAGCGACAATCAGTTATTTAGTAATGATCAA
1 -TTATCCAGTAACAGTCAATT-ATTCAGTAACAATCAGATATTCAGTAATAATCAA
* * * * * *
63199023 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTA-ATA-TCTAGTAATAGTCAA
1 TTATCCAGTAACAGTCAATTATTCAGTAACAATC-AGATATTC-AGTAATAATCAA
* * *
63199077 TTATCCGGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TTATCCAGTAACAGTCAATTATTCAGTAACAATCAGATATT
63199118 TTATACCTTT
Statistics
Matches: 116, Mismatches: 26, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
53 5 0.04
54 88 0.76
55 23 0.20
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (54 bp):
TTATCCAGTAACAGTCAATTATTCAGTAACAATCAGATATTCAGTAATAATCAA
Found at i:63199069 original size:36 final size:36
Alignment explanation
Indices: 63198915--63199117 Score: 157
Period size: 36 Copynumber: 5.6 Consensus size: 36
63198905 AATTGATCGG
* * * * *
63198915 TTATCCAGTAACAGTCAATTATTCAGTAA-AATCAGA
1 TTATTCAGTAATAATCAGTTATTCAGTAACAGTCA-A
* *
63198951 -TATTCAGTAACAATTAAGTTATTCAGTAACAGTC-A
1 TTATTCAGTAATAA-TCAGTTATTCAGTAACAGTCAA
** * * *
63198986 TTCATTCAGCGACAATCAGTTATTTAGTAA-TGATCAA
1 TT-ATTCAGTAATAATCAGTTATTCAGTAACAG-TCAA
*
63199023 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTAA
1 TTATTCAGTAATAATCAGTTATTCAGTAACAGTC-AA
* * * *
63199060 -TA-TCTAGTAATAGTCAATTATCCGGTAACAGTCAA
1 TTATTC-AGTAATAATCAGTTATTCAGTAACAGTCAA
63199095 TTATTCAGTAATAATCAGTTATT
1 TTATTCAGTAATAATCAGTTATT
63199118 TTATACCTTT
Statistics
Matches: 133, Mismatches: 23, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
35 17 0.13
36 95 0.71
37 21 0.16
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (36 bp):
TTATTCAGTAATAATCAGTTATTCAGTAACAGTCAA
Found at i:63199353 original size:45 final size:45
Alignment explanation
Indices: 63199281--63199389 Score: 175
Period size: 45 Copynumber: 2.4 Consensus size: 45
63199271 ATAAATTCGG
63199281 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATC-GAT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCAG-T
* *
63199326 AACGGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATCAGT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCAGT
*
63199371 AACAGTAACGGTAACAGTA
1 AACAGTAACAGTAACAGTA
63199390 ACAGTAGTCA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
45 58 0.98
46 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.19
Consensus pattern (45 bp):
AACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCAGT
Found at i:63201069 original size:16 final size:16
Alignment explanation
Indices: 63201044--63201077 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
63201034 AACCCCCAAT
63201044 TTTCCCTTTTTTTTTC
1 TTTCCCTTTTTTTTTC
*
63201060 TTTCCTTTTTTTTTTC
1 TTTCCCTTTTTTTTTC
63201076 TT
1 TT
63201078 CTTTCCTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCCCTTTTTTTTTC
Found at i:63201362 original size:25 final size:24
Alignment explanation
Indices: 63201334--63201396 Score: 56
Period size: 25 Copynumber: 2.5 Consensus size: 24
63201324 AAATATCAAT
63201334 TTAATAAAAATAACATTAATAAATA
1 TTAATAAAAATAACA-TAATAAATA
* *
63201359 TTAAATGTAAAA-ACCATAATAAATA
1 TT-AAT-AAAAATAACATAATAAATA
* *
63201384 ATAATAATAATAA
1 TTAATAAAAATAA
63201397 TAATTTAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 7
0.69 0.14 0.17
Matches are distributed among these distances:
23 3 0.10
24 4 0.14
25 12 0.41
26 6 0.21
27 4 0.14
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (24 bp):
TTAATAAAAATAACATAATAAATA
Found at i:63204073 original size:19 final size:18
Alignment explanation
Indices: 63204036--63204087 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
63204026 ATAGTTTACG
*
63204036 TTTTCAAGAATTTTGTAA
1 TTTTCAAGAATTTTATAA
*
63204054 TTTTCTAGATATTTTATAA
1 TTTTCAAGA-ATTTTATAA
*
63204073 TGTTGCAAGGAATTT
1 T-TTTCAA-GAATTT
63204088 AAAAATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 8 0.30
19 9 0.33
20 8 0.30
21 2 0.07
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.50
Consensus pattern (18 bp):
TTTTCAAGAATTTTATAA
Found at i:63205604 original size:17 final size:18
Alignment explanation
Indices: 63205559--63205607 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
63205549 GACTATAAAT
*
63205559 TTTTTTAATTTTTTAATAA
1 TTTTTTAA-GTTTTAATAA
**
63205578 TTTTCGAAGTTTTAAT-A
1 TTTTTTAAGTTTTAATAA
63205595 TTTTTTAAGTTTT
1 TTTTTTAAGTTTT
63205608 TTTTAATTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 12 0.48
18 7 0.28
19 6 0.24
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (18 bp):
TTTTTTAAGTTTTAATAA
Found at i:63205608 original size:18 final size:19
Alignment explanation
Indices: 63205559--63205608 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
63205549 GACTATAAAT
*
63205559 TTTTTTAATTTTTTAATAA
1 TTTTTTAAGTTTTTAATAA
**
63205578 TTTTCGAAG-TTTTAAT-A
1 TTTTTTAAGTTTTTAATAA
63205595 TTTTTTAAGTTTTT
1 TTTTTTAAGTTTTT
63205609 TTTAATTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 8 0.32
18 11 0.44
19 6 0.24
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (19 bp):
TTTTTTAAGTTTTTAATAA
Found at i:63209372 original size:20 final size:20
Alignment explanation
Indices: 63209344--63209381 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
63209334 CATACGTTAA
*
63209344 AATTTAGTACCAAGCAGTGC
1 AATTCAGTACCAAGCAGTGC
63209364 AATTCAGTACCAAGCAGT
1 AATTCAGTACCAAGCAGT
63209382 ACCTAGATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (20 bp):
AATTCAGTACCAAGCAGTGC
Found at i:63218545 original size:19 final size:19
Alignment explanation
Indices: 63218521--63218561 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
63218511 TGATTTATTC
*
63218521 TAAGATTTATCTACCTAGA
1 TAAGATTTATCTACCTAAA
63218540 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCTAAA
63218559 TAA
1 TAA
63218562 CTTTAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (19 bp):
TAAGATTTATCTACCTAAA
Found at i:63235244 original size:16 final size:16
Alignment explanation
Indices: 63235214--63235258 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
63235204 CTTCTATTTC
63235214 AAAAA-AAAAAGAAAAT
1 AAAAAGAAAAA-AAAAT
63235230 AAAAAGAGAAAAAAAAAT
1 -AAAA-AGAAAAAAAAAT
63235248 AAAAAGAAAAA
1 AAAAAGAAAAA
63235259 TGGAGAGGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 7 0.27
17 8 0.31
18 6 0.23
19 5 0.19
ACGTcount: A:0.87, C:0.00, G:0.09, T:0.04
Consensus pattern (16 bp):
AAAAAGAAAAAAAAAT
Found at i:63235246 original size:18 final size:18
Alignment explanation
Indices: 63235214--63235258 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
63235204 CTTCTATTTC
63235214 AAAA-AAAAAAGAAAATA
1 AAAAGAAAAAAGAAAATA
63235231 AAAAGAGAAAAA-AAAATA
1 AAAAGA-AAAAAGAAAATA
63235249 AAAAGAAAAA
1 AAAAGAAAAA
63235259 TGGAGAGGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.31
18 13 0.50
19 5 0.19
ACGTcount: A:0.87, C:0.00, G:0.09, T:0.04
Consensus pattern (18 bp):
AAAAGAAAAAAGAAAATA
Found at i:63236670 original size:190 final size:190
Alignment explanation
Indices: 63236347--63236926 Score: 846
Period size: 190 Copynumber: 3.0 Consensus size: 190
63236337 TCAAAGTTTG
* *
63236347 GCATCTCCATTTCGACGGAGAGTAAATACATAGCAGATCTAAACTTCAGATGTTTATACTGAAGC
1 GCATCTCCATTTCGACGGAGAGTAGATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
63236412 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
66 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
*
63236477 TTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGA
131 TTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGA
*
63236537 GCATCTCCATTTTGACGGAGAGTAGATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
1 GCATCTCCATTTCGACGGAGAGTAGATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
*
63236602 AGATCCAAGATGGTTTGGCATCATTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
66 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
*
63236667 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGATAACAAA
131 TTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTA-T-T--G-T------
* *
63236732 TCAAAGTTTG
185 T-AGAG---A
* *
63236742 GCATCTCCATTTCGGCGGAGAGCAGATACATAGCAGATCTAACCTTCAGATG-----ACTGAAGC
1 GCATCTCCATTTCGACGGAGAGTAGATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
* * * *
63236802 AAATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGAAATAGCTGATTTGGT
66 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
* *
63236867 TTTCGCGTGCTTATGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGA
131 TTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGA
63236927 ATAAATCAAA
Statistics
Matches: 354, Mismatches: 21, Indels: 35
0.86 0.05 0.09
Matches are distributed among these distances:
188 3 0.01
189 1 0.00
190 174 0.49
191 1 0.00
192 1 0.00
194 1 0.00
195 2 0.01
196 1 0.00
198 1 0.00
199 1 0.00
200 115 0.32
201 1 0.00
202 3 0.01
205 49 0.14
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (190 bp):
GCATCTCCATTTCGACGGAGAGTAGATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
TTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGA
Found at i:63236865 original size:200 final size:201
Alignment explanation
Indices: 63236537--63236937 Score: 633
Period size: 200 Copynumber: 2.0 Consensus size: 201
63236527 TTGTTAGAGA
* *
63236537 GCATCTCCATTTTGACGGAGAGTAGATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
1 GCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATG----TACTGAAGC
* * *
63236602 AGATCCAAGATGGTTTGGCATCATTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
62 AAATCCAAGATGGTTTGGCATCATTGTGCTTACAAGGAACAAATCAAAGAAATAGCTGATTTGGC
*
63236667 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGATAACAAA
127 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
63236732 TCAAAGTTTG
192 TCAAAGTTTG
*
63236742 GCATCTCCATTTCGGCGGAGAGCAGATACATAGCAGATCTAACCTTCAGATG-ACTGAAGCAAAT
1 GCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTACTGAAGCAAAT
* *
63236806 CCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGAAATAGCTGATTTGGTTTTC
66 CCAAGATGGTTTGGCATCATTGTGCTTACAAGGAACAAATCAAAGAAATAGCTGATTTGGCTTTC
* * * * *
63236871 GCGTGCTTATGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGAATAAATCAA
131 ACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAA
63236936 AG
196 AG
63236938 AAACAAATTT
Statistics
Matches: 182, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
200 133 0.73
205 49 0.27
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (201 bp):
GCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTACTGAAGCAAAT
CCAAGATGGTTTGGCATCATTGTGCTTACAAGGAACAAATCAAAGAAATAGCTGATTTGGCTTTC
ACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAA
AGTTTG
Found at i:63237259 original size:261 final size:256
Alignment explanation
Indices: 63236769--63237259 Score: 662
Period size: 261 Copynumber: 1.9 Consensus size: 256
63236759 GAGAGCAGAT
*
63236769 ACATAGCAGATCTAACCTTCAGATGACTGAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTA
1 ACATAGCAGATCTAACCTTCAGATGACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGCTTA
* * * * *
63236834 CAAGGAACAAATCAAAGAAATAGCTGATTTGGTTTTCGCGTGCTTATGCTGAAGCAAATCTAAGA
66 CAAGGAACAAATCAAAGAAACAGCAGATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGA
* * * *
63236899 TGATTTGGCATCTCTGTATTGTTAGAGAATAAATCAAAGAAACAAATTTGGCGTCTCTATATTCG
131 TGATTTGGCATCTCTGTATTGTCAGAAAACAAATCAAAGAAACAAATTTAGCGTCTCTATATTCG
*
63236964 GCGGAGAGCAGATCGAAGATATCAACAGGACAGTCATAAGTTTACAAGAAGCATATTAAAG
196 ACGGAGAGCAGATCGAAGATATCAACAGGACAGTCATAAGTTTACAAGAAGCATATTAAAG
* * *
63237025 ACATAGCAGATCTGACCTTCAGATGATTTTACTGAAGCAGATCCAAGATGATTTGGCTTCCTTGT
1 ACATAGCAGATCTAACCTTCAGATG-----ACTGAAGCAAATCCAAGATGATTTGGCATCCTTGT
* ** * * *
63237090 -TTTCACAAGGAGA-AAATTGAAGACACAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGA
61 GCTT-ACAAGGA-ACAAATCAAAGAAACAGCAGATTTGGCTTTCACGTGCTTACGCTGAAGCAAA
* * *
63237153 TCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAAATCGAAGAAGCAGATTTAGCGTCTCT
124 TCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAAATCAAAGAAACAAATTTAGCGTCTCT
* * * *
63237218 GTGTTCGACGGAGAGTAGATCGAAGATATCAACATGACAGTC
189 ATATTCGACGGAGAGCAGATCGAAGATATCAACAGGACAGTC
63237260 TTGAGTTTGC
Statistics
Matches: 201, Mismatches: 27, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
256 24 0.12
260 2 0.01
261 174 0.87
262 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (256 bp):
ACATAGCAGATCTAACCTTCAGATGACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGCTTA
CAAGGAACAAATCAAAGAAACAGCAGATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGA
TGATTTGGCATCTCTGTATTGTCAGAAAACAAATCAAAGAAACAAATTTAGCGTCTCTATATTCG
ACGGAGAGCAGATCGAAGATATCAACAGGACAGTCATAAGTTTACAAGAAGCATATTAAAG
Found at i:63237599 original size:17 final size:17
Alignment explanation
Indices: 63237573--63237690 Score: 155
Period size: 17 Copynumber: 6.6 Consensus size: 17
63237563 CAATGATATG
63237573 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
* *
63237590 CAAACTTAGATATGATTG
1 CAATCTTAGATATGA-TA
63237608 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
63237625 TGCAATCTTAGATATGATA
1 --CAATCTTAGATATGATA
*
63237644 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
63237662 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
63237679 TGCAATCTTAGA
1 --CAATCTTAGA
63237691 AGATATGATT
Statistics
Matches: 89, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
17 31 0.35
18 31 0.35
19 27 0.30
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:63237611 original size:35 final size:36
Alignment explanation
Indices: 63237565--63237690 Score: 186
Period size: 35 Copynumber: 3.5 Consensus size: 36
63237555 ATAATATTCA
*
63237565 ATGATATGCAATCTTAGATATGATACAAACTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
63237601 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATA--CAATCTTAGAT
*
63237638 ATGATA--CAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGA-TACAATCTTAGAT
63237673 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
63237691 AGATATGATT
Statistics
Matches: 82, Mismatches: 2, Indels: 11
0.86 0.02 0.12
Matches are distributed among these distances:
35 36 0.44
36 20 0.24
37 26 0.32
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (36 bp):
ATGATATGCAATCTTAGATATGATACAATCTTAGAT
Found at i:63237623 original size:54 final size:54
Alignment explanation
Indices: 63237565--63237690 Score: 243
Period size: 54 Copynumber: 2.3 Consensus size: 54
63237555 ATAATATTCA
63237565 ATGATATGCAATCTTAGATATGATACAAACTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAAACTTAGATATGATTGCAATCTTAGAT
*
63237619 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAAACTTAGATATGATTGCAATCTTAGAT
63237673 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
63237691 AGATATGATT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (54 bp):
ATGATATGCAATCTTAGATATGATACAAACTTAGATATGATTGCAATCTTAGAT
Found at i:63237640 original size:14 final size:15
Alignment explanation
Indices: 63237567--63237676 Score: 78
Period size: 18 Copynumber: 6.5 Consensus size: 15
63237557 AATATTCAAT
63237567 GATATG-CAATCTTA
1 GATATGACAATCTTA
*
63237581 GATATGATACAAACTTA
1 GATATG--ACAATCTTA
63237598 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
63237616 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
63237635 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
63237652 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
63237670 GATATGA
1 GATATGA
63237677 TATGCAATCT
Statistics
Matches: 83, Mismatches: 2, Indels: 18
0.81 0.02 0.17
Matches are distributed among these distances:
14 6 0.07
15 2 0.02
17 27 0.33
18 28 0.34
19 19 0.23
20 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:63237697 original size:17 final size:19
Alignment explanation
Indices: 63237565--63237690 Score: 201
Period size: 19 Copynumber: 6.9 Consensus size: 19
63237555 ATAATATTCA
63237565 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
63237584 ATGATA--CAAACTTAGAT
1 ATGATATGCAATCTTAGAT
63237601 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
63237619 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
63237638 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
63237655 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
63237673 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
63237691 AGATATGATT
Statistics
Matches: 99, Mismatches: 2, Indels: 12
0.88 0.02 0.11
Matches are distributed among these distances:
17 31 0.31
18 31 0.31
19 37 0.37
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:63237716 original size:22 final size:22
Alignment explanation
Indices: 63237597--63237713 Score: 95
Period size: 19 Copynumber: 6.0 Consensus size: 22
63237587 ATACAAACTT
63237597 AGATATGAT-TGCAATCTT---
1 AGATATGATATGCAATCTTAGA
63237615 AGATATGATATGCAATCTT---
1 AGATATGATATGCAATCTTAGA
63237634 AGATATGATA--CAATCTT---
1 AGATATGATATGCAATCTTAGA
63237651 AGATATGAT-TGCAATCTT---
1 AGATATGATATGCAATCTTAGA
63237669 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
63237691 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
63237714 GATTTAATTT
Statistics
Matches: 89, Mismatches: 2, Indels: 11
0.87 0.02 0.11
Matches are distributed among these distances:
17 16 0.18
18 25 0.28
19 28 0.31
22 8 0.09
23 12 0.13
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:63245783 original size:43 final size:43
Alignment explanation
Indices: 63245692--63245812 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 43
63245682 ATCACATATT
* * * * * * *
63245692 AATGCCACTGTCCTAGACAGGGTCTTACGCGAAATCGATTAAC
1 AATGCCAATGTCCCAGACATGGTCTTACACGTAATCCAATAAC
*
63245735 GATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCAAT-AC
1 AATGCCAATGTCCCAGACATGGTCTTACACGTAATC-CAATAAC
*
63245778 AATGCCAATGTCCCAGACATGGTCTT-CATGTAATC
1 AATGCCAATGTCCCAGACATGGTCTTACACGTAATC
63245813 ACATATCGAT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 8 0.12
43 57 0.85
44 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
AATGCCAATGTCCCAGACATGGTCTTACACGTAATCCAATAAC
Found at i:63248852 original size:4 final size:4
Alignment explanation
Indices: 63248843--63248867 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
63248833 CATGGCGTAA
63248843 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
63248868 TCCATATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:63251453 original size:21 final size:21
Alignment explanation
Indices: 63251416--63251472 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
63251406 TGTGGCTATC
* *
63251416 CCACATGCCCATGTGACTACT
1 CCACACGCCCGTGTGACTACT
* *
63251437 CCATACGCCGGTGTGACTACT
1 CCACACGCCCGTGTGACTACT
63251458 CCACACGCCCGTGTG
1 CCACACGCCCGTGTG
63251473 TCCAACTATG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.19, C:0.39, G:0.21, T:0.21
Consensus pattern (21 bp):
CCACACGCCCGTGTGACTACT
Found at i:63257091 original size:25 final size:25
Alignment explanation
Indices: 63257057--63257104 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
63257047 CTATAATGTG
* *
63257057 AAAATAACCATTTTGCCCCTAGGTA
1 AAAATAACCATTATACCCCTAGGTA
*
63257082 AAAATGACCATTATACCCCTAGG
1 AAAATAACCATTATACCCCTAGG
63257105 GATATGTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (25 bp):
AAAATAACCATTATACCCCTAGGTA
Found at i:63257157 original size:10 final size:10
Alignment explanation
Indices: 63257144--63257182 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
63257134 CTGTTTTATA
63257144 CATGATATGC
1 CATGATATGC
63257154 CATGATATGC
1 CATGATATGC
63257164 ACATGATATGC
1 -CATGATATGC
63257175 CATGATAT
1 CATGATAT
63257183 ATTCATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:63257169 original size:21 final size:21
Alignment explanation
Indices: 63257143--63257182 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
63257133 ACTGTTTTAT
63257143 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
63257164 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
63257183 ATTCATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:63257262 original size:25 final size:24
Alignment explanation
Indices: 63257228--63257295 Score: 100
Period size: 25 Copynumber: 2.8 Consensus size: 24
63257218 AAGGAAGTGC
63257228 AAAGGGCTTTGCCCCAGTTTACCGA
1 AAAGGGCTTTGCCCCAGTTTACC-A
*
63257253 AAAGGGCTTTGCCCCAGTTTATCA
1 AAAGGGCTTTGCCCCAGTTTACCA
* *
63257277 AAAAGGCTTTGCCTCAGTT
1 AAAGGGCTTTGCCCCAGTT
63257296 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
24 18 0.45
25 22 0.55
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTTGCCCCAGTTTACCA
Found at i:63257284 original size:24 final size:24
Alignment explanation
Indices: 63257232--63257308 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
63257222 AAGTGCAAAG
* *
63257232 GGCTTTGCCCCAGTTTACCGAAAAG
1 GGCTTTGCCCCAGTTTATC-AAAAA
63257257 GGCTTTGCCCCAGTTTATCAAAAA
1 GGCTTTGCCCCAGTTTATCAAAAA
* *
63257281 GGCTTTGCCTCAG-TTATTAAAAGA
1 GGCTTTGCCCCAGTTTATCAAAA-A
63257305 GGCT
1 GGCT
63257309 AGGCCTCCAG
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
23 8 0.17
24 21 0.45
25 18 0.38
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
GGCTTTGCCCCAGTTTATCAAAAA
Found at i:63260247 original size:44 final size:44
Alignment explanation
Indices: 63260184--63260272 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
63260174 AAATGGGCTG
63260184 CTATATTCTATTTGTGAATCTAGAGATGATGTCTTCTTCGATAA
1 CTATATTCTATTTGTGAATCTAGAGATGATGTCTTCTTCGATAA
63260228 CTATATTCTATTTGTGAATCTAGAGATGATGTCTTCTTCGATAA
1 CTATATTCTATTTGTGAATCTAGAGATGATGTCTTCTTCGATAA
63260272 C
1 C
63260273 ATTTTTCCTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.43
Consensus pattern (44 bp):
CTATATTCTATTTGTGAATCTAGAGATGATGTCTTCTTCGATAA
Found at i:63263346 original size:21 final size:21
Alignment explanation
Indices: 63263322--63263447 Score: 96
Period size: 21 Copynumber: 5.9 Consensus size: 21
63263312 GGTCATTAGT
*
63263322 GTTTGTTAATTAGGGTTTATG
1 GTTTATTAATTAGGGTTTATG
* *
63263343 GTTTGTTAAATTAGGGTTAATG
1 GTTTATT-AATTAGGGTTTATG
*
63263365 ATTTTATT-ATTAGGGTTT-TAG
1 -GTTTATTAATTAGGGTTTAT-G
* *
63263386 TGTTTATAAATTAGGGTTTAAG
1 -GTTTATTAATTAGGGTTTATG
* *
63263408 GTTTATTAATTTAAGGTTAATG
1 GTTTATTAA-TTAGGGTTTATG
*
63263430 ATTTTATT-ATTAGGGTTT
1 -GTTTATTAATTAGGGTTT
63263448 TAGGATAGGG
Statistics
Matches: 83, Mismatches: 15, Indels: 14
0.74 0.13 0.12
Matches are distributed among these distances:
20 1 0.01
21 37 0.45
22 34 0.41
23 11 0.13
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (21 bp):
GTTTATTAATTAGGGTTTATG
Found at i:63263357 original size:22 final size:21
Alignment explanation
Indices: 63263329--63263447 Score: 73
Period size: 22 Copynumber: 5.5 Consensus size: 21
63263319 AGTGTTTGTT
63263329 AATTAGGGTTTATGGTTTGTTA
1 AATTAGGGTTTATGGTTT-TTA
* *
63263351 AATTAGGGTTAAT-GATTTTA
1 AATTAGGGTTTATGGTTTTTA
* *
63263371 TTATTAGGGTTT-TAGTGTTTATA
1 -AATTAGGGTTTAT-G-GTTTTTA
*
63263394 AATTAGGGTTTAAGGTTTATTA
1 AATTAGGGTTTATGGTTT-TTA
* * * *
63263416 ATTTAAGGTTAAT-GATTTTA
1 AATTAGGGTTTATGGTTTTTA
*
63263436 TTATTAGGGTTT
1 -AATTAGGGTTT
63263448 TAGGATAGGG
Statistics
Matches: 72, Mismatches: 18, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
20 7 0.10
21 26 0.36
22 34 0.47
23 5 0.07
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.50
Consensus pattern (21 bp):
AATTAGGGTTTATGGTTTTTA
Found at i:63263426 original size:65 final size:65
Alignment explanation
Indices: 63263183--63263450 Score: 268
Period size: 65 Copynumber: 4.2 Consensus size: 65
63263173 TTCATGGATT
* *
63263183 TTAGGGTTTTAAGTG--T-TTAATTAGGGTTTATTGTTTATTAAATT-AGAGTT-TTGGATTTTA
1 TTAGGGTTTT-AGTGTTTATTAATTAGGGTTTATGGTTTATTAAATTAAG-GTTAAT-GATTTTA
63263243 TTA
63 TTA
* * * * * *
63263246 TT----TTTAAGTATTTATTAATTAGGTTTTTAGGGTTTGTTAAATTATGGTTAA-GAATTTTAT
1 TTAGGGTTTTAGTGTTTATTAATTAGG-GTTTATGGTTTATTAAATTAAGGTTAATG-ATTTTAT
63263306 TA
64 TA
* * * * *
63263308 TTATGGTCATTAGTGTTTGTTAATTAGGGTTTATGGTTTGTTAAATTAGGGTTAATGATTTTATT
1 TTAGGGT-TTTAGTGTTTATTAATTAGGGTTTATGGTTTATTAAATTAAGGTTAATGATTTTATT
63263373 A
65 A
* * *
63263374 TTAGGGTTTTAGTGTTTATAAATTAGGGTTTAAGGTTTATTAATTTAAGGTTAATGATTTTATTA
1 TTAGGGTTTTAGTGTTTATTAATTAGGGTTTATGGTTTATTAAATTAAGGTTAATGATTTTATTA
63263439 TTAGGGTTTTAG
1 TTAGGGTTTTAG
63263451 GATAGGGTTT
Statistics
Matches: 169, Mismatches: 23, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
58 3 0.02
59 3 0.02
60 1 0.01
61 10 0.06
62 29 0.17
63 3 0.02
65 63 0.37
66 40 0.24
67 17 0.10
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.53
Consensus pattern (65 bp):
TTAGGGTTTTAGTGTTTATTAATTAGGGTTTATGGTTTATTAAATTAAGGTTAATGATTTTATTA
Found at i:63268301 original size:16 final size:17
Alignment explanation
Indices: 63268277--63268309 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
63268267 CAATATCTAA
*
63268277 CCATTTTAACC-TAAAT
1 CCATGTTAACCATAAAT
63268293 CCATGTTAACCATAAAT
1 CCATGTTAACCATAAAT
63268310 ACAAGGGACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.33
Consensus pattern (17 bp):
CCATGTTAACCATAAAT
Found at i:63273625 original size:20 final size:20
Alignment explanation
Indices: 63273600--63273642 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
63273590 TGAAAAGCTG
63273600 TTTTTACATATATTAATAAA
1 TTTTTACATATATTAATAAA
*
63273620 TTTTTATATATATTAATAAA
1 TTTTTACATATATTAATAAA
63273640 TTT
1 TTT
63273643 ATATTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTTACATATATTAATAAA
Found at i:63276629 original size:16 final size:17
Alignment explanation
Indices: 63276605--63276637 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
63276595 CAAAACCTAA
*
63276605 CCATTTTAACC-TAAAT
1 CCATGTTAACCATAAAT
63276621 CCATGTTAACCATAAAT
1 CCATGTTAACCATAAAT
63276638 ACAAGAGACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.33
Consensus pattern (17 bp):
CCATGTTAACCATAAAT
Found at i:63287541 original size:42 final size:42
Alignment explanation
Indices: 63287495--63287576 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
63287485 GAATTAAAGC
*
63287495 AAATATACTAGTACATAAGTGAATCATCTGG-TAAACCAAAAT
1 AAATATACTAGTACATAAGTAAATCATC-GGATAAACCAAAAT
*
63287537 AAATATACTAGTACGTAAGTAAATCATCGGATAAACCAAA
1 AAATATACTAGTACATAAGTAAATCATCGGATAAACCAAA
63287577 GTATAAACCC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 2 0.05
42 35 0.95
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (42 bp):
AAATATACTAGTACATAAGTAAATCATCGGATAAACCAAAAT
Found at i:63292381 original size:19 final size:18
Alignment explanation
Indices: 63292341--63292383 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
63292331 ATAGTTCTTA
* *
63292341 GTTTTATTTTATTTTTGT
1 GTTTTATTTTATTTATGG
*
63292359 GTTTTTTTTTAGTTTATGG
1 GTTTTATTTTA-TTTATGG
63292378 GTTTTA
1 GTTTTA
63292384 AACTCTCTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.12, C:0.00, G:0.16, T:0.72
Consensus pattern (18 bp):
GTTTTATTTTATTTATGG
Found at i:63299282 original size:35 final size:35
Alignment explanation
Indices: 63299236--63299306 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
63299226 ATACCGTACT
63299236 CCATCAATAGTACACTTCAGAGAACGATGTACAAC
1 CCATCAATAGTACACTTCAGAGAACGATGTACAAC
63299271 CCATCAATAGTACACTTCAGAGAACGATGTACAAC
1 CCATCAATAGTACACTTCAGAGAACGATGTACAAC
63299306 C
1 C
63299307 AACATACACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.27, G:0.14, T:0.20
Consensus pattern (35 bp):
CCATCAATAGTACACTTCAGAGAACGATGTACAAC
Found at i:63301093 original size:22 final size:22
Alignment explanation
Indices: 63301065--63301106 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
63301055 ATCTCAGACT
63301065 TTACACCATATTTCAAATTCCA
1 TTACACCATATTTCAAATTCCA
*
63301087 TTACACCATATTTCAGATTC
1 TTACACCATATTTCAAATTC
63301107 ATCAGTTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.38
Consensus pattern (22 bp):
TTACACCATATTTCAAATTCCA
Found at i:63301319 original size:25 final size:24
Alignment explanation
Indices: 63301291--63301378 Score: 90
Period size: 25 Copynumber: 3.6 Consensus size: 24
63301281 GATAACACGT
*
63301291 CACAAAGTCTTTCCACAAGATTAGC
1 CACAAAGGCTTTCCA-AAGATTAGC
* **
63301316 CACAAAGGC-TTCCTAAATAACATGC
1 CACAAAGGCTTTCC-AAAGATTA-GC
63301341 CACAAAGGCTTTCCATAAGATTAGC
1 CACAAAGGCTTTCCA-AAGATTAGC
63301366 CACAAAGG-TTTCC
1 CACAAAGGCTTTCC
63301379 CAAGTAACCT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
24 13 0.25
25 31 0.60
26 8 0.15
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (24 bp):
CACAAAGGCTTTCCAAAGATTAGC
Found at i:63301372 original size:50 final size:50
Alignment explanation
Indices: 63301232--63301378 Score: 186
Period size: 50 Copynumber: 2.9 Consensus size: 50
63301222 GATTTTCTAG
* * * * * * *
63301232 ATAACACGCCACGAATGCTTTCCACAAGGTTAACCATAAAAGCTTCCTAG
1 ATAACACGCCACAAAGGCTTTCCACAAGATTAGCCACAAAGGCTTCCTAA
* *
63301282 ATAACACGTCACAAAGTCTTTCCACAAGATTAGCCACAAAGGCTTCCTAA
1 ATAACACGCCACAAAGGCTTTCCACAAGATTAGCCACAAAGGCTTCCTAA
* * *
63301332 ATAACATGCCACAAAGGCTTTCCATAAGATTAGCCACAAAGGTTTCC
1 ATAACACGCCACAAAGGCTTTCCACAAGATTAGCCACAAAGGCTTCC
63301379 CAAGTAACCT
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 83 1.00
ACGTcount: A:0.37, C:0.27, G:0.14, T:0.22
Consensus pattern (50 bp):
ATAACACGCCACAAAGGCTTTCCACAAGATTAGCCACAAAGGCTTCCTAA
Found at i:63304581 original size:46 final size:46
Alignment explanation
Indices: 63304514--63304685 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
63304504 AACCCGCCCC
*
63304514 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
63304560 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
63304608 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
63304653 TAGGTGAACTCGAACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
63304686 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 58 0.56
47 27 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:63304626 original size:93 final size:93
Alignment explanation
Indices: 63304519--63304689 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
63304509 GCCCCTAAGT
* * *
63304519 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
*
63304584 TGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
63304612 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
63304677 CGAGTTCGGATGC
66 CGAGTTCGGATGC
63304690 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:63320859 original size:12 final size:12
Alignment explanation
Indices: 63320842--63320889 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
63320832 TGTCATTAAC
63320842 ATATAAAACCAA
1 ATATAAAACCAA
*
63320854 ATATAAAACTTTAA
1 ATATAAAAC--CAA
63320868 CATATAAAACCAA
1 -ATATAAAACCAA
63320881 ATATAAAAC
1 ATATAAAAC
63320890 TTTACTCCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 18 0.58
13 2 0.06
14 2 0.06
15 9 0.29
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (12 bp):
ATATAAAACCAA
Found at i:63320875 original size:27 final size:27
Alignment explanation
Indices: 63320837--63320893 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
63320827 CAGTATGTCA
63320837 TTAACATATAAAACCAAATATAAAACT
1 TTAACATATAAAACCAAATATAAAACT
63320864 TTAACATATAAAACCAAATATAAAACT
1 TTAACATATAAAACCAAATATAAAACT
63320891 TTA
1 TTA
63320894 CTCCCACTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (27 bp):
TTAACATATAAAACCAAATATAAAACT
Found at i:63331634 original size:19 final size:19
Alignment explanation
Indices: 63331588--63331634 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
63331578 ATCGGAACGT
*
63331588 AAAGTGCATATTGGAGCAC
1 AAAGTGCATACTGGAGCAC
*
63331607 AAAGCGCATACTGGCA-CAC
1 AAAGTGCATACTGG-AGCAC
*
63331626 GAAGTGCAT
1 AAAGTGCAT
63331635 CCTGACATGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 22 0.96
20 1 0.04
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (19 bp):
AAAGTGCATACTGGAGCAC
Found at i:63334946 original size:26 final size:26
Alignment explanation
Indices: 63334894--63334942 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
63334884 CTCAATTTGA
63334894 TAAAAAGGACTAAATCGCGTAAAGTG
1 TAAAAAGGACTAAATCGCGTAAAGTG
63334920 TAAAAAGGACTAAATCGC-TAAAG
1 TAAAAAGGACTAAATCGCGTAAAG
63334943 GTGTCTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.49, C:0.12, G:0.20, T:0.18
Consensus pattern (26 bp):
TAAAAAGGACTAAATCGCGTAAAGTG
Found at i:63335065 original size:17 final size:16
Alignment explanation
Indices: 63335043--63335089 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
63335033 TTGTAAATTG
63335043 AATTAATTATAAAGGTT
1 AATTAATTATAAAGG-T
*
63335060 AATTAAGTA-AATAGGT
1 AATTAATTATAA-AGGT
63335076 AATTAATTGATAAA
1 AATTAATT-ATAAA
63335090 TTAATAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 10 0.40
17 13 0.52
18 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (16 bp):
AATTAATTATAAAGGT
Found at i:63336872 original size:23 final size:22
Alignment explanation
Indices: 63336833--63336886 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
63336823 AAATTAGGTG
*
63336833 ATTTGTGAATATGAAATTGAT-AT
1 ATTT-TGAATAGGAAATT-ATGAT
*
63336856 GTTTTGAATAGGTAAATTATGAT
1 ATTTTGAATAGG-AAATTATGAT
63336879 ATTTTGAA
1 ATTTTGAA
63336887 CATTATAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (22 bp):
ATTTTGAATAGGAAATTATGAT
Found at i:63337483 original size:20 final size:20
Alignment explanation
Indices: 63337442--63337483 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
63337432 GTCCCTTGTA
*
63337442 TTTTTGAAAAATTTGCTAAG
1 TTTTTGAAAAATTTCCTAAG
* *
63337462 TTTTTTAAAAATTTCCTGAG
1 TTTTTGAAAAATTTCCTAAG
63337482 TT
1 TT
63337484 ATCGGTTTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTTTGAAAAATTTCCTAAG
Found at i:63338933 original size:22 final size:22
Alignment explanation
Indices: 63338908--63338952 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
63338898 TTACCTGAGA
63338908 AAGACAAATTTCTGAATACAAG
1 AAGACAAATTTCTGAATACAAG
*
63338930 AAGACAAATTTCTGAATGCAAG
1 AAGACAAATTTCTGAATACAAG
63338952 A
1 A
63338953 CTGAACAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.22
Consensus pattern (22 bp):
AAGACAAATTTCTGAATACAAG
Found at i:63342602 original size:13 final size:13
Alignment explanation
Indices: 63342584--63342608 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63342574 GATTGTGTAA
63342584 AAATTTTATTATG
1 AAATTTTATTATG
63342597 AAATTTTATTAT
1 AAATTTTATTAT
63342609 TTGAGTGCTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
AAATTTTATTATG
Found at i:63346982 original size:16 final size:18
Alignment explanation
Indices: 63346961--63347000 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
63346951 TATGTTTTGG
63346961 TATCTG-TATTATG-CTA
1 TATCTGATATTATGTCTA
*
63346977 TATCTGATATTCTGTCTA
1 TATCTGATATTATGTCTA
63346995 TATCTG
1 TATCTG
63347001 GCAACGGGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 6 0.29
18 9 0.43
ACGTcount: A:0.23, C:0.15, G:0.12, T:0.50
Consensus pattern (18 bp):
TATCTGATATTATGTCTA
Found at i:63349565 original size:22 final size:22
Alignment explanation
Indices: 63349537--63349584 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
63349527 TTATATCTTC
*
63349537 TCTCAAGACATAAGAC-CATTTG
1 TCTCAAGACAT-ACACTCATTTG
*
63349559 TCTCAAGATATACACTCATTTG
1 TCTCAAGACATACACTCATTTG
63349581 TCTC
1 TCTC
63349585 GAGATAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.33
Consensus pattern (22 bp):
TCTCAAGACATACACTCATTTG
Found at i:63350167 original size:10 final size:10
Alignment explanation
Indices: 63350152--63350179 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
63350142 AAATTATTAA
63350152 TAAAATATGT
1 TAAAATATGT
63350162 TAAAATATGT
1 TAAAATATGT
63350172 TAAAATAT
1 TAAAATAT
63350180 TTTTAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (10 bp):
TAAAATATGT
Found at i:63350210 original size:21 final size:22
Alignment explanation
Indices: 63350184--63350233 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
63350174 AAATATTTTT
63350184 AAAAATAAAAAT-TATAAATAA
1 AAAAATAAAAATATATAAATAA
* *
63350205 AAAAATTCAAAATATATATATAA
1 AAAAA-TAAAAATATATAAATAA
63350228 AAAAAT
1 AAAAAT
63350234 CTAAATGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.20
22 7 0.28
23 13 0.52
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAAATAAAAATATATAAATAA
Found at i:63350239 original size:22 final size:22
Alignment explanation
Indices: 63350191--63350233 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
63350181 TTTAAAAATA
63350191 AAAATTATAAATAAAAAAATTC
1 AAAATTATAAATAAAAAAATTC
*
63350213 AAAATATATATATAAAAAAAT
1 AAAAT-TATAAATAAAAAAAT
63350234 CTAAATGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (22 bp):
AAAATTATAAATAAAAAAATTC
Found at i:63351561 original size:20 final size:21
Alignment explanation
Indices: 63351536--63351589 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
63351526 ACAAACCGTG
*
63351536 TTAATTTAGATTAAAATTA-A
1 TTAATTAAGATTAAAATTATA
* *
63351556 TTAATTAAG-TTTAAGTTATA
1 TTAATTAAGATTAAAATTATA
63351576 TTAATTAAGATTAA
1 TTAATTAAGATTAA
63351590 GGAGTTTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 7 0.25
20 18 0.64
21 3 0.11
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (21 bp):
TTAATTAAGATTAAAATTATA
Found at i:63358240 original size:13 final size:13
Alignment explanation
Indices: 63358222--63358247 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
63358212 ACGGGCGTGT
63358222 AGGCCACATGGGC
1 AGGCCACATGGGC
63358235 AGGCCACATGGGC
1 AGGCCACATGGGC
63358248 GTGTGAGCCC
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:0.23, C:0.31, G:0.38, T:0.08
Consensus pattern (13 bp):
AGGCCACATGGGC
Found at i:63362270 original size:27 final size:26
Alignment explanation
Indices: 63362235--63362346 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
63362225 AGCATGGCTG
** *
63362235 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
63362261 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
63362289 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
63362316 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
63362343 CCAG
1 CCAG
63362347 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 54 0.72
28 15 0.20
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:63362299 original size:54 final size:54
Alignment explanation
Indices: 63362235--63362346 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
63362225 AGCATGGCTG
* *
63362235 CCAGAACAGATA-ATGTGATAGAGTCACCAGATACAGATAATCGTGGCAGAACCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAACCA
* * * *
63362289 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
63362343 CCAG
1 CCAG
63362347 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
Found at i:63379917 original size:19 final size:19
Alignment explanation
Indices: 63379893--63379930 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
63379883 AAAAAGGGAG
63379893 GGGTAAGCATTTTCATGCT
1 GGGTAAGCATTTTCATGCT
63379912 GGGTAAGCATTTTCATGCT
1 GGGTAAGCATTTTCATGCT
63379931 TAGTAAGCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (19 bp):
GGGTAAGCATTTTCATGCT
Found at i:63379936 original size:19 final size:19
Alignment explanation
Indices: 63379895--63379938 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
63379885 AAAGGGAGGG
*
63379895 GTAAGCATTTTCATGCTGG
1 GTAAGCATTTTCATGCTGA
*
63379914 GTAAGCATTTTCATGCTTA
1 GTAAGCATTTTCATGCTGA
63379933 GTAAGC
1 GTAAGC
63379939 TCGAATAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (19 bp):
GTAAGCATTTTCATGCTGA
Found at i:63382140 original size:42 final size:42
Alignment explanation
Indices: 63382040--63382204 Score: 161
Period size: 43 Copynumber: 3.9 Consensus size: 42
63382030 AGATGTGTTA
* * * * *
63382040 TCGTGTAAGACCACATCTGGGACGTTGGCATTGATTTGTGATT
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCG-TATATGATT
* *
63382083 TACGTGTAAGACCATGTTTGGGACATTGGCATCGTATATGATT
1 T-CGTGTAAGACCACGTCTGGGACATTGGCATCGTATATGATT
* * * *
63382126 TCGTGTAAGACCATGTCTGGGACAGTGGCATCAATATTTGATT
1 TCGTGTAAGACCACGTCTGGGACATTGGCATC-GTATATGATT
* * *
63382169 TCATGTAAGACCACGTTTGGGACGA-TGGCATTGTAT
1 TCGTGTAAGACCACGTCTGGGAC-ATTGGCATCGTAT
63382205 GAGCTTATGA
Statistics
Matches: 103, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
42 32 0.31
43 43 0.42
44 28 0.27
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGACATTGGCATCGTATATGATT
Found at i:63388425 original size:39 final size:40
Alignment explanation
Indices: 63388226--63388429 Score: 263
Period size: 40 Copynumber: 5.2 Consensus size: 40
63388216 TGGATGATAA
* *
63388226 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
*
63388266 CAAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
63388306 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
63388346 TGAAGGCATTTGTGCGAGTTACTATAACTGGGCT-AGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * * * *
63388385 CGAAGACATTTGAGCGAG-TAGCTATAT-CTGGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCC
63388424 CGAAGG
1 CGAAGG
63388430 TACTTGGTTT
Statistics
Matches: 145, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
38 5 0.03
39 34 0.23
40 105 0.72
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:63391441 original size:40 final size:40
Alignment explanation
Indices: 63391343--63391605 Score: 370
Period size: 40 Copynumber: 6.6 Consensus size: 40
63391333 TCCTCGTTCA
* * ** *
63391343 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
63391382 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
63391422 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
63391462 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
63391502 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
63391542 AATGCCTTCGGAACTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCACG
* *
63391582 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
63391606 CAGCATTCAA
Statistics
Matches: 207, Mismatches: 14, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.17
40 166 0.80
41 6 0.03
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:63396119 original size:46 final size:45
Alignment explanation
Indices: 63396054--63396223 Score: 150
Period size: 46 Copynumber: 3.7 Consensus size: 45
63396044 TGTAACCCGC
*
63396054 CCATAAGCGAACTCAGACTCAACTCAACGAGCTAGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAG-TAGGGCGTTCGCAT
* * * *
63396100 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAG-TAGG--G-C--GTTCGCAT
* * * * *
63396150 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTGGACATTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTAGGGCGTTCGCAT
*
63396192 CCATAAGTGAACTCGGACTCAACTCAACGAGT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGT
63396224 TCGGATGCCC
Statistics
Matches: 99, Mismatches: 16, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
41 2 0.02
42 3 0.03
43 2 0.02
44 2 0.02
45 23 0.23
46 34 0.34
47 22 0.22
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTAGGGCGTTCGCAT
Found at i:63396219 original size:92 final size:93
Alignment explanation
Indices: 63396061--63396232 Score: 301
Period size: 92 Copynumber: 1.9 Consensus size: 93
63396051 CGCCCATAAG
* * *
63396061 CGAACTCAGACTCAACTCAACGAGCTAGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
63396126 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
63396154 CGAACTCAGACTCAACTCAACGAG-TTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
63396218 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
63396233 CAAACATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 51 0.68
93 24 0.32
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:63397939 original size:40 final size:40
Alignment explanation
Indices: 63397835--63398038 Score: 281
Period size: 40 Copynumber: 5.2 Consensus size: 40
63397825 AAACCAAGTA
* * * *
63397835 CCTTCGGGATTTA-ACCAGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
63397874 TCTTCGGGAC-TAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
63397913 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
63397953 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
63397993 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
63398033 CCTTCG
1 CCTTCG
63398039 TTATCATCCA
Statistics
Matches: 149, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
38 3 0.02
39 37 0.25
40 109 0.73
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:63402166 original size:30 final size:30
Alignment explanation
Indices: 63402124--63402209 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
63402114 AGATAACAAG
*
63402124 GAAA-CCA-AATAAAGAAATCCAAGATAGA
1 GAAATCCAGAATAAAGAAATCCAAGATAAA
* *
63402152 GAAATCCAGAATAAAG-AATTCTAGAATAAA
1 GAAATCCAGAATAAAGAAATCCAAG-ATAAA
* * *
63402182 GAGATCCAGGATAAAGAAACCCAAGATA
1 GAAATCCAGAATAAAGAAATCCAAGATA
63402210 TGATACTATG
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
28 4 0.09
29 9 0.20
30 28 0.61
31 5 0.11
ACGTcount: A:0.56, C:0.14, G:0.16, T:0.14
Consensus pattern (30 bp):
GAAATCCAGAATAAAGAAATCCAAGATAAA
Found at i:63402209 original size:15 final size:15
Alignment explanation
Indices: 63402124--63402209 Score: 72
Period size: 15 Copynumber: 5.9 Consensus size: 15
63402114 AGATAACAAG
63402124 GAAA-CCAA-ATAAA
1 GAAATCCAAGATAAA
*
63402137 GAAATCCAAGATAGA
1 GAAATCCAAGATAAA
63402152 GAAATCC-AGAATAAA
1 GAAATCCAAG-ATAAA
* *
63402167 G-AATTCTAGAATAAA
1 GAAATCCAAG-ATAAA
* *
63402182 GAGATCCAGGATAAA
1 GAAATCCAAGATAAA
*
63402197 GAAACCCAAGATA
1 GAAATCCAAGATA
63402210 TGATACTATG
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
13 4 0.07
14 10 0.17
15 40 0.69
16 4 0.07
ACGTcount: A:0.56, C:0.14, G:0.16, T:0.14
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:63405290 original size:46 final size:46
Alignment explanation
Indices: 63405124--63405296 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
63405114 TGCAACCCGC
* * *
63405124 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
* * * *
63405170 CCATGAGTGAACTCAGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
63405220 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
63405263 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTC
63405297 AGTTGCCCAA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 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 57 0.55
47 28 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:63415117 original size:47 final size:47
Alignment explanation
Indices: 63415057--63415303 Score: 323
Period size: 47 Copynumber: 5.2 Consensus size: 47
63415047 CATACATATC
* * ** * ** * *
63415057 TCACATTAGCCATTCGGCTTTCCCACATATATACACATCCACGTTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
63415104 TCACATTGGCCATTCTGCCTTATCACATGTATGCATGTTCACATTTA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
63415151 TCACATTGGCCATTCGACCTTATCACATATATGCATGTTCATATTCT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
63415198 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
63415245 TCACATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
63415292 TCACATTCGGCC
1 TCACATT-GGCC
63415304 TTAAAACAAA
Statistics
Matches: 174, Mismatches: 25, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
47 170 0.98
48 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:63424195 original size:47 final size:47
Alignment explanation
Indices: 63424135--63424357 Score: 322
Period size: 47 Copynumber: 4.7 Consensus size: 47
63424125 TTAGGATTCT
* * *
63424135 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
*
63424182 ATGAGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
63424229 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
63424276 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
63424323 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
63424358 TCCCGAAGGG
Statistics
Matches: 160, Mismatches: 15, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
46 1 0.01
47 159 0.99
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:63424532 original size:37 final size:37
Alignment explanation
Indices: 63424476--63424554 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
63424466 CCGAGCTCTA
* * *
63424476 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
63424513 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
63424550 AAGAC
1 AAGAC
63424555 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:63426476 original size:40 final size:39
Alignment explanation
Indices: 63426432--63426535 Score: 120
Period size: 39 Copynumber: 2.6 Consensus size: 39
63426422 ACTGACCATA
* *
63426432 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAT
*
63426472 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTGGTGCGAGTTACTAAT
* *
63426510 AACCGGGCTAAGTCCCGAAGAGCATT
1 -TCCGGACTAAG-CCCGAAG-GCATT
63426536 CATGCTAGTG
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
38 2 0.04
39 33 0.58
40 17 0.30
41 5 0.09
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTGGTGCGAGTTACTAAT
Found at i:63426556 original size:40 final size:40
Alignment explanation
Indices: 63426392--63426733 Score: 356
Period size: 40 Copynumber: 8.6 Consensus size: 40
63426382 TCGAATGATG
* * *
63426392 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAACTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * *
63426432 TCCGGACTAAGAT-CCGAAG-GCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * *
63426471 TTCCGGGCTAAG-CCCGAAG-GCATTGGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * *
63426511 ACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
63426551 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * *
63426591 TCCGGGCTAAGTCCCGAAAAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
63426631 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * *
63426671 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
63426711 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
63426734 ATCATGCTGG
Statistics
Matches: 262, Mismatches: 33, Indels: 14
0.85 0.11 0.05
Matches are distributed among these distances:
39 35 0.13
40 207 0.79
41 20 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:63429676 original size:47 final size:47
Alignment explanation
Indices: 63429625--63429847 Score: 331
Period size: 47 Copynumber: 4.7 Consensus size: 47
63429615 TTAGGATTCT
* * *
63429625 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
63429672 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
63429719 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
63429766 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
63429813 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
63429848 TCCCGAAGGG
Statistics
Matches: 162, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.01
47 161 0.99
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:63429700 original size:25 final size:25
Alignment explanation
Indices: 63429672--63429750 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
63429662 CTAATGGCCG
63429672 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
63429697 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
63429719 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
63429744 ATGTGAT
1 ATGTGAT
63429751 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:63430022 original size:37 final size:37
Alignment explanation
Indices: 63429966--63430044 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
63429956 CCGAGCTCTA
* * *
63429966 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
63430003 AAGACCCGGTAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
63430040 AAGAC
1 AAGAC
63430045 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:63432054 original size:57 final size:58
Alignment explanation
Indices: 63431991--63432099 Score: 148
Period size: 58 Copynumber: 1.9 Consensus size: 58
63431981 CAATTTCACA
* *
63431991 CACCTGTATCTAGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCTCAAAT
1 CACCTGTATATAGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCTCAAAT
* ** * *
63432048 CACCTGTATATGGCCCATTCGGCCCAAATCACATTTATATGGCCCGTTAGGC
1 CACCTGTATATAGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGC
63432100 CCAGTCAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 21 0.48
58 23 0.52
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.28
Consensus pattern (58 bp):
CACCTGTATATAGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCTCAAAT
Found at i:63432058 original size:29 final size:29
Alignment explanation
Indices: 63432003--63432102 Score: 114
Period size: 29 Copynumber: 3.5 Consensus size: 29
63431993 CCTGTATCTA
* *
63432003 GCCCATTAAGCCC-AATCATAT-TCATATG
1 GCCCATTAGGCCCAAATCACATGT-ATATG
* *
63432031 GCCCATTAGGCTCAAATCACCTGTATATG
1 GCCCATTAGGCCCAAATCACATGTATATG
* *
63432060 GCCCATTCGGCCCAAATCACATTTATATG
1 GCCCATTAGGCCCAAATCACATGTATATG
*
63432089 GCCCGTTAGGCCCA
1 GCCCATTAGGCCCA
63432103 GTCAAATTCA
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
28 11 0.18
29 48 0.80
30 1 0.02
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (29 bp):
GCCCATTAGGCCCAAATCACATGTATATG
Found at i:63432345 original size:8 final size:8
Alignment explanation
Indices: 63432334--63432372 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
63432324 ACTTTCAGCT
*
63432334 TTTCGGTA
1 TTTCGGCA
63432342 TTTCGGCA
1 TTTCGGCA
* *
63432350 TTTTGGCT
1 TTTCGGCA
63432358 TTTCGGCA
1 TTTCGGCA
63432366 TTTCGGC
1 TTTCGGC
63432373 TTTTGTCTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.08, C:0.21, G:0.26, T:0.46
Consensus pattern (8 bp):
TTTCGGCA
Found at i:63432361 original size:16 final size:16
Alignment explanation
Indices: 63432342--63432376 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
63432332 CTTTTCGGTA
*
63432342 TTTCGGCATTTTGGCT
1 TTTCGGCATTTCGGCT
63432358 TTTCGGCATTTCGGCT
1 TTTCGGCATTTCGGCT
63432374 TTT
1 TTT
63432377 GTCTATACAT
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:0.06, C:0.20, G:0.23, T:0.51
Consensus pattern (16 bp):
TTTCGGCATTTCGGCT
Found at i:63432363 original size:24 final size:23
Alignment explanation
Indices: 63432331--63432377 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
63432321 TAAACTTTCA
*
63432331 GCTTTTCGGTATTTCGGCATTTTG
1 GCTTTTCGGCATTTCGGC-TTTTG
63432355 GCTTTTCGGCATTTCGGCTTTTG
1 GCTTTTCGGCATTTCGGCTTTTG
63432378 TCTATACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.06, C:0.19, G:0.26, T:0.49
Consensus pattern (23 bp):
GCTTTTCGGCATTTCGGCTTTTG
Found at i:63436201 original size:27 final size:27
Alignment explanation
Indices: 63436160--63436213 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
63436150 GGTATCAGAA
*
63436160 AAGGATTAATCGGGGTTGGAGGTTGTT
1 AAGGATTAATCGGGGGTGGAGGTTGTT
*
63436187 AAGGATTAATTGGGGGTGGAGGTTGTT
1 AAGGATTAATCGGGGGTGGAGGTTGTT
63436214 GTACAGCCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.02, G:0.43, T:0.33
Consensus pattern (27 bp):
AAGGATTAATCGGGGGTGGAGGTTGTT
Found at i:63439292 original size:29 final size:29
Alignment explanation
Indices: 63439252--63439325 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
63439242 GGCCCAGTCT
* * **
63439252 CATTTATATGGCCTATCAGGCCCAATTCA
1 CATTAATATGGCCCATCAGAACCAATTCA
*
63439281 CATTCATATGGCCCATCAGAACCAATTCA
1 CATTAATATGGCCCATCAGAACCAATTCA
*
63439310 TATTAATATGGCCCAT
1 CATTAATATGGCCCAT
63439326 TAAGCCCAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (29 bp):
CATTAATATGGCCCATCAGAACCAATTCA
Found at i:63439334 original size:29 final size:29
Alignment explanation
Indices: 63439252--63439334 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 29
63439242 GGCCCAGTCT
* * * *
63439252 CATTTATATGGCCTATCAGGCCCAATTCA
1 CATTAATATGGCCCATTAAGCCCAATTCA
* * *
63439281 CATTCATATGGCCCA-TCAGAACCAATTCA
1 CATTAATATGGCCCATTAAG-CCCAATTCA
*
63439310 TATTAATATGGCCCATTAAGCCCAA
1 CATTAATATGGCCCATTAAGCCCAA
63439335 ATCCCCTTTA
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
28 1 0.02
29 38 0.90
30 3 0.07
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.28
Consensus pattern (29 bp):
CATTAATATGGCCCATTAAGCCCAATTCA
Found at i:63439428 original size:17 final size:18
Alignment explanation
Indices: 63439406--63439441 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
63439396 TTACCTATTA
*
63439406 TGGGCCCA-TCAGCCTAT
1 TGGGCCCATTAAGCCTAT
63439423 TGGGCCCATTAAGCCTAT
1 TGGGCCCATTAAGCCTAT
63439441 T
1 T
63439442 CTGGCCCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.19, C:0.31, G:0.22, T:0.28
Consensus pattern (18 bp):
TGGGCCCATTAAGCCTAT
Found at i:63441171 original size:43 final size:41
Alignment explanation
Indices: 63441109--63441222 Score: 112
Period size: 40 Copynumber: 2.8 Consensus size: 41
63441099 CATATATTGA
*
63441109 ACAATGCCAAC-GTCCCAGACGTGGTCTTACATGCTATCTCA-T
1 ACAATGCCAACTGTCCCAGACGTGGTCTTACATG-AAT-T-AGT
*
63441151 ATCAATGCC-ACTGTCCCAGACAG-GGTGTTACATGAATTAGT
1 A-CAATGCCAACTGTCCCAGAC-GTGGTCTTACATGAATTAGT
* *
63441192 ACAATGCCTA-TGTCCCAGACATGGTCTTACA
1 ACAATGCCAACTGTCCCAGACGTGGTCTTACA
63441223 CGTAACCACA
Statistics
Matches: 62, Mismatches: 4, Indels: 14
0.77 0.05 0.17
Matches are distributed among these distances:
40 26 0.42
41 4 0.06
42 5 0.08
43 26 0.42
44 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (41 bp):
ACAATGCCAACTGTCCCAGACGTGGTCTTACATGAATTAGT
Found at i:63441264 original size:45 final size:45
Alignment explanation
Indices: 63441193--63441325 Score: 160
Period size: 45 Copynumber: 3.0 Consensus size: 45
63441183 TGAATTAGTA
* * *
63441193 CAATGCCTATGTCCCAGACATGGTCTTACACGTAACCACATATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGAAAACACATATAT
* * *
63441238 -AGATGCCAATGTCCCAGACATAGTCTTTCATGAAAACACATATAT
1 CA-ATGCCAATGTCCCAGACATGGTCTTACACGAAAACACATATAT
* * * *
63441283 CAATGCCGATGTCCCAAACGTGGTCTTACATGAAAACACATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGAAAACACATAT
63441326 CAAAATTGTA
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
44 1 0.01
45 73 0.97
46 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (45 bp):
CAATGCCAATGTCCCAGACATGGTCTTACACGAAAACACATATAT
Found at i:63447206 original size:45 final size:45
Alignment explanation
Indices: 63447153--63447263 Score: 134
Period size: 45 Copynumber: 2.5 Consensus size: 45
63447143 TATGTTTTTT
*
63447153 GTGTAAGACCACGTCTAGGACGTTGGCATAAATATATGTGCTGTA-
1 GTGTAAGACCAAGTCTAGGACGTTGGCATAAATATATGTGCT-TAC
* * * * * *
63447198 GTTTAAGACCAAATTTGGGACGTTGGCATAGATATATGTGGTTAC
1 GTGTAAGACCAAGTCTAGGACGTTGGCATAAATATATGTGCTTAC
*
63447243 GTGTAAGACCATGTCTAGGAC
1 GTGTAAGACCAAGTCTAGGAC
63447264 ATCAGTATCG
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
44 2 0.04
45 51 0.96
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (45 bp):
GTGTAAGACCAAGTCTAGGACGTTGGCATAAATATATGTGCTTAC
Found at i:63453565 original size:47 final size:47
Alignment explanation
Indices: 63453508--63453633 Score: 153
Period size: 47 Copynumber: 2.7 Consensus size: 47
63453498 GCAAATAATA
* * * **
63453508 TTGATTTGGCTACAGGCCATGATATAGGTATTTTGAGAGGTGTTACC
1 TTGATTTGGCTACAGGCCATGGTATAGGTACTCTGAGAGAAGTTACC
** * *
63453555 TTGATTTGGCTATGGGCCATGGTATAGGTACTCTGGGATAAGTTACC
1 TTGATTTGGCTACAGGCCATGGTATAGGTACTCTGAGAGAAGTTACC
* *
63453602 TTTATTTGGCTACAGGCCATGGTATACGTACT
1 TTGATTTGGCTACAGGCCATGGTATAGGTACT
63453634 TATTAATTGT
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.36
Consensus pattern (47 bp):
TTGATTTGGCTACAGGCCATGGTATAGGTACTCTGAGAGAAGTTACC
Found at i:63456885 original size:41 final size:41
Alignment explanation
Indices: 63456768--63457014 Score: 309
Period size: 41 Copynumber: 6.0 Consensus size: 41
63456758 GTTCACATAG
* *
63456768 TATAATACACCGG--CAGAGCCTGCTAGGCAATAAGCCTAA
1 TATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGA
* * *
63456807 TATAAAACACCAGCATATAAAGCCTGCTAGGCAATAAGCCTGA
1 TATAATACACCGGC--ACAAAGCCTGCTAGGCAATAAGCCTGA
* * *
63456850 TATAATACACCGGCACAAAGCTTGCTAGGCGATAAGCTTGA
1 TATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGA
* * * *
63456891 TTTAATACACCGACACAAAGCCTGCTGGGCAATAAGCATGA
1 TATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGA
*
63456932 TTTAATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGA
1 TATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGA
* * *
63456973 TTTAATACACCGGCACAAAGCCTGGTAGGTAATAAAGCCTGA
1 TATAATACACCGGCACAAAGCCTGCTAGGCAAT-AAGCCTGA
63457015 ATATCACTGA
Statistics
Matches: 181, Mismatches: 22, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
39 11 0.06
41 127 0.70
42 8 0.04
43 35 0.19
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (41 bp):
TATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGA
Found at i:63461654 original size:16 final size:15
Alignment explanation
Indices: 63461635--63461665 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
63461625 GAAAAAAATT
63461635 AGAAAAATACAAAAAA
1 AGAAAAATA-AAAAAA
63461651 AGAAAAATAAAAAAA
1 AGAAAAATAAAAAAA
63461666 TTTATATGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.84, C:0.03, G:0.06, T:0.06
Consensus pattern (15 bp):
AGAAAAATAAAAAAA
Found at i:63473598 original size:15 final size:16
Alignment explanation
Indices: 63473575--63473606 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
63473565 TTTAATGCAT
63473575 ACTTAATTAAATGAAA
1 ACTTAATTAAATGAAA
63473591 ACTT-ATTAAATGAAA
1 ACTTAATTAAATGAAA
63473606 A
1 A
63473607 TAACACTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (16 bp):
ACTTAATTAAATGAAA
Found at i:63479600 original size:69 final size:69
Alignment explanation
Indices: 63479523--63479663 Score: 264
Period size: 69 Copynumber: 2.0 Consensus size: 69
63479513 CAATTTAACC
*
63479523 ACTTCGTTCACACTTCAATGAACTAAAAGCCATCTAAATCTCAAGGCATTCACAAGTGGCGAACC
1 ACTTCGTTCACACTTAAATGAACTAAAAGCCATCTAAATCTCAAGGCATTCACAAGTGGCGAACC
63479588 ATAT
66 ATAT
*
63479592 ACTTCGTTCACACTTAAATGAACTAAAAGCCATCTAAATCTCAAGGCATTCACAAGTGGTGAACC
1 ACTTCGTTCACACTTAAATGAACTAAAAGCCATCTAAATCTCAAGGCATTCACAAGTGGCGAACC
63479657 ATAT
66 ATAT
63479661 ACT
1 ACT
63479664 CACATATTTA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.26
Consensus pattern (69 bp):
ACTTCGTTCACACTTAAATGAACTAAAAGCCATCTAAATCTCAAGGCATTCACAAGTGGCGAACC
ATAT
Found at i:63483114 original size:50 final size:50
Alignment explanation
Indices: 63483048--63483172 Score: 241
Period size: 50 Copynumber: 2.5 Consensus size: 50
63483038 CGAGGCCGAC
*
63483048 GCCATGTTCCAAACATGGTCTTACACTGGCTCTCACATCTTCGTGTCGAT
1 GCCATGTCCCAAACATGGTCTTACACTGGCTCTCACATCTTCGTGTCGAT
63483098 GCCATGTCCCAAACATGGTCTTACACTGGCTCTCACATCTTCGTGTCGAT
1 GCCATGTCCCAAACATGGTCTTACACTGGCTCTCACATCTTCGTGTCGAT
63483148 GCCATGTCCCAAACATGGTCTTACA
1 GCCATGTCCCAAACATGGTCTTACA
63483173 TTGACACATC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.30
Consensus pattern (50 bp):
GCCATGTCCCAAACATGGTCTTACACTGGCTCTCACATCTTCGTGTCGAT
Found at i:63487020 original size:37 final size:37
Alignment explanation
Indices: 63486970--63487048 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
63486960 TTATTACGAA
* *
63486970 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
* *
63487007 GTCTTACCCGGACAAAATTTCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
63487044 GTCTT
1 GTCTT
63487049 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
Found at i:63487437 original size:49 final size:47
Alignment explanation
Indices: 63487167--63487466 Score: 447
Period size: 47 Copynumber: 6.3 Consensus size: 47
63487157 CCCTTCGGGA
* * * * * * *
63487167 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
63487214 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
63487261 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
63487308 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
63487355 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
63487402 CTTATCATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATC--ACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63487451 CTTATCACATATATAC
1 CTTATCACATATATAC
63487467 TGTCTTGGCT
Statistics
Matches: 231, Mismatches: 20, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
47 186 0.81
49 45 0.19
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:63494468 original size:50 final size:49
Alignment explanation
Indices: 63494311--63494488 Score: 168
Period size: 50 Copynumber: 3.7 Consensus size: 49
63494301 CGTGTAATAT
*
63494311 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCAAGT--
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTC-TCACATCAAGTGC
* * * * * *
63494358 AGATGCCAAGT-CCAAGACATGGTCTTACATTGACTATCGAAATCAAG-GC
1 CGATGCCATGTCCCAA-ACATGGTCTTACACTGGCTCTC-ACATCAAGTGC
* **
63494407 CGACGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACATCTCTGTGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACATC-AAGTGC
* * *
63494457 CGATGCCATGTCGCAGACATGGTTTTACACTG
1 CGATGCCATGTCCCAAACATGGTCTTACACTG
63494489 ACACATCTCA
Statistics
Matches: 103, Mismatches: 20, Indels: 13
0.76 0.15 0.10
Matches are distributed among these distances:
46 5 0.05
47 26 0.25
48 10 0.10
49 28 0.27
50 34 0.33
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (49 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACATCAAGTGC
Found at i:63494505 original size:96 final size:96
Alignment explanation
Indices: 63494315--63494543 Score: 226
Period size: 96 Copynumber: 2.4 Consensus size: 96
63494305 TAATATCGAT
*
63494315 GCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATC-AAGTAGATGCCAAGTCCAAGACAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTC-TCACATCTCAGTAGATGCCAAGTCCAAGACAT
*
63494378 GGTCTTACATTGACTATCGAAATCAAGGCCGA
65 GGTCTTACACTGACTATCGAAATCAAGGCCGA
* * * *
63494410 CGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACATCTCTGTGCCGATGCCATGTCGC-AGA
1 -GCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATCTCAGT--AGATGCCAAGTC-CAAGA
* **
63494474 CATGGTTTTACACTGAC-A-C-ATCTCATA-GCCGA
62 CATGGTCTTACACTGACTATCGAAATCA-AGGCCGA
** *
63494506 TACATGTCGCAGACAT-GTCTTACACTGGCT-T-ACATCTC
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATCTC
63494544 GAGGCGGATT
Statistics
Matches: 114, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
92 7 0.06
93 1 0.01
94 14 0.12
95 14 0.12
96 44 0.39
97 4 0.04
98 1 0.01
99 28 0.25
100 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (96 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATCTCAGTAGATGCCAAGTCCAAGACATG
GTCTTACACTGACTATCGAAATCAAGGCCGA
Found at i:63494541 original size:46 final size:48
Alignment explanation
Indices: 63494413--63494543 Score: 146
Period size: 50 Copynumber: 2.8 Consensus size: 48
63494403 AGGCCGACGC
* * * *
63494413 CATGTCCCAAACATGGTCTTACACTGGCTCTCACATCTCTGTGCCGATGC
1 CATGTCGCAGACATGGTCTTACACTGGCT-T-ACATCTCTGAGCCGATGA
* *
63494463 CATGTCGCAGACATGGTTTTACACTGAC--ACATCTCAT-AGCCGAT-A
1 CATGTCGCAGACATGGTCTTACACTGGCTTACATCTC-TGAGCCGATGA
63494508 CATGTCGCAGACAT-GTCTTACACTGGCTTACATCTC
1 CATGTCGCAGACATGGTCTTACACTGGCTTACATCTC
63494544 GAGGCGGATT
Statistics
Matches: 70, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
44 11 0.16
45 14 0.20
46 20 0.29
47 1 0.01
50 24 0.34
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.28
Consensus pattern (48 bp):
CATGTCGCAGACATGGTCTTACACTGGCTTACATCTCTGAGCCGATGA
Done.