Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 147 of 199
Found at i:43331014 original size:40 final size:40
Alignment explanation
Indices: 43330956--43331205 Score: 303
Period size: 40 Copynumber: 6.3 Consensus size: 40
43330946 ATTTGAATGA
*
43330956 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTT
* * **
43330996 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT--TGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTT
*
43331034 TATACTCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTT
1 TAT-C-CGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTT
* *
43331076 TATCCGGGTTAAGACCCAAAGGCAATTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTT
* * *
43331116 TATCCGGGCTAAGA-CCGAAGGCATTTGTGCAAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATTT
* * * *
43331155 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTT
43331195 TATCC-GGCTAA
1 TATCCGGGCTAA
43331206 ATTCCGAAGA
Statistics
Matches: 184, Mismatches: 19, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
38 4 0.02
39 40 0.22
40 135 0.73
41 1 0.01
42 4 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTT
Found at i:43331199 original size:119 final size:120
Alignment explanation
Indices: 43330955--43331205 Score: 382
Period size: 119 Copynumber: 2.1 Consensus size: 120
43330945 CATTTGAATG
* *
43330955 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCAAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
* * *
43331020 TTTGTGCGAGTTGCTATACTCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
66 TTTGTGCAAGTTGATATACTCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
43331075 TTATCCGGGTTAAGACCCAAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGA-CCGAAGGCA
1 ATATCCGGGCTAAGACCCAAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
* * *
43331139 TTTGTGCAAGTTGATATA-TCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
66 TTTGTGCAAGTTGATATACT-CGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
43331194 ATATCC-GGCTAA
1 ATATCCGGGCTAA
43331206 ATTCCGAAGA
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
118 6 0.05
119 61 0.52
120 51 0.43
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (120 bp):
ATATCCGGGCTAAGACCCAAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCAAGTTGATATACTCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:43347185 original size:30 final size:30
Alignment explanation
Indices: 43347149--43347312 Score: 145
Period size: 30 Copynumber: 5.5 Consensus size: 30
43347139 ATGGTTGTCA
* * *
43347149 CTATCCCTTATCATAGTTTGATAGCCGAAG
1 CTATCCCTTTTCATAATTTGATAGTCGAAG
* *
43347179 CTATCCCTTTTCATAATTTGATGGTCGTCA-
1 CTATCCCTTTTCATAATTTGATAGTCG-AAG
* *
43347209 CCATCCCTTTTCATAATTTGATAGTTGAAG
1 CTATCCCTTTTCATAATTTGATAGTCGAAG
* * *
43347239 TTATCCCTTTTCATAATTTGATGGTCGTCA-
1 CTATCCCTTTTCATAATTTGATAGTCG-AAG
* * * **
43347269 CCATTCATTTTCATAATCCGATAG-CTGAAG
1 CTATCCCTTTTCATAATTTGATAGTC-GAAG
43347299 CTATCCCTTTTCAT
1 CTATCCCTTTTCAT
43347313 TGGTCGATGA
Statistics
Matches: 104, Mismatches: 25, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
29 3 0.03
30 99 0.95
31 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (30 bp):
CTATCCCTTTTCATAATTTGATAGTCGAAG
Found at i:43347202 original size:60 final size:60
Alignment explanation
Indices: 43347138--43347312 Score: 251
Period size: 60 Copynumber: 2.9 Consensus size: 60
43347128 GTAAAATCAC
* * * * *
43347138 GATGGTTGTCACTATCCCTTATCATAGTTTGATAGCCGAAGCTATCCCTTTTCATAATTT
1 GATGGTCGTCACCATCCCTTTTCATAATTTGATAGCTGAAGCTATCCCTTTTCATAATTT
* *
43347198 GATGGTCGTCACCATCCCTTTTCATAATTTGATAGTTGAAGTTATCCCTTTTCATAATTT
1 GATGGTCGTCACCATCCCTTTTCATAATTTGATAGCTGAAGCTATCCCTTTTCATAATTT
* * **
43347258 GATGGTCGTCACCATTCATTTTCATAATCCGATAGCTGAAGCTATCCCTTTTCAT
1 GATGGTCGTCACCATCCCTTTTCATAATTTGATAGCTGAAGCTATCCCTTTTCAT
43347313 TGGTCGATGA
Statistics
Matches: 102, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 102 1.00
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.40
Consensus pattern (60 bp):
GATGGTCGTCACCATCCCTTTTCATAATTTGATAGCTGAAGCTATCCCTTTTCATAATTT
Found at i:43355319 original size:8 final size:8
Alignment explanation
Indices: 43355306--43355334 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
43355296 TATATATACT
43355306 AAATAATA
1 AAATAATA
43355314 AAATAATA
1 AAATAATA
43355322 AAATAATA
1 AAATAATA
43355330 AAATA
1 AAATA
43355335 TCATTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:43357346 original size:19 final size:20
Alignment explanation
Indices: 43357304--43357346 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
43357294 TCATGCTTTC
*
43357304 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
43357324 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
43357342 TATTC
1 TATTC
43357347 CACTTAGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:43363829 original size:27 final size:27
Alignment explanation
Indices: 43363798--43364005 Score: 226
Period size: 27 Copynumber: 7.7 Consensus size: 27
43363788 ATAATGGGCC
* *
43363798 TAAAATTATCGAAATACCCTTAATGGC
1 TAAAATTATCGAAATACCCTCAATGGG
*
43363825 TAAAATTATCGAAATACCCTCAAAGGG
1 TAAAATTATCGAAATACCCTCAATGGG
43363852 TAAAATTA-CTGAAATACCCTCAATGGG
1 TAAAATTATC-GAAATACCCTCAATGGG
*
43363879 TAAAATTATGGAAATACCCTCAATGGG
1 TAAAATTATCGAAATACCCTCAATGGG
* * **
43363906 TAAAATTACCAAAATACCCTTGATGGG
1 TAAAATTATCGAAATACCCTCAATGGG
*
43363933 TAAAATTACCGAAATACTCC-CGAA-GGG
1 TAAAATTATCGAAATAC-CCTC-AATGGG
* * *
43363960 TAAAATGA-CTGAAATACCCTCGATAGG
1 TAAAATTATC-GAAATACCCTCAATGGG
* *
43363987 TGAAATTACCGAAATACCC
1 TAAAATTATCGAAATACCC
43364006 CTAAAAGGTA
Statistics
Matches: 155, Mismatches: 18, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
26 5 0.03
27 146 0.94
28 4 0.03
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.24
Consensus pattern (27 bp):
TAAAATTATCGAAATACCCTCAATGGG
Found at i:43363934 original size:81 final size:80
Alignment explanation
Indices: 43363798--43364019 Score: 252
Period size: 81 Copynumber: 2.7 Consensus size: 80
43363788 ATAATGGGCC
* * * *
43363798 TAAAATTATCGAAATACCCTTAATGGCTAAAATTATCGAAATACCCTCAAAGGGTAAAATTACTG
1 TAAAATTAT-GAAATACCCTCAATGGGTAAAATTACCGAAATACCCTCAAAGGGTAAAATTACCG
43363863 AAATAC-CCTC-AATGGG
65 AAATACTCC-CGAA-GGG
* ** *
43363879 TAAAATTATGGAAATACCCTCAATGGGTAAAATTACCAAAATACCCTTGATGGGTAAAATTACCG
1 TAAAATTAT-GAAATACCCTCAATGGGTAAAATTACCGAAATACCCTCAAAGGGTAAAATTACCG
43363944 AAATACTCCCGAAGGG
65 AAATACTCCCGAAGGG
* * * * *
43363960 TAAAATGACTGAAATACCCTCGATAGGTGAAATTACCGAAATACCC-CTAAAAGGTAAAAT
1 TAAAATTA-TGAAATACCCTCAATGGGTAAAATTACCGAAATACCCTC-AAAGGGTAAAAT
43364020 GACTATTATA
Statistics
Matches: 119, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
81 114 0.96
82 5 0.04
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (80 bp):
TAAAATTATGAAATACCCTCAATGGGTAAAATTACCGAAATACCCTCAAAGGGTAAAATTACCGA
AATACTCCCGAAGGG
Found at i:43364225 original size:26 final size:26
Alignment explanation
Indices: 43364196--43364245 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
43364186 TTGCCACATA
*
43364196 TACTGTTACTTGCAGCCTTGCTGCGT
1 TACTGTTACTAGCAGCCTTGCTGCGT
*
43364222 TACTGTTACTAGCAGCTTTGCTGC
1 TACTGTTACTAGCAGCCTTGCTGC
43364246 ATCATTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.14, C:0.26, G:0.22, T:0.38
Consensus pattern (26 bp):
TACTGTTACTAGCAGCCTTGCTGCGT
Found at i:43371510 original size:16 final size:15
Alignment explanation
Indices: 43371483--43371516 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
43371473 ATAATTAGTA
*
43371483 TATAATTATATTTAT
1 TATAATTATATTAAT
43371498 TATAATATATATTAAT
1 TATAAT-TATATTAAT
43371514 TAT
1 TAT
43371517 TATGAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:43374909 original size:45 final size:45
Alignment explanation
Indices: 43374842--43374929 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
43374832 CTATTTTTGT
*
43374842 TATCATAAGAATAGTTGGGACTAATTTGAATGACATGTATACTGC
1 TATCATAAGAATAGTTGAGACTAATTTGAATGACATGTATACTGC
*
43374887 TATCATAAGAATAGTTGAGACTAATTTGAATGATATGTATACT
1 TATCATAAGAATAGTTGAGACTAATTTGAATGACATGTATACT
43374930 TAAGTAGCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (45 bp):
TATCATAAGAATAGTTGAGACTAATTTGAATGACATGTATACTGC
Found at i:43378304 original size:13 final size:13
Alignment explanation
Indices: 43378268--43378306 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
43378258 TTTAGTTTTG
*
43378268 TAATTTGAAAGCT
1 TAATTTGAAAACT
43378281 TAAGTTTTGAAAACT
1 TAA--TTTGAAAACT
43378296 TAATTTGAAAA
1 TAATTTGAAAA
43378307 TTTGAAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 11 0.48
15 12 0.52
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:43380001 original size:40 final size:40
Alignment explanation
Indices: 43379957--43380126 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
43379947 ACTAAGATCT
* *
43379957 GAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
* * *
43379997 GAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
* ** *
43380037 GAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
* * * *
43380077 GAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
43380116 GAAGGCATTTG
1 GAAGGCATTTG
43380127 AACGAGGAGC
Statistics
Matches: 114, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 32 0.28
40 82 0.72
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
Found at i:43380144 original size:79 final size:80
Alignment explanation
Indices: 43379977--43380159 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
43379967 GTGCGAGATA
* * *
43379977 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
43380042 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
43380057 TTAAATCCGGGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
43380121 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
43380136 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
43380160 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:43382463 original size:34 final size:34
Alignment explanation
Indices: 43382425--43382555 Score: 181
Period size: 34 Copynumber: 3.8 Consensus size: 34
43382415 TCACTTTTCT
*
43382425 TTTCTTGTAGGGAATCTCTCTTGTTCACACATCA
1 TTTCTTGTAGGGAATCTCTCCTGTTCACACATCA
** *
43382459 TTTCTTGTAGGGAATCTCTCCTGTTCACATTTTA
1 TTTCTTGTAGGGAATCTCTCCTGTTCACACATCA
* *
43382493 TTTTGTTGTAGGGAATCTCTCCTATTCACACATCA
1 -TTTCTTGTAGGGAATCTCTCCTGTTCACACATCA
* *
43382528 TTTCTTGCAGGGAATCTCTCCTATTCAC
1 TTTCTTGTAGGGAATCTCTCCTGTTCAC
43382556 GCATTATGTT
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
34 56 0.66
35 29 0.34
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.42
Consensus pattern (34 bp):
TTTCTTGTAGGGAATCTCTCCTGTTCACACATCA
Found at i:43382540 original size:69 final size:68
Alignment explanation
Indices: 43382411--43382555 Score: 227
Period size: 69 Copynumber: 2.1 Consensus size: 68
43382401 AATTACAGAA
* * * *
43382411 CTATTCACTTTTCTTTTCTTGTAGGGAATCTCTCTTGTTCACACATCATTTCTTGTAGGGAATCT
1 CTATTCACTTTTATTTTCTTGTAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATCT
43382476 CTC
66 CTC
* *
43382479 CTGTTCACATTTTATTTTGTTGTAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATC
1 CTATTCAC-TTTTATTTTCTTGTAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATC
43382544 TCTC
65 TCTC
43382548 CTATTCAC
1 CTATTCAC
43382556 GCATTATGTT
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
68 7 0.10
69 62 0.90
ACGTcount: A:0.19, C:0.24, G:0.13, T:0.43
Consensus pattern (68 bp):
CTATTCACTTTTATTTTCTTGTAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATCT
CTC
Found at i:43382568 original size:69 final size:69
Alignment explanation
Indices: 43382429--43382579 Score: 212
Period size: 69 Copynumber: 2.2 Consensus size: 69
43382419 TTTTCTTTTC
* * * * **
43382429 TTGTAGGGAATCTCTCTTGTTCACACATCATTTCTTGTAGGGAATCTCTCCTGTTCACATTTTAT
1 TTGTAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATCTCTCCTATTCACACATTAT
*
43382494 TTTG
66 GTTG
*
43382498 TTGTAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATCTCTCCTATTCACGCATTAT
1 TTGTAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATCTCTCCTATTCACACATTAT
43382563 GTTG
66 GTTG
**
43382567 TTACAGGGAATCT
1 TTGTAGGGAATCT
43382580 ATCCAGTTCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 72 1.00
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.40
Consensus pattern (69 bp):
TTGTAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATCTCTCCTATTCACACATTAT
GTTG
Found at i:43385402 original size:21 final size:22
Alignment explanation
Indices: 43385372--43385416 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
43385362 GAACAAATTG
43385372 TTGATTCTATTTCTTTCTTG-AT
1 TTGATTCTA-TTCTTTCTTGTAT
*
43385394 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCTTTCTTGTAT
43385415 TT
1 TT
43385417 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCTTTCTTGTAT
Found at i:43389606 original size:29 final size:29
Alignment explanation
Indices: 43389568--43389910 Score: 302
Period size: 29 Copynumber: 11.8 Consensus size: 29
43389558 ATCGATTAAA
* *
43389568 GAAAATGGATAGTTTCGACCATCGACTAT
1 GAAAAGGGATGGTTTCGACCATCGACTAT
** * *
43389597 GAAAAGGGATGGTAACGACCATCAACAAT
1 GAAAAGGGATGGTTTCGACCATCGACTAT
* *
43389626 GAAAAGGGATGGTGAT-GACCATCAACTAT
1 GAAAAGGGATGGT-TTCGACCATCGACTAT
** ** *
43389655 GAAAAGGGATGGTGACGACCATAAAATAT
1 GAAAAGGGATGGTTTCGACCATCGACTAT
* * *
43389684 GAAAAGGGATAGTTTCGACTATCAACTAT
1 GAAAAGGGATGGTTTCGACCATCGACTAT
* * *
43389713 GAAAAGGGATGGTGAT-GATCATCGAATAT
1 GAAAAGGGATGGT-TTCGACCATCGACTAT
* * * *
43389742 GAAAAGGGATAGTTTTGACTATTGACTAT
1 GAAAAGGGATGGTTTCGACCATCGACTAT
* * *
43389771 GAAAAGGGATGGTGAT-GACCATCAAATAT
1 GAAAAGGGATGGT-TTCGACCATCGACTAT
*
43389800 GAAAAGGGA-GAGTTTCGACTATCGACTAT
1 GAAAAGGGATG-GTTTCGACCATCGACTAT
* * *
43389829 GAAAAGGGATGGTGAT-GACCATTGATTAT
1 GAAAAGGGATGGT-TTCGACCATCGACTAT
* *
43389858 GAAAAGGGATGGTTCCGACCATCGAATAT
1 GAAAAGGGATGGTTTCGACCATCGACTAT
43389887 GAAAAGGGATGGTTAT-GACCATCG
1 GAAAAGGGATGGTT-TCGACCATCG
43389911 TTTAGCACAC
Statistics
Matches: 254, Mismatches: 49, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
28 3 0.01
29 246 0.97
30 5 0.02
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (29 bp):
GAAAAGGGATGGTTTCGACCATCGACTAT
Found at i:43389658 original size:58 final size:56
Alignment explanation
Indices: 43389568--43389909 Score: 346
Period size: 58 Copynumber: 5.9 Consensus size: 56
43389558 ATCGATTAAA
* * * * *
43389568 GAAAATGGATAGTTTCGACCATCGACTATGAAAAGGGATGGTAACGACCATCAACAAT
1 GAAAAGGGATGGTTT-GACCATCAACTATGAAAAGGGATGGTGATGACCATCAA-AAT
* * *
43389626 GAAAAGGGATGGTGATGACCATCAACTATGAAAAGGGATGGTGACGACCATAAAATAT
1 GAAAAGGGATGGT-TTGACCATCAACTATGAAAAGGGATGGTGATGACCATCAAA-AT
* * * *
43389684 GAAAAGGGATAGTTTCGACTATCAACTATGAAAAGGGATGGTGATGATCATCGAATAT
1 GAAAAGGGATGGTTT-GACCATCAACTATGAAAAGGGATGGTGATGACCATC-AAAAT
* * **
43389742 GAAAAGGGATAGTTTTGACTATTGACTATGAAAAGGGATGGTGATGACCATCAAATAT
1 GAAAAGGGAT-GGTTTGACCATCAACTATGAAAAGGGATGGTGATGACCATCAAA-AT
* * * **
43389800 GAAAAGGGA-GAGTTTCGACTATCGACTATGAAAAGGGATGGTGATGACCATTGATTAT
1 GAAAAGGGATG-GTTT-GACCATCAACTATGAAAAGGGATGGTGATGACCA-TCAAAAT
* *
43389858 GAAAAGGGATGGTTCCGACCATCGAA-TATGAAAAGGGATGGTTATGACCATC
1 GAAAAGGGATGGTT-TGACCATC-AACTATGAAAAGGGATGGTGATGACCATC
43389910 GTTTAGCACA
Statistics
Matches: 243, Mismatches: 29, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
56 1 0.00
57 8 0.03
58 224 0.92
59 10 0.04
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (56 bp):
GAAAAGGGATGGTTTGACCATCAACTATGAAAAGGGATGGTGATGACCATCAAAAT
Found at i:43389715 original size:87 final size:87
Alignment explanation
Indices: 43389584--43389909 Score: 358
Period size: 87 Copynumber: 3.7 Consensus size: 87
43389574 GGATAGTTTC
* * * *
43389584 GACCATCGACTATGAAAAGGGATGGTAACGACCATCAACAATGAAAAGGGATGGTGATGACCATC
1 GACCATTGAATATGAAAAGGGATGGTATCGACCATCAACTATGAAAAGGGATGGTGATGACCATC
*
43389649 AACTATGAAAAGGGATGGTGAC
66 AACTATGAAAAGGGATGGTGAT
** * * * *
43389671 GACCATAAAATATGAAAAGGGATAGTTTCGACTATCAACTATGAAAAGGGATGGTGATGATCATC
1 GACCATTGAATATGAAAAGGGATGGTATCGACCATCAACTATGAAAAGGGATGGTGATGACCATC
* **
43389736 GAA-TATGAAAAGGGATAGTTTT
66 -AACTATGAAAAGGGATGGTGAT
* * * * *
43389758 GACTATTGACTATGAAAAGGGATGGTGAT-GACCATCAAATATGAAAAGGGA-GAGT-TTCGACT
1 GACCATTGAATATGAAAAGGGATGGT-ATCGACCATCAACTATGAAAAGGGATG-GTGAT-GACC
*
43389820 ATCGACTATGAAAAGGGATGGTGAT
63 ATCAACTATGAAAAGGGATGGTGAT
* *
43389845 GACCATTGATTATGAAAAGGGATGGT-TCCGACCATCGAA-TATGAAAAGGGATGGTTATGACCA
1 GACCATTGAATATGAAAAGGGATGGTAT-CGACCATC-AACTATGAAAAGGGATGGTGATGACCA
43389908 TC
64 TC
43389910 GTTTAGCACA
Statistics
Matches: 197, Mismatches: 32, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
85 1 0.01
86 3 0.02
87 186 0.94
88 7 0.04
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.23
Consensus pattern (87 bp):
GACCATTGAATATGAAAAGGGATGGTATCGACCATCAACTATGAAAAGGGATGGTGATGACCATC
AACTATGAAAAGGGATGGTGAT
Found at i:43389772 original size:116 final size:116
Alignment explanation
Indices: 43389568--43389908 Score: 468
Period size: 116 Copynumber: 2.9 Consensus size: 116
43389558 ATCGATTAAA
* * * * *
43389568 GAAAATGGATAGTTTCGACCATCGACTATGAAAAGGGATGGTAACGACCATC-AACAATGAAAAG
1 GAAAAGGGATAGTTTCGACTATCGACTATGAAAAGGGATGGTGATGACCATCGAA-TATGAAAAG
* * *
43389632 GGATGGTGATGACCATCAACTATGAAAAGGGATGGTGACGACCATAAAATAT
65 GGATGGTTATGACCATCGACTATGAAAAGGGATGGTGATGACCATAAAATAT
* *
43389684 GAAAAGGGATAGTTTCGACTATCAACTATGAAAAGGGATGGTGATGATCATCGAATATGAAAAGG
1 GAAAAGGGATAGTTTCGACTATCGACTATGAAAAGGGATGGTGATGACCATCGAATATGAAAAGG
* * * * *
43389749 GATAGTTTTGACTATTGACTATGAAAAGGGATGGTGATGACCATCAAATAT
66 GATGGTTATGACCATCGACTATGAAAAGGGATGGTGATGACCATAAAATAT
* * *
43389800 GAAAAGGGAGAGTTTCGACTATCGACTATGAAAAGGGATGGTGATGACCATTGATTATGAAAAGG
1 GAAAAGGGATAGTTTCGACTATCGACTATGAAAAGGGATGGTGATGACCATCGAATATGAAAAGG
** * *
43389865 GATGGTTCCGACCATCGAATATGAAAAGGGATGGTTATGACCAT
66 GATGGTTATGACCATCGACTATGAAAAGGGATGGTGATGACCAT
43389909 CGTTTAGCAC
Statistics
Matches: 197, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
116 195 0.99
117 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (116 bp):
GAAAAGGGATAGTTTCGACTATCGACTATGAAAAGGGATGGTGATGACCATCGAATATGAAAAGG
GATGGTTATGACCATCGACTATGAAAAGGGATGGTGATGACCATAAAATAT
Found at i:43390049 original size:20 final size:20
Alignment explanation
Indices: 43390024--43390062 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
43390014 TTATGAAAGG
43390024 AACGATTTAAGTGATGTTAA
1 AACGATTTAAGTGATGTTAA
43390044 AACGATTTAAGTGATGTTA
1 AACGATTTAAGTGATGTTA
43390063 TGTTTATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (20 bp):
AACGATTTAAGTGATGTTAA
Found at i:43391274 original size:99 final size:99
Alignment explanation
Indices: 43391110--43391296 Score: 302
Period size: 99 Copynumber: 1.9 Consensus size: 99
43391100 TGAAAGCTAG
*
43391110 TCAGAGATCTATCACACTATCCATAGATTTTATCGATAGATTTTTATGCTTTGGTCACAGTTATA
1 TCAGAGATCCATCACACTATCCATAGATTTTATCGATAGATTTTTATGCTTTGGTCACAGTTATA
*
43391175 ATGACATGTATAGGTGTTTTATGTTGGAAGCTCA
66 ATAACATGTATAGGTGTTTTATGTTGGAAGCTCA
* * * * *
43391209 TCAGAGATCCATCACACTATCCATTGATTTTATCGGTATATTTTTATGCTTTGGTCGCGGTTATA
1 TCAGAGATCCATCACACTATCCATAGATTTTATCGATAGATTTTTATGCTTTGGTCACAGTTATA
*
43391274 ATAACATGTGTAGGTGTTTTATG
66 ATAACATGTATAGGTGTTTTATG
43391297 CTTGATGATA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
99 80 1.00
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (99 bp):
TCAGAGATCCATCACACTATCCATAGATTTTATCGATAGATTTTTATGCTTTGGTCACAGTTATA
ATAACATGTATAGGTGTTTTATGTTGGAAGCTCA
Found at i:43393555 original size:29 final size:30
Alignment explanation
Indices: 43393465--43393642 Score: 148
Period size: 30 Copynumber: 6.0 Consensus size: 30
43393455 CATGATTGTT
*
43393465 GTCACCATCCCTTTTCATAGTTCAATAGTC
1 GTCACCATCCCTTTTCATAGTTCGATAGTC
* * * *
43393495 G-AAGCTATCCCTTATCATAATTCGATAGTC
1 GTCA-CCATCCCTTTTCATAGTTCGATAGTC
* *
43393525 GTCACCATCCCTTTTCATTGTT-TATAGTC
1 GTCACCATCCCTTTTCATAGTTCGATAGTC
* * *
43393554 GTCACCATCCTTTTTCATTGTT-GATGGTC
1 GTCACCATCCCTTTTCATAGTTCGATAGTC
* * * *
43393583 GTCACCATCCGTTTTCACAATTCGATAGCC
1 GTCACCATCCCTTTTCATAGTTCGATAGTC
* * * *
43393613 G-AAGCTATCCCTTTTCGTATTTCGATAGTC
1 GTCA-CCATCCCTTTTCATAGTTCGATAGTC
43393643 AAAGCTATCC
Statistics
Matches: 117, Mismatches: 27, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
29 52 0.44
30 64 0.55
31 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.38
Consensus pattern (30 bp):
GTCACCATCCCTTTTCATAGTTCGATAGTC
Found at i:43393648 original size:30 final size:30
Alignment explanation
Indices: 43393603--43393660 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
43393593 GTTTTCACAA
*
43393603 TTCGATAGCCGAAGCTATCCCTTTTCGTAT
1 TTCGATAGCCAAAGCTATCCCTTTTCGTAT
*
43393633 TTCGATAGTCAAAGCTATCCCTTTTCGT
1 TTCGATAGCCAAAGCTATCCCTTTTCGT
43393661 TGGTCGACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.38
Consensus pattern (30 bp):
TTCGATAGCCAAAGCTATCCCTTTTCGTAT
Found at i:43396133 original size:138 final size:137
Alignment explanation
Indices: 43395880--43396150 Score: 434
Period size: 138 Copynumber: 2.0 Consensus size: 137
43395870 CCATCAAGCC
* * * *
43395880 ACTTGATGATCTCTTTCTTAACAAAATCCTTCATGATTGGATTCAACCTTCTTTTTTGTTCAATA
1 ACTTAATGATCTCTTTCTTAACAAAATCCTTCATGATTAGATTCAACCTCCTTTGTTGTTCAATA
* *
43395945 GAATTTCTATGGCAATCTTCCAGTAAAATTTTATGCATACAGAAAGTAGGGTTGATTCCCTTGAT
66 GAATTTCTATGGAAATCCTCCAGTAAAATTTTATGCATACAGAAAGTAGGG-TGATTCCCTTGAT
43396010 GTCGGAAA
130 GTCGGAAA
** *
43396018 ACTTAATGATCTCTTTCTTAACAACTTCTTTCATGATTAGATTCAACCTCCTTTGTTGTTCAATA
1 ACTTAATGATCTCTTTCTTAACAAAATCCTTCATGATTAGATTCAACCTCCTTTGTTGTTCAATA
* *
43396083 GAATTTCTATGGAAATCCTCCAGTAAAATTTTATGGATACAGATAGTAGGGTGATTCCCTTGATG
66 GAATTTCTATGGAAATCCTCCAGTAAAATTTTATGCATACAGAAAGTAGGGTGATTCCCTTGATG
43396148 TCG
131 TCG
43396151 ACAATTTTCA
Statistics
Matches: 122, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
137 17 0.14
138 105 0.86
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (137 bp):
ACTTAATGATCTCTTTCTTAACAAAATCCTTCATGATTAGATTCAACCTCCTTTGTTGTTCAATA
GAATTTCTATGGAAATCCTCCAGTAAAATTTTATGCATACAGAAAGTAGGGTGATTCCCTTGATG
TCGGAAA
Found at i:43407647 original size:18 final size:18
Alignment explanation
Indices: 43407624--43407658 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
43407614 CAAGAATAGT
43407624 AAGCATAAAAATAGTTTC
1 AAGCATAAAAATAGTTTC
*
43407642 AAGCATGAAAATAGTTT
1 AAGCATAAAAATAGTTT
43407659 GGCACATCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.29
Consensus pattern (18 bp):
AAGCATAAAAATAGTTTC
Found at i:43409823 original size:60 final size:60
Alignment explanation
Indices: 43409730--43409856 Score: 173
Period size: 60 Copynumber: 2.1 Consensus size: 60
43409720 AAGGAGGAAG
* * * **
43409730 TACTGGCAGTTTATCTGCATCATTGGTGGCTTGAACACATTGCTGGCAGCTTGTCTGCAC
1 TACTGGTAGTTTATCTGCATCATTCGTAGCTTGAACACATAACTGGCAGCTTGTCTGCAC
* * * *
43409790 TACTGGTAGTTTATCTGCATTATTCGTAGCTTGACCACATAACTGGCATCTTGTCTGCAT
1 TACTGGTAGTTTATCTGCATCATTCGTAGCTTGAACACATAACTGGCAGCTTGTCTGCAC
43409850 TACTGGT
1 TACTGGT
43409857 GGCTTGTCCA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (60 bp):
TACTGGTAGTTTATCTGCATCATTCGTAGCTTGAACACATAACTGGCAGCTTGTCTGCAC
Found at i:43412104 original size:27 final size:27
Alignment explanation
Indices: 43412074--43412251 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
43412064 ATATCGAGTC
* *
43412074 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
43412101 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
43412128 CGCACACTTAGTGCCACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
43412156 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
43412183 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
43412210 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
43412237 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43412252 GTACAATTTA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:43412213 original size:82 final size:81
Alignment explanation
Indices: 43412095--43412250 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
43412085 TGCTATATAA
*
43412095 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCCACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
43412160 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
43412177 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
43412241 CACTTAGTGC
65 CACTTAGTGC
43412251 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:43420282 original size:27 final size:27
Alignment explanation
Indices: 43420252--43420429 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
43420242 ATATCGAGTC
* *
43420252 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
43420279 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
43420306 CGCACACTTAGTGCCACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
43420334 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
43420361 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
43420388 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
43420415 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43420430 GTACAATTTA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:43420391 original size:82 final size:81
Alignment explanation
Indices: 43420273--43420428 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
43420263 TGCTATATAA
*
43420273 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCCACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
43420338 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
43420355 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
43420419 CACTTAGTGC
65 CACTTAGTGC
43420429 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:43435057 original size:40 final size:40
Alignment explanation
Indices: 43434959--43435301 Score: 476
Period size: 40 Copynumber: 8.6 Consensus size: 40
43434949 TCCTCGTTCA
* * * * *
43434959 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
43434998 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
43435038 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
43435078 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
43435118 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
43435158 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
43435198 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
43435238 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
43435278 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
43435302 CAGCATTCAA
Statistics
Matches: 280, Mismatches: 20, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
39 37 0.13
40 235 0.84
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:43443089 original size:40 final size:40
Alignment explanation
Indices: 43442991--43443333 Score: 476
Period size: 40 Copynumber: 8.6 Consensus size: 40
43442981 TCCTCGTTCA
* * * * *
43442991 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
43443030 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
43443070 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
43443110 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
43443150 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
43443190 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
43443230 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
43443270 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
43443310 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
43443334 CAGCATTCAA
Statistics
Matches: 280, Mismatches: 20, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
39 37 0.13
40 235 0.84
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:43445712 original size:63 final size:63
Alignment explanation
Indices: 43445623--43445780 Score: 199
Period size: 63 Copynumber: 2.5 Consensus size: 63
43445613 TGTCTCTGTG
* * * * *
43445623 GATGCCATGGAGTCTTTCATCAATGGTCTTACAATGATCCGCCACCCTAGCATACTATCATAT
1 GATGCCATGGAGTCTTTCATCCATGGTCTTACAATAATCCACCACACTAGCATACTATCATAC
* * * * * * * *
43445686 GATGTCATGCAGTCTTTCATCCATGGTCTTACAATAATCCACTATATTGGCGTGCTATCATAC
1 GATGCCATGGAGTCTTTCATCCATGGTCTTACAATAATCCACCACACTAGCATACTATCATAC
43445749 GATGCCATGGAGTCTTTCATCCATGGTCTTAC
1 GATGCCATGGAGTCTTTCATCCATGGTCTTAC
43445781 TCATTATACC
Statistics
Matches: 80, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 80 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (63 bp):
GATGCCATGGAGTCTTTCATCCATGGTCTTACAATAATCCACCACACTAGCATACTATCATAC
Found at i:43448508 original size:27 final size:27
Alignment explanation
Indices: 43448366--43448497 Score: 214
Period size: 27 Copynumber: 4.9 Consensus size: 27
43448356 CGGATGATTG
*
43448366 AAATACCCCCGAAGGGTAAAATGACCA
1 AAATACCCTCGAAGGGTAAAATGACCA
* *
43448393 AAATACCCT-AAAGGGTAAAATAACCA
1 AAATACCCTCGAAGGGTAAAATGACCA
43448419 AAATACCCTCGAAGGGTAAAATGACCA
1 AAATACCCTCGAAGGGTAAAATGACCA
43448446 AAATACCCTCGAAGGGTAAAATGACCA
1 AAATACCCTCGAAGGGTAAAATGACCA
43448473 AAATACCCTCGTAA-GGTAAAATGAC
1 AAATACCCTCG-AAGGGTAAAATGAC
43448498 TGATATACCC
Statistics
Matches: 98, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
26 24 0.24
27 72 0.73
28 2 0.02
ACGTcount: A:0.46, C:0.22, G:0.17, T:0.15
Consensus pattern (27 bp):
AAATACCCTCGAAGGGTAAAATGACCA
Found at i:43455158 original size:12 final size:12
Alignment explanation
Indices: 43455141--43455165 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43455131 CCTTATACAC
43455141 ATTACACATTGA
1 ATTACACATTGA
43455153 ATTACACATTGA
1 ATTACACATTGA
43455165 A
1 A
43455166 ATCAGATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
ATTACACATTGA
Found at i:43457188 original size:18 final size:18
Alignment explanation
Indices: 43457167--43457205 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
43457157 AAAGGTAGAC
43457167 AGAAAAAGA-AATCGAAAA
1 AGAAAAAGAGAAT-GAAAA
43457185 AGAAAAAGAGAATGAAAA
1 AGAAAAAGAGAATGAAAA
43457203 AGA
1 AGA
43457206 GCAAAAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.72, C:0.03, G:0.21, T:0.05
Consensus pattern (18 bp):
AGAAAAAGAGAATGAAAA
Found at i:43459014 original size:33 final size:34
Alignment explanation
Indices: 43458977--43459048 Score: 110
Period size: 33 Copynumber: 2.1 Consensus size: 34
43458967 GAGTTAGTTT
*
43458977 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAG-A
1 ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
* *
43459010 ATTAATTTTAGTTCAACTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
43459044 ATTAA
1 ATTAA
43459049 TTTGTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 29 0.83
34 6 0.17
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (34 bp):
ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
Found at i:43460154 original size:12 final size:12
Alignment explanation
Indices: 43460137--43460161 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43460127 CTTTATACAC
43460137 ATTACACATTGA
1 ATTACACATTGA
43460149 ATTACACATTGA
1 ATTACACATTGA
43460161 A
1 A
43460162 ATCAGATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
ATTACACATTGA
Found at i:43462187 original size:27 final size:27
Alignment explanation
Indices: 43462148--43462322 Score: 228
Period size: 27 Copynumber: 6.5 Consensus size: 27
43462138 TCGTGGGCGG
*
43462148 ATGACTGAGATA-CCCTCGAAGGGTAAA
1 ATGACTGAAATACCCCT-GAAGGGTAAA
* *
43462175 ATGACCGAAATACCCTTGAAGGGTAAA
1 ATGACTGAAATACCCCTGAAGGGTAAA
* * *
43462202 ATAACTAAAATACCCCTAAAGGGTAAA
1 ATGACTGAAATACCCCTGAAGGGTAAA
*
43462229 ATGACTGAAATACCCCTAAAGGGTAAA
1 ATGACTGAAATACCCCTGAAGGGTAAA
43462256 ATGACTGAAATACCCCTGAAGGGTAAA
1 ATGACTGAAATACCCCTGAAGGGTAAA
* *
43462283 ATGA-TCGAAATACCCCCGTAGGGTAAA
1 ATGACT-GAAATACCCCTGAAGGGTAAA
*
43462310 ATGACTGATATAC
1 ATGACTGAAATAC
43462323 ACCTAAGAGT
Statistics
Matches: 131, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.01
27 126 0.96
28 4 0.03
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.19
Consensus pattern (27 bp):
ATGACTGAAATACCCCTGAAGGGTAAA
Found at i:43462629 original size:33 final size:33
Alignment explanation
Indices: 43462578--43462643 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
43462568 GCATTATTAC
* * *
43462578 ACTGTTACTGTATTGGGCT-AAGGCCCACACTGT
1 ACTGATACTGAATAGGGCTCAA-GCCCACACTGT
*
43462611 ACTGATACTGAATAGGGCTCAAGCCCAGACTGT
1 ACTGATACTGAATAGGGCTCAAGCCCACACTGT
43462644 TACTACATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (33 bp):
ACTGATACTGAATAGGGCTCAAGCCCACACTGT
Found at i:43464809 original size:12 final size:12
Alignment explanation
Indices: 43464792--43464817 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
43464782 TTTTATTTTC
43464792 TTTTCAATTCTT
1 TTTTCAATTCTT
43464804 TTTTCAATTCTT
1 TTTTCAATTCTT
43464816 TT
1 TT
43464818 CCAAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTCAATTCTT
Found at i:43465804 original size:27 final size:27
Alignment explanation
Indices: 43465773--43466025 Score: 223
Period size: 27 Copynumber: 9.4 Consensus size: 27
43465763 CTAATAGATG
43465773 AAAATGACTGAAATACCCCTATAGGGT
1 AAAATGACTGAAATACCCCTATAGGGT
*
43465800 AAAATGACTGAAATACCCCCATAGGGT
1 AAAATGACTGAAATACCCCTATAGGGT
* *
43465827 AAAATAACTTAAATA-CCCTCATAGGGT
1 AAAATGACTGAAATACCCCT-ATAGGGT
* ** *
43465854 AAAATGACTGAAATGCCCAAATAGGAT
1 AAAATGACTGAAATACCCCTATAGGGT
*
43465881 AAAATAACTGAAATA-CCCTCATAGGGT
1 AAAATGACTGAAATACCCCT-ATAGGGT
* * *
43465908 AACATGATTGAAATACCCCCATAGGGT
1 AAAATGACTGAAATACCCCTATAGGGT
* * *
43465935 AACATGA-TCGAAATAACCCC-ATAAGAT
1 AAAATGACT-GAAAT-ACCCCTATAGGGT
* *
43465962 AAAATGA-TCAAAATACCCCTATAGTGT
1 AAAATGACT-GAAATACCCCTATAGGGT
* **
43465989 AAAATAACTGTTATACCCC--TAGGAGAT
1 AAAATGACTGAAATACCCCTATAGG-G-T
43466016 AAAATGACTG
1 AAAATGACTG
43466026 TTATGGCCTT
Statistics
Matches: 184, Mismatches: 32, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
25 3 0.02
26 12 0.07
27 158 0.86
28 11 0.06
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.22
Consensus pattern (27 bp):
AAAATGACTGAAATACCCCTATAGGGT
Found at i:43465851 original size:54 final size:53
Alignment explanation
Indices: 43465773--43466025 Score: 260
Period size: 54 Copynumber: 4.7 Consensus size: 53
43465763 CTAATAGATG
*
43465773 AAAATGACTGAAATACCCCTATAGGGTAAAATGACTGAAATACCCCCATAGGGT
1 AAAATAACTGAAATACCCC-ATAGGGTAAAATGACTGAAATACCCCCATAGGGT
* * ** *
43465827 AAAATAACTTAAATACCCTCATAGGGTAAAATGACTGAAATGCCCAAATAGGAT
1 AAAATAACTGAAATACCC-CATAGGGTAAAATGACTGAAATACCCCCATAGGGT
* *
43465881 AAAATAACTGAAATACCCTCATAGGGTAACATGATTGAAATACCCCCATAGGGT
1 AAAATAACTGAAATACCC-CATAGGGTAAAATGACTGAAATACCCCCATAGGGT
* * * * * * *
43465935 AACATGA-TCGAAATAACCCCATAAGATAAAATGA-TCAAAATACCCCTATAGTGT
1 AAAATAACT-GAAAT-ACCCCATAGGGTAAAATGACT-GAAATACCCCCATAGGGT
**
43465989 AAAATAACTGTTATACCCC-TAGGAGATAAAATGACTG
1 AAAATAACTGAAATACCCCATAGG-G-TAAAATGACTG
43466026 TTATGGCCTT
Statistics
Matches: 163, Mismatches: 28, Indels: 16
0.79 0.14 0.08
Matches are distributed among these distances:
52 3 0.02
53 7 0.04
54 146 0.90
55 7 0.04
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.22
Consensus pattern (53 bp):
AAAATAACTGAAATACCCCATAGGGTAAAATGACTGAAATACCCCCATAGGGT
Found at i:43465866 original size:81 final size:81
Alignment explanation
Indices: 43465773--43465997 Score: 260
Period size: 81 Copynumber: 2.8 Consensus size: 81
43465763 CTAATAGATG
*
43465773 AAAATGACTGAAATACCCCTATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATAACTT-
1 AAAATGACTGAAATACCCC-ATAGGATAAAATGACTGAAATACCCCCATAGGGTAAAATAACTTG
*
43465837 AAATACCCTCATAGGGT
65 AAATACCCCCATAGGGT
* * * * * *
43465854 AAAATGACTGAAATGCCCAAATAGGATAAAATAACTGAAATACCCTCATAGGGTAACATGA-TTG
1 AAAATGACTGAAATACCC-CATAGGATAAAATGACTGAAATACCCCCATAGGGTAAAATAACTTG
43465918 AAATACCCCCATAGGGT
65 AAATACCCCCATAGGGT
* * * * *
43465935 AACATGA-TCGAAATAACCCCATAAGATAAAATGA-TCAAAATACCCCTATAGTGTAAAATAACT
1 AAAATGACT-GAAAT-ACCCCATAGGATAAAATGACT-GAAATACCCCCATAGGGTAAAATAACT
43465998 GTTATACCCC
Statistics
Matches: 119, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
80 4 0.03
81 111 0.93
82 4 0.03
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (81 bp):
AAAATGACTGAAATACCCCATAGGATAAAATGACTGAAATACCCCCATAGGGTAAAATAACTTGA
AATACCCCCATAGGGT
Found at i:43466435 original size:28 final size:29
Alignment explanation
Indices: 43466386--43466530 Score: 165
Period size: 28 Copynumber: 5.2 Consensus size: 29
43466376 TATTGCACTG
* *
43466386 CACTG-TTATTGTATTGGGCTAAGGCTCA
1 CACTGATTACTGTATTGGGCTAAGGCCCA
* * *
43466414 CATTGATT-CTGTATTGGACTAAGCCCCA
1 CACTGATTACTGTATTGGGCTAAGGCCCA
* * *
43466442 CGCTG-TTACTGTATTAGACTAAGGCCCA
1 CACTGATTACTGTATTGGGCTAAGGCCCA
*
43466470 CACTGATT-CTGTATTGGGCTAAGGCCTA
1 CACTGATTACTGTATTGGGCTAAGGCCCA
*
43466498 CACT-ATTACTGTATTGGGCTAAGGACCA
1 CACTGATTACTGTATTGGGCTAAGGCCCA
43466526 CACTG
1 CACTG
43466531 TACTGTCACT
Statistics
Matches: 97, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
27 5 0.05
28 88 0.91
29 4 0.04
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (29 bp):
CACTGATTACTGTATTGGGCTAAGGCCCA
Found at i:43466477 original size:56 final size:56
Alignment explanation
Indices: 43466386--43466530 Score: 191
Period size: 56 Copynumber: 2.6 Consensus size: 56
43466376 TATTGCACTG
* * *
43466386 CACTGTTATTGTATTGGGCTAAGGCTCACATTGATTCTGTATTGGACTAAGCCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCACACTGATTCTGTATTGGACTAAGCCCCA
* * * * * *
43466442 CGCTGTTACTGTATTAGACTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCTA
1 CACTGTTACTGTATTGGGCTAAGGCCCACACTGATTCTGTATTGGACTAAGCCCCA
* *
43466498 CACTATTACTGTATTGGGCTAAGGACCACACTG
1 CACTGTTACTGTATTGGGCTAAGGCCCACACTG
43466531 TACTGTCACT
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
56 75 1.00
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (56 bp):
CACTGTTACTGTATTGGGCTAAGGCCCACACTGATTCTGTATTGGACTAAGCCCCA
Found at i:43473570 original size:16 final size:16
Alignment explanation
Indices: 43473549--43473605 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
43473539 TCCTATAGTG
43473549 TCACAATTTATAGTTT
1 TCACAATTTATAGTTT
*
43473565 TCACAATTCTATTG-TT
1 TCACAATT-TATAGTTT
*
43473581 TCA-AAGTCTATAGTTT
1 TCACAA-TTTATAGTTT
43473597 TCAC-ATTTA
1 TCACAATTTA
43473606 AACAACACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
15 9 0.27
16 20 0.61
17 4 0.12
ACGTcount: A:0.30, C:0.16, G:0.07, T:0.47
Consensus pattern (16 bp):
TCACAATTTATAGTTT
Found at i:43473596 original size:15 final size:16
Alignment explanation
Indices: 43473541--43473601 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
43473531 CTATAGTCTC
*
43473541 CTATAGTGTCACAA-T
1 CTATAGTTTCACAAGT
* *
43473556 TTATAGTTTTCACAATT
1 CTATAG-TTTCACAAGT
*
43473573 CTATTGTTTCA-AAGT
1 CTATAGTTTCACAAGT
43473588 CTATAGTTTTCACA
1 CTATAG-TTTCACA
43473602 TTTAAACAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
15 13 0.36
16 17 0.47
17 6 0.17
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (16 bp):
CTATAGTTTCACAAGT
Found at i:43475066 original size:20 final size:20
Alignment explanation
Indices: 43475043--43475084 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
43475033 CATAAATTAA
* *
43475043 TTAATTAAATAAAATTTTAT
1 TTAAGTAAATAAAATTATAT
43475063 TTAAGTAAATAAAATTATAT
1 TTAAGTAAATAAAATTATAT
43475083 TT
1 TT
43475085 CACTTCAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TTAAGTAAATAAAATTATAT
Found at i:43491240 original size:43 final size:43
Alignment explanation
Indices: 43491190--43491276 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
43491180 CCATAAGTTA
*
43491190 ACCTATACATGTCATTATAACCTTGATTACGACATCAAAATCT
1 ACCTATACATGTCATTATAACCTTGATCACGACATCAAAATCT
43491233 ACCTATACATGTCATTATAACCTTGATCACGACATCAAAATCT
1 ACCTATACATGTCATTATAACCTTGATCACGACATCAAAATCT
43491276 A
1 A
43491277 AAAATATAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (43 bp):
ACCTATACATGTCATTATAACCTTGATCACGACATCAAAATCT
Found at i:43494154 original size:30 final size:30
Alignment explanation
Indices: 43494095--43494154 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
43494085 TCTAAATGGA
* * *
43494095 ATTAAGCTGAATTTGAGCTGATTCGAGCTC
1 ATTAAGCTGAAATGGAGCTAATTCGAGCTC
43494125 ATTAAGCTGAAATGGAGCTTAATTC-AGCTC
1 ATTAAGCTGAAATGGAGC-TAATTCGAGCTC
43494155 GCAACAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (30 bp):
ATTAAGCTGAAATGGAGCTAATTCGAGCTC
Found at i:43501241 original size:20 final size:22
Alignment explanation
Indices: 43501184--43501243 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 22
43501174 TTGAGTAACA
* *
43501184 AAAT-CATACCAAGGGCATCAT
1 AAATGCATAACAAGGGCACCAT
*
43501205 AAATGCATAACAGGGGCACCA-
1 AAATGCATAACAAGGGCACCAT
*
43501226 AAGTGCA-AACAAGGGCAC
1 AAATGCATAACAAGGGCAC
43501244 TGAAGTTCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 10 0.30
21 10 0.30
22 13 0.39
ACGTcount: A:0.43, C:0.23, G:0.22, T:0.12
Consensus pattern (22 bp):
AAATGCATAACAAGGGCACCAT
Found at i:43508920 original size:14 final size:14
Alignment explanation
Indices: 43508901--43508947 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
43508891 AAATGCAAAG
43508901 TATGAAGTGAAATA
1 TATGAAGTGAAATA
* * *
43508915 TATGAAATG-AGTT
1 TATGAAGTGAAATA
*
43508928 TATGAAGTGAAATG
1 TATGAAGTGAAATA
43508942 TATGAA
1 TATGAA
43508948 ATGAGTTTAG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (14 bp):
TATGAAGTGAAATA
Found at i:43508932 original size:27 final size:27
Alignment explanation
Indices: 43508901--43508956 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
43508891 AAATGCAAAG
43508901 TATGAAGTGAAATATATGAAATGAGTT
1 TATGAAGTGAAATATATGAAATGAGTT
*
43508928 TATGAAGTGAAATGTATGAAATGAGTT
1 TATGAAGTGAAATATATGAAATGAGTT
43508955 TA
1 TA
43508957 GCAACAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.34
Consensus pattern (27 bp):
TATGAAGTGAAATATATGAAATGAGTT
Found at i:43510463 original size:20 final size:20
Alignment explanation
Indices: 43510438--43510489 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
43510428 AATCAAGTGC
*
43510438 AAATGATTTTAACCATGTCA
1 AAATGATTTTAACCAAGTCA
* *
43510458 AAATGATTTCAATCAAGTCA
1 AAATGATTTTAACCAAGTCA
*
43510478 AAATCATTTTAA
1 AAATGATTTTAA
43510490 AATAATTTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (20 bp):
AAATGATTTTAACCAAGTCA
Found at i:43516957 original size:33 final size:33
Alignment explanation
Indices: 43516900--43516962 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
43516890 GTTTAGTTGG
*
43516900 GCCTTAGCCCATTACAGTACCAGTATCAGTGTA
1 GCCTTAGCCCATTACAGTACCAGTAACAGTGTA
*
43516933 GCCTTAGTCCATTACAGTGA-CAGTAACAGT
1 GCCTTAGCCCATTACAGT-ACCAGTAACAGT
43516963 TTAGAAATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (33 bp):
GCCTTAGCCCATTACAGTACCAGTAACAGTGTA
Found at i:43522341 original size:50 final size:50
Alignment explanation
Indices: 43522229--43522475 Score: 219
Period size: 50 Copynumber: 4.8 Consensus size: 50
43522219 ATTTGGGTAA
* *
43522229 AGAGATCCCATGGAAGACCATGTCTGGGACATGGCTTTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGGAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATG
* *
43522285 AGAGGTCCCATGGCAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGGAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
43522335 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGGAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * *
43522385 AGAACTCCCATGTAAGACCATATTTGGGATATGGCATTGGCA--GTACATG
1 AGAGGTCCCATGGAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * ** *
43522434 AAACATCCCATGTAAGACCATGTCTGTAACATGGCTTTGGCA
1 AGAGGTCCCATGGAAGACCATGTCTGGGACATGGCATTGGCA
43522476 TGTTATTATC
Statistics
Matches: 164, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
48 1 0.01
49 37 0.23
50 82 0.50
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGGAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:43525360 original size:27 final size:27
Alignment explanation
Indices: 43525329--43525528 Score: 133
Period size: 27 Copynumber: 7.4 Consensus size: 27
43525319 AAATATTGTT
43525329 AAATGACTGAATTACCCCCAGAGGGTA
1 AAATGACTGAATTACCCCCAGAGGGTA
* *
43525356 AAATGA-TCGAATTACCCTC-GAAGGTTA
1 AAATGACT-GAATTACCCCCAG-AGGGTA
* * *
43525383 AAATGACTGAAATACCCTACA-ATGGTA
1 AAATGACTGAATTACCC-CCAGAGGGTA
* **
43525410 AATTGACCAAATTACCCCC-GAAGGGTA
1 AAATGACTGAATTACCCCCAG-AGGGTA
* * * *
43525437 AAATGACCGAAATACCCCTAAAGGGTA
1 AAATGACTGAATTACCCCCAGAGGGTA
* * *
43525464 AAATGA-TGAAATTGCCCCTATAGGGTA
1 AAATGACTG-AATTACCCCCAGAGGGTA
* * *
43525491 AAATGACCGTAA-TAACCCCATAGGGTA
1 AAATGACTG-AATTACCCCCAGAGGGTA
*
43525518 AAATGAATGAA
1 AAATGACTGAA
43525529 ATACACGTGT
Statistics
Matches: 135, Mismatches: 28, Indels: 21
0.73 0.15 0.11
Matches are distributed among these distances:
26 6 0.04
27 124 0.92
28 5 0.04
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (27 bp):
AAATGACTGAATTACCCCCAGAGGGTA
Found at i:43525410 original size:54 final size:54
Alignment explanation
Indices: 43525329--43525523 Score: 184
Period size: 54 Copynumber: 3.6 Consensus size: 54
43525319 AAATATTGTT
* * * * *
43525329 AAATGACTGAATTACCC-CCAGAGGGTAAAATGATCGAATTACCCTCGAAGGTTA
1 AAATGACTGAAATACCCTACA-AGGGTAAAATGATCAAATTACCCCCGAAGGGTA
* * *
43525383 AAATGACTGAAATACCCTACAATGGTAAATTGACCAAATTACCCCCGAAGGGTA
1 AAATGACTGAAATACCCTACAAGGGTAAAATGATCAAATTACCCCCGAAGGGTA
* * * *
43525437 AAATGACCGAAATACCCCTA-AAGGGTAAAATGATGAAATT-GCCCCTATAGGGTA
1 AAATGACTGAAATA-CCCTACAAGGGTAAAATGATCAAATTACCCCCGA-AGGGTA
* *
43525491 AAATGACCGTAATAACCC--CATAGGGTAAAATGA
1 AAATGACTGAAAT-ACCCTACA-AGGGTAAAATGA
43525524 ATGAAATACA
Statistics
Matches: 119, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
53 6 0.05
54 105 0.88
55 8 0.07
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.21
Consensus pattern (54 bp):
AAATGACTGAAATACCCTACAAGGGTAAAATGATCAAATTACCCCCGAAGGGTA
Found at i:43525491 original size:81 final size:83
Alignment explanation
Indices: 43525329--43525532 Score: 199
Period size: 81 Copynumber: 2.5 Consensus size: 83
43525319 AAATATTGTT
* * * * *
43525329 AAATGACTG-AATTACCCCCAGAGGGTAAAATGATCGAATTA-CCCTCGAAGGTTAAAATGACTG
1 AAATGACCGAAATTACCCCCAGAGGGTAAAATGAACGAAATACCCCTCAAAGGGTAAAATGACTG
*
43525392 AAATACCCTACAATGGTA
66 AAATACCCTACAAGGGTA
* *
43525410 AATTGACC-AAATTACCCCC-GAAGGGTAAAATGACCGAAATACCCCT-AAAGGGTAAAATGA-T
1 AAATGACCGAAATTACCCCCAG-AGGGTAAAATGAACGAAATACCCCTCAAAGGGTAAAATGACT
* *
43525471 GAAATTGCCCCTA-TAGGGTA
65 GAAA-T-ACCCTACAAGGGTA
* * * *
43525491 AAATGACCGTAA-TAACCCCATAGGGTAAAATGAATGAAATAC
1 AAATGACCGAAATTACCCCCAGAGGGTAAAATGAACGAAATAC
43525533 ACGTGTAAGG
Statistics
Matches: 101, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
80 6 0.06
81 84 0.83
82 11 0.11
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.21
Consensus pattern (83 bp):
AAATGACCGAAATTACCCCCAGAGGGTAAAATGAACGAAATACCCCTCAAAGGGTAAAATGACTG
AAATACCCTACAAGGGTA
Found at i:43525545 original size:54 final size:54
Alignment explanation
Indices: 43525341--43525563 Score: 161
Period size: 54 Copynumber: 4.1 Consensus size: 54
43525331 ATGACTGAAT
* * ** * *
43525341 TACCCCCAGAGGGTAAAATGATCG-AATTAC-CCTCGAAGGTTAAAATGACTGAAA
1 TACCCCTAAAGGGTAAAATGAT-GAAATTACACCTATAAGG-TAAAATGACCGTAA
* * ** * * * *
43525395 TA-CCCTACAATGGTAAATTGACCAAATTACCCCCGA-AGGGTAAAATGACCGAAA
1 TACCCCTA-AAGGGTAAAATGATGAAATTA-CACCTATAAGGTAAAATGACCGTAA
* * *
43525449 TACCCCTAAAGGGTAAAATGATGAAATTGCCCCTATAGGGTAAAATGACCGTAA
1 TACCCCTAAAGGGTAAAATGATGAAATTACACCTATAAGGTAAAATGACCGTAA
* * *
43525503 TAACCCC-ATAGGGTAAAATGAATGAAA-TACACGTGTAAGGTAAAATGACCGTAA
1 T-ACCCCTAAAGGGTAAAATG-ATGAAATTACACCTATAAGGTAAAATGACCGTAA
*
43525557 TGCCCCT
1 TACCCCT
43525564 CGTGGGTAAA
Statistics
Matches: 136, Mismatches: 24, Indels: 18
0.76 0.13 0.10
Matches are distributed among these distances:
53 13 0.10
54 101 0.74
55 20 0.15
56 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (54 bp):
TACCCCTAAAGGGTAAAATGATGAAATTACACCTATAAGGTAAAATGACCGTAA
Found at i:43525641 original size:24 final size:24
Alignment explanation
Indices: 43525570--43525678 Score: 94
Period size: 24 Copynumber: 4.5 Consensus size: 24
43525560 CCCTCGTGGG
* * *
43525570 TAAATGATTGATTTGTCCATGATG
1 TAAATGACTGATTTGTCTATGATT
* * *
43525594 TATATGACTGATTTGGCTTTGATT
1 TAAATGACTGATTTGTCTATGATT
43525618 TAAATGACTGATTTGTCTATGATT
1 TAAATGACTGATTTGTCTATGATT
*** * *
43525642 GGTATGA-TCGATTTGCCTGTGATT
1 TAAATGACT-GATTTGTCTATGATT
*
43525666 TGAATGACTGATT
1 TAAATGACTGATT
43525679 CTGAGTATTG
Statistics
Matches: 67, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
23 1 0.01
24 65 0.97
25 1 0.01
ACGTcount: A:0.25, C:0.09, G:0.22, T:0.44
Consensus pattern (24 bp):
TAAATGACTGATTTGTCTATGATT
Found at i:43525648 original size:48 final size:48
Alignment explanation
Indices: 43525570--43525678 Score: 132
Period size: 48 Copynumber: 2.3 Consensus size: 48
43525560 CCCTCGTGGG
* * *
43525570 TAAATGATTGATTTGTCCATGATGTATATGA-CTGATTTGGCTTTGATT
1 TAAATGACTGATTTGTCCATGATGTATATGATC-GATTTGCCTGTGATT
* *
43525618 TAAATGACTGATTTGTCTATGAT-TGGTATGATCGATTTGCCTGTGATT
1 TAAATGACTGATTTGTCCATGATGT-ATATGATCGATTTGCCTGTGATT
*
43525666 TGAATGACTGATT
1 TAAATGACTGATT
43525679 CTGAGTATTG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
47 1 0.02
48 51 0.96
49 1 0.02
ACGTcount: A:0.25, C:0.09, G:0.22, T:0.44
Consensus pattern (48 bp):
TAAATGACTGATTTGTCCATGATGTATATGATCGATTTGCCTGTGATT
Found at i:43525736 original size:31 final size:31
Alignment explanation
Indices: 43525701--43525765 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
43525691 TTCTGCATAC
43525701 ATGACATACTGCATGGGATTTGGATACTGTT
1 ATGACATACTGCATGGGATTTGGATACTGTT
43525732 ATGACATACTGCATGGGATTTGGATACTGTT
1 ATGACATACTGCATGGGATTTGGATACTGTT
43525763 ATG
1 ATG
43525766 GAGGAAGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.35
Consensus pattern (31 bp):
ATGACATACTGCATGGGATTTGGATACTGTT
Found at i:43525895 original size:32 final size:32
Alignment explanation
Indices: 43525854--43526056 Score: 293
Period size: 32 Copynumber: 6.4 Consensus size: 32
43525844 CCTTCGATGC
* *
43525854 TACTGATGGCTTCGTGCCGATCATATTACCAT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
43525886 TACTGATGGCTTTGTGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
43525918 TACTGATGGCTTTGTGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* *
43525950 TATTGATGGCTTTGTGCCAATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * *
43525982 TACTGATGG-TTGTGTGCCGATCATATCACTGC
1 TACTGATGGCTT-TGTGCCGATCATATTACCGT
* *
43526014 TACTGATGGCTTTGTGCCAATCATATTACTG-
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
43526045 TACTTATGGCTT
1 TACTGATGGCTT
43526057 GTAGCCATTC
Statistics
Matches: 157, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
31 13 0.08
32 142 0.90
33 2 0.01
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACCGT
Found at i:43526762 original size:16 final size:17
Alignment explanation
Indices: 43526730--43526763 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43526720 ATTCTAGAAG
43526730 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
43526748 GGTTTTCAA-AAAACAT
1 GGTTTTCAAGAAAACAT
43526764 TTCAATGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:43530121 original size:27 final size:27
Alignment explanation
Indices: 43530090--43530156 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
43530080 GTAGAGCATG
43530090 CAGTCATTTTATAACATAGGGGCATAA
1 CAGTCATTTTATAACATAGGGGCATAA
* *
43530117 CAGTCATTTTACT-ACGTGGGGGCATAA
1 CAGTCATTTTA-TAACATAGGGGCATAA
43530144 CAGTCATTTTATA
1 CAGTCATTTTATA
43530157 TCAGTTTGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
26 1 0.03
27 34 0.94
28 1 0.03
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (27 bp):
CAGTCATTTTATAACATAGGGGCATAA
Found at i:43533824 original size:20 final size:19
Alignment explanation
Indices: 43533796--43533846 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
43533786 AATCAAGTGC
*
43533796 AAATGATTTTAACCATGTCA
1 AAATAATTTTAACCA-GTCA
* *
43533816 AAATAATTTCAATCAGTCA
1 AAATAATTTTAACCAGTCA
*
43533835 AAATCATTTTAA
1 AAATAATTTTAA
43533847 AATGATTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (19 bp):
AAATAATTTTAACCAGTCA
Found at i:43539987 original size:42 final size:42
Alignment explanation
Indices: 43539932--43540025 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 42
43539922 TGGCACACAC
* *
43539932 CCGTGTAACTCTCGAAA-CTGGCCCACATGCCCGTGTGCTAGG
1 CCGTGTAACTCTCGAAATC-AGCCCACACGCCCGTGTGCTAGG
43539974 CCGTGTAACTCTCGAAATCAGCCCACACGCCCGTGTGCTAGG
1 CCGTGTAACTCTCGAAATCAGCCCACACGCCCGTGTGCTAGG
*
43540016 CCATGTAACT
1 CCGTGTAACT
43540026 AACTAACTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
42 47 0.98
43 1 0.02
ACGTcount: A:0.21, C:0.34, G:0.23, T:0.21
Consensus pattern (42 bp):
CCGTGTAACTCTCGAAATCAGCCCACACGCCCGTGTGCTAGG
Found at i:43550958 original size:20 final size:20
Alignment explanation
Indices: 43550926--43550963 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
43550916 AATATTTTAA
*
43550926 ATATATGATTATAGGTTTGT
1 ATATATGATTATAAGTTTGT
43550946 ATATATAGA-TATAAGTTT
1 ATATAT-GATTATAAGTTT
43550964 ATGTAGCATG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (20 bp):
ATATATGATTATAAGTTTGT
Found at i:43551468 original size:61 final size:61
Alignment explanation
Indices: 43551373--43551497 Score: 196
Period size: 61 Copynumber: 2.0 Consensus size: 61
43551363 ATGTGTGACA
* * *
43551373 TACGGCCTGGCAACATAGTTGTGTGTCCTCTGTTAGTTTCTTTGCATACAAGTGAGGGTGT
1 TACGGCCTGGCAACACAGCTGTGTGTCCTCTGTTAGTTTCTTTGCATACAAGTGAGGGAGT
* * *
43551434 TACGGGCTGGCGACACAGCTGTGTGTCCTCTGTTAGTTTCTTTGCATACAAGTTAGGGAGT
1 TACGGCCTGGCAACACAGCTGTGTGTCCTCTGTTAGTTTCTTTGCATACAAGTGAGGGAGT
43551495 TAC
1 TAC
43551498 ATGTCCCTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.18, C:0.19, G:0.28, T:0.34
Consensus pattern (61 bp):
TACGGCCTGGCAACACAGCTGTGTGTCCTCTGTTAGTTTCTTTGCATACAAGTGAGGGAGT
Found at i:43563530 original size:45 final size:45
Alignment explanation
Indices: 43563466--43563554 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
43563456 AATAGATACT
* * *
43563466 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
*
43563511 CGGTGGAATCAACACATAGCAACCACTTTACTAATCAATGATGT
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGT
43563555 TCAGTTCACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:43563672 original size:51 final size:50
Alignment explanation
Indices: 43563561--43563751 Score: 202
Period size: 51 Copynumber: 3.8 Consensus size: 50
43563551 ATGTTCAGTT
* * * * **
43563561 CACATAGTAGCCTGCACATAGGTACTATACATGTGACCATTACCATTCAATA
1 CACATAGTAGCCTGCACATA-GTACTACACATGTGACCA-AACTATACGGTA
* * *
43563613 CACGTAGTAGCCTGCACATAGTACTACACATGTGATCGAAACTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGA-CCAAACTATACGGTA
* * * * * * *
43563664 CGCATAGTAGCCAGCACATAGTACTAGACATGCGACCTATCTTTACGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCAAACTATACGGTA
*
43563714 CACGTAGTAGCCTGCACATAGTACTACACATGTGACCA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCA
43563752 TCACTTTCAC
Statistics
Matches: 114, Mismatches: 24, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
50 42 0.37
51 51 0.45
52 21 0.18
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCAAACTATACGGTA
Found at i:43567664 original size:50 final size:50
Alignment explanation
Indices: 43567556--43567709 Score: 182
Period size: 50 Copynumber: 3.0 Consensus size: 50
43567546 GGGGACGAGA
* ** *
43567556 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGATGTTATAAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGG---TACCGA-G--ATGAGAGG
43567612 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATGAGAGG
* * * *
43567662 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGA
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATGAGA
43567710 ACTCTCATGT
Statistics
Matches: 90, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
50 51 0.57
52 1 0.01
53 4 0.04
56 34 0.38
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATGAGAGG
Found at i:43567733 original size:50 final size:50
Alignment explanation
Indices: 43567612--43567740 Score: 132
Period size: 50 Copynumber: 2.6 Consensus size: 50
43567602 TTATAAGAGG
* * * * **
43567612 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATGAGAGG
1 TCCCACGTAAGAACATATCTGGGACATGGCATGGGCACCGAGATGAGAAC
* * * *
43567662 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCACGTAAGAACATATCTGGGACATGGCATGGGCACCGAGATGAGAAC
* * * *
43567712 TCTCATGTACGAACATATCTGGGATATGG
1 TCCCACGTAAGAACATATCTGGGACATGG
43567741 TATTTGCAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 66 1.00
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (50 bp):
TCCCACGTAAGAACATATCTGGGACATGGCATGGGCACCGAGATGAGAAC
Found at i:43568023 original size:20 final size:20
Alignment explanation
Indices: 43567998--43568036 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
43567988 TGAGTTATTT
43567998 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
43568018 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
43568037 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:43571335 original size:18 final size:18
Alignment explanation
Indices: 43571314--43571357 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
43571304 AAAGGAAGAC
43571314 AGAAAAAGA-AATCGAAAA
1 AGAAAAAGAGAAT-GAAAA
43571332 AGAAAAAGAGAATGAAAA
1 AGAAAAAGAGAATGAAAA
43571350 AGAGAAAA
1 AGA-AAAA
43571358 AAGAGATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.05
Consensus pattern (18 bp):
AGAAAAAGAGAATGAAAA
Found at i:43573159 original size:33 final size:34
Alignment explanation
Indices: 43573122--43573193 Score: 119
Period size: 33 Copynumber: 2.1 Consensus size: 34
43573112 GAGCTAGTTT
43573122 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAG-A
1 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
* *
43573155 ATTAATTTTAGTTCAGCTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
43573189 ATTAA
1 ATTAA
43573194 TTTGTTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 30 0.83
34 6 0.17
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (34 bp):
ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
Found at i:43585608 original size:27 final size:26
Alignment explanation
Indices: 43585577--43585754 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 26
43585567 TAAATTGTAC
43585577 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
43585604 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
43585630 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
43585658 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
43585686 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
43585713 AGCACTAAGTGTGCGAGTTGATTATGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
43585740 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43585755 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 25 0.19
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:43585745 original size:82 final size:81
Alignment explanation
Indices: 43585576--43585754 Score: 225
Period size: 82 Copynumber: 2.2 Consensus size: 81
43585566 TTAAATTGTA
* * *
43585576 CAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGT
1 CAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGT
43585641 GTGCGAATTGACCATG
66 GTGCGAATTGACCATG
* ** *
43585657 CGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAA
1 CAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAA
* **
43585721 GTGTGCGAGTTGATTATG
64 GTGTGCGAATTGACCATG
* *
43585739 TAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCG
43585755 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 19 0.23
82 64 0.77
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
CAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGT
GTGCGAATTGACCATG
Found at i:43602094 original size:17 final size:16
Alignment explanation
Indices: 43602072--43602103 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
43602062 TTATAGTGAA
43602072 TTGGAAGCTTGCTCGGG
1 TTGGAAGCTTG-TCGGG
43602089 TTGGAAGCTTGTCGG
1 TTGGAAGCTTGTCGG
43602104 AGCTATATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.12, C:0.16, G:0.41, T:0.31
Consensus pattern (16 bp):
TTGGAAGCTTGTCGGG
Found at i:43604889 original size:79 final size:81
Alignment explanation
Indices: 43604753--43604937 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
43604743 TTGAATGATG
* *
43604753 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
**
43604817 TGTGTGAGATACTA-A
66 TGTGCAAGATACTATA
* * * **
43604832 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
43604894 ATTGTGCAAGTTACTATA
64 ATTGTGCAAGATACTATA
* *
43604912 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43604938 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.62
80 33 0.37
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCAAGATACTATA
Found at i:43604951 original size:40 final size:40
Alignment explanation
Indices: 43604754--43604937 Score: 173
Period size: 40 Copynumber: 4.6 Consensus size: 40
43604744 TGAATGATGT
* * * *
43604754 CCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * * *
43604793 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTA-ATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
43604834 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
43604872 TCCGGGTTAAGTCCCGAAGGCAATTGTGCAAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
43604913 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43604938 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
39 33 0.28
40 77 0.65
41 9 0.08
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:43611460 original size:40 final size:39
Alignment explanation
Indices: 43611376--43611560 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
43611366 TTGAATGATG
* * * *
43611376 TCCGGGCTAAGTCCCGAAGAC-TTTGTGCTAAGTGACCAAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
43611416 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
43611456 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
43611495 TCCGGGTTAAGTCCCGAAGGCAATTGTGCAAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
43611536 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
43611561 AATGAGTAGC
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43611512 original size:79 final size:81
Alignment explanation
Indices: 43611376--43611560 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
43611366 TTGAATGATG
* *
43611376 TCCGGGCTAAGTCCCGAAGAC-TTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
*
43611440 TGTGCGAGATACTA-A
66 TGTGCAAGATACTATA
* * * **
43611455 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
43611517 ATTGTGCAAGTTACTATA
64 ATTGTGCAAGATACTATA
* *
43611535 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43611561 AATGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCAAGATACTATA
Found at i:43611582 original size:79 final size:79
Alignment explanation
Indices: 43611429--43611593 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
43611419 GGACTAAGAT
* * * **
43611429 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
43611494 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
43611508 CCGAAGGCAATTGTGCAAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGC
1 CCGAAGGCAATTGTGCAAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
43611571 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
43611587 CCGAAGG
1 CCGAAGG
43611594 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:43613150 original size:35 final size:35
Alignment explanation
Indices: 43613090--43613190 Score: 123
Period size: 35 Copynumber: 2.9 Consensus size: 35
43613080 TGCGATGTTA
* *
43613090 AAAAAG-TTTGGATAGACAAGTTCTAAGGCAACCTT
1 AAAAAGATTAGGATAGACACG-TCTAAGGCAACCTT
*
43613125 AAAAAGATTAGGATAGACTCGTCTAAGGCAACCTT
1 AAAAAGATTAGGATAGACACGTCTAAGGCAACCTT
** * *
43613160 CCAAAGGTTGGGATAGACACGTCTAAGGCAA
1 AAAAAGATTAGGATAGACACGTCTAAGGCAA
43613191 TTTTTTTTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
35 46 0.81
36 11 0.19
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.22
Consensus pattern (35 bp):
AAAAAGATTAGGATAGACACGTCTAAGGCAACCTT
Found at i:43615845 original size:16 final size:16
Alignment explanation
Indices: 43615826--43615859 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
43615816 TGTGTTTTGC
* *
43615826 TTTGATTGCATGGCAT
1 TTTGACTGCATAGCAT
43615842 TTTGACTGCATAGCAT
1 TTTGACTGCATAGCAT
43615858 TT
1 TT
43615860 CATCATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (16 bp):
TTTGACTGCATAGCAT
Found at i:43626717 original size:51 final size:51
Alignment explanation
Indices: 43626629--43626809 Score: 200
Period size: 51 Copynumber: 3.5 Consensus size: 51
43626619 TGGAGCAAAT
* ** *
43626629 TGAAGGCAGCGGATCTTATTTCCCTGGCATTGTAGTGGAACAGATTAAAGC
1 TGAAGGCAGCGAATCTTATTTCCCTGGTGTTGCAGTGGAACAGATTAAAGC
* * * * *
43626680 TAAAGGTAGCAAATCTTGTTTCCCTGGTGTTGCAGTGGAATAGATTAAAGC
1 TGAAGGCAGCGAATCTTATTTCCCTGGTGTTGCAGTGGAACAGATTAAAGC
* * * * ** *
43626731 TGAAGTGGAGCGGATCGTGTTTCCCTGGTGTTGCAGCAGAGCAGATTAAAGC
1 TGAAG-GCAGCGAATCTTATTTCCCTGGTGTTGCAGTGGAACAGATTAAAGC
*
43626783 TGAAGGCAGCGAATCTTATCTCCCTGG
1 TGAAGGCAGCGAATCTTATTTCCCTGG
43626810 CGTTAAAGTT
Statistics
Matches: 106, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
51 63 0.59
52 43 0.41
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.28
Consensus pattern (51 bp):
TGAAGGCAGCGAATCTTATTTCCCTGGTGTTGCAGTGGAACAGATTAAAGC
Found at i:43628902 original size:21 final size:20
Alignment explanation
Indices: 43628877--43628936 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
43628867 TTAATATGGC
43628877 TTTGTTATTTTTTATTTTAT
1 TTTGTTATTTTTTATTTTAT
* *
43628897 TGTTGTTATTCATTGATTTTAT
1 T-TTGTTATT-TTTTATTTTAT
*
43628919 TTAT-TTATCTTTTATTTT
1 TT-TGTTATTTTTTATTTT
43628937 CTTTATTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 8 0.25
21 13 0.41
22 11 0.34
ACGTcount: A:0.17, C:0.03, G:0.07, T:0.73
Consensus pattern (20 bp):
TTTGTTATTTTTTATTTTAT
Found at i:43629486 original size:18 final size:19
Alignment explanation
Indices: 43629452--43629487 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
43629442 AGGATCATAT
43629452 TTTTAAATTTCTTTTCGAA
1 TTTTAAATTTCTTTTCGAA
*
43629471 TTTTCAATTT-TTTTCGA
1 TTTTAAATTTCTTTTCGA
43629488 CATTAAGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.22, C:0.11, G:0.06, T:0.61
Consensus pattern (19 bp):
TTTTAAATTTCTTTTCGAA
Found at i:43632461 original size:22 final size:23
Alignment explanation
Indices: 43632435--43632492 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
43632425 GAACAACATA
* * *
43632435 AAAAATAAA-GTAGATTACAACT
1 AAAAATAAACCTAAATTACAAAT
43632457 AAAAA-AAACCTAAATTACAAAT
1 AAAAATAAACCTAAATTACAAAT
* *
43632479 AGAAATAAAACTAA
1 AAAAATAAACCTAA
43632493 CAAGGAACGA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 3 0.10
22 19 0.66
23 7 0.24
ACGTcount: A:0.66, C:0.10, G:0.05, T:0.19
Consensus pattern (23 bp):
AAAAATAAACCTAAATTACAAAT
Found at i:43633423 original size:204 final size:204
Alignment explanation
Indices: 43633128--43633524 Score: 539
Period size: 204 Copynumber: 1.9 Consensus size: 204
43633118 GATGCAATAC
* *
43633128 TAAAGTACCCTTAAACAATATAATTTATTTTAAATACGAAAGGATATCAAAGTAATTTTCCTAAC
1 TAAAGTACCCTCAAACAATATAATTTATTTTAAATACGAAAAGATATCAAAGTAATTTTCCTAAC
** * * * *
43633193 CATGTTGGTGCCTGGTTGACTTGTGACACCAACTCAGCCA-ATGTTTAAATAATAGTAAATATAG
66 CACATTGGTGCCTGGTTGAATTGTGACACCAACTCAGCCACAGGTTTAAACAATAGTAAATATAA
* * *
43633257 ATATACAATTGATAGAGGTAATAAA-ATGCGTATAATAGATTGAAATGTATAAAAAAAATCAAAA
131 ATATACAATTGATAGAGGTAATAAATATGCATATAATAAATTAAAATGT-T-AAAAAAATCAAAA
43633321 TCAGGCTTTGA
194 TCAGGCTTTGA
* * *
43633332 TAAAGTACTCTCAAATAATATAATTTATTTTAAATACGAAAAGATATCAAAGTAATTTTCTTAAC
1 TAAAGTACCCTCAAACAATATAATTTATTTTAAATACGAAAAGATATCAAAGTAATTTTCCTAAC
* * ** * *
43633397 CGCATTGGTAGCC-GGTTGAATTGTGACACCAACTTAGTTACGGGTTTAAACAATAGTAAGTATA
66 CACATTGGT-GCCTGGTTGAATTGTGACACCAACTCAGCCACAGGTTTAAACAATAGTAAATATA
* *
43633461 AATATACAATTGATGGAGGTAATAAATTGTGCATATAATAAATTAAAATGTTAAAAAAATCAAA
130 AATATACAATTGATAGAGGTAATAAA-TATGCATATAATAAATTAAAATGTTAAAAAAATCAAA
43633525 GTGAAGCTTT
Statistics
Matches: 167, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
204 89 0.53
205 58 0.35
206 1 0.01
207 19 0.11
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (204 bp):
TAAAGTACCCTCAAACAATATAATTTATTTTAAATACGAAAAGATATCAAAGTAATTTTCCTAAC
CACATTGGTGCCTGGTTGAATTGTGACACCAACTCAGCCACAGGTTTAAACAATAGTAAATATAA
ATATACAATTGATAGAGGTAATAAATATGCATATAATAAATTAAAATGTTAAAAAAATCAAAATC
AGGCTTTGA
Found at i:43635488 original size:16 final size:16
Alignment explanation
Indices: 43635467--43635499 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
43635457 TTCGCTGTAT
43635467 TGGAATAGAGGCATAA
1 TGGAATAGAGGCATAA
*
43635483 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCATAA
43635499 T
1 T
43635500 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCATAA
Found at i:43635750 original size:16 final size:16
Alignment explanation
Indices: 43635713--43635754 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
43635703 TTAATCATAT
*
43635713 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
43635729 TT-AAATATATTATAA
1 TTAAAATATATTATAA
43635744 TTAAAATATAT
1 TTAAAATATAT
43635755 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:43635761 original size:14 final size:15
Alignment explanation
Indices: 43635722--43635763 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
43635712 TTTAAACATA
*
43635722 ATTATTATTAAATAT
1 ATTATAATTAAATAT
43635737 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
43635751 A-TATAATTTAATA
1 ATTATAATTAAATA
43635764 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:43635928 original size:119 final size:120
Alignment explanation
Indices: 43635711--43635956 Score: 406
Period size: 119 Copynumber: 2.0 Consensus size: 120
43635701 ATTTAATCAT
43635711 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * * *
43635776 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
43635832 ATTTAACATAATTATTATTAAATATAATT-TAA-TAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
43635895 TTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
65 ATAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
43635951 ATTTAA
1 ATTTAA
43635957 TAAAAATATA
Statistics
Matches: 118, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
119 87 0.74
120 24 0.20
121 7 0.06
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
Found at i:43635954 original size:38 final size:37
Alignment explanation
Indices: 43635870--43635961 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 37
43635860 TTAATAAAAT
* * *
43635870 ATATAATTTAATAAAATTCTTAATATTAAATATTCTT
1 ATATAATTTAATAAAATTCATAATATTAAATATTATA
43635907 ATATGAATTTAATAAAA-TCATAATA-TATAATACTATATA
1 ATAT-AATTTAATAAAATTCATAATATTA-AATA-T-TATA
43635946 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
43635962 ATATATAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
36 2 0.04
37 15 0.31
38 25 0.52
39 6 0.12
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (37 bp):
ATATAATTTAATAAAATTCATAATATTAAATATTATA
Found at i:43635970 original size:94 final size:94
Alignment explanation
Indices: 43635852--43636053 Score: 381
Period size: 94 Copynumber: 2.2 Consensus size: 94
43635842 ATTATTATTA
43635852 AATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATT
1 AATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATT
43635916 TAATAAAATCATAATATATAATACTATAT
66 TAATAAAATCATAATATATAATACTATAT
43635945 AATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATT
1 AATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATT
43636010 TAATAAAATCATAATATATAATACTATAT
66 TAATAAAATCATAATATATAATACTATAT
43636039 AATATAGA-TTAATAA
1 AATATA-ATTTAATAA
43636054 TGTAGATACT
Statistics
Matches: 107, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
93 13 0.12
94 93 0.87
95 1 0.01
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (94 bp):
AATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATT
TAATAAAATCATAATATATAATACTATAT
Found at i:43635976 original size:38 final size:36
Alignment explanation
Indices: 43635853--43635976 Score: 96
Period size: 38 Copynumber: 3.4 Consensus size: 36
43635843 TTATTATTAA
* *
43635853 ATATAATTTAATA-AAATATATAATTTAATAAAATT
1 ATATAATTTAATATATATATATAATTTAATAAAAAT
* *
43635888 CT-TAATATTAA-ATATTCTTATATGAATTTAAT-AAAAT
1 ATATAAT-TTAATATA-T-ATATAT-AATTTAATAAAAAT
*
43635925 CATA-ATATATAATACTATATAATATAATTTAATAAAAAT
1 -ATATA-ATTTAATA-TATAT-ATATAATTTAATAAAAAT
43635964 ATATAATTTAATA
1 ATATAATTTAATA
43635977 AAATTCTTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 23
0.69 0.08 0.23
Matches are distributed among these distances:
34 5 0.07
35 6 0.09
37 9 0.13
38 32 0.47
39 14 0.21
40 2 0.03
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (36 bp):
ATATAATTTAATATATATATATAATTTAATAAAAAT
Found at i:43648467 original size:3 final size:3
Alignment explanation
Indices: 43648441--43648528 Score: 119
Period size: 3 Copynumber: 30.0 Consensus size: 3
43648431 TTATCAATTC
* * *
43648441 ATT ATT A-T ATT GTT A-T ATC A-T ATT ATT ATT TTGT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT
43648484 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
43648529 CACTCATTTA
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
2 5 0.07
3 68 0.91
4 2 0.03
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:43648638 original size:28 final size:31
Alignment explanation
Indices: 43648564--43648642 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 31
43648554 AAATTTTGCT
43648564 ATATATATATACAT-T-CATACATTTTTATA
1 ATATATATATACATATACATACATTTTTATA
* * *
43648593 ATATATATGTACACATACATA-TTTTTTATA
1 ATATATATATACATATACATACATTTTTATA
43648623 AT-T-TATATACATATACATAC
1 ATATATATATACATATACATAC
43648643 TTATATATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
28 14 0.33
29 13 0.31
30 11 0.26
31 4 0.10
ACGTcount: A:0.42, C:0.11, G:0.01, T:0.46
Consensus pattern (31 bp):
ATATATATATACATATACATACATTTTTATA
Found at i:43651520 original size:57 final size:56
Alignment explanation
Indices: 43651416--43651528 Score: 181
Period size: 56 Copynumber: 2.0 Consensus size: 56
43651406 ACCCTAATTC
*
43651416 AGATTACCCGTCCGGGCTAAATCACTTTCCACATATTCTTCGGGAGGGCTATATCA
1 AGATCACCCGTCCGGGCTAAATCACTTTCCACATATTCTTCGGGAGGGCTATATCA
* * *
43651472 AGATCACCCGTCCGGGCTAGATCATTTTCACACATATTCTTCGTGAGGGCTATATCA
1 AGATCACCCGTCCGGGCTAAATCACTTTC-CACATATTCTTCGGGAGGGCTATATCA
43651529 GGATAGGATC
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
56 26 0.50
57 26 0.50
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (56 bp):
AGATCACCCGTCCGGGCTAAATCACTTTCCACATATTCTTCGGGAGGGCTATATCA
Found at i:43654368 original size:27 final size:27
Alignment explanation
Indices: 43654297--43654369 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
43654287 AAATTTTGTT
43654297 ATATATATACATTCATAC--ATTTTTATA
1 ATATATATACA--CATACATATTTTTATA
43654324 ATATATATACACATACATATTTTTATA
1 ATATATATACACATACATATTTTTATA
* *
43654351 ATTTATATACATATACATA
1 ATATATATACACATACATA
43654370 CTTATATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.12
27 37 0.88
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.45
Consensus pattern (27 bp):
ATATATATACACATACATATTTTTATA
Found at i:43654377 original size:27 final size:27
Alignment explanation
Indices: 43654320--43654382 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
43654310 CATACATTTT
* * *
43654320 TATAATATATATACACATACATATTTT
1 TATAATTTATATACACATACATACTTA
*
43654347 TATAATTTATATACATATACATACTTA
1 TATAATTTATATACACATACATACTTA
43654374 TATATATTT
1 TATA-ATTT
43654383 CTTATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 27 0.87
28 4 0.13
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (27 bp):
TATAATTTATATACACATACATACTTA
Found at i:43660453 original size:39 final size:40
Alignment explanation
Indices: 43660410--43660577 Score: 139
Period size: 40 Copynumber: 4.2 Consensus size: 40
43660400 CTCGTTCAAG
* * * *
43660410 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
43660449 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
43660489 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * * *
43660529 GGCCTTCGGGACTTAACCCAGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCC-GGATTATAAAACTCACACGAA
43660569 TGCCTTCGG
1 TGCCTTCGG
43660578 ATCTTAGTCC
Statistics
Matches: 109, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
39 26 0.24
40 78 0.72
41 4 0.04
42 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:43660499 original size:40 final size:39
Alignment explanation
Indices: 43660447--43660577 Score: 181
Period size: 40 Copynumber: 3.3 Consensus size: 39
43660437 TAACTCATAC
* *
43660447 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAAAACTCGCACA
* *
43660487 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTA-AAACTCGCACA
* *
43660527 AAGGCCTTCGGGACTTAACCCAGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAA-AACTCGCACA
43660567 AATGCCTTCGG
1 AATGCCTTCGG
43660578 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.04
40 77 0.96
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGAATTAAAACTCGCACA
Found at i:43660561 original size:80 final size:80
Alignment explanation
Indices: 43660445--43660623 Score: 215
Period size: 80 Copynumber: 2.2 Consensus size: 80
43660435 AGTAACTCAT
* * * *
43660445 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCAGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
43660509 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
43660524 ACAAAGGCCTTCGGGACTTAACCCAGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCAGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
43660588 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
43660605 ACAAAGCCTTCGGGACTTA
1 ACAAAGCCTTCGGGACTTA
43660624 GCCCGGACAA
Statistics
Matches: 87, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 11 0.13
80 65 0.75
81 10 0.11
82 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCAGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:43663039 original size:13 final size:13
Alignment explanation
Indices: 43663021--43663045 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43663011 TAATGGTATA
43663021 TTGAATCCATGAC
1 TTGAATCCATGAC
43663034 TTGAATCCATGA
1 TTGAATCCATGA
43663046 AAATTTAGTA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:43663626 original size:27 final size:27
Alignment explanation
Indices: 43663591--43663769 Score: 182
Period size: 27 Copynumber: 6.6 Consensus size: 27
43663581 TTAAATTGTA
43663591 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
43663618 TTGCACTAAGTGTGCGAAATGAATA-G
1 TAGCACTAAGTGTGCGATATGACTATG
* *
43663644 GATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
43663672 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
43663700 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
43663727 TAGCACTAAGTGTGCGAGATGATTATA
1 TAGCACTAAGTGTGCGATATGACTATG
*
43663754 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
43663770 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.02
27 102 0.80
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:43663707 original size:82 final size:81
Alignment explanation
Indices: 43663593--43663743 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
43663583 AAATTGTATA
* *
43663593 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATA-GGATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
43663657 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
43663674 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
43663739 TGCGA
65 TGCGA
43663744 GATGATTATA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 15 0.24
82 45 0.73
83 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:43663760 original size:82 final size:81
Alignment explanation
Indices: 43663589--43663769 Score: 213
Period size: 82 Copynumber: 2.2 Consensus size: 81
43663579 GATTAAATTG
*
43663589 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATAGGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATAGGATGCACTAA
43663654 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** * *
43663670 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATAGGAT-GCACT
**
43663734 AAGTGTGCGAGA-TGATTA
64 AAGTGTGCGA-ATTGACCA
*
43663752 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
43663770 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 17 0.21
82 64 0.78
83 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATAGGATGCACTAA
GTGTGCGAATTGACCA
Found at i:43671634 original size:27 final size:26
Alignment explanation
Indices: 43671603--43671753 Score: 167
Period size: 27 Copynumber: 5.6 Consensus size: 26
43671593 TAAATTGTAC
43671603 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
43671630 TGCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCG-ATTGACTATGT
*
43671657 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
43671685 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
43671712 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
43671739 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43671754 GGCTCAATAT
Statistics
Matches: 107, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.01
27 80 0.75
28 26 0.24
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:43671692 original size:55 final size:55
Alignment explanation
Indices: 43671602--43671753 Score: 191
Period size: 55 Copynumber: 2.8 Consensus size: 55
43671592 TTAAATTGTA
* * *
43671602 CAGCACTAAGTGTGCGATTC-GACTATGTTGCACTAAGTGTGCGAATTGACCATG
1 CAGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGAATTGACCACG
* * **
43671656 CGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG
1 CAGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGAATTGACCACG
* * * *
43671711 TAGCACTAAGTGTGCGAGT-TGATTATATAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCG
43671754 GGCTCAATAT
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
54 39 0.46
55 46 0.54
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (55 bp):
CAGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGAATTGACCACG
Found at i:43671744 original size:82 final size:82
Alignment explanation
Indices: 43671603--43671753 Score: 203
Period size: 82 Copynumber: 1.8 Consensus size: 82
43671593 TAAATTGTAC
* * * *
43671603 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTG
1 AGCACTAAGTGTGCGATTCGACTACGTAGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
43671668 TGCGAGTCTGACTATGT
66 TGCGAGTCTGACTATGT
* * * ** * *
43671685 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTG
1 AGCACTAAGTGTGCGATTCGACTACGTAGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
43671750 TGCG
66 TGCG
43671754 GGCTCAATAT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
82 58 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (82 bp):
AGCACTAAGTGTGCGATTCGACTACGTAGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
TGCGAGTCTGACTATGT
Found at i:43671764 original size:27 final size:27
Alignment explanation
Indices: 43671658--43671764 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
43671648 TGACCATGCG
* * *
43671658 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
43671686 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
43671713 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
43671740 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
43671765 CATTCGTGAA
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 52 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:43676747 original size:19 final size:20
Alignment explanation
Indices: 43676719--43676774 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
43676709 CTATCGAATC
43676719 AAAA-TTGTAATTACA-A-AA
1 AAAACTTGTAATTA-ATACAA
43676737 AAAACTTGTAATTAATACAA
1 AAAACTTGTAATTAATACAA
43676757 AGAAACTTGTAATTAATA
1 A-AAACTTGTAATTAATA
43676775 TATATATTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.15
19 10 0.29
20 3 0.09
21 16 0.47
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (20 bp):
AAAACTTGTAATTAATACAA
Done.