Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 273 of 297
Found at i:93129437 original size:13 final size:13
Alignment explanation
Indices: 93129401--93129439 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
93129391 TTTCATTTTG
93129401 TAACATAAAATTAT
1 TAACATAAAA-TAT
*
93129415 TAGCATAAAATAT
1 TAACATAAAATAT
*
93129428 TAACACAAAATA
1 TAACATAAAATA
93129440 ATTATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (13 bp):
TAACATAAAATAT
Found at i:93136668 original size:14 final size:14
Alignment explanation
Indices: 93136646--93136688 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
93136636 TTTCATTTTG
93136646 TAACATAAAATTAT
1 TAACATAAAATTAT
*
93136660 TAGCATAAAA-TAT
1 TAACATAAAATTAT
* *
93136673 TAACACAAAATAAT
1 TAACATAAAATTAT
93136687 TA
1 TA
93136689 TAATATGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (14 bp):
TAACATAAAATTAT
Found at i:93136682 original size:13 final size:13
Alignment explanation
Indices: 93136646--93136684 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
93136636 TTTCATTTTG
93136646 TAACATAAAATTAT
1 TAACATAAAA-TAT
*
93136660 TAGCATAAAATAT
1 TAACATAAAATAT
*
93136673 TAACACAAAATA
1 TAACATAAAATA
93136685 ATTATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (13 bp):
TAACATAAAATAT
Found at i:93138935 original size:93 final size:93
Alignment explanation
Indices: 93138827--93138998 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
93138817 GCCTATAAGT
* * *
93138827 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGTATCCATAAGTGAACTTGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
93138891 ACGAGCTCGGATGCCTAGTTGCATCTCTC
65 ACGAGCTCGGATGCCTAGTTGCATCTCTC
* *
93138920 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
93138985 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
93138999 CAAACATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTGCATCTCTC
Found at i:93138994 original size:46 final size:46
Alignment explanation
Indices: 93138821--93138994 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
93138811 TAACCCGCCT
* * *
93138821 ATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGTATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACATTTGCATCC
* *
93138867 ATAAGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTTGCATCTC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCATC-C
* *
93138918 -T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCC
*
93138960 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
93138995 TGCCCAAACA
Statistics
Matches: 108, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
42 1 0.01
43 9 0.08
44 1 0.01
45 2 0.02
46 60 0.56
47 27 0.25
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCC
Found at i:93144538 original size:28 final size:27
Alignment explanation
Indices: 93144452--93144541 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
93144442 GTGACAGAGT
* *
93144452 CACCAGATACAGATATTTTGTGGTAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
93144481 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
93144508 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
93144536 CACCAG
1 CACCAG
93144542 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 22 0.43
28 22 0.43
29 7 0.14
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:93144695 original size:28 final size:28
Alignment explanation
Indices: 93144650--93144712 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
93144640 TTAACCCTAG
* *
93144650 GGGGTATAAAGGTCATTTTGCACACGTA
1 GGGGTATAAAGGTAATTTTGCACACATA
* *
93144678 GGGGTATAATGGTAATTTTGCATACATA
1 GGGGTATAAAGGTAATTTTGCACACATA
93144706 GGGGTAT
1 GGGGTAT
93144713 TCTAGTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.30, T:0.32
Consensus pattern (28 bp):
GGGGTATAAAGGTAATTTTGCACACATA
Found at i:93151920 original size:28 final size:27
Alignment explanation
Indices: 93151842--93151923 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
93151832 GTCACCAAAT
*
93151842 ACAGATATTTTGTGGCAGTGCCACCAGA
1 ACAGATAATTTGTGGCA-TGCCACCAGA
** *
93151870 ACAGAT-ATACGTGGCAGGGCCACCAGA
1 ACAGATAATTTGTGGCA-TGCCACCAGA
*
93151897 ATAGATAATTTGTGGCATAGCCACCAG
1 ACAGATAATTTGTGGCAT-GCCACCAG
93151924 GACGCTTCCT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
27 22 0.50
28 22 0.50
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.21
Consensus pattern (27 bp):
ACAGATAATTTGTGGCATGCCACCAGA
Found at i:93152090 original size:28 final size:28
Alignment explanation
Indices: 93152032--93152094 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
93152022 TTAACCCTAG
* **
93152032 GGGGTATAAAGGTCATTTTGCACACGTA
1 GGGGTATAAAGGTAATTTTGCACACACA
* *
93152060 GGGGTATAATGGTAATTTTGCATACACA
1 GGGGTATAAAGGTAATTTTGCACACACA
93152088 GGGGTAT
1 GGGGTAT
93152095 TCTAGTAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.11, G:0.30, T:0.30
Consensus pattern (28 bp):
GGGGTATAAAGGTAATTTTGCACACACA
Found at i:93152209 original size:161 final size:161
Alignment explanation
Indices: 93151944--93152265 Score: 626
Period size: 161 Copynumber: 2.0 Consensus size: 161
93151934 CCATAATATA
93151944 ACCCATGTCCCCATGCAACAAATATTCATTCATGGCATACATCATACAGATTTAATTCATCATGC
1 ACCCATGTCCCCATGCAACAAATATTCATTCATGGCATACATCATACAGATTTAATTCATCATGC
*
93152009 TTTTCAGTCAAAATTAACCCTAGGGGGTATAAAGGTCATTTTGCACACGTAGGGGTATAATGGTA
66 TTTTCAGACAAAATTAACCCTAGGGGGTATAAAGGTCATTTTGCACACGTAGGGGTATAATGGTA
93152074 ATTTTGCATACACAGGGGTATTCTAGTAAAT
131 ATTTTGCATACACAGGGGTATTCTAGTAAAT
93152105 ACCCATGTCCCCATGCAACAAATATTCATTCATGGCATACATCATACAGATTTAATTCATCATGC
1 ACCCATGTCCCCATGCAACAAATATTCATTCATGGCATACATCATACAGATTTAATTCATCATGC
93152170 TTTTCAGACAAAATTAACCCTAGGGGGTATAAAGGTCATTTTGCACACGTAGGGGTATAATGGTA
66 TTTTCAGACAAAATTAACCCTAGGGGGTATAAAGGTCATTTTGCACACGTAGGGGTATAATGGTA
*
93152235 ATTTTGCATACATAGGGGTATTCTAGTAAAT
131 ATTTTGCATACACAGGGGTATTCTAGTAAAT
93152266 CTAACTATTT
Statistics
Matches: 159, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
161 159 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (161 bp):
ACCCATGTCCCCATGCAACAAATATTCATTCATGGCATACATCATACAGATTTAATTCATCATGC
TTTTCAGACAAAATTAACCCTAGGGGGTATAAAGGTCATTTTGCACACGTAGGGGTATAATGGTA
ATTTTGCATACACAGGGGTATTCTAGTAAAT
Found at i:93152238 original size:28 final size:28
Alignment explanation
Indices: 93152193--93152255 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
93152183 TTAACCCTAG
* *
93152193 GGGGTATAAAGGTCATTTTGCACACGTA
1 GGGGTATAAAGGTAATTTTGCACACATA
* *
93152221 GGGGTATAATGGTAATTTTGCATACATA
1 GGGGTATAAAGGTAATTTTGCACACATA
93152249 GGGGTAT
1 GGGGTAT
93152256 TCTAGTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.30, T:0.32
Consensus pattern (28 bp):
GGGGTATAAAGGTAATTTTGCACACATA
Found at i:93152686 original size:266 final size:266
Alignment explanation
Indices: 93152212--93152742 Score: 1053
Period size: 266 Copynumber: 2.0 Consensus size: 266
93152202 AGGTCATTTT
93152212 GCACACGTAGGGGTATAATGGTAATTTTGCATACATAGGGGTATTCTAGTAAATCTAACTATTTC
1 GCACACGTAGGGGTATAATGGTAATTTTGCATACATAGGGGTATTCTAGTAAATCTAACTATTTC
93152277 TAAGGTTTTCATGCATATCGTAGCTATTACGTTTAGCCAGAAACACTTACCGAGCGTTCTTACCG
66 TAAGGTTTTCATGCATATCGTAGCTATTACGTTTAGCCAGAAACACTTACCGAGCGTTCTTACCG
93152342 AATTGGGCCCGTTGGCCCATTAACCCAGTTTTGGCCCATTAAGCCCAAAATATCATAATGCACGA
131 AATTGGGCCCGTTGGCCCATTAACCCAGTTTTGGCCCATTAAGCCCAAAATATCATAATGCACGA
93152407 AATCGCGCGTACTGCAGTTTTATCACTTCTGATTACCAGTAATAATTACCCATACGTCTCACGAG
196 AATCGCGCGTACTGCAGTTTTATCACTTCTGATTACCAGTAATAATTACCCATACGTCTCACGAG
93152472 CATTCG
261 CATTCG
93152478 GCACACGTAGGGGTATAATGGTAATTTTGCATACATAGGGGTATTCTAGTAAATCTAACTATTTC
1 GCACACGTAGGGGTATAATGGTAATTTTGCATACATAGGGGTATTCTAGTAAATCTAACTATTTC
93152543 TAAGGTTTTCATGCATATCGTAGCTATTACGTTTAGCCAGAAACACTTACCGAGCGTTCTTACCG
66 TAAGGTTTTCATGCATATCGTAGCTATTACGTTTAGCCAGAAACACTTACCGAGCGTTCTTACCG
93152608 AATTGGGCCCGTTGGCCCATTAACCCAGTTTTGGCCCATTAAGCCCAAAATATCATAATGCACGA
131 AATTGGGCCCGTTGGCCCATTAACCCAGTTTTGGCCCATTAAGCCCAAAATATCATAATGCACGA
*
93152673 AATCGCGCGTACTGCAGTTTTATCACTTCTGATTACCAGTAATAATTACCCATACGTCTCATGAG
196 AATCGCGCGTACTGCAGTTTTATCACTTCTGATTACCAGTAATAATTACCCATACGTCTCACGAG
93152738 CATTC
261 CATTC
93152743 ACACACTCGC
Statistics
Matches: 264, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
266 264 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (266 bp):
GCACACGTAGGGGTATAATGGTAATTTTGCATACATAGGGGTATTCTAGTAAATCTAACTATTTC
TAAGGTTTTCATGCATATCGTAGCTATTACGTTTAGCCAGAAACACTTACCGAGCGTTCTTACCG
AATTGGGCCCGTTGGCCCATTAACCCAGTTTTGGCCCATTAAGCCCAAAATATCATAATGCACGA
AATCGCGCGTACTGCAGTTTTATCACTTCTGATTACCAGTAATAATTACCCATACGTCTCACGAG
CATTCG
Found at i:93166028 original size:40 final size:40
Alignment explanation
Indices: 93165827--93166005 Score: 315
Period size: 40 Copynumber: 4.5 Consensus size: 40
93165817 TGGATGATAA
93165827 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
*
93165867 CCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
*
93165907 CCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
93165947 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGT-T
*
93165987 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
93166006 TATTCGAGCG
Statistics
Matches: 133, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 1 0.01
40 132 0.99
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
Found at i:93173334 original size:39 final size:40
Alignment explanation
Indices: 93173289--93173460 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
93173279 GCTCCTCGTT
* * *
93173289 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
93173329 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
93173368 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
93173408 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
93173448 CAAATGCCTTCGG
1 CAAATGCCTTCGG
93173461 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:93173389 original size:40 final size:39
Alignment explanation
Indices: 93173291--93173513 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
93173281 TCCTCGTTCA
* * * *
93173291 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
93173330 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
93173369 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
93173409 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
93173449 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
93173490 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
93173514 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:93173473 original size:80 final size:79
Alignment explanation
Indices: 93173289--93173513 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
93173279 GCTCCTCGTT
* * * * *
93173289 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
93173353 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
93173368 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
93173433 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
93173448 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
93173512 GA
63 GA
93173514 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:93173522 original size:41 final size:41
Alignment explanation
Indices: 93173445--93173522 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
93173435 TTTGTATCTC
* * *
93173445 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
93173486 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
93173523 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:93177599 original size:79 final size:78
Alignment explanation
Indices: 93177497--93177719 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
93177487 GCTCCTCGTT
* *
93177497 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
93177562 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
93177577 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
93177640 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * * *
93177655 AAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
93177718 GA
63 GA
93177720 CATCATTCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
78 46 0.37
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:93177614 original size:39 final size:40
Alignment explanation
Indices: 93177497--93177719 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
93177487 GCTCCTCGTT
* *
93177497 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
93177537 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
93177577 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
93177616 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
93177655 AAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
93177696 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
93177720 CATCATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.01
39 88 0.54
40 64 0.39
41 10 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:93183795 original size:20 final size:18
Alignment explanation
Indices: 93183754--93183796 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
93183744 CAAATATATT
* *
93183754 TAAAAACATAAAAAATAT
1 TAAAAAAATAAAAAATAC
93183772 TAAAAAAATAAAAATGATAC
1 TAAAAAAATAAAAA--ATAC
93183792 TAAAA
1 TAAAA
93183797 CAATTCTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 13 0.62
20 8 0.38
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (18 bp):
TAAAAAAATAAAAAATAC
Found at i:93189257 original size:34 final size:34
Alignment explanation
Indices: 93189182--93189262 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
93189172 GCATGACTAT
* * *
93189182 TACTGATACTATGATGGGCTAAGGCCCTAATGCG
1 TACTGATACTGTAATGGGCTAAGGCCCTAATGCA
*
93189216 TACTGATACTGTAATGGGCTAA-GCCCTACTGCA
1 TACTGATACTGTAATGGGCTAAGGCCCTAATGCA
*
93189249 TATTTGATACTGTA
1 TA-CTGATACTGTA
93189263 TAGAGATAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
33 11 0.27
34 30 0.73
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (34 bp):
TACTGATACTGTAATGGGCTAAGGCCCTAATGCA
Found at i:93189577 original size:26 final size:26
Alignment explanation
Indices: 93189529--93189588 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
93189519 TTTTTATTGG
93189529 TTAAATATTTGGGTTGTAATTGGACTT
1 TTAAATATTTGGGTTGTAATTGG-CTT
* ** *
93189556 TTAAA-ATTTGGTTTGTTTTTGGGTT
1 TTAAATATTTGGGTTGTAATTGGCTT
93189581 TTAAATAT
1 TTAAATAT
93189589 CTTTACTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 7 0.25
26 16 0.57
27 5 0.18
ACGTcount: A:0.25, C:0.02, G:0.20, T:0.53
Consensus pattern (26 bp):
TTAAATATTTGGGTTGTAATTGGCTT
Found at i:93195188 original size:52 final size:51
Alignment explanation
Indices: 93195108--93195207 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 51
93195098 TCCGAGACGG
* *
93195108 ATATCAAATGAAAGGTTGAAAAGATTGTTACCCTAAAAGGGTTAACATCCA
1 ATATCAAATGAAAGCTTGAAAAGATTGTTACCCTAAAAGAGTTAACATCCA
* * *
93195159 ATATCAAATGAAAAGCTTGAAAAGGTTGTTACCTTGAAAGAGTTAACAT
1 ATATCAAATG-AAAGCTTGAAAAGATTGTTACCCTAAAAGAGTTAACAT
93195208 ATGAAAAGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 10 0.23
52 33 0.77
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (51 bp):
ATATCAAATGAAAGCTTGAAAAGATTGTTACCCTAAAAGAGTTAACATCCA
Found at i:93198530 original size:15 final size:16
Alignment explanation
Indices: 93198510--93198539 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
93198500 AATCATTTCA
93198510 ATATAT-AATTTAAAT
1 ATATATAAATTTAAAT
93198525 ATATATAAATTTAAA
1 ATATATAAATTTAAA
93198540 GCGACAAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATATAAATTTAAAT
Found at i:93203084 original size:27 final size:27
Alignment explanation
Indices: 93203054--93203117 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
93203044 CCAAAGTTAT
93203054 CAAAATA-CCTCTAGTTTGTAAAATTAC
1 CAAAATACCCT-TAGTTTGTAAAATTAC
*
93203081 CAAAATACCCTTGGTTTGTAAAATTAC
1 CAAAATACCCTTAGTTTGTAAAATTAC
93203108 CAAAATACCC
1 CAAAATACCC
93203118 CTATAGAGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 32 0.91
28 3 0.09
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
CAAAATACCCTTAGTTTGTAAAATTAC
Found at i:93203351 original size:27 final size:27
Alignment explanation
Indices: 93203102--93203350 Score: 302
Period size: 27 Copynumber: 9.3 Consensus size: 27
93203092 TGGTTTGTAA
* * *
93203102 AATTACCAAAATACCCCTATAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
93203129 AATTACTGAAACACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
93203156 AA-TACTGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
93203182 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
93203209 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
93203236 AATTACCGAAATACCCCCGGAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
93203263 AATTATCGAAATACCCCTGGAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
93203290 AATTACCGAAATATCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
93203317 AATTACCAAAATACCCTTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
93203344 AATTACC
1 AATTACC
93203351 ATTTTGCCCC
Statistics
Matches: 196, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 23 0.12
27 173 0.88
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:93203581 original size:25 final size:25
Alignment explanation
Indices: 93203553--93203647 Score: 147
Period size: 25 Copynumber: 3.8 Consensus size: 25
93203543 AGGAAGTGCT
*
93203553 AAAAGGG-TTATGCCCCAATTTACCG
1 AAAAGGGCTT-TGCCCCAGTTTACCG
*
93203578 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
93203603 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
93203628 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
93203648 ATTAAAAGAG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
25 62 0.97
26 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:93206046 original size:27 final size:27
Alignment explanation
Indices: 93206005--93206085 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
93205995 TACTGAAATG
* * *
93206005 CCCTCAATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
93206032 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
93206059 CCCTCGATTTGA-AAAATTACCGTTTTA
1 CCCTCGATTT-ATAGAATTACCGTTTTA
93206086 GGGTCATGTG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 46 0.98
28 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCGTTTTA
Found at i:93206326 original size:292 final size:292
Alignment explanation
Indices: 93205802--93206377 Score: 1125
Period size: 292 Copynumber: 2.0 Consensus size: 292
93205792 GTGGGCCTAA
*
93205802 TGGGCCTACGGGCGCAATTGGATAAGTTGTTTGATTGTGTAGTAAATATTGGACTAGGCTAGGTG
1 TGGGCCTACGGGCCCAATTGGATAAGTTGTTTGATTGTGTAGTAAATATTGGACTAGGCTAGGTG
93205867 AATCTCATATTTGTGGCTAGATTTGGACTAAAAGGGCCACACGAGCGTGTGGGCCCATTTGGGCC
66 AATCTCATATTTGTGGCTAGATTTGGACTAAAAGGGCCACACGAGCGTGTGGGCCCATTTGGGCC
93205932 GAGAATAGGCTTTAGGCCTATTCGTATTGTTATCCCTGTTTAGAATACTTTAGTTTACCAAACTA
131 GAGAATAGGCTTTAGGCCTATTCGTATTGTTATCCCTGTTTAGAATACTTTAGTTTACCAAACTA
93205997 CTGAAATGCCCTCAATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCC
196 CTGAAATGCCCTCAATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCC
93206062 TCGATTTGAAAAATTACCGTTTTAGGGTCATG
261 TCGATTTGAAAAATTACCGTTTTAGGGTCATG
93206094 TGGGCCTACGGGCCCAATTGGATAAGTTGTTTGATTGTGTAGTAAATATTGGACTAGGCTAGGTG
1 TGGGCCTACGGGCCCAATTGGATAAGTTGTTTGATTGTGTAGTAAATATTGGACTAGGCTAGGTG
* *
93206159 AATCTCATATTTGTGGCTAGATTTGGGCTAAAAGGGCCACATGAGCGTGTGGGCCCATTTGGGCC
66 AATCTCATATTTGTGGCTAGATTTGGACTAAAAGGGCCACACGAGCGTGTGGGCCCATTTGGGCC
93206224 GAGAATAGGCTTTAGGCCTATTCGTATTGTTATCCCTGTTTAGAATACTTTAGTTTACCAAACTA
131 GAGAATAGGCTTTAGGCCTATTCGTATTGTTATCCCTGTTTAGAATACTTTAGTTTACCAAACTA
93206289 CTGAAATGCCCTCAATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCC
196 CTGAAATGCCCTCAATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCC
93206354 TCGATTTGAAAAATTACCGTTTTA
261 TCGATTTGAAAAATTACCGTTTTA
93206378 CCCTCGATTT
Statistics
Matches: 281, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
292 281 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (292 bp):
TGGGCCTACGGGCCCAATTGGATAAGTTGTTTGATTGTGTAGTAAATATTGGACTAGGCTAGGTG
AATCTCATATTTGTGGCTAGATTTGGACTAAAAGGGCCACACGAGCGTGTGGGCCCATTTGGGCC
GAGAATAGGCTTTAGGCCTATTCGTATTGTTATCCCTGTTTAGAATACTTTAGTTTACCAAACTA
CTGAAATGCCCTCAATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCC
TCGATTTGAAAAATTACCGTTTTAGGGTCATG
Found at i:93206338 original size:27 final size:27
Alignment explanation
Indices: 93206297--93206461 Score: 208
Period size: 27 Copynumber: 6.1 Consensus size: 27
93206287 TACTGAAATG
* * *
93206297 CCCTCAATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
93206324 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
93206351 CCCTCGATTTGA-AAAATTACCGTTTTA
1 CCCTCGATTT-ATAGAATTACCGTTTTA
*
93206378 CCCTCGATTTATAGAATTACC-ATTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
93206404 TCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
93206431 CCTTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
93206458 CCCT
1 CCCT
93206462 AGTTTGGGGT
Statistics
Matches: 120, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
26 24 0.20
27 95 0.79
28 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCGTTTTA
Found at i:93206438 original size:80 final size:81
Alignment explanation
Indices: 93206297--93206461 Score: 253
Period size: 80 Copynumber: 2.0 Consensus size: 81
93206287 TACTGAAATG
* *
93206297 CCCTCAATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTG
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTT-
93206362 A-AAAATTACCGTTTTA
65 ACAAAATTACCGTTTTA
* * * *
93206378 CCCTCGATTTATAGAATTACCA-TTTATCCTCGATTTACAGAATTACCGTTTTACCTTCGATTTA
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
93206442 CAAAATTACCGTTTTA
66 CAAAATTACCGTTTTA
93206458 CCCT
1 CCCT
93206462 AGTTTGGGGT
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
79 1 0.01
80 56 0.73
81 20 0.26
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (81 bp):
CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
CAAAATTACCGTTTTA
Found at i:93206806 original size:26 final size:27
Alignment explanation
Indices: 93206758--93206819 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
93206748 TCTTACACTG
*
93206758 AAATTACCAGTTTACCTTCAGTTTACA
1 AAATTACCAGTTTACCCTCAGTTTACA
**
93206785 AAATTACC-GTTTTACCCT-AGTTTGTA
1 AAATTACCAG-TTTACCCTCAGTTTACA
93206811 AAATTACCA
1 AAATTACCA
93206820 AAATACCCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 15 0.50
27 15 0.50
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (27 bp):
AAATTACCAGTTTACCCTCAGTTTACA
Found at i:93206968 original size:27 final size:27
Alignment explanation
Indices: 93206804--93206973 Score: 142
Period size: 27 Copynumber: 6.2 Consensus size: 27
93206794 TTTTACCCTA
* * *
93206804 GTTTGTAAAATTACCAAAATACCCCTA
1 GTTTGTAAAATTACCGAAATACCCTTG
**
93206831 GTTTGTAAAATTACCGAAATACCCTCA
1 GTTTGTAAAATTACCGAAATACCCTTG
* * * *
93206858 ATTTATAAAATTACCAAAATACCCCTG
1 GTTTGTAAAATTACCGAAATACCCTTG
* ** **
93206885 ATTTACAAAATTATAGAAATACCCTTG
1 GTTTGTAAAATTACCGAAATACCCTTG
* ** *
93206912 AGTTTTTAAAAATTATAGAAATACCATTG
1 -GTTTGT-AAAATTACCGAAATACCCTTG
* *
93206941 GTTTGCAAAATTACTGAAATACCCTTG
1 GTTTGTAAAATTACCGAAATACCCTTG
93206968 GTTTGT
1 GTTTGT
93206974 GATTTACCAA
Statistics
Matches: 117, Mismatches: 24, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
27 90 0.77
28 7 0.06
29 20 0.17
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (27 bp):
GTTTGTAAAATTACCGAAATACCCTTG
Found at i:93207974 original size:25 final size:25
Alignment explanation
Indices: 93207905--93207968 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
93207895 AGGAAGTGCT
*
93207905 AAAAGGGCTCTGCCCTAGTTTACCA
1 AAAAGGGCTTTGCCCTAGTTTACCA
* *
93207930 AAAAGGGATTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCTAGTTTACCA
*
93207955 GAAAGGGCTTTGCC
1 AAAAGGGCTTTGCC
93207969 TCAGTTATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTACCA
Found at i:93207987 original size:24 final size:24
Alignment explanation
Indices: 93207956--93208001 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
93207946 AGTTTATCAG
**
93207956 AAAGGGCTTTGCCT-CAGTTATTA
1 AAAGGGCTAGGCCTCCAGTTATTA
93207979 AAAGAGGCTAGGCCTCCAGTTAT
1 AAAG-GGCTAGGCCTCCAGTTAT
93208002 ATGATAAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 8 0.42
25 7 0.37
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (24 bp):
AAAGGGCTAGGCCTCCAGTTATTA
Found at i:93209119 original size:27 final size:27
Alignment explanation
Indices: 93209074--93209239 Score: 197
Period size: 27 Copynumber: 6.1 Consensus size: 27
93209064 TACTGAAATG
** *
93209074 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * * * *
93209101 CCCTCAATTTATAGGATTAGCGTTTCA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * *
93209128 CCCTCAATTTACAAAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
93209155 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
93209182 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
93209209 CCATCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
93209236 CCCT
1 CCCT
93209240 AGTTTGGGGT
Statistics
Matches: 117, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCGTTTTA
Found at i:93209192 original size:81 final size:81
Alignment explanation
Indices: 93209074--93209239 Score: 251
Period size: 81 Copynumber: 2.0 Consensus size: 81
93209064 TACTGAAATG
* * * * *
93209074 CCCTCGATTTGTAGAATTACCATTTTACCCTCAATTTATAGGATTAGCGTTTCACCCTCAATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTCACCATCAATTTA
*
93209139 CAAAATTACTGTTTTA
66 CAAAATTACCGTTTTA
* * *
93209155 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCATCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTCACCATCAATTTA
93209220 CAAAATTACCGTTTTA
66 CAAAATTACCGTTTTA
93209236 CCCT
1 CCCT
93209240 AGTTTGGGGT
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTCACCATCAATTTA
CAAAATTACCGTTTTA
Found at i:93209561 original size:47 final size:47
Alignment explanation
Indices: 93209455--93209581 Score: 136
Period size: 47 Copynumber: 2.7 Consensus size: 47
93209445 TGGGTAAGGT
*
93209455 GCCGATGCCATGTCCTAGACATGGTCTTACACT-AGCTCATATCTTAA
1 GCCGATG-CATGTCCAAGACATGGTCTTACACTGAGCTCATATCTTAA
* * * *
93209502 GTCGATTCCATGTCCAAGACATGGTCTTACACTGA-CT-ATCATTTTGTA
1 GCCGA-TGCATGTCCAAGACATGGTCTTACACTGAGCTCAT-ATCTT-AA
*
93209550 GCCGATGCATGTCCCAGACAT-GTCTTACACTG
1 GCCGATGCATGTCCAAGACATGGTCTTACACTG
93209582 GCTTACATCT
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
46 13 0.19
47 48 0.71
48 7 0.10
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (47 bp):
GCCGATGCATGTCCAAGACATGGTCTTACACTGAGCTCATATCTTAA
Found at i:93209663 original size:86 final size:86
Alignment explanation
Indices: 93209518--93209838 Score: 581
Period size: 86 Copynumber: 3.7 Consensus size: 86
93209508 TCCATGTCCA
* * ** *
93209518 AGACATGGTCTTACACTGACTAT-CATTTTGTAGCCGATGCATGTCCCAGACATGTCTTACACTG
1 AGACATGGTCTTACACT-AGTTTCCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACTG
93209582 GCTTACATCTCGAGGCCTTCCC
65 GCTTACATCTCGAGGCCTTCCC
93209604 AGACATGGTCTTACACTAGTTTCCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACTGG
1 AGACATGGTCTTACACTAGTTTCCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACTGG
93209669 CTTACATCTCGAGGCCTTCCC
66 CTTACATCTCGAGGCCTTCCC
93209690 AGACATGGTCTTACACTAGTTTCCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACTGG
1 AGACATGGTCTTACACTAGTTTCCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACTGG
93209755 CTTACATCTCGAGGCCTTCCC
66 CTTACATCTCGAGGCCTTCCC
93209776 AGACATGGTCTTACACTAGTTTCCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACT
1 AGACATGGTCTTACACTAGTTTCCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACT
93209839 AGCACACACA
Statistics
Matches: 229, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
85 3 0.01
86 226 0.99
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (86 bp):
AGACATGGTCTTACACTAGTTTCCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACTGG
CTTACATCTCGAGGCCTTCCC
Found at i:93216797 original size:18 final size:17
Alignment explanation
Indices: 93216774--93216810 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
93216764 GAACAAAGTC
93216774 AAAAGTGACTCAAAAATA
1 AAAAGTGACT-AAAAATA
93216792 AAAAGTGACTAAAAATA
1 AAAAGTGACTAAAAATA
93216809 AA
1 AA
93216811 GTCAAAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.65, C:0.08, G:0.11, T:0.16
Consensus pattern (17 bp):
AAAAGTGACTAAAAATA
Found at i:93229453 original size:18 final size:18
Alignment explanation
Indices: 93229425--93229480 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
93229415 GTCAAAATAC
93229425 AAAAT-TGGTATCGATAT
1 AAAATATGGTATCGATAT
93229442 AAAATATGGTATCGATA-
1 AAAATATGGTATCGATAT
*
93229459 AAATTCAATAGGTATCGATAT
1 AAAAT--AT-GGTATCGATAT
93229480 A
1 A
93229481 TTTTTAAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 9 0.27
18 11 0.33
19 2 0.06
20 10 0.30
21 1 0.03
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.32
Consensus pattern (18 bp):
AAAATATGGTATCGATAT
Found at i:93230367 original size:32 final size:32
Alignment explanation
Indices: 93230326--93230391 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
93230316 CATTCTATCG
93230326 TATGATGTCATAGAGTCTTTCATTAATGGTCT
1 TATGATGTCATAGAGTCTTTCATTAATGGTCT
* **
93230358 TATGATGTCATGGAGTCTTTTGTTAATGGTCT
1 TATGATGTCATAGAGTCTTTCATTAATGGTCT
93230390 TA
1 TA
93230392 CTCATTATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.45
Consensus pattern (32 bp):
TATGATGTCATAGAGTCTTTCATTAATGGTCT
Found at i:93232401 original size:34 final size:34
Alignment explanation
Indices: 93232349--93232438 Score: 112
Period size: 34 Copynumber: 2.6 Consensus size: 34
93232339 GTTCCGATTA
* *
93232349 GGGCCTTAGCCCTTTTTCAGTAACAGCA-TCAGTCT
1 GGGCCTTAGCCC-ATTTCAGTAACAG-AGGCAGTCT
93232384 GGG-CTTGAGCCCATTTCAGTAACAGAGGCAGTCT
1 GGGCCTT-AGCCCATTTCAGTAACAGAGGCAGTCT
*
93232418 GGGCCTTAGCCCAGTTCAGTA
1 GGGCCTTAGCCCATTTCAGTA
93232439 CAGTATGCAA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
33 1 0.02
34 37 0.76
35 11 0.22
ACGTcount: A:0.21, C:0.27, G:0.26, T:0.27
Consensus pattern (34 bp):
GGGCCTTAGCCCATTTCAGTAACAGAGGCAGTCT
Found at i:93236580 original size:22 final size:22
Alignment explanation
Indices: 93236553--93236618 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
93236543 TTCCTGGGTG
*
93236553 GCATTTTGGTAGCCTTTATGGT
1 GCATTTTGATAGCCTTTATGGT
*
93236575 GTATTTTGATATGGCCTTTAT-G-
1 GCATTTTGATA--GCCTTTATGGT
* *
93236597 GCATTTTGTTAGCCTCTATGGT
1 GCATTTTGATAGCCTTTATGGT
93236619 ATTCTGATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
20 7 0.20
21 1 0.03
22 18 0.51
23 1 0.03
24 8 0.23
ACGTcount: A:0.15, C:0.14, G:0.24, T:0.47
Consensus pattern (22 bp):
GCATTTTGATAGCCTTTATGGT
Found at i:93236641 original size:42 final size:44
Alignment explanation
Indices: 93236550--93236643 Score: 129
Period size: 42 Copynumber: 2.2 Consensus size: 44
93236540 GGGTTCCTGG
* *
93236550 GTGGCATTTTGGTAGCCTTTATGGTGTATTTTGATATGGCCTTT
1 GTGGCATTTTGGTAGCCTCTATGGTGTATTCTGATATGGCCTTT
* * *
93236594 ATGGCATTTTGTTAGCCTCTAT-G-GTATTCTGATATGGCTTTT
1 GTGGCATTTTGGTAGCCTCTATGGTGTATTCTGATATGGCCTTT
93236636 GTGGCATT
1 GTGGCATT
93236644 CAGCTAGCCT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
42 24 0.55
43 1 0.02
44 19 0.43
ACGTcount: A:0.15, C:0.13, G:0.26, T:0.47
Consensus pattern (44 bp):
GTGGCATTTTGGTAGCCTCTATGGTGTATTCTGATATGGCCTTT
Found at i:93237216 original size:56 final size:56
Alignment explanation
Indices: 93237115--93237244 Score: 138
Period size: 56 Copynumber: 2.3 Consensus size: 56
93237105 TTCGATTTAT
* *
93237115 CAAGATCATTAAGGGCATCCGCCAAAAGAAAGATCAATAAAGGTA-TCAGCCAAAAG
1 CAAGATCAGTAAGGGTATCCGCCAAAAGAAAGATCAATAAAGGTATTC-GCCAAAAG
* * * * *
93237171 CAAGATCAGTAAGGGTATCCGTCAAAAGTATGA-CTAGTAAGGGTATTCGCCAAAAG
1 CAAGATCAGTAAGGGTATCCGCCAAAAGAAAGATC-AATAAAGGTATTCGCCAAAAG
* * *
93237227 TATGATCAGTAAAGGTAT
1 CAAGATCAGTAAGGGTAT
93237245 TTTCCAAGAA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
55 1 0.02
56 59 0.95
57 2 0.03
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (56 bp):
CAAGATCAGTAAGGGTATCCGCCAAAAGAAAGATCAATAAAGGTATTCGCCAAAAG
Found at i:93237245 original size:28 final size:28
Alignment explanation
Indices: 93237116--93237245 Score: 111
Period size: 28 Copynumber: 4.6 Consensus size: 28
93237106 TCGATTTATC
* * * * *
93237116 AAGATCATTAAGGGCATCCGCCAAAAGA
1 AAGATCAGTAAAGGTATTCGCCAAAAGT
* *
93237144 AAGATCAATAAAGGTA-TCAGCCAAAAGC
1 AAGATCAGTAAAGGTATTC-GCCAAAAGT
* * *
93237172 AAGATCAGTAAGGGTATCCGTCAAAAGT
1 AAGATCAGTAAAGGTATTCGCCAAAAGT
* *
93237200 ATGA-CTAGTAAGGGTATTCGCCAAAAGT
1 AAGATC-AGTAAAGGTATTCGCCAAAAGT
*
93237228 ATGATCAGTAAAGGTATT
1 AAGATCAGTAAAGGTATT
93237246 TTCCAAGAAT
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
27 2 0.02
28 80 0.95
29 2 0.02
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (28 bp):
AAGATCAGTAAAGGTATTCGCCAAAAGT
Found at i:93238112 original size:61 final size:60
Alignment explanation
Indices: 93237943--93238117 Score: 179
Period size: 61 Copynumber: 2.9 Consensus size: 60
93237933 AAAGGAATGT
* * * *
93237943 CTTTGTGGAAAACTCTAGACAAGAAAGCCTTTGTGGCGCGTATTAAATGTAAAGGAACAC
1 CTTTGTGGAAAACTCTAGACAGGAAAGCCTTTCTGGCGAGTATTGAATGTAAAGGAACAC
* * * * * * * *
93238003 CTTTTTGGAAAAAATCTGGACAGAAAAGCCTTTTTGGCAAGTACTGAATGTAAAGGAGCAC
1 CTTTGTGG-AAAACTCTAGACAGGAAAGCCTTTCTGGCGAGTATTGAATGTAAAGGAACAC
* * ** *
93238064 CTTTGTGGCAAAACTTTAGATAGGAAAGCCTTTCTGATGGGTATTGAATGTAAA
1 CTTTGTGG-AAAACTCTAGACAGGAAAGCCTTTCTGGCGAGTATTGAATGTAAA
93238118 TGACTGCATT
Statistics
Matches: 90, Mismatches: 24, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
60 7 0.08
61 83 0.92
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (60 bp):
CTTTGTGGAAAACTCTAGACAGGAAAGCCTTTCTGGCGAGTATTGAATGTAAAGGAACAC
Found at i:93244536 original size:40 final size:40
Alignment explanation
Indices: 93244492--93244753 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
93244482 GCTCCTCGTT
* *
93244492 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
93244532 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
93244572 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
93244611 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
93244650 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
93244689 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
93244730 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
93244754 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:93252612 original size:40 final size:40
Alignment explanation
Indices: 93252567--93252756 Score: 283
Period size: 40 Copynumber: 4.8 Consensus size: 40
93252557 ATAACCACAA
* * * *
93252567 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
93252607 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
93252647 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
93252687 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
93252727 GCATAAATGCCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
93252757 GTATTCAAAT
Statistics
Matches: 140, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 136 0.97
41 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:93262916 original size:32 final size:32
Alignment explanation
Indices: 93262875--93262937 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
93262865 CCCAACCCAA
*
93262875 AGCCATCCATAACACCCCCGTACCAGCCTTAG
1 AGCCATCCATAACAACCCCGTACCAGCCTTAG
93262907 AGCCATCCATAACAACCCCGTACCAGCCTTA
1 AGCCATCCATAACAACCCCGTACCAGCCTTA
93262938 CACCATGTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.30, C:0.43, G:0.11, T:0.16
Consensus pattern (32 bp):
AGCCATCCATAACAACCCCGTACCAGCCTTAG
Found at i:93263150 original size:27 final size:26
Alignment explanation
Indices: 93263103--93263153 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
93263093 CGAGGCTACC
*
93263103 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
93263129 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
93263154 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:93263881 original size:27 final size:27
Alignment explanation
Indices: 93263805--93263894 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
93263795 GCCAAAATGG
* * * *
93263805 TAATTTTACCCTACAAGGGTATCTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
*
93263832 TAATTCTACCCTATAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
93263859 TATTTCTACCTTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
93263886 AAATTCTAC
1 TAATTCTAC
93263895 AACTTATCCA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:93270689 original size:104 final size:104
Alignment explanation
Indices: 93270504--93270987 Score: 898
Period size: 104 Copynumber: 4.7 Consensus size: 104
93270494 CACCATAGAA
*
93270504 ATTGTAGCGAGGCTGCCAGATATTGTGACGAAGTCAGTAGATACAGATATTGTGGCTAGGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCAGTAGATACAGATATTGTGGCTAGGCCACC
93270569 AGAACAGATATATATATATATATGTGGCGAAGCCACCAT
66 AGAACAGATATATATATATATATGTGGCGAAGCCACCAT
93270608 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCAGTAGATACAGATATTGTGGCTAGGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCAGTAGATACAGATATTGTGGCTAGGCCACC
93270673 AGAACAGATATATATATATATATGTGGCGAAGCCACCAT
66 AGAACAGATATATATATATATATGTGGCGAAGCCACCAT
93270712 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCAGTAGATACAGATATTGTGGCTAGGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCAGTAGATACAGATATTGTGGCTAGGCCACC
93270777 AGAACAGATATATATATATATATGTGGCGAAGCCACCAT
66 AGAACAGATATATATATATATATGTGGCGAAGCCACCAT
93270816 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCAGTAGATACAGATATTGTGGCTAGGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCAGTAGATACAGATATTGTGGCTAGGCCACC
93270881 AGAACAGATATATATATATATATGTGGCGAAGCCACCAT
66 AGAACAGATATATATATATATATGTGGCGAAGCCACCAT
** * * *
93270920 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCA-AAACAGATATATATGGCGAGGCCAC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCAGTAGATACAGATAT-TGTGGCTAGGCCAC
93270984 CAGA
65 CAGA
93270988 TTGCAGCGAG
Statistics
Matches: 373, Mismatches: 6, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
103 9 0.02
104 364 0.98
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (104 bp):
ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCAGTAGATACAGATATTGTGGCTAGGCCACC
AGAACAGATATATATATATATATGTGGCGAAGCCACCAT
Found at i:93271686 original size:27 final size:27
Alignment explanation
Indices: 93271639--93271729 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
93271629 GGGCAAAATG
* * *
93271639 GTAATTTTACCCTACAAGGGT-TTCTCA
1 GTAATTCTACCCTATAGGGGTATT-TCA
93271666 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTATAGGGGTATTTCA
* * *
93271693 GTATTTCTACCTTATAGGGGTATTTCG
1 GTAATTCTACCCTATAGGGGTATTTCA
93271720 GTAATTCTAC
1 GTAATTCTAC
93271730 AACTTATCCA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 54 0.96
28 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTCTACCCTATAGGGGTATTTCA
Found at i:93276063 original size:37 final size:37
Alignment explanation
Indices: 93276001--93276080 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 37
93275991 CTTATTACGA
** *
93276001 AGTCTTACCCGGACGTAATCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATCTCCACACGAAGTCATCG
* *
93276038 GGTCTTACCCGGACAAAAT-TCCCACACGTAGTCATCG
1 AGTCTTACCCGGACAAAATCT-CCACACGAAGTCATCG
93276075 AGTCTT
1 AGTCTT
93276081 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
36 1 0.03
37 35 0.97
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATCTCCACACGAAGTCATCG
Found at i:93276277 original size:47 final size:47
Alignment explanation
Indices: 93276199--93276709 Score: 932
Period size: 47 Copynumber: 10.9 Consensus size: 47
93276189 CCCTTCGGGA
* * * * * * * *
93276199 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
93276246 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
93276293 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
93276340 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
93276387 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
93276434 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
93276481 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
93276528 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
93276575 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
93276622 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
93276669 CTTATCACATATATACACTTTCACATTCATCACATCGGCTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTA
93276710 CTTTCACATT
Statistics
Matches: 452, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 452 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:93276715 original size:24 final size:24
Alignment explanation
Indices: 93276685--93276733 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
93276675 ACATATATAC
93276685 ACTTTCACATTCATCACATCGGCT
1 ACTTTCACATTCATCACATCGGCT
93276709 ACTTTCACATTCATCACATCGGCT
1 ACTTTCACATTCATCACATCGGCT
93276733 A
1 A
93276734 TTAGGCCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.33, G:0.08, T:0.33
Consensus pattern (24 bp):
ACTTTCACATTCATCACATCGGCT
Found at i:93276722 original size:71 final size:71
Alignment explanation
Indices: 93276638--93276778 Score: 264
Period size: 71 Copynumber: 2.0 Consensus size: 71
93276628 ACATATATAC
93276638 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
93276703 TCGGCT
66 TCGGCT
* *
93276709 ACTTTCACATTCATCACATCGGCTATTAGGCCTTCTCACATATATATACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
93276774 TCGGC
66 TCGGC
93276779 CATTAGGCCT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (71 bp):
ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCT
Found at i:93276761 original size:47 final size:47
Alignment explanation
Indices: 93276708--93276808 Score: 166
Period size: 47 Copynumber: 2.1 Consensus size: 47
93276698 TCACATCGGC
* * *
93276708 TACTTTCACATTCATCACATCGGCTATTAGGCCTTCTCACATATATA
1 TACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATA
93276755 TACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATA
1 TACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATA
*
93276802 CACTTTC
1 TACTTTC
93276809 TTGGCTGAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.35
Consensus pattern (47 bp):
TACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATA
Found at i:93282025 original size:49 final size:49
Alignment explanation
Indices: 93281905--93282027 Score: 149
Period size: 49 Copynumber: 2.5 Consensus size: 49
93281895 GTCGATGTCG
* * *
93281905 TGTCCCACACAGGTCTTACACTAACTTTCATATATCGAGGTCAATGCAA
1 TGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGTCAATGCAA
* * * ** *
93281954 TGTCCCAGACAGGTCTGACACTGGCTCTCATCTATCG-GTGTTGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG-GTCAATGCAA
93282003 TGTCCCAGACAGGTCTTACACTGAC
1 TGTCCCAGACAGGTCTTACACTGAC
93282028 ACACAACAAG
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
48 1 0.02
49 61 0.98
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (49 bp):
TGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGTCAATGCAA
Found at i:93282186 original size:46 final size:46
Alignment explanation
Indices: 93282090--93282264 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
93282080 CTCGAGGCTG
* * *
93282090 ATGCATGTCGCAGACATGTCTTACACTAGCTCTTGTC-TCAATGCGG---
1 ATGCATGTCCCAGACATGTCTTACACTGGCTC---TCAT-AATGTGGCCA
** *
93282136 ATGCATGTCTTAGACATGTGTTACACTGGCTCTCATAATGTGGCCA
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCCA
* * *
93282182 ATGCATTTCCCAGATATGTCTTACACTGGCTCTCATAATGTGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCCA
*
93282228 ATGCATGTCCCAGACATGTCTTACACTGGCTCACATA
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCTCATA
93282265 CCACCCAATG
Statistics
Matches: 111, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
43 8 0.07
44 1 0.01
46 102 0.92
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCCA
Found at i:93286886 original size:24 final size:24
Alignment explanation
Indices: 93286854--93286903 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
93286844 TTCATGGCCA
93286854 TATACAAAAAGATAAACATATTTT
1 TATACAAAAAGATAAACATATTTT
93286878 TATACAAAAAGATAAACATATTTT
1 TATACAAAAAGATAAACATATTTT
93286902 TA
1 TA
93286904 CATGCCTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.34
Consensus pattern (24 bp):
TATACAAAAAGATAAACATATTTT
Found at i:93291665 original size:20 final size:21
Alignment explanation
Indices: 93291626--93291665 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
93291616 GTCAATAGGA
93291626 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
93291647 CCACACGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
93291666 GTTTCAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.10, C:0.40, G:0.30, T:0.20
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:93302504 original size:33 final size:33
Alignment explanation
Indices: 93302462--93302528 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
93302452 GTTTTCAGAA
93302462 GCTAAAGTCGACTTTGATTGAAA-CACCTGTACT
1 GCTAAAGTCGACTTTGATT-AAAGCACCTGTACT
* *
93302495 GCTAAAGTCGACTTTGGTTAAAGCACTTGTACT
1 GCTAAAGTCGACTTTGATTAAAGCACCTGTACT
93302528 G
1 G
93302529 ACACAGCCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 3 0.10
33 28 0.90
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.31
Consensus pattern (33 bp):
GCTAAAGTCGACTTTGATTAAAGCACCTGTACT
Found at i:93305230 original size:43 final size:42
Alignment explanation
Indices: 93305141--93305247 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 42
93305131 TGTGATTACA
* *
93305141 TGTAAGACCATGTCTAGGACATTGGCATTGTATTGAGATTATG
1 TGTAAGACCATGTCTGGGACATTAGCATTGTATT-AGATTATG
*
93305184 TGTAAGACCATGTCTGGGACATTAGCATTATTAATT-GATT-TCG
1 TGTAAGACCATGTCTGGGACATTAGCATT-GT-ATTAGATTAT-G
*
93305227 TGTAAGACCTTGTCTGGGACA
1 TGTAAGACCATGTCTGGGACA
93305248 GTTGCATCGA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
42 1 0.02
43 52 0.91
44 1 0.02
45 3 0.05
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTAGCATTGTATTAGATTATG
Found at i:93305274 original size:43 final size:43
Alignment explanation
Indices: 93305132--93305288 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 43
93305122 TTACCGATAT
* * *
93305132 GTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTATT--
1 GTGATAACATGTAAGACCATGTCTGGGACATTAGCA-TG-ATTAA
* * ** *
93305175 GAGATTATGTGTAAGACCATGTCTGGGACATTAGCATTATTAA
1 GTGATAACATGTAAGACCATGTCTGGGACATTAGCATGATTAA
* ** * *
93305218 TTGATTTCGTGTAAGACCTTGTCTGGGACAGTT-GCATCGA-TAA
1 GTGATAACATGTAAGACCATGTCTGGGACA-TTAGCAT-GATTAA
*
93305261 GTGATAACATGTAAGACCATATCTGGGA
1 GTGATAACATGTAAGACCATGTCTGGGA
93305289 TATGGCATTG
Statistics
Matches: 92, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 3 0.03
42 1 0.01
43 85 0.92
44 3 0.03
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.32
Consensus pattern (43 bp):
GTGATAACATGTAAGACCATGTCTGGGACATTAGCATGATTAA
Found at i:93310692 original size:25 final size:25
Alignment explanation
Indices: 93310646--93310693 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
93310636 TTATAATATG
* * * *
93310646 AAAATGACCGTTTTGCCTCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
93310671 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
93310694 GGGTAAATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:93310796 original size:20 final size:20
Alignment explanation
Indices: 93310730--93310796 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
93310720 ATTTTAATAA
* *
93310730 ACATGGTATGGATGATATGC
1 ACATGATATGTATGATATGC
* *
93310750 ACATGACATGTATGATGTGC
1 ACATGATATGTATGATATGC
93310770 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
93310790 ACATGAT
1 ACATGAT
93310797 GTATTTATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:93310875 original size:25 final size:24
Alignment explanation
Indices: 93310846--93310966 Score: 165
Period size: 25 Copynumber: 5.0 Consensus size: 24
93310836 GAGGAAGAGT
93310846 AAAAGGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATG
93310870 ATAAAGGGCTTATGCCCCAGTTATG
1 A-AAAGGGCTTATGCCCCAGTTATG
*
93310895 ATAAAGGGCTTATGCCCCAGTTATT
1 A-AAAGGGCTTATGCCCCAGTTATG
*
93310920 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATG
*
93310943 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
93310967 ATGAAAAAGC
Statistics
Matches: 91, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
23 19 0.21
24 16 0.18
25 56 0.62
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATG
Found at i:93310963 original size:48 final size:49
Alignment explanation
Indices: 93310845--93310966 Score: 169
Period size: 48 Copynumber: 2.5 Consensus size: 49
93310835 GGAGGAAGAG
93310845 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTAT
* *
93310894 GATAAAGGGCTTATGCCCCAGTTATTA-AAAGGGCTT-TGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTAT
*
93310942 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
93310967 ATGAAAAAGC
Statistics
Matches: 66, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
47 9 0.14
48 24 0.36
49 10 0.15
50 23 0.35
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (49 bp):
TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTAT
Found at i:93311214 original size:31 final size:31
Alignment explanation
Indices: 93311160--93311220 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
93311150 CGTTTACAGT
*
93311160 AAAGGCTTCGGCCCAGTAATATGAGATATGG
1 AAAGGCTTCGGCCCAGTAATATGAAATATGG
**
93311191 AAAGGCTTCGGCCCAGTGTTATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
93311221 AAATATGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGG
Found at i:93315833 original size:85 final size:85
Alignment explanation
Indices: 93315690--93315860 Score: 333
Period size: 85 Copynumber: 2.0 Consensus size: 85
93315680 GGCCGGCCAT
*
93315690 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCAAGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
93315755 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
93315775 GAGCAAGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCAAGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
93315840 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
93315860 G
1 G
93315861 GGCATGGGCA
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.26
Consensus pattern (85 bp):
GAGCAAGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:93316973 original size:47 final size:47
Alignment explanation
Indices: 93316877--93317074 Score: 342
Period size: 47 Copynumber: 4.1 Consensus size: 47
93316867 CGTAGTGAAT
93316877 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
93316926 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTCATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
93316973 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
93317020 ATGTGATGAATGTGAAAGTGTATATGTATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATA--TATGTGATAAGGCCTAATGGCCG
93317069 ATGTGA
1 ATGTGA
93317075 GTGTGGAATT
Statistics
Matches: 143, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
47 94 0.66
49 49 0.34
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:93317247 original size:49 final size:48
Alignment explanation
Indices: 93317164--93317373 Score: 234
Period size: 49 Copynumber: 4.6 Consensus size: 48
93317154 AAGAAATTTC
93317164 TGAATGTGAAAGTG-TATATATGTGATAAGGCCGAATGGCCAATGTGA
1 TGAATGTGAAAGTGTTATATATGTGATAAGGCCGAATGGCCAATGTGA
93317211 TGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGG-C-A--TG-
1 TGAATGTGAAAGTGT-TATATATGTGATAAGGCCGAATGGCCAATGTGA
* * *
93317255 TG-A----ACA-TG-CATATATGAGATAAGGCCGAATGGCCAATGTGA
1 TGAATGTGAAAGTGTTATATATGTGATAAGGCCGAATGGCCAATGTGA
93317296 TGAATGTGAACA-TGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
1 TGAATGTGAA-AGTGT-TATATATGTGATAAGGCCGAATGGCCAATGTGA
* * *
93317345 TGGATGTGGAAGTG-TATAAATGTGATAAG
1 TGAATGTGAAAGTGTTATATATGTGATAAG
93317374 TCCCGAAGGG
Statistics
Matches: 138, Mismatches: 9, Indels: 32
0.77 0.05 0.18
Matches are distributed among these distances:
36 22 0.16
37 1 0.01
38 3 0.02
39 2 0.01
40 2 0.01
41 2 0.01
42 1 0.01
43 1 0.01
44 2 0.01
45 2 0.01
46 1 0.01
47 32 0.23
48 2 0.01
49 65 0.47
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (48 bp):
TGAATGTGAAAGTGTTATATATGTGATAAGGCCGAATGGCCAATGTGA
Found at i:93317291 original size:85 final size:85
Alignment explanation
Indices: 93317179--93317336 Score: 282
Period size: 85 Copynumber: 1.9 Consensus size: 85
93317169 GTGAAAGTGT
*
93317179 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATATATGTGATAAGG
1 ATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTATATATATGTGATAAGG
93317243 CCGAATGGCATGTGAACATGC
65 CCGAATGGCATGTGAACATGC
*
93317264 ATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATATATGTGATAAGGC
1 ATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATATGTGATAAGGC
93317329 CGAATGGC
66 CGAATGGC
93317337 CAATGTGATG
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
85 69 0.99
86 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (85 bp):
ATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATATGTGATAAGGC
CGAATGGCATGTGAACATGC
Found at i:93319867 original size:38 final size:38
Alignment explanation
Indices: 93319803--93319875 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
93319793 AATCCAAGTT
*
93319803 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCAGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCAGG
* *
93319841 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCC
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCC
93319876 GGATTAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 1 0.03
38 30 0.97
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCAGG
Found at i:93319993 original size:40 final size:40
Alignment explanation
Indices: 93319931--93320211 Score: 393
Period size: 40 Copynumber: 7.0 Consensus size: 40
93319921 AGGTCTCGAC
93319931 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
93319970 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
93320010 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * *
93320050 GATGTATCCGGGCGAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
93320090 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * ** * * *
93320130 GATATATCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * *
93320170 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
93320210 GA
1 GA
93320212 CATGTATTCG
Statistics
Matches: 219, Mismatches: 22, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
39 4 0.02
40 215 0.98
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:93321615 original size:85 final size:85
Alignment explanation
Indices: 93321468--93321646 Score: 331
Period size: 85 Copynumber: 2.1 Consensus size: 85
93321458 GGCCGGCCAT
93321468 GAGCATGGGTGGACAAGTTGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGAGCATTAT
1 GAGCATGGGTGGACAAGTTGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGAGCATTAT
93321533 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
93321553 GAGCATGGGTGGACAAGTTGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGTTGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGAGCATTAT
*
93321618 GTAAGGATTAATGAAATAAA
66 GTAAGGATTAATAAAATAAA
*
93321638 GGGCATGGG
1 GAGCATGGG
93321647 CAATAAAATA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGTTGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGAGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:93322965 original size:47 final size:47
Alignment explanation
Indices: 93322911--93324094 Score: 1977
Period size: 47 Copynumber: 25.1 Consensus size: 47
93322901 TATTTGAATA
* * * * *
93322911 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
** * * * *
93322958 AATGTGAA-AGTATATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
* * * * *
93323005 AATGTGAA-AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGGTG
1 AATGTGAACA-TG--CATATATGAGATAAGGCCGAATGGCCAATGTGATG
* *
93323054 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
* *
93323101 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
* *
93323148 AATGTGAA-AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TG--CATATATGAGATAAGGCCGAATGGCCAATGTGATG
93323197 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
93323244 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
93323291 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
93323338 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
93323385 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
93323432 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
93323479 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
93323526 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
93323573 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
93323620 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
93323667 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
93323714 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
93323761 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
93323808 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
93323855 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
93323902 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
93323949 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
** * *
93323996 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
*
93324043 AATGTGAACATGCATATATGTG-TAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
*
93324089 GATGTG
1 AATGTG
93324095 GAAGTGTATA
Statistics
Matches: 1115, Mismatches: 17, Indels: 11
0.98 0.01 0.01
Matches are distributed among these distances:
46 29 0.03
47 995 0.89
49 90 0.08
50 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (47 bp):
AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
Found at i:93323096 original size:22 final size:22
Alignment explanation
Indices: 93323071--93323146 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
93323061 AAGTGTATAT
93323071 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
93323093 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
93323117 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
93323140 ATGTGAT
1 ATGTGAT
93323147 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:93326609 original size:38 final size:38
Alignment explanation
Indices: 93326545--93326617 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
93326535 AATCCAAGTT
*
93326545 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCAGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCAGG
* *
93326583 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCC
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCC
93326618 GGATTAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 1 0.03
38 30 0.97
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCAGG
Found at i:93326735 original size:40 final size:40
Alignment explanation
Indices: 93326673--93326953 Score: 393
Period size: 40 Copynumber: 7.0 Consensus size: 40
93326663 AGGTCTCGAC
93326673 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
93326712 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
93326752 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * *
93326792 GATGTATCCGGGCGAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
93326832 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * ** * * *
93326872 GATATATCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * *
93326912 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
93326952 GA
1 GA
93326954 CATGTATTCG
Statistics
Matches: 219, Mismatches: 22, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
39 4 0.02
40 215 0.98
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:93329622 original size:47 final size:47
Alignment explanation
Indices: 93329568--93329971 Score: 530
Period size: 47 Copynumber: 8.6 Consensus size: 47
93329558 TATTTGAATA
* * *
93329568 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
93329615 AATGTGAAAGTATATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
93329662 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGGTG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
93329711 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
93329758 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
93329805 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGACAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
93329852 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
93329899 AATGTGAACA-TGCATATATGTG-TAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
93329945 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
93329972 TCTCGAAGGG
Statistics
Matches: 330, Mismatches: 22, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
45 1 0.00
46 40 0.12
47 243 0.74
48 1 0.00
49 45 0.14
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:93337590 original size:29 final size:29
Alignment explanation
Indices: 93337550--93337615 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
93337540 CTGGCCCACT
* *
93337550 ATTAGGCCCAAATTACCTGTATATGGCCC
1 ATTAGGCCCAAATGACATGTATATGGCCC
*
93337579 ATTAGGCCCAAATGACATTTATATGGCCC
1 ATTAGGCCCAAATGACATGTATATGGCCC
*
93337608 GTTAGGCC
1 ATTAGGCC
93337616 TAGTCACATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (29 bp):
ATTAGGCCCAAATGACATGTATATGGCCC
Found at i:93339993 original size:17 final size:18
Alignment explanation
Indices: 93339973--93340006 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
93339963 AAGTGAATTG
*
93339973 AAATTGC-GAAGTTAAAT
1 AAATTGCAGAAATTAAAT
93339990 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
93340007 ATGAGGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.06, G:0.15, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:93340741 original size:10 final size:10
Alignment explanation
Indices: 93340722--93340781 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
93340712 TGAAATTCTA
93340722 AAAGATAAAT
1 AAAGATAAAT
93340732 ACAA-ATAAAT
1 A-AAGATAAAT
* *
93340742 AAATATAATT
1 AAAGATAAAT
93340752 AAAGATAAAT
1 AAAGATAAAT
93340762 AAAGATAAAT
1 AAAGATAAAT
93340772 GAAA-ATAAAT
1 -AAAGATAAAT
93340782 CCTAAAATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
9 2 0.05
10 37 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:93340756 original size:30 final size:30
Alignment explanation
Indices: 93340722--93340779 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
93340712 TGAAATTCTA
93340722 AAAGATAAATACAA-ATAAAT-AAATATAATT
1 AAAGATAAATA-AAGATAAATGAAA-ATAATT
93340752 AAAGATAAATAAAGATAAATGAAAATAA
1 AAAGATAAATAAAGATAAATGAAAATAA
93340780 ATCCTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 2 0.08
30 21 0.81
31 3 0.12
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (30 bp):
AAAGATAAATAAAGATAAATGAAAATAATT
Found at i:93344168 original size:46 final size:44
Alignment explanation
Indices: 93344055--93344277 Score: 164
Period size: 46 Copynumber: 4.8 Consensus size: 44
93344045 GCATATTTGT
93344055 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCATA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCATA
* * * *
93344101 GTCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGA-G
1 GCCGATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTC-ATA
* * *
93344147 GCCGATGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCA-A
1 GCCGATGCATGTCCCAGACATGTCTTACACT-G-ACACATCTCATA
* * * * * *
93344192 TGTCGACGCCATGTCCCAGACATGGTGTTACACTGACTC-TCATAATGTG
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATC-TCA--TA
* * *
93344241 GCCAATGCATGTCCGAGACATGTCTTACACTGGCACA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACACA
93344278 CAAATAACCC
Statistics
Matches: 142, Mismatches: 22, Indels: 25
0.75 0.12 0.13
Matches are distributed among these distances:
44 12 0.08
45 17 0.12
46 70 0.49
47 29 0.20
48 14 0.10
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACACATCTCATA
Found at i:93344251 original size:94 final size:91
Alignment explanation
Indices: 93344063--93344279 Score: 235
Period size: 94 Copynumber: 2.3 Consensus size: 91
93344053 GTGCCGATGC
*
93344063 CATGTCCCAGACATGGTCTTACACTG-ACACATCTCATAGTCGATGCATGTCCCAGACATGTCTT
1 CATGTCCCAGACAT-GTCTTACACTGCACACATCTCATAGTCGACGCATGTCCCAGACATGTCTT
* * * *
93344127 ACACTGGCTTACGTCTCGAGGCCGATG
65 ACACTGACTTACATATCGAGGCCAATG
* * *
93344154 CATGTCCCAAACATGTCTTACACTAGCACTCGTCTCA-ATGTCGACGCCATGTCCCAGACATGGT
1 CATGTCCCAGACATGTCTTACACT-GCACACATCTCATA-GTCGACG-CATGTCCCAGACAT-GT
* *
93344218 GTTACACTGACTCT-CATAAT-GTGGCCAATG
62 CTTACACTGACT-TACAT-ATCGAGGCCAATG
*
93344248 CATGTCCGAGACATGTCTTACACTGGCACACA
1 CATGTCCCAGACATGTCTTACACT-GCACACA
93344280 AATAACCCAA
Statistics
Matches: 104, Mismatches: 15, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
90 10 0.10
91 15 0.14
92 14 0.13
93 14 0.13
94 49 0.47
95 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (91 bp):
CATGTCCCAGACATGTCTTACACTGCACACATCTCATAGTCGACGCATGTCCCAGACATGTCTTA
CACTGACTTACATATCGAGGCCAATG
Found at i:93359052 original size:62 final size:61
Alignment explanation
Indices: 93358953--93359070 Score: 191
Period size: 62 Copynumber: 1.9 Consensus size: 61
93358943 GAGTCTAATG
* *
93358953 AGAAAGGATTTAAAAGGCAATTATACCCAAAATTTATTTGGGCTGGAAGGAAAGGGCGTGA
1 AGAAAGGATTTAAAAGGCAATTAGACCCAAAAGTTATTTGGGCTGGAAGGAAAGGGCGTGA
* *
93359014 NAGAAAGGATTTAAAAGGCAATTAGACCCAAAAGTTATTTGGGCTGGACGGCAAGGG
1 -AGAAAGGATTTAAAAGGCAATTAGACCCAAAAGTTATTTGGGCTGGAAGGAAAGGG
93359071 TATGAAATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 52 1.00
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.21
Consensus pattern (61 bp):
AGAAAGGATTTAAAAGGCAATTAGACCCAAAAGTTATTTGGGCTGGAAGGAAAGGGCGTGA
Found at i:93368844 original size:48 final size:48
Alignment explanation
Indices: 93368786--93368877 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
93368776 TTGATGTATA
* *
93368786 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGGATG
1 AGATATGTATATGTCGTAAAGCCGAATGACTAATGTGAAATATGGATG
*
93368834 AGATATGTATATGTCGTAAAGCCGAATGACTAGTGTGAAATATG
1 AGATATGTATATGTCGTAAAGCCGAATGACTAATGTGAAATATG
93368878 TAGGCGATGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.29
Consensus pattern (48 bp):
AGATATGTATATGTCGTAAAGCCGAATGACTAATGTGAAATATGGATG
Found at i:93369076 original size:37 final size:37
Alignment explanation
Indices: 93369026--93369097 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
93369016 GGAAATATAT
*
93369026 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
*
93369063 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
93369098 CATCTGAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
Found at i:93370410 original size:40 final size:40
Alignment explanation
Indices: 93370353--93370551 Score: 272
Period size: 40 Copynumber: 5.0 Consensus size: 40
93370343 GAGAGTTATA
* *
93370353 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
93370393 TGTATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * * *
93370433 TATATCCGGGCTAAGTCTCAAAGAGCATTTGTGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
93370473 TATATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
93370513 TATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
93370552 ATGTGTATTC
Statistics
Matches: 138, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 138 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:93370765 original size:25 final size:25
Alignment explanation
Indices: 93370715--93370765 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
93370705 TGTGTAACAA
* *
93370715 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
93370740 CAAATGATTAGAGGCACTCA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
93370765 C
1 C
93370766 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:93371214 original size:37 final size:37
Alignment explanation
Indices: 93371106--93371214 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
93371096 GGAAATATAT
*
93371106 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTGTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
93371143 TCCGGGTAAGACCCGATGACTACGTGTGAAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
93371180 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
93371215 CATCTAAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:93378433 original size:53 final size:53
Alignment explanation
Indices: 93378354--93378511 Score: 309
Period size: 53 Copynumber: 3.0 Consensus size: 53
93378344 GGAAAAAGGC
93378354 GGTCAATGAT-AAAATGGATTCAATATTGTTTAACAATACTTAGATTCTAGTT
1 GGTCAATGATAAAAATGGATTCAATATTGTTTAACAATACTTAGATTCTAGTT
93378406 GGTCAATGATAAAAATGGATTCAATATTGTTTAACAATACTTAGATTCTAGTT
1 GGTCAATGATAAAAATGGATTCAATATTGTTTAACAATACTTAGATTCTAGTT
93378459 GGTCAATGATAAAAATGGATTCAATATTGTTTAACAATACTTAGATTCTAGTT
1 GGTCAATGATAAAAATGGATTCAATATTGTTTAACAATACTTAGATTCTAGTT
93378512 TATCTTCCTC
Statistics
Matches: 105, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
52 10 0.10
53 95 0.90
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (53 bp):
GGTCAATGATAAAAATGGATTCAATATTGTTTAACAATACTTAGATTCTAGTT
Found at i:93379616 original size:46 final size:46
Alignment explanation
Indices: 93379563--93379777 Score: 187
Period size: 46 Copynumber: 4.6 Consensus size: 46
93379553 ATTGTGAGCT
93379563 AGTGTAAGACATGTCTGGGACATGCATCGA-CCACATTATGA-GAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGAGCCACA-TA-GACGAGTC
* *
93379609 AGTGTAAGACCATGTCTGGGACATGGCATCG-G-CA-TTAAGACGGGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGAGCCACAT-AGACGAGT-C
* * *
93379656 TAGTGTAAGACATGTCTGGGACATGCCTC-AGCCTC-GAGACGTAAGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCGAGCCACATAGACG--AGTC
* * * *
93379703 AGTGTAAGACATGTCTAGGACATGCATC-AGCTACA-AGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGAGCCACATAGACGAGTC
93379747 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
93379778 GTACAGATAT
Statistics
Matches: 140, Mismatches: 13, Indels: 31
0.76 0.07 0.17
Matches are distributed among these distances:
44 12 0.09
45 16 0.11
46 62 0.44
47 33 0.24
48 17 0.12
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGAGCCACATAGACGAGTC
Found at i:93387362 original size:46 final size:46
Alignment explanation
Indices: 93387227--93387445 Score: 180
Period size: 46 Copynumber: 4.7 Consensus size: 46
93387217 GTTATTGTGA
* ** * *
93387227 GCTAGTGTAAGACATGTCTAGGACATGCATCGG-CTACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAAGACGAGT
* * * *
93387273 GCAAGTGTAAGACCATGTCTGGGACACAGCATCGGCATTAAGACGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACA-TGCATCGGCCTCAAGACGAGT
* * *
93387321 GCTAGTGTAAGAAATGTTTGGGACATGCCTCGGCCTCAAGACGTAAGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACG--AGT
* * * *
93387369 -C-AGTGTAAGACATGTCTGGGACATGCATCGG-ATACTAGATGTGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAAGACGAGT
93387413 -C-AGTGTAAGACCATGTCTGGGACATGGCATCGG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGG
93387446 AAAAGATATG
Statistics
Matches: 142, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
44 12 0.08
45 15 0.11
46 64 0.45
47 24 0.17
48 26 0.18
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACGAGT
Found at i:93392129 original size:55 final size:57
Alignment explanation
Indices: 93392032--93392160 Score: 156
Period size: 55 Copynumber: 2.3 Consensus size: 57
93392022 TTTCAAGTCC
* * * * * *
93392032 TTTTCATTTTTATTTTGGAGAAAATCACATTCATTTCTAAATG-TTCCA-TTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAATAAAAATCATGTCCAAATGTTTCCATTTCTCCA
*
93392087 TTTTCATTTTCATTTTGGA-AGAAATAAAAATCATGTCCAAATGTTTTCATTTCTCCA
1 TTTTCATTTTCATTTTGGAGA-AAATAAAAATCATGTCCAAATGTTTCCATTTCTCCA
93392144 TTTTCATTTTTCATTTT
1 TTTTCA-TTTTCATTTT
93392161 TGTCTATTTG
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
54 1 0.02
55 35 0.56
56 4 0.06
57 13 0.21
58 10 0.16
ACGTcount: A:0.27, C:0.16, G:0.07, T:0.50
Consensus pattern (57 bp):
TTTTCATTTTCATTTTGGAGAAAATAAAAATCATGTCCAAATGTTTCCATTTCTCCA
Found at i:93393716 original size:20 final size:19
Alignment explanation
Indices: 93393687--93393728 Score: 75
Period size: 20 Copynumber: 2.2 Consensus size: 19
93393677 GAGGCAATGC
93393687 ACACGCCGTGTGCTTTGGG
1 ACACGCCGTGTGCTTTGGG
93393706 ACACGGCCGTGTGCTTTGGG
1 ACAC-GCCGTGTGCTTTGGG
93393726 ACA
1 ACA
93393729 TTCCCGTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.14, C:0.26, G:0.36, T:0.24
Consensus pattern (19 bp):
ACACGCCGTGTGCTTTGGG
Found at i:93395280 original size:42 final size:43
Alignment explanation
Indices: 93395181--93395304 Score: 137
Period size: 42 Copynumber: 2.9 Consensus size: 43
93395171 GTTACATGAA
* * *
93395181 TCACATCCACCATGAACCCAGA-CTCTCAACGAGCTCGTATGC
1 TCACATCCATCATGAACTCAGACCTCTCAACGAGCTCGGATGC
** *
93395223 TTGCATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGC
1 TCACATCCATCATGAACTCAGACCTCTCAACGAGCTCGGATGC
* * *
93395266 -CACATATC-TCATGAACTCAGACCACTCAACGAGTTCGGA
1 TCACAT-CCATCATGAACTCAGACCTCTCAACGAGCTCGGA
93395305 CTCCTTAGTT
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 48 0.71
43 20 0.29
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.21
Consensus pattern (43 bp):
TCACATCCATCATGAACTCAGACCTCTCAACGAGCTCGGATGC
Found at i:93395502 original size:22 final size:24
Alignment explanation
Indices: 93395461--93395515 Score: 78
Period size: 22 Copynumber: 2.4 Consensus size: 24
93395451 AACAATCAAT
*
93395461 AAGCATATATTCATAATTATAATA
1 AAGCATTTATTCATAATTATAATA
*
93395485 AAGCATTTA-TCA-AATTATATTA
1 AAGCATTTATTCATAATTATAATA
93395507 AAGCATTTA
1 AAGCATTTA
93395516 AAACATACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 18 0.62
23 3 0.10
24 8 0.28
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.38
Consensus pattern (24 bp):
AAGCATTTATTCATAATTATAATA
Found at i:93400932 original size:50 final size:50
Alignment explanation
Indices: 93400866--93400969 Score: 192
Period size: 50 Copynumber: 2.1 Consensus size: 50
93400856 AGTGATCTGG
93400866 TATA-AACATAGAGCCAAAAAGCCAACCTTACTTATTGACCTTTAGTACC
1 TATATAACATAGAGCCAAAAAGCCAACCTTACTTATTGACCTTTAGTACC
*
93400915 TATATAACATAGAGCCAAAAAGCCAACCTTGCTTATTGACCTTTAGTACC
1 TATATAACATAGAGCCAAAAAGCCAACCTTACTTATTGACCTTTAGTACC
93400965 TATAT
1 TATAT
93400970 TTGAGTCAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 4 0.08
50 49 0.92
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.29
Consensus pattern (50 bp):
TATATAACATAGAGCCAAAAAGCCAACCTTACTTATTGACCTTTAGTACC
Found at i:93406143 original size:43 final size:43
Alignment explanation
Indices: 93406074--93406229 Score: 231
Period size: 43 Copynumber: 3.6 Consensus size: 43
93406064 GCTGGTATTA
* **
93406074 TATTTGGGCCTTCGTGCCTAATAGGCTTTGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATGTG
93406117 TATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATGTG
** * *
93406160 TATTCGGGCCTTCGCACCTAGCAGGCTTCGTGTCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATGTG
* *
93406203 TATTCAGGCCTTCATGCCTAGCAGGCT
1 TATTCGGGCCTTCGTGCCTAGCAGGCT
93406230 ATGATGCTGG
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 102 1.00
ACGTcount: A:0.12, C:0.24, G:0.31, T:0.33
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATGTG
Found at i:93406259 original size:45 final size:45
Alignment explanation
Indices: 93406203--93406305 Score: 122
Period size: 45 Copynumber: 2.3 Consensus size: 45
93406193 CGGTGATGTG
* * *
93406203 TATTCAGGCC-TTCATGCCTAGCAGGCTATGATGCTGGTG-GAATAC
1 TATTCGGGCCTTTCA-GCCTAGCAGGCTATAATGCCGGTGAG-ATAC
* *
93406248 TATTCGGGCCTTTGAGCCTAGCATGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTCAGCCTAGCAGGCTATAATGCCGGTGAGATAC
93406293 TATTCGGG-CTTTC
1 TATTCGGGCCTTTC
93406306 GAAATCGAGC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
44 4 0.08
45 42 0.84
46 4 0.08
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.31
Consensus pattern (45 bp):
TATTCGGGCCTTTCAGCCTAGCAGGCTATAATGCCGGTGAGATAC
Found at i:93409481 original size:48 final size:48
Alignment explanation
Indices: 93409327--93409474 Score: 215
Period size: 48 Copynumber: 3.1 Consensus size: 48
93409317 ATATATACAC
* **
93409327 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
** * *
93409375 GGCTCATACATATTTCACATTAGCCTTTCGACTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
* *
93409423 ATCTCATACATATTTTACATTAGTCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
93409471 ATCT
1 ATCT
93409475 TGTACATCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
Found at i:93421289 original size:28 final size:28
Alignment explanation
Indices: 93421224--93421374 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
93421214 GAGATTGGCG
* * * *
93421224 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
93421253 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
93421281 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
93421309 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
93421337 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
93421364 CTGAGTGTGCG
1 CTAAGTGTGCG
93421375 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.21
28 74 0.65
29 15 0.13
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:93425184 original size:47 final size:47
Alignment explanation
Indices: 93425113--93425280 Score: 273
Period size: 47 Copynumber: 3.6 Consensus size: 47
93425103 CCCTTCGGGA
* * * *
93425113 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
93425160 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
93425207 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
93425254 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
93425281 TATTCAAATA
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 113 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:93425191 original size:25 final size:25
Alignment explanation
Indices: 93425163--93425241 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
93425153 ACTCGGCCCT
93425163 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
93425188 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
93425210 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
93425235 ATCACAT
1 ATCACAT
93425242 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:93428020 original size:184 final size:184
Alignment explanation
Indices: 93427712--93428263 Score: 1052
Period size: 184 Copynumber: 3.0 Consensus size: 184
93427702 ATCACATTTC
**
93427712 AAAAGTGTCACACATAAGTCCTATT-ACTAAATTCACATGCAATCGACTAAATCGAAGCTTAAAA
1 AAAAGTGTCACACATAAGTCCTATTGACTAAATTCACATGCAATTTACTAAATCGAAGCTTAAAA
93427776 CTTTCACACATTCATATTCACATATTTTAGACAATAAATATCATATTCAAATAATTTGGTGACTC
66 CTTTCACACATTCATATTCACATATTTTAGACAATAAATATCATATTCAAATAATTTGGTGACTC
93427841 GGTTTAGCGGTCCCGAAACCGCTTTCCGACTAGGGTCATTTTACGGCTGTCACA
131 GGTTTAGCGGTCCCGAAACCGCTTTCCGACTAGGGTCATTTTACGGCTGTCACA
93427895 AAAAGTGTCACACATAAGTCCTATTGACTAAATTCACATGCAATTTACTAAATCGAAGCTTAAAA
1 AAAAGTGTCACACATAAGTCCTATTGACTAAATTCACATGCAATTTACTAAATCGAAGCTTAAAA
93427960 CTTTCACACATTCATATTCACATATTTTAGACAATAAATATCATATTCAAATAATTTGGTGACTC
66 CTTTCACACATTCATATTCACATATTTTAGACAATAAATATCATATTCAAATAATTTGGTGACTC
93428025 GGTTTAGCGGTCCCGAAACCGCTTTCCGACTAGGGTCATTTTACGGCTGTCACA
131 GGTTTAGCGGTCCCGAAACCGCTTTCCGACTAGGGTCATTTTACGGCTGTCACA
*
93428079 AAAAGAGTCACACATAAGTCCTATTGACTAAATTCACATGCAATTTACTAAATCGAAGCTTAAAA
1 AAAAGTGTCACACATAAGTCCTATTGACTAAATTCACATGCAATTTACTAAATCGAAGCTTAAAA
93428144 CTTTCACACATTCATATTCACATATTTTAGACAATAAATATCATATTCAAATAATTTGGTGACTC
66 CTTTCACACATTCATATTCACATATTTTAGACAATAAATATCATATTCAAATAATTTGGTGACTC
* *
93428209 GGTTTAGCGGTCCCGAAACCGCTTTCCGACTAGGGTCACTTTAGGGCTGTCACA
131 GGTTTAGCGGTCCCGAAACCGCTTTCCGACTAGGGTCATTTTACGGCTGTCACA
93428263 A
1 A
93428264 CATCACTATA
Statistics
Matches: 363, Mismatches: 5, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
183 25 0.07
184 338 0.93
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (184 bp):
AAAAGTGTCACACATAAGTCCTATTGACTAAATTCACATGCAATTTACTAAATCGAAGCTTAAAA
CTTTCACACATTCATATTCACATATTTTAGACAATAAATATCATATTCAAATAATTTGGTGACTC
GGTTTAGCGGTCCCGAAACCGCTTTCCGACTAGGGTCATTTTACGGCTGTCACA
Found at i:93432250 original size:149 final size:149
Alignment explanation
Indices: 93431980--93432276 Score: 515
Period size: 149 Copynumber: 2.0 Consensus size: 149
93431970 AGCAACAGTA
* *
93431980 ACTAAAGTTTTTATAACTAGAGCTACGAAACCCCAAATTAATTTCTGTAAATTTTTCTTGACAGA
1 ACTAAAGTTTTTATAACTAGAGCTACGAAACCCAAAATTAATTTCTGTAAATTTTTATTGACAGA
*
93432045 AGTCTCATTTATCTATTACCAAAAAAATTTTCAAAATTTTTAGTTTAGCCCAACAATACCAGATT
66 AGACTCATTTATCTATTACCAAAAAAATTTTCAAAATTTTTAGTTTAGCCCAACAATACCAGATT
93432110 TTTCTTAAAGTTCACCTTC
131 TTTCTTAAAGTTCACCTTC
* * *
93432129 ACTAAAGTTTTTATAACTGGAGCTACGAAACTCAAAATTAATTT-TCGTAAATTTTTATTGATAG
1 ACTAAAGTTTTTATAACTAGAGCTACGAAACCCAAAATTAATTTCT-GTAAATTTTTATTGACAG
*
93432193 AAGACTCATTTATCTATTATCAAAAAAATTTTCAAAATTTTTAGTTTAGCCCAACAATACCAGAT
65 AAGACTCATTTATCTATTACCAAAAAAATTTTCAAAATTTTTAGTTTAGCCCAACAATACCAGAT
93432258 TTTTCTTAAAGTTCACCTT
130 TTTTCTTAAAGTTCACCTT
93432277 GTTTCACTGT
Statistics
Matches: 140, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
148 1 0.01
149 139 0.99
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.38
Consensus pattern (149 bp):
ACTAAAGTTTTTATAACTAGAGCTACGAAACCCAAAATTAATTTCTGTAAATTTTTATTGACAGA
AGACTCATTTATCTATTACCAAAAAAATTTTCAAAATTTTTAGTTTAGCCCAACAATACCAGATT
TTTCTTAAAGTTCACCTTC
Found at i:93436944 original size:22 final size:22
Alignment explanation
Indices: 93436902--93436945 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
93436892 AATTATTTAC
* *
93436902 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
93436924 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
93436946 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:93437246 original size:40 final size:40
Alignment explanation
Indices: 93437172--93437403 Score: 308
Period size: 40 Copynumber: 5.8 Consensus size: 40
93437162 AACCCAAGTA
* * *
93437172 CCTTCGGGATTTAG-CCGGATATA-GCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATATTCAA-TAGCACAAATG
* *
93437211 CCTTCGGGTCTTAGCCCGGATATATTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATATTCAATAGCACAAATG
* *
93437251 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATATTCAATAGCACAAATG
*
93437291 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATATTCAATAGCACAAATG
* * *
93437331 CCTTCGGGACTTAGCCCAGATATAGTT-ACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATA-TTCAATAGCACAAATG
93437371 CCTTCGGGACTTAGCCCGGATATCATTCGAATA
1 CCTTCGGGACTTAGCCCGGATAT-ATTC-AATA
93437404 ATCATGCACA
Statistics
Matches: 171, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
39 12 0.07
40 151 0.88
41 5 0.03
42 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATATTCAATAGCACAAATG
Found at i:93437304 original size:80 final size:80
Alignment explanation
Indices: 93437172--93437403 Score: 351
Period size: 80 Copynumber: 2.9 Consensus size: 80
93437162 AACCCAAGTA
* * *
93437172 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
93437235 TTCAATAGCACAAAAG
65 TTCAATAGCACAAAAG
*
93437251 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAT
*
93437316 TCAATAGCACAAATG
66 TCAATAGCACAAAAG
* * *
93437331 CCTTCGGGACTTAGCCCAGATATAGTTACTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATCA
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT-A
93437396 TTCGAATA
65 TTC-AATA
93437404 ATCATGCACA
Statistics
Matches: 140, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
79 13 0.09
80 119 0.85
81 4 0.03
82 4 0.03
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAT
TCAATAGCACAAAAG
Found at i:93447849 original size:23 final size:23
Alignment explanation
Indices: 93447738--93447843 Score: 115
Period size: 23 Copynumber: 4.6 Consensus size: 23
93447728 ATGAGCTGAT
*
93447738 AAACAGTAAGCTCTATTAAGTTG
1 AAACAGTAAGCTCTATTGAGTTG
*
93447761 AAAACGGTAAGCTCTATTGAGTTG
1 -AAACAGTAAGCTCTATTGAGTTG
* * *
93447785 -AACAGTAAGTTCTTTTGAGCTG
1 AAACAGTAAGCTCTATTGAGTTG
*** *
93447807 AATTGGTAAGCTCTAGTGAGTTG
1 AAACAGTAAGCTCTATTGAGTTG
93447830 AAACAGTAAGCTCT
1 AAACAGTAAGCTCT
93447844 TATGAGCTAT
Statistics
Matches: 65, Mismatches: 16, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
22 18 0.28
23 26 0.40
24 21 0.32
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (23 bp):
AAACAGTAAGCTCTATTGAGTTG
Found at i:93452962 original size:54 final size:54
Alignment explanation
Indices: 93452903--93453015 Score: 190
Period size: 54 Copynumber: 2.1 Consensus size: 54
93452893 AACCCCTCCA
*
93452903 AAGAGGATAAAAAATCACAGACAAAGATAATTTTACTATAATGGCAAAAGAACG
1 AAGAGGATAAAAAATCACAGACAAAGATAATTTTACTATAATGACAAAAGAACG
* * *
93452957 AAGAGGATAAAAAATTACAGGCAAAGATAATTTTACTATAATGACAAAAGAATG
1 AAGAGGATAAAAAATCACAGACAAAGATAATTTTACTATAATGACAAAAGAACG
93453011 AAGAG
1 AAGAG
93453016 TACAAAAGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.54, C:0.09, G:0.18, T:0.19
Consensus pattern (54 bp):
AAGAGGATAAAAAATCACAGACAAAGATAATTTTACTATAATGACAAAAGAACG
Found at i:93459226 original size:10 final size:10
Alignment explanation
Indices: 93459186--93459260 Score: 53
Period size: 10 Copynumber: 7.3 Consensus size: 10
93459176 TAAAATATTT
*
93459186 AAAAATTATT
1 AAAAATTATA
93459196 AAAAATTAT-
1 AAAAATTATA
**
93459205 AAAAATCGTA
1 AAAAATTATA
*
93459215 AAAAATTCTA
1 AAAAATTATA
**
93459225 AAATTTTATAA
1 AAAAATTAT-A
*
93459236 AAAAATCATAA
1 AAAAATTAT-A
93459247 AAACAATTATA
1 AAA-AATTATA
93459258 AAA
1 AAA
93459261 TATGTAGAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
9 7 0.14
10 23 0.45
11 16 0.31
12 5 0.10
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.29
Consensus pattern (10 bp):
AAAAATTATA
Found at i:93459627 original size:28 final size:29
Alignment explanation
Indices: 93459574--93459638 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
93459564 TTTTTTCTAT
* *
93459574 TTTTTAATAAAATTTAAATATTTTTAT-A
1 TTTTTATTAAAATTTAAATATGTTTATAA
*
93459602 TTTTTATTAAAGTTT-AATAATGTTTATAA
1 TTTTTATTAAAATTTAAAT-ATGTTTATAA
*
93459631 CTTTTATT
1 TTTTTATT
93459639 GATTTTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 3 0.10
28 20 0.65
29 8 0.26
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (29 bp):
TTTTTATTAAAATTTAAATATGTTTATAA
Found at i:93461566 original size:30 final size:29
Alignment explanation
Indices: 93461523--93461583 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
93461513 CAAGTAGCCG
93461523 AAGCTAGTTAAATCCCACACTTAGTGCCA
1 AAGCTAGTTAAATCCCACACTTAGTGCCA
*
93461552 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCCCACACTTAGTGCCA
93461582 AA
1 AA
93461584 ACTTCCGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCCCACACTTAGTGCCA
Done.