Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 101 of 325
Found at i:29731590 original size:40 final size:40
Alignment explanation
Indices: 29731526--29731713 Score: 190
Period size: 40 Copynumber: 4.8 Consensus size: 40
29731516 GCTACTCGTT
* * * ***
29731526 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
29731566 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * *
29731606 CAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* **
29731645 C-ATTGCCTTCGGG-CTTAGCCCGGATATCACAA-TTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
*
29731682 C-ATTGCCTTCGGG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAA
29731714 TTCGCACATT
Statistics
Matches: 133, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
37 36 0.27
38 29 0.22
39 23 0.17
40 45 0.34
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:29731680 original size:30 final size:34
Alignment explanation
Indices: 29731570--29731714 Score: 139
Period size: 37 Copynumber: 3.9 Consensus size: 34
29731560 CCCGCACAAA
*
29731570 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAAT
1 TGCCTTCGGG-CTTAGCCCGGATAT-ACAA-T--CAC-AT
29731610 TGCCTTCGGGCTTAGCCCGGATAT-CATAGCTCGCACAT
1 TGCCTTCGGGCTTAGCCCGGATATACA-A--T--CACAT
29731648 TGCCTTCGGGCTTAGCCCGGATATCACAATTGCACAT
1 TGCCTTCGGGCTTAGCCCGGATAT-ACAA-T-CACAT
29731685 TGCCTTCGGGCTTAGCCCGGATATCACAAT
1 TGCCTTCGGGCTTAGCCCGGATAT-ACAAT
29731715 TCGCACATTC
Statistics
Matches: 99, Mismatches: 2, Indels: 12
0.88 0.02 0.11
Matches are distributed among these distances:
36 1 0.01
37 37 0.37
38 28 0.28
39 21 0.21
40 12 0.12
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (34 bp):
TGCCTTCGGGCTTAGCCCGGATATACAATCACAT
Found at i:29731692 original size:37 final size:37
Alignment explanation
Indices: 29731570--29731723 Score: 227
Period size: 38 Copynumber: 4.0 Consensus size: 37
29731560 CCCGCACAAA
*
29731570 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAAT
1 TGCCTTCGGG-CTTAGCCCGGATATCACAA-TCGCAC-AT
* *
29731610 TGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAT
1 TGCCTTCGGGCTTAGCCCGGATATCACA-ATCGCACAT
*
29731648 TGCCTTCGGGCTTAGCCCGGATATCACAATTGCACAT
1 TGCCTTCGGGCTTAGCCCGGATATCACAATCGCACAT
29731685 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACAT
1 TGCCTTCGGGCTTAGCCCGGATATCACAA-TCGCACAT
29731723 T
1 T
29731724 CATACACATC
Statistics
Matches: 105, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
37 36 0.34
38 37 0.35
39 22 0.21
40 10 0.10
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (37 bp):
TGCCTTCGGGCTTAGCCCGGATATCACAATCGCACAT
Found at i:29731719 original size:75 final size:78
Alignment explanation
Indices: 29731570--29731723 Score: 242
Period size: 75 Copynumber: 2.0 Consensus size: 78
29731560 CCCGCACAAA
29731570 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
1 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
* *
29731635 ATAGCTCGCACAT
66 ACAACTCGCACAT
* *
29731648 TGCCTTCGGG-CTTAGCCCGGATATCACAA-TTGCAC-ATTGCCTTCGGGCTTAGCCCGGATATC
1 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
*
29731710 ACAATTCGCACAT
66 ACAACTCGCACAT
29731723 T
1 T
29731724 CATACACATC
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
75 38 0.54
76 5 0.07
77 18 0.25
78 10 0.14
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (78 bp):
TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
ACAACTCGCACAT
Found at i:29734551 original size:47 final size:43
Alignment explanation
Indices: 29734493--29734660 Score: 155
Period size: 47 Copynumber: 3.8 Consensus size: 43
29734483 GTGCGAATAA
*
29734493 TACCTTGATTTGGCTATGGGCCATGGTATAGGTATTCAGAGAGGGGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTC-GAGA---GT
*
29734540 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA-TTCGAG---AGT
* * * *
29734587 TACATTGATTTGGCTACAGACCATGGAATAGGTACTTCGAGA--
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA-TTCGAGAGT
* *
29734629 T--CTTGATTTGGCTATGGGCCATGGTATTGGTA
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA
29734661 CTTATCGATT
Statistics
Matches: 104, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
40 25 0.24
42 1 0.01
44 1 0.01
47 74 0.71
48 2 0.02
50 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.32
Consensus pattern (43 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCGAGAGT
Found at i:29756458 original size:40 final size:40
Alignment explanation
Indices: 29756400--29756567 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
29756390 CAATTGAATG
* *
29756400 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
29756441 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
29756480 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
29756520 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
29756560 ATATCCGG
1 ATATCCGG
29756568 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:29756538 original size:80 final size:79
Alignment explanation
Indices: 29756400--29756567 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
29756390 CAATTGAATG
* * *
29756400 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
29756465 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
29756480 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
29756544 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
29756560 ATATCCGG
1 ATATCCGG
29756568 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:29768921 original size:57 final size:57
Alignment explanation
Indices: 29768858--29768990 Score: 176
Period size: 57 Copynumber: 2.3 Consensus size: 57
29768848 TTATTTCTAC
** * * * *
29768858 ATTTATGTTGTCTTAATGTAATTTATAGTTGTTGTCAAAATGTCTCTTAATGTGCGT
1 ATTTATGTTGTCCAAATGTAATTTATAGTTGCTGTCAAAATGTCTCATAATGCGCAT
* *
29768915 ATTTATGCTGTCCAAATGTAATTTATAGTTGCTGTCATAATGTCTCATAATGCGCAT
1 ATTTATGTTGTCCAAATGTAATTTATAGTTGCTGTCAAAATGTCTCATAATGCGCAT
* *
29768972 ATTTATGTCGTCAAAATGT
1 ATTTATGTTGTCCAAATGT
29768991 GAATAATGGC
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 65 1.00
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (57 bp):
ATTTATGTTGTCCAAATGTAATTTATAGTTGCTGTCAAAATGTCTCATAATGCGCAT
Found at i:29770578 original size:25 final size:26
Alignment explanation
Indices: 29770537--29770639 Score: 153
Period size: 25 Copynumber: 4.2 Consensus size: 26
29770527 TGATACAAAT
29770537 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
29770563 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
29770588 TGATAATGGG-T---TAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
29770610 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
29770636 TGAT
1 TGAT
29770640 GGAATTTATG
Statistics
Matches: 68, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
22 19 0.28
23 1 0.01
25 25 0.37
26 23 0.34
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:29770611 original size:22 final size:22
Alignment explanation
Indices: 29770552--29770622 Score: 88
Period size: 22 Copynumber: 3.1 Consensus size: 22
29770542 ATGGGTTAGG
*
29770552 TAAATGTTCCATGATAATGGTTAGG
1 TAAATGTTCCATGATAATGG---GT
*
29770577 TAAATGTTTCATGATAATGGGT
1 TAAATGTTCCATGATAATGGGT
*
29770599 TAAATATTCCATGATAATGGGT
1 TAAATGTTCCATGATAATGGGT
29770621 TA
1 TA
29770623 GGTAAATGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
22 23 0.55
25 19 0.45
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (22 bp):
TAAATGTTCCATGATAATGGGT
Found at i:29776231 original size:26 final size:26
Alignment explanation
Indices: 29776194--29776277 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
29776184 TGATACAAAT
* *
29776194 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
29776220 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
29776246 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
29776272 TGATAA
1 TGATAA
29776278 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:29778308 original size:137 final size:137
Alignment explanation
Indices: 29778062--29778348 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
29778052 GAGTAGTCTC
29778062 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
29778127 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCTAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC
29778192 ACTGTTA
131 ACTGTTA
*
29778199 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGTCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
29778264 TGTTATCTGAATAAGGGGCTAAGGCCCATTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC
29778329 ACTGTTA
131 ACTGTTA
**
29778336 CCTGAATGGGCTT
1 CCCAAATGGGCTT
29778349 AGGCTCAATG
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC
ACTGTTA
Found at i:29780189 original size:45 final size:45
Alignment explanation
Indices: 29780094--29780267 Score: 134
Period size: 45 Copynumber: 3.9 Consensus size: 45
29780084 TTGATTCATA
* ** * *** *
29780094 ATGCCATAACGTCTTTTAGTTATGGTCTTACTCATTAGAATTATG
1 ATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTTCCAGTATG
* * *
29780139 GTGCCATAACATCTTTCAGCTATGGTCTTACTCGTTTCCAGTATG
1 ATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTTCCAGTATG
*** * * * *
29780184 ATGCCATAGTTTCTTCCAACTATGGTCTTATTTAGTTT-CAGTATA
1 ATGCCATAACGTCTTTCAACTATGGTCTTA-CTCGTTTCCAGTATG
* ** *
29780229 ATGTCATAGTGTCTTTCAACTATGGTCTTATTCGTTTCC
1 ATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTTCC
29780268 TTCAAGCCAA
Statistics
Matches: 105, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
44 6 0.06
45 94 0.90
46 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.43
Consensus pattern (45 bp):
ATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTTCCAGTATG
Found at i:29784693 original size:36 final size:37
Alignment explanation
Indices: 29784588--29784731 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
29784578 GCTCAGACGA
* * *
29784588 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
29784625 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
29784662 ACTCTCCACACGTAGTCATC-GGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
29784698 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
29784732 ATATATTTCC
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
36 35 0.35
37 65 0.65
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:29784710 original size:73 final size:74
Alignment explanation
Indices: 29784590--29784731 Score: 241
Period size: 73 Copynumber: 1.9 Consensus size: 74
29784580 TCAGACGAAA
* *
29784590 TCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 TCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTCACC
29784655 CGGACATAC
66 CGGACATAC
* *
29784664 TCTCCACACGTAGTCATC-GGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTCACC
1 TCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTCACC
29784728 CGGA
66 CGGA
29784732 ATATATTTCC
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
73 48 0.75
74 16 0.25
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.23
Consensus pattern (74 bp):
TCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTCACC
CGGACATAC
Found at i:29784991 original size:47 final size:47
Alignment explanation
Indices: 29784938--29785224 Score: 432
Period size: 47 Copynumber: 6.1 Consensus size: 47
29784928 TATATATATT
* * * *
29784938 TCACATTGACCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
29784985 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
29785032 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
29785079 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
29785126 -CACATTGGCCATTCGACCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
29785172 TCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
29785219 TCACAT
1 TCACAT
29785225 AAAATCCTAA
Statistics
Matches: 216, Mismatches: 23, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
46 41 0.19
47 175 0.81
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:29785160 original size:140 final size:141
Alignment explanation
Indices: 29784938--29785225 Score: 497
Period size: 140 Copynumber: 2.0 Consensus size: 141
29784928 TATATATATT
* * *
29784938 TCACATTGACCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATAGACCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGAC
* *
29785003 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCAT
66 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
29785068 GTTCACATTCA
131 ATTCACATTCA
* *
29785079 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA-CACATTGGCCATTCGAC
1 TCACATAGACCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGAC
29785143 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
66 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
29785208 ATTCACATTCA
131 ATTCACATTCA
29785219 TCACATA
1 TCACATA
29785226 AAATCCTAAA
Statistics
Matches: 139, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
140 96 0.69
141 43 0.31
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (141 bp):
TCACATAGACCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGAC
CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
ATTCACATTCA
Found at i:29792218 original size:39 final size:39
Alignment explanation
Indices: 29792175--29792251 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
29792165 ATGCAAGATA
*
29792175 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAATCCCGCAGGCTTCGTG
29792214 CTGGAAATGTATCCGGGCTAAAATCCCGCAGGCTTCGT
1 CTGGAAATGTATCCGGGCTAAAATCCCGCAGGCTTCGT
29792252 TGTAACACCC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAATCCCGCAGGCTTCGTG
Found at i:29793677 original size:93 final size:93
Alignment explanation
Indices: 29793565--29793736 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
29793555 GCCCATAAGT
* *
29793565 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29793630 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
29793658 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29793723 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
29793737 AACCATCCTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:29793732 original size:46 final size:46
Alignment explanation
Indices: 29793557--29793732 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
29793547 TGTAACCCGC
* * *
29793557 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
29793603 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
29793653 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
29793696 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
29793733 TGCCAACCAT
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:29796116 original size:30 final size:30
Alignment explanation
Indices: 29796072--29796160 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
29796062 CAAAGATAAC
29796072 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
29796101 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
29796131 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
29796161 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:29796120 original size:15 final size:15
Alignment explanation
Indices: 29796072--29796151 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
29796062 CAAAGATAAC
*
29796072 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
29796086 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
29796101 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
29796116 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
29796131 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
29796146 AAGAAA
1 AAGAAA
29796152 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:29796160 original size:15 final size:15
Alignment explanation
Indices: 29796083--29796160 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
29796073 AGAAAACCGA
29796083 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
29796098 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
29796112 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
29796127 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
29796143 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
29796158 ATA
1 ATA
29796161 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:29799225 original size:93 final size:93
Alignment explanation
Indices: 29799113--29799283 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
29799103 GCCCATAAGT
* *
29799113 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29799178 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
29799206 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29799271 CGAGTTCGGATGC
66 CGAGTTCGGATGC
29799284 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:29799299 original size:46 final size:46
Alignment explanation
Indices: 29799105--29799285 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
29799095 TGTAACCCGC
* * *
29799105 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
29799151 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
29799201 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
29799244 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
29799286 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:29804085 original size:40 final size:40
Alignment explanation
Indices: 29804030--29804105 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
29804020 GGAGTTAGAA
*
29804030 ATGGCTTCATTTTGTCCACACGGGCATGTGTCTAGATGTG
1 ATGGCTTCATTTTGTCCACACGAGCATGTGTCTAGATGTG
*
29804070 ATGGCTTCATTTTGTCCGCACGAGCATGTGTCTAGA
1 ATGGCTTCATTTTGTCCACACGAGCATGTGTCTAGA
29804106 CGTGTGTGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.34
Consensus pattern (40 bp):
ATGGCTTCATTTTGTCCACACGAGCATGTGTCTAGATGTG
Found at i:29813788 original size:55 final size:55
Alignment explanation
Indices: 29813728--29813848 Score: 129
Period size: 55 Copynumber: 2.2 Consensus size: 55
29813718 TAGGTAGACC
29813728 CACGCCCGTGTCAATCTAACAGGTTCGA-CCATGGGTGC-TAGACACGAGCGTGTCG
1 CACGCCCGTGTCAATCTAACAGGTTC-ACCCAT-GGTGCTTAGACACGAGCGTGTCG
* *** * * ** *
29813783 CACGCCCATGTTGTTTTAACAGGTTCACCCATGGTTCTTCTACACGGGCGTGTCG
1 CACGCCCGTGTCAATCTAACAGGTTCACCCATGGTGCTTAGACACGAGCGTGTCG
29813838 CACGCCCGTGT
1 CACGCCCGTGT
29813849 TGTTTTGGCA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
54 5 0.09
55 49 0.91
ACGTcount: A:0.18, C:0.31, G:0.26, T:0.25
Consensus pattern (55 bp):
CACGCCCGTGTCAATCTAACAGGTTCACCCATGGTGCTTAGACACGAGCGTGTCG
Found at i:29820549 original size:40 final size:40
Alignment explanation
Indices: 29820505--29820690 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
29820495 GCTACTCGTT
* * *
29820505 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
29820545 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
29820585 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
29820625 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
29820666 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29820691 CATCATTCGA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:29828697 original size:76 final size:77
Alignment explanation
Indices: 29828584--29828777 Score: 261
Period size: 76 Copynumber: 2.5 Consensus size: 77
29828574 AGCCCGGTTA
29828584 TAGTAGCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
1 TAGTAGCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
29828649 ATCTTAGCGATT
66 ATCTTAGCGATT
**
29828661 TAGTA-CTCGCACAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCG
1 TAGTAGCTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCG
*
29828724 GATCTTAGTCCGGATA
65 GATCTTAG--C-GATT
* *
29828740 TAGTCA-CTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TAGT-AGC-TCGCACAAATGCCTTCGGGACTTAACCCGGA
29828778 CATCATTCGA
Statistics
Matches: 105, Mismatches: 5, Indels: 11
0.87 0.04 0.09
Matches are distributed among these distances:
75 3 0.03
76 60 0.57
77 5 0.05
78 1 0.01
79 7 0.07
80 18 0.17
81 11 0.10
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (77 bp):
TAGTAGCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
ATCTTAGCGATT
Found at i:29828777 original size:40 final size:39
Alignment explanation
Indices: 29828537--29828777 Score: 246
Period size: 40 Copynumber: 6.1 Consensus size: 39
29828527 CGGAGTTTAA
* ** * *
29828537 CCGGATATAGCTACTCGTTCAAATACCTTCGGGA-CATAGC
1 CCGGATTTAG-TACTCGCACAAATGCCTTC-GGATCTTAGC
*
29828577 CCGG-TTATAGTAGCTCGCACAAATGCCTTCGGGA-CTTAAC
1 CCGGATT-TAGTA-CTCGCACAAATGCCTTC-GGATCTTAGC
29828617 CCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAG-
1 CCGGATTTAGT-ACTCGCACAAATGCCTTCGGATCTTAGC
*
29828656 -C-GATTTAGTACTCGCACAAATGCCTTCGGATCTTAGT
1 CCGGATTTAGTACTCGCACAAATGCCTTCGGATCTTAGC
*
29828693 CCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGT
1 CCGGATTTAGT-ACTCGCACAAATGCCTTCGGATCTTAGC
* *
29828733 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-AC-TCGCACAAATGCCTTC-GGATCTTAGC
29828773 CCGGA
1 CCGGA
29828778 CATCATTCGA
Statistics
Matches: 179, Mismatches: 11, Indels: 22
0.84 0.05 0.10
Matches are distributed among these distances:
36 27 0.15
37 8 0.04
38 2 0.01
39 14 0.08
40 114 0.64
41 14 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (39 bp):
CCGGATTTAGTACTCGCACAAATGCCTTCGGATCTTAGC
Found at i:29832270 original size:625 final size:625
Alignment explanation
Indices: 29831081--29832915 Score: 3429
Period size: 625 Copynumber: 2.9 Consensus size: 625
29831071 ACAAAATGGT
* *
29831081 AATATGAAATGTATGAAATTGATTGTTAAATTCATTTATATAGATCCGGACAATACTAATTCGAG
1 AATATGAAATGTATGAAATTGATTGTTAAATTCATTTATATAGATCCAGACAACACTAATTCGAG
* * * * *
29831146 GTTAGATTGAGCAAAAAAAATATTTCAGATTAGTAGACTTTTACGCGAACAAGTGTCGAGGTAAG
66 GTTAGATCGAGGAAAAAAAATGTTTCTGATTAGTAGACTTTTACGCGAACAAGTGTCAAGGTAAG
* *
29831211 TTTGTGTAACTTAATCCAACATGTAAATATGTTTAATTGAATATTGTGTTGTATGGAATGTGATT
131 TTCGTGTAACTTAATCCAACATGTAAATATGTTTAATTGAATATTGTGTTGTTTGGAATGTGATT
*
29831276 TACATTTATGTATATTACTTAAATGTTATAAT-AGGAAACTTAATACATGCTTGAAATGGTGATA
196 TACATTTATGTATATTACTTAAATGTTATAATGA-GAAACTTAATACATGCTTGAATTGGTGATA
*
29831340 AAGGGTTAAGTCCCAATTGAATGTTGAATTTCGATGATTGTATACGCTTTCTCGGAACAATTAAG
260 AAGGGTTAAGTCCCGATTGAATGTTGAATTTCGATGATTGTATACGCTTTCTCGGAACAATTAAG
*
29831405 GTCCTACATTTGTTGCAGACGGGATTTAGCTCGAACGAGTAATCCCAATGATCTTGTTATAGAAA
325 GTCCTGCATTTGTTGCAGACGGGATTTAGCTCGAACGAGTAATCCCAATGATCTTGTTATAGAAA
* *
29831470 GGATTTAGCCCAGACAGGTAATGCTGATATAATATCTTTTGAGTATACATTATGATTAGGGTTTA
390 GGATTTAGCCCAGACAGGTAATGCTGATATAATATCTTTTGATTATACGTTATGATTAGGGTTTA
* *
29831535 GCCTGGACTAGTAATCCTAATCGAGCTCCTCTGAGCATACGTTATAAAAAGAATTTAGCTTGGAC
455 GCCTGGACTAGTAATCCTAATCGAGCTCCTCTGAGCATACGTTATAAAAAGGATTTAGCCTGGAC
29831600 TGGTAATCCTGTTATAAAATATGTGGCTCAAGAGAGTGTTTCTTGGTTAAGTTCCCTAATGGGTA
520 TGGTAATCCTGTTATAAAATATGTGGCTCAAGAGAGTGTTTCTTGGTTAAGTTCCCTAATGGGTA
29831665 CAAAATGGTAATTTTTCCTAGGACGTAAATAAGTCCATTTA
585 CAAAATGGTAATTTTTCCTAGGACGTAAATAAGTCCATTTA
29831706 AATATGAAATGTATGAAATTGATTGTTAAATTCATTTATATAGATCCAGACAACACTAATTCGAG
1 AATATGAAATGTATGAAATTGATTGTTAAATTCATTTATATAGATCCAGACAACACTAATTCGAG
29831771 GTTAGATCGAGGAAAAAAAATGTTTCTGATTAGTAGACTTTTACGCGAACAAGTGTCAAGGTAAG
66 GTTAGATCGAGGAAAAAAAATGTTTCTGATTAGTAGACTTTTACGCGAACAAGTGTCAAGGTAAG
29831836 TTCGTGTAACTTAATCCAACATGTAAATATGTTTAATTGAATATTGTGTTGTTTGGAATGTGATT
131 TTCGTGTAACTTAATCCAACATGTAAATATGTTTAATTGAATATTGTGTTGTTTGGAATGTGATT
29831901 TACATTTATGTATATTACTTAAATGTTATAATGAGAAACTTAATACATGCTTGAATTGGTGATAA
196 TACATTTATGTATATTACTTAAATGTTATAATGAGAAACTTAATACATGCTTGAATTGGTGATAA
* *
29831966 AAGGTTAAGTCCCGATTGAATGTTGATTTTCGATGATTGTATACGCTTTCTCGGAACAATTAAGG
261 AGGGTTAAGTCCCGATTGAATGTTGAATTTCGATGATTGTATACGCTTTCTCGGAACAATTAAGG
29832031 TCCTGCATTTGTTGCAGACGGGATTTAGCTCGAACGAGTAATCCCAATGATCTTGTTATAGAAAG
326 TCCTGCATTTGTTGCAGACGGGATTTAGCTCGAACGAGTAATCCCAATGATCTTGTTATAGAAAG
*
29832096 GATTTAGCCCTGACAGGTAATGCTGATATAATATCTTTTGATTATACGTTATGATTAGGGTTTAG
391 GATTTAGCCCAGACAGGTAATGCTGATATAATATCTTTTGATTATACGTTATGATTAGGGTTTAG
*
29832161 CCTGGACTAGTAATCCTAATCGAGCTCCTCTGAGCATATGTTATAAAAAGGATTTAGCCTGGACT
456 CCTGGACTAGTAATCCTAATCGAGCTCCTCTGAGCATACGTTATAAAAAGGATTTAGCCTGGACT
29832226 GGTAATCCTGTTATAAAATATGTGGCTCAAGAGAGTGTTTCTTGGTTAAGTTCCCTAATGGGTAC
521 GGTAATCCTGTTATAAAATATGTGGCTCAAGAGAGTGTTTCTTGGTTAAGTTCCCTAATGGGTAC
29832291 AAAATGGTAATTTTTCCTAGGACGTAAATAAGTCCATTTA
586 AAAATGGTAATTTTTCCTAGGACGTAAATAAGTCCATTTA
29832331 AATATGAAATGTATGAAATTGATTGTTAAATTCATTTATATAGATCCAGACAACACTAATTCGAG
1 AATATGAAATGTATGAAATTGATTGTTAAATTCATTTATATAGATCCAGACAACACTAATTCGAG
29832396 GTTAGATCGAGGAAAAAAAATGTTTCTGATTAGTAGACTTTTACGCGAACAAGTGTCAAGGTAAG
66 GTTAGATCGAGGAAAAAAAATGTTTCTGATTAGTAGACTTTTACGCGAACAAGTGTCAAGGTAAG
29832461 TTCGTGTAACTTAATCCAACATGTAAATATGTTTAATTGAATATTGTGTTGTTTGGAATGTGATT
131 TTCGTGTAACTTAATCCAACATGTAAATATGTTTAATTGAATATTGTGTTGTTTGGAATGTGATT
29832526 TACATTTATGTATATTACTTAAATGTTATAATGAGAAACTTAATACATGCTTGAATTGGTGATAA
196 TACATTTATGTATATTACTTAAATGTTATAATGAGAAACTTAATACATGCTTGAATTGGTGATAA
*
29832591 AGGGTTAAGTCCTGATTGAATGTTGAATTTCGATGATTGTATACGCTTTCTCGGAACAATTAAGG
261 AGGGTTAAGTCCCGATTGAATGTTGAATTTCGATGATTGTATACGCTTTCTCGGAACAATTAAGG
29832656 TCCTGCATTTGTTGCAGACGGGATTTAGCTCGAACGAGTAATCCCAATGATCTTGTTATAGAAAG
326 TCCTGCATTTGTTGCAGACGGGATTTAGCTCGAACGAGTAATCCCAATGATCTTGTTATAGAAAG
*
29832721 GATTTAGCCCAGACAGGTAATACTGATATAATATCTTTTGATTATACGTTATGATTAGGGTTTAG
391 GATTTAGCCCAGACAGGTAATGCTGATATAATATCTTTTGATTATACGTTATGATTAGGGTTTAG
*
29832786 CCTGGACTAGTAATCCTAATCGAGCTCCTTTGAGCATACGTTATAAAAAGGATTTAGCCTGGACT
456 CCTGGACTAGTAATCCTAATCGAGCTCCTCTGAGCATACGTTATAAAAAGGATTTAGCCTGGACT
* *
29832851 GGTAATCCTATTATAAAATATGTGGCTTAAGAGAGTGTTTCTTGGTTAAGTTCCCTAATGGGTAC
521 GGTAATCCTGTTATAAAATATGTGGCTCAAGAGAGTGTTTCTTGGTTAAGTTCCCTAATGGGTAC
29832916 CCTTGAATAA
Statistics
Matches: 1180, Mismatches: 29, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
625 1179 1.00
626 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (625 bp):
AATATGAAATGTATGAAATTGATTGTTAAATTCATTTATATAGATCCAGACAACACTAATTCGAG
GTTAGATCGAGGAAAAAAAATGTTTCTGATTAGTAGACTTTTACGCGAACAAGTGTCAAGGTAAG
TTCGTGTAACTTAATCCAACATGTAAATATGTTTAATTGAATATTGTGTTGTTTGGAATGTGATT
TACATTTATGTATATTACTTAAATGTTATAATGAGAAACTTAATACATGCTTGAATTGGTGATAA
AGGGTTAAGTCCCGATTGAATGTTGAATTTCGATGATTGTATACGCTTTCTCGGAACAATTAAGG
TCCTGCATTTGTTGCAGACGGGATTTAGCTCGAACGAGTAATCCCAATGATCTTGTTATAGAAAG
GATTTAGCCCAGACAGGTAATGCTGATATAATATCTTTTGATTATACGTTATGATTAGGGTTTAG
CCTGGACTAGTAATCCTAATCGAGCTCCTCTGAGCATACGTTATAAAAAGGATTTAGCCTGGACT
GGTAATCCTGTTATAAAATATGTGGCTCAAGAGAGTGTTTCTTGGTTAAGTTCCCTAATGGGTAC
AAAATGGTAATTTTTCCTAGGACGTAAATAAGTCCATTTA
Found at i:29836645 original size:126 final size:126
Alignment explanation
Indices: 29836499--29836765 Score: 399
Period size: 126 Copynumber: 2.1 Consensus size: 126
29836489 CTTTTTGTTT
* **
29836499 TTTTTCTATAGTAGTATCTGAAAAAAAAATTTTGAGAAAATGTTTCTGAACAAATAGTGTCCAAA
1 TTTTTCTACAGTAGTATCTGAAAAAAAAATTTTGAGAAAACATTTCTGAACAAATAGTGTCCAAA
* *
29836564 ACGCTTTAAACAGGATACACTGTCAGCAAAATTGCTGAAAAAAGCTCCCACGTGGATGCTA
66 ACGCTTCAAACAGGATACACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTA
* * **
29836625 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGTGAGGACATTTCTGAACAAATAGTGTCCAAA
1 TTTTTCTACAGTAGTATCTGAAAAAAAAATTTTGAGAAAACATTTCTGAACAAATAGTGTCCAAA
* * * *
29836690 ACGCTTCAAGCAGGATACATTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGATGCTC
66 ACGCTTCAAACAGGATACACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTA
* *
29836751 CTTTTCTGCAGTAGT
1 TTTTTCTACAGTAGT
29836766 TCCTATTTAG
Statistics
Matches: 126, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
126 126 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (126 bp):
TTTTTCTACAGTAGTATCTGAAAAAAAAATTTTGAGAAAACATTTCTGAACAAATAGTGTCCAAA
ACGCTTCAAACAGGATACACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTA
Found at i:29839797 original size:14 final size:14
Alignment explanation
Indices: 29839778--29839804 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29839768 TGTAATAAAA
29839778 TTATATTTTATTAT
1 TTATATTTTATTAT
29839792 TTATATTTTATTA
1 TTATATTTTATTA
29839805 AAAATATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATATTTTATTAT
Found at i:29840058 original size:21 final size:21
Alignment explanation
Indices: 29840026--29840082 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
29840016 AGCTTCTAGC
29840026 AGGGG-TTGTGGTTGTTCCGGT
1 AGGGGATT-TGGTTGTTCCGGT
**
29840047 A-GGGATTATGGTTCCTCCGGT
1 AGGGGATT-TGGTTGTTCCGGT
29840068 AGGGGATTTGGTTGT
1 AGGGGATTTGGTTGT
29840083 GGGTGTTGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 3 0.10
21 20 0.69
22 6 0.21
ACGTcount: A:0.11, C:0.11, G:0.42, T:0.37
Consensus pattern (21 bp):
AGGGGATTTGGTTGTTCCGGT
Found at i:29840348 original size:18 final size:18
Alignment explanation
Indices: 29840322--29840364 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
29840312 GACTGGGAAA
* *
29840322 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
29840340 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
29840358 AGGATAC
1 AGGATAC
29840365 GCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:29840452 original size:30 final size:30
Alignment explanation
Indices: 29840418--29840515 Score: 142
Period size: 30 Copynumber: 3.3 Consensus size: 30
29840408 GTTGAAGTGT
* * *
29840418 TGGGCCCAGTAATTGTGTGGGTGTTGTTGA
1 TGGGCCCAGTGATTGTGTGGGCGCTGTTGA
*
29840448 TGGGCCCAGTGACTGTGTGGGCGCTGTTGA
1 TGGGCCCAGTGATTGTGTGGGCGCTGTTGA
*
29840478 TGGGCCCAGTGATTGTGTGGGCGCTATTGA
1 TGGGCCCAGTGATTGTGTGGGCGCTGTTGA
*
29840508 TGGACCCA
1 TGGGCCCA
29840516 CATCGTTATC
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.13, C:0.17, G:0.40, T:0.30
Consensus pattern (30 bp):
TGGGCCCAGTGATTGTGTGGGCGCTGTTGA
Found at i:29842201 original size:21 final size:22
Alignment explanation
Indices: 29842177--29842222 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
29842167 CAAAAATTAA
* *
29842177 AGAGAGCTTTGAGA-AATTTTG
1 AGAGAACTTTGAGAGAATTATG
*
29842198 AGAGAATTTTGAGAGAATTATG
1 AGAGAACTTTGAGAGAATTATG
29842220 AGA
1 AGA
29842223 AGACTCTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.39, C:0.02, G:0.28, T:0.30
Consensus pattern (22 bp):
AGAGAACTTTGAGAGAATTATG
Found at i:29842207 original size:11 final size:11
Alignment explanation
Indices: 29842184--29842222 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
29842174 TAAAGAGAGC
29842184 TTTGAGA-AAT
1 TTTGAGAGAAT
29842194 TTTGAGAGAAT
1 TTTGAGAGAAT
29842205 TTTGAGAGAAT
1 TTTGAGAGAAT
*
29842216 TATGAGA
1 TTTGAGA
29842223 AGACTCTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 7 0.26
11 20 0.74
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (11 bp):
TTTGAGAGAAT
Found at i:29843070 original size:17 final size:18
Alignment explanation
Indices: 29843040--29843077 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
29843030 ACTTAAAATT
29843040 AAAAATAAAATAAT-TTA
1 AAAAATAAAATAATATTA
**
29843057 AAAAATAATTTAATATTA
1 AAAAATAAAATAATATTA
29843075 AAA
1 AAA
29843078 TCGGGCCGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAATAAAATAATATTA
Found at i:29843980 original size:13 final size:13
Alignment explanation
Indices: 29843962--29843987 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29843952 AAAACAAAAA
29843962 CTACAAGCTTACT
1 CTACAAGCTTACT
29843975 CTACAAGCTTACT
1 CTACAAGCTTACT
29843988 GTGTAGACCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (13 bp):
CTACAAGCTTACT
Found at i:29844095 original size:20 final size:20
Alignment explanation
Indices: 29844070--29844112 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
29844060 ATCAGTATTC
*
29844070 TTATCCTGAATTTTAGGATT
1 TTATCCTAAATTTTAGGATT
*
29844090 TTATCCTAAATTTTAGTATT
1 TTATCCTAAATTTTAGGATT
29844110 TTA
1 TTA
29844113 ATTTGGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.53
Consensus pattern (20 bp):
TTATCCTAAATTTTAGGATT
Found at i:29846397 original size:5 final size:5
Alignment explanation
Indices: 29846389--29846420 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
29846379 AAATAAAAAC
29846389 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
29846421 TATTTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:29847622 original size:12 final size:13
Alignment explanation
Indices: 29847602--29847634 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
29847592 TTTGCCCATA
29847602 TTATTTTAAAT-T
1 TTATTTTAAATAT
*
29847614 TTTTTTTAAATAT
1 TTATTTTAAATAT
29847627 TTATTTTA
1 TTATTTTA
29847635 TTTTGTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTATTTTAAATAT
Found at i:29847799 original size:16 final size:18
Alignment explanation
Indices: 29847762--29847797 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
29847752 TTTAATGTAT
*
29847762 TAAAAATTACATAATATA
1 TAAAAATAACATAATATA
29847780 TAAAAATAACATAATATA
1 TAAAAATAACATAATATA
29847798 AATTATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAAATAACATAATATA
Found at i:29855063 original size:40 final size:40
Alignment explanation
Indices: 29855018--29855147 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
29855008 CGGAATACAA
29855018 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
29855058 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
29855098 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
29855138 CCGGATATAA
1 CCGGATATAA
29855148 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:29858989 original size:28 final size:28
Alignment explanation
Indices: 29858940--29859009 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
29858930 AGTTTTACTT
* * *
29858940 TAAATATATATATACATATATATATATATA
1 TAAATA-ATATA-ACAAATATATAAATAAA
* *
29858970 TTAATCATATAACAAATATATAAATAAA
1 TAAATAATATAACAAATATATAAATAAA
29858998 TAAATAATATAA
1 TAAATAATATAA
29859010 TAATGTGAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
28 24 0.73
29 5 0.15
30 4 0.12
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (28 bp):
TAAATAATATAACAAATATATAAATAAA
Found at i:29859175 original size:33 final size:29
Alignment explanation
Indices: 29859105--29859175 Score: 70
Period size: 33 Copynumber: 2.3 Consensus size: 29
29859095 GTGTAAAAAA
*
29859105 AATAATACAATAAATAATAGGAAAATAACT
1 AATAATA-AATAAATAATAGCAAAATAACT
* *
29859135 AAAAATAAATAAATAAAATAGCAATAATAGATT
1 AATAATAAATAAAT--AATAGCAA-AATA-ACT
29859168 AATAATAA
1 AATAATAA
29859176 TAGTACCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
29 7 0.21
30 6 0.18
31 7 0.21
32 4 0.12
33 9 0.27
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.24
Consensus pattern (29 bp):
AATAATAAATAAATAATAGCAAAATAACT
Found at i:29864424 original size:17 final size:17
Alignment explanation
Indices: 29864394--29864427 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
29864384 TTGTATATTT
* *
29864394 TTTTATTAATGATTTTA
1 TTTTAATAAAGATTTTA
29864411 TTTTAATAAAGATTTTA
1 TTTTAATAAAGATTTTA
29864428 AAACATGTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTTAATAAAGATTTTA
Found at i:29864895 original size:9 final size:9
Alignment explanation
Indices: 29864882--29864971 Score: 58
Period size: 9 Copynumber: 9.7 Consensus size: 9
29864872 TATTACAAAA
29864882 AAAAATTAT
1 AAAAATTAT
* *
29864891 TAAAAGTAGT
1 AAAAATTA-T
* *
29864901 GAAAGTTAT
1 AAAAATTAT
*
29864910 TAAAATGTA-
1 AAAAAT-TAT
29864919 AAAAATTAT
1 AAAAATTAT
29864928 AAAAATTAT
1 AAAAATTAT
29864937 AAAAATCCT-T
1 AAAAAT--TAT
**
29864947 AAAAAAAAT
1 AAAAATTAT
29864956 AAAAATTACT
1 AAAAATTA-T
29864966 AAAAAT
1 AAAAAT
29864972 ACATGACTAA
Statistics
Matches: 62, Mismatches: 12, Indels: 13
0.71 0.14 0.15
Matches are distributed among these distances:
8 2 0.03
9 38 0.61
10 21 0.34
11 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:29864932 original size:18 final size:18
Alignment explanation
Indices: 29864882--29864971 Score: 58
Period size: 19 Copynumber: 4.8 Consensus size: 18
29864872 TATTACAAAA
* *
29864882 AAAAATTATTAAAAGTAGT
1 AAAAATTATAAAAATTA-T
* * *
29864901 GAAAGTTATTAAAATGTA-
1 AAAAATTATAAAAAT-TAT
29864919 AAAAATTATAAAAATTAT
1 AAAAATTATAAAAATTAT
**
29864937 AAAAATCCT-TAAAAAAAAT
1 AAAAAT--TATAAAAATTAT
29864956 AAAAATTACTAAAAAT
1 AAAAATTA-TAAAAAT
29864972 ACATGACTAA
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
17 3 0.05
18 18 0.32
19 32 0.57
20 3 0.05
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (18 bp):
AAAAATTATAAAAATTAT
Found at i:29866797 original size:22 final size:22
Alignment explanation
Indices: 29866772--29866814 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
29866762 AGATAAATTG
* *
29866772 ATTTTTTCTTGTAAAAACTCAA
1 ATTTTTTCCTATAAAAACTCAA
29866794 ATTTTTTCCTATAAAAACTCA
1 ATTTTTTCCTATAAAAACTCA
29866815 TGTAATTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTTTTTCCTATAAAAACTCAA
Found at i:29868580 original size:27 final size:27
Alignment explanation
Indices: 29868543--29868594 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
29868533 TGCAAGATAT
* * *
29868543 ATATATAATATGATGTTAAGAGTATAC
1 ATATAAAATATAATGTTAAAAGTATAC
29868570 ATATAAAATATAATGTTAAAAGTAT
1 ATATAAAATATAATGTTAAAAGTAT
29868595 GTATGCATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.37
Consensus pattern (27 bp):
ATATAAAATATAATGTTAAAAGTATAC
Found at i:29869145 original size:18 final size:17
Alignment explanation
Indices: 29869124--29869157 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
29869114 ATACATTTAA
29869124 TATAACAAATATAAATAT
1 TATAACAAATA-AAATAT
29869142 TATAACAAATAAAATA
1 TATAACAAATAAAATA
29869158 CAAAAAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
TATAACAAATAAAATAT
Found at i:29871094 original size:55 final size:55
Alignment explanation
Indices: 29870977--29871249 Score: 370
Period size: 55 Copynumber: 5.0 Consensus size: 55
29870967 GTGATCTTGA
** * * * * *
29870977 GCTCAACTCATTTCTCACAATATGAATTGACTCTTT-AAAAATAGATATTAAAAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTGAAAAACAGAAATTAAAAG
* *
29871031 GCTCAACTCACCTCTCACAATATGAGTTCACTTTTTGAAAAACAGAAATTAAAAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTGAAAAACAGAAATTAAAAG
* *
29871086 GCTCAACTCACCTCTTGCAATATGAGTTGACTTTTTGAAAAACAAAAATTAAAAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTGAAAAACAGAAATTAAAAG
* * *
29871141 ACTCAACTCACCTCTCGCAATTTGAGTTGAATTTTTGAAAAACAGAAATTAAAAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTGAAAAACAGAAATTAAAAG
* * *
29871196 GTTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGAAAAACATAAATTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTGAAAAACAGAAATT-AAAA
29871250 CAGAAATTGA
Statistics
Matches: 196, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
54 49 0.25
55 147 0.75
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (55 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTGAAAAACAGAAATTAAAAG
Found at i:29871248 original size:14 final size:14
Alignment explanation
Indices: 29871229--29871261 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
29871219 GAGTTGATTT
*
29871229 TTGAAAAACATAAA
1 TTGAAAAACAGAAA
29871243 TTG-AAAACAGAAA
1 TTGAAAAACAGAAA
29871256 TTGAAA
1 TTGAAA
29871262 TTACCTCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.61, C:0.06, G:0.12, T:0.21
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:29871556 original size:178 final size:173
Alignment explanation
Indices: 29871198--29871912 Score: 776
Period size: 163 Copynumber: 4.2 Consensus size: 173
29871188 ATTAAAAGGT
* *
29871198 TCAACTCACTTCTCGCAATATGAGTTGA-TTTT------TGA-AAAACATAAATTGAAAACAGAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACTGATAAAACAGAAATTGAAAACAGAA
* * * *
29871255 ATTGAAATTACCTCAACGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGGAA
66 ATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
* * *
29871319 AAATAGAAATTAAAGACAAAAATTGAAAATACCTCAGCGTGCCATGAGGC
131 AAGTAG------AA-ACAGAAATTGAAATTACCTCAGCGTGCCATGAGGC
29871369 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATTAAAACAGAAATTGGAAGAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAC-TG-A-TAAAACAGAAATT-GAA-AA
*
29871434 CAGAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
61 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* * * *
29871499 TTGAAAAGCAGAAATAGAAATTGAAATTATCTCAGCGTGTCATGAGGC
126 TTGAAAAGTAGAAACAGAAATTGAAATTACCTCAGCGTGCCATGAGGC
29871547 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAC--AT------G-AATT-AAAACAGAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACTGATAAAACAGAAATTGAAAACAGAA
*
29871602 ATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
66 ATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
29871667 AAGTAGAAACAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGC
131 AAGTAGAAACAGAAATTGAAATTACCTCAGCGTG-CCATGAGGC
**
29871710 TCAACTCACCTCTCGCAATATGAGTTGATTCTTTTG-AAAC--AT-AAATTGAAA--G--AACAG
1 TCAACTCACCTCTCGCAATATGAGTTGA-T-TTTTGAAAACTGATAAAACAGAAATTGAAAACAG
* * * * * *
29871767 AAATTGGAAATACCTCAGTATGTGAACC-GAGGTTCAACTCATCTCTCGCAATGTGAGTTGATTT
64 AAATTGAAAATACCTCAG--CGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
** * * **
29871831 TT---TTG-AAAAACAGAAATTAAAATTACCTCAGCGTGCCCCGAGGC
126 TTGAAAAGTAGAAACAGAAATTGAAATTACCTCAGCGTGCCATGAGGC
29871875 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
29871913 GTATAAATTA
Statistics
Matches: 483, Mismatches: 32, Indels: 65
0.83 0.06 0.11
Matches are distributed among these distances:
163 140 0.29
164 16 0.03
165 66 0.14
166 5 0.01
167 23 0.05
169 39 0.08
170 3 0.01
171 27 0.06
172 4 0.01
173 1 0.00
174 1 0.00
178 69 0.14
179 4 0.01
180 1 0.00
182 11 0.02
183 3 0.01
184 25 0.05
185 45 0.09
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (173 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACTGATAAAACAGAAATTGAAAACAGAA
ATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
AAGTAGAAACAGAAATTGAAATTACCTCAGCGTGCCATGAGGC
Found at i:29871566 original size:79 final size:79
Alignment explanation
Indices: 29871432--29871913 Score: 555
Period size: 79 Copynumber: 5.9 Consensus size: 79
29871422 AAATTGGAAG
* *
29871432 AACAGAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
29871497 TTTTGAAAAGCAGA
66 TTTTGAAAAGCAGA
* * *
29871511 AATAGAAATTGAAATTATCTCAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
29871576 TTTTGAAAA-CATGAATTAA
66 TTTTGAAAAGCA-G-----A
* *
29871595 AACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
29871660 TTTTGAAAAGTAGA
66 TTTTGAAAAGCAGA
29871674 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
**
29871739 TCTTTTGAAACATAAATTGAAA
65 T-TTTTGAAA-A-GCA--G--A
* * * * *
29871761 GAACAGAAATTGGAAA-TACCTCAGTATGTGAACC-GAGGTTCAACTCATCTCTCGCAATGTGAG
1 -AACAGAAATT-GAAATTACCTCAG--CGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAG
** *
29871824 TTGATTTTT---TTG-AAA
61 TTGATTTTTGAAAAGCAGA
* * *
29871839 AACAGAAATTAAAATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
29871904 TTTTGAAAAG
66 TTTTGAAAAG
29871914 TATAAATTAA
Statistics
Matches: 347, Mismatches: 31, Indels: 51
0.81 0.07 0.12
Matches are distributed among these distances:
74 2 0.01
75 38 0.11
76 3 0.01
77 18 0.05
78 4 0.01
79 133 0.38
80 1 0.00
81 8 0.02
82 2 0.01
83 1 0.00
84 72 0.21
85 2 0.01
87 1 0.00
88 22 0.06
89 5 0.01
90 33 0.10
91 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (79 bp):
AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGAAAAGCAGA
Found at i:29888405 original size:2 final size:2
Alignment explanation
Indices: 29888398--29888430 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
29888388 TTTGTGCAAG
29888398 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29888431 GATGTTAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:29889025 original size:18 final size:17
Alignment explanation
Indices: 29889004--29889037 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
29888994 ATACATTTAA
29889004 TATAACAAATATAAATAT
1 TATAACAAATA-AAATAT
29889022 TATAACAAATAAAATA
1 TATAACAAATAAAATA
29889038 CAGAAAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
TATAACAAATAAAATAT
Found at i:29889077 original size:19 final size:21
Alignment explanation
Indices: 29889041--29889081 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
29889031 TAAAATACAG
29889041 AAAATGAAAACAAGTAAATTA
1 AAAATGAAAACAAGTAAATTA
29889062 AAAAT-AAAAC-AGTAAATTA
1 AAAATGAAAACAAGTAAATTA
29889081 A
1 A
29889082 CCAAAGGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.50
20 5 0.25
21 5 0.25
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (21 bp):
AAAATGAAAACAAGTAAATTA
Found at i:29890911 original size:26 final size:26
Alignment explanation
Indices: 29890862--29890912 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
29890852 ATAACTATAA
* *
29890862 AAAATAAAAATATATTAGTTATTTTT
1 AAAATAAAAATATATTAATAATTTTT
* *
29890888 AAAATAAAGATATTTTAATAATTTT
1 AAAATAAAAATATATTAATAATTTT
29890913 ATAATTGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (26 bp):
AAAATAAAAATATATTAATAATTTTT
Found at i:29895646 original size:46 final size:48
Alignment explanation
Indices: 29895503--29895678 Score: 168
Period size: 46 Copynumber: 3.8 Consensus size: 48
29895493 TTATTTGTGT
* * * *
29895503 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCAC-ATTATGAGA
1 GCCAGTATAAGACCACGTCTAGGACATGGCATCGGCCTCGA-GATGAGA
* * * * * *
29895549 GCCAGTATAAGACCATGTCTGGGACTTGGCATCGGCATTGAGACGAGA
1 GCCAGTATAAGACCACGTCTAGGACATGGCATCGGCCTCGAGATGAGA
*
29895597 GCCAGTGTAAGA-CACGTCTAGGACAT-GCATCGGCCTCGAGATGTA-A
1 GCCAGTATAAGACCACGTCTAGGACATGGCATCGGCCTCGAGATG-AGA
*
29895643 GCCAGTATAAGACCATC-TCTGGGACATGGCATCGGC
1 GCCAGTATAAGACCA-CGTCTAGGACATGGCATCGGC
29895679 ATGAATAGAT
Statistics
Matches: 106, Mismatches: 17, Indels: 12
0.79 0.13 0.09
Matches are distributed among these distances:
46 37 0.35
47 35 0.33
48 33 0.31
49 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.20
Consensus pattern (48 bp):
GCCAGTATAAGACCACGTCTAGGACATGGCATCGGCCTCGAGATGAGA
Found at i:29895715 original size:94 final size:95
Alignment explanation
Indices: 29895500--29895717 Score: 286
Period size: 94 Copynumber: 2.3 Consensus size: 95
29895490 GGGTTATTTG
*
29895500 TGTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGAGAGCCAGTATAAGACCAT
1 TGTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACATGATGAGAGCCAGTATAAGACCAT
* * *
29895565 GTCTGGGACTTGGCATCGGCATTGAGACGA
66 CTCTGGGACATGGCATCGGCATTGAGAAGA
* * *
29895595 -GAGCCAGTGTAAGACACGTCTAGGACATGCATCGGCCTCGA-GATGTA-AGCCAGTATAAGACC
1 TGTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATGATG-AGAGCCAGTATAAGACC
29895657 ATCTCTGGGACATGGCATCGGCA-TGA-ATAGA
64 ATCTCTGGGACATGGCATCGGCATTGAGA-AGA
*
29895688 TGTGCCAGTGTAAGACCATGT-TTGGACATG
1 TGTGCCAGTGTAAGA-CATGTCTAGGACATG
29895718 ATATCGAAAC
Statistics
Matches: 108, Mismatches: 10, Indels: 11
0.84 0.08 0.09
Matches are distributed among these distances:
92 1 0.01
93 5 0.05
94 96 0.89
95 6 0.06
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (95 bp):
TGTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACATGATGAGAGCCAGTATAAGACCAT
CTCTGGGACATGGCATCGGCATTGAGAAGA
Found at i:29895853 original size:47 final size:47
Alignment explanation
Indices: 29895503--29895868 Score: 195
Period size: 47 Copynumber: 7.7 Consensus size: 47
29895493 TTATTTGTGT
*
29895503 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCACATT-AT-GA-GA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-G--AC-TTGATGGATGA
* * *
29895549 GCCAGTATAAGACCATGTCTGGGACTTGGCATCGGCATTGA-GACGA-GA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGATG--GATGA
* * * *
29895597 GCCAGTGTAAGA-CACGTCTAGGACAT-GCATCGGCCTCGA--GATGTAA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATGGATG--A
* * * * * *
29895643 GCCAGTATAAGACCATCTCTGGGACATGGCATCGGCATGAATAGATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTG-ATGGATGA
* ** *
29895691 GCCAGTGTAAGACCATGT-TTGGACATGATATCGAAACGAAT-ATGTGA-GA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG--AC--TTGATG-GATGA
* * ** * * **
29895740 GCTAGTGTAAGACTATGTCTGGGACATGGTGTCAGCCTCGATTTCAAT-A
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGA--TGGATGA
**
29895789 GTTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGA
*
29895836 GCCAGTGTAAGACCATGTCTAGGACATGGCATC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
29895869 TTCATTATAC
Statistics
Matches: 246, Mismatches: 47, Indels: 53
0.71 0.14 0.15
Matches are distributed among these distances:
43 2 0.01
44 1 0.00
45 4 0.02
46 35 0.14
47 83 0.34
48 48 0.20
49 52 0.21
50 18 0.07
51 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGA
Found at i:29916236 original size:44 final size:41
Alignment explanation
Indices: 29916150--29916267 Score: 103
Period size: 44 Copynumber: 2.8 Consensus size: 41
29916140 ACGTGTTATC
* * * *
29916150 GTGTGAGACCACGTCTGGGACGTTGGCATCGACTTCTGTTTT
1 GTGTAAGACCATGTCTGGGACATTGGCATCGAC-TATGTTTT
29916192 GAGTGTAAGACCATGTCTGGGACATTGGCATCGTA-TATGATTTT
1 --GTGTAAGACCATGTCTGGGACATTGGCATCG-ACTATG-TTTT
* * * * *
29916236 GTGAAAGACCCTTTTTGGGACAGTGGCATCGA
1 GTGTAAGACCATGTCTGGGACATTGGCATCGA
29916268 TGTTTGATTA
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.02
42 26 0.41
43 3 0.05
44 32 0.51
45 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (41 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGACTATGTTTT
Found at i:29918983 original size:27 final size:28
Alignment explanation
Indices: 29918953--29919051 Score: 107
Period size: 27 Copynumber: 3.6 Consensus size: 28
29918943 TTTAGTTTAC
29918953 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
29918980 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
29919007 TAAATTTACCGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
29919034 TAAAATTACC-AAAGTACC
1 TAAAATTACCGAAA-TACC
29919052 TCCGATTTAC
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.12
27 52 0.87
28 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:29919058 original size:54 final size:54
Alignment explanation
Indices: 29918953--29919059 Score: 121
Period size: 54 Copynumber: 2.0 Consensus size: 54
29918943 TTTAGTTTAC
* *
29918953 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCTCGATTTG
* * *
29919007 TAAATTTACCGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTA-CCTCCGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCT-CGATTT
29919060 ACAGAATTAC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
53 11 0.24
54 34 0.76
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCTCGATTTG
Found at i:29919114 original size:27 final size:27
Alignment explanation
Indices: 29919048--29919115 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
29919038 ATTACCAAAG
* *
29919048 TACCTCCGATTTACAGAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCATTT
** *
29919075 TACCCCTAATTTACATAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
*
29919102 TACCCCCGTTTTAC
1 TACCCCCGATTTAC
29919116 CCTCGGCTTA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.38
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCATTT
Found at i:29919168 original size:65 final size:65
Alignment explanation
Indices: 29919058--29919180 Score: 149
Period size: 65 Copynumber: 1.9 Consensus size: 65
29919048 TACCTCCGAT
* * *
29919058 TTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCATTTTACCCCCGTTTTACCCTCGGC
1 TTACAGAATTACCGTTTTACCCCTAACTTACAGAATTACCATTTTACCCCCGATTTACCCTCGGC
* * * ** *
29919123 TTACATAATTATCGTTTTA-CCCTCGACTTACAGAATTACTGTTTTACCCTCGATTTAC
1 TTACAGAATTACCGTTTTACCCCT-AACTTACAGAATTACCATTTTACCCCCGATTTAC
29919181 AAAATTACTA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
64 4 0.08
65 44 0.92
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.39
Consensus pattern (65 bp):
TTACAGAATTACCGTTTTACCCCTAACTTACAGAATTACCATTTTACCCCCGATTTACCCTCGGC
Found at i:29919189 original size:27 final size:28
Alignment explanation
Indices: 29919108--29919189 Score: 114
Period size: 27 Copynumber: 3.0 Consensus size: 28
29919098 ATTTTACCCC
* *
29919108 CGTTTTACCCTCGGCTTACATAATTA-T
1 CGTTTTACCCTCGACTTACAAAATTACT
*
29919135 CGTTTTACCCTCGACTTACAGAATTACT
1 CGTTTTACCCTCGACTTACAAAATTACT
*
29919163 -GTTTTACCCTCGATTTACAAAATTACT
1 CGTTTTACCCTCGACTTACAAAATTACT
29919190 AAAATACCTT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.39
Consensus pattern (28 bp):
CGTTTTACCCTCGACTTACAAAATTACT
Found at i:29919197 original size:27 final size:27
Alignment explanation
Indices: 29919167--29919388 Score: 128
Period size: 27 Copynumber: 8.1 Consensus size: 27
29919157 ATTACTGTTT
* *
29919167 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* * **
29919194 TACCTTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* **
29919221 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTACAAAATTACCAAAA
** * ***
29919248 TACTATTGGTTTGTGAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
** **
29919275 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
*
29919302 TACCCTTGATTTACAAAGTTA-CAGAAA
1 TACCCTTGATTTACAAAATTACCA-AAA
* *
29919329 TACCATTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACCA-AAA
* * **
29919358 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACCAAAA
29919385 TACC
1 TACC
29919389 TTTGGTTTGT
Statistics
Matches: 157, Mismatches: 30, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
26 2 0.01
27 128 0.82
28 7 0.04
29 20 0.13
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCAAAA
Found at i:29919225 original size:54 final size:55
Alignment explanation
Indices: 29919167--29919305 Score: 194
Period size: 54 Copynumber: 2.6 Consensus size: 55
29919157 ATTACTGTTT
* ** *
29919167 TACCCTCGATTTACAAAATTACTAAAATACCT-TTGGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCTATTGGTTTGTAAAATTACCAAAA
* *
29919221 TACCC-CTAGTTTGTAAAATTACCAAAATA-CTATTGGTTTGTGAAATTACCAAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCTATTGGTTTGTAAAATTACCAAAA
29919275 TACCCTCAATTTGTAAAATTACCAAAATACC
1 TACCCTCAATTTGTAAAATTACCAAAATACC
29919306 CTTGATTTAC
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
53 3 0.04
54 69 0.93
55 2 0.03
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.32
Consensus pattern (55 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCTATTGGTTTGTAAAATTACCAAAA
Found at i:29919330 original size:54 final size:53
Alignment explanation
Indices: 29919167--29919388 Score: 164
Period size: 54 Copynumber: 4.1 Consensus size: 53
29919157 ATTACTGTTT
* ** * *
29919167 TACCCTCGATTTACAAAATTACTAAAATACCTTTGGTTTGTA-AAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCATTGG-TT-TACAAATTACCAAAA
* * **
29919221 TACCC-CTAGTTTGTAAAATTACCAAAATACTATTGGTTTGTGAAATTACCAAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCATTGGTTT-ACAAATTACCAAAA
* *
29919275 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGATTTACAAAGTTA-CAGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCATTGGTTTACAAA-TTACCA-AAA
* * * * * **
29919329 TACCATTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACC-CTCAATTTGT-AAAATTACCA-AAATACCATTGGTTTAC-AAATTACCAAAA
29919385 TACC
1 TACC
29919389 TTTGGTTTGT
Statistics
Matches: 134, Mismatches: 23, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
52 1 0.01
53 8 0.06
54 82 0.61
55 8 0.06
56 32 0.24
57 3 0.02
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCATTGGTTTACAAATTACCAAAA
Found at i:29919514 original size:27 final size:27
Alignment explanation
Indices: 29919450--29919514 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
29919440 ACCCCTAAAA
*
29919450 GGTAAAAAGACCATAAAGCCCCTGTAG
1 GGTAAAATGACCATAAAGCCCCTGTAG
* * *
29919477 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCATAA-AGCCCCTGTAG
29919504 GGTAAAATGAC
1 GGTAAAATGAC
29919515 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCATAAAGCCCCTGTAG
Found at i:29920762 original size:9 final size:9
Alignment explanation
Indices: 29920750--29920806 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
29920740 TTTGATAAAC
29920750 ATGATATGT
1 ATGATATGT
*
29920759 ATGATATGCAC
1 ATGATATG--T
*
29920770 ATGACATGT
1 ATGATATGT
*
29920779 ATGATATGCGC
1 ATGATAT--GT
29920790 ATGATATGT
1 ATGATATGT
29920799 ATGATATG
1 ATGATATG
29920807 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:29920773 original size:20 final size:20
Alignment explanation
Indices: 29920748--29920818 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
29920738 ATTTTGATAA
29920748 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
29920768 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
29920788 GCATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
29920808 ACATGAGATGT
1 ACATGATATGT
29920819 TCATAAATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:29920895 original size:23 final size:23
Alignment explanation
Indices: 29920865--29921030 Score: 269
Period size: 23 Copynumber: 7.1 Consensus size: 23
29920855 AGGAAGTGCA
29920865 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
29920888 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
29920911 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
29920935 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
29920958 AAAGGGCTTATGCCCCAGTGATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
29920982 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
29921005 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
29921028 AAA
1 AAA
29921031 AGAGGCAAGG
Statistics
Matches: 132, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
23 90 0.68
24 42 0.32
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:29920956 original size:47 final size:47
Alignment explanation
Indices: 29920865--29921032 Score: 284
Period size: 47 Copynumber: 3.6 Consensus size: 47
29920855 AGGAAGTGCA
*
29920865 AAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
29920911 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
29920958 AAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
29921005 AAAGGGCTTTTGCCCCAGTTATTAAAAG
1 AAAGGGCTTATGCCCCAGTTATCAAAAG
29921033 AGGCAAGGCC
Statistics
Matches: 115, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
46 22 0.19
47 93 0.81
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:29920976 original size:70 final size:71
Alignment explanation
Indices: 29920863--29921030 Score: 277
Period size: 70 Copynumber: 2.4 Consensus size: 71
29920853 GGAGGAAGTG
* * *
29920863 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
29920927 AGTTAT
66 AGTTAT
29920933 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
29920998 AGTTAT
66 AGTTAT
* *
29921004 -TAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
29921031 AGAGGCAAGG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
70 71 0.77
71 21 0.23
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
AGTTAT
Found at i:29921235 original size:42 final size:42
Alignment explanation
Indices: 29921172--29921263 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
29921162 TAGTCTCCCC
* **
29921172 AAATGGGTTTGCATACATTCATTGGTATT-TCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTAT-ATGTGATATTG
* *
29921214 AAATGGGCTTGCATTCTTTCATTGACATTATATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTATATGTGATATTG
29921256 AAATGGGC
1 AAATGGGC
29921264 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTATATGTGATATTG
Found at i:29921323 original size:31 final size:31
Alignment explanation
Indices: 29921287--29921350 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
29921277 CGTTTACAGT
*
29921287 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
29921318 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
29921349 AA
1 AA
29921351 TGTGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:29924221 original size:27 final size:28
Alignment explanation
Indices: 29924191--29924289 Score: 89
Period size: 27 Copynumber: 3.7 Consensus size: 28
29924181 TTTAGTTTAC
29924191 TAAAATTACCAAAATACCCTTAG-TTTG
1 TAAAATTACCAAAATACCCTTAGATTTG
* ** *
29924218 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCAAAATACCCTTAGATTTG
* * * *
29924245 T-AATTTACCGAAATA-CCTTCGACTTG
1 TAAAATTACCAAAATACCCTTAGATTTG
*
29924271 TAAAATTACCAAAGTACCC
1 TAAAATTACCAAAATACCC
29924290 CCGATTTACA
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
25 2 0.04
26 21 0.37
27 32 0.56
28 2 0.04
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (28 bp):
TAAAATTACCAAAATACCCTTAGATTTG
Found at i:29924315 original size:27 final size:27
Alignment explanation
Indices: 29924285--29924352 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
29924275 ATTACCAAAG
*
29924285 TACCCCCGATTTACAGAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCATTT
** *
29924312 TACCCCTAATTTACATAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
*
29924339 TACCCCCGTTTTAC
1 TACCCCCGATTTAC
29924353 CCTCGGCTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.26, C:0.31, G:0.06, T:0.37
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCATTT
Found at i:29924391 original size:65 final size:65
Alignment explanation
Indices: 29924295--29924417 Score: 149
Period size: 65 Copynumber: 1.9 Consensus size: 65
29924285 TACCCCCGAT
* * *
29924295 TTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCATTTTACCCCCGTTTTACCCTCGGC
1 TTACAGAATTACCGTTTTACCCCTAACTTACAGAATTACCATTTTACCCCCGATTTACCCTCGGC
* * * ** *
29924360 TTACATAATTATCGTTTTA-CCCTCGACTTACAGAATTACTGTTTTACCCTCGATTTAC
1 TTACAGAATTACCGTTTTACCCCT-AACTTACAGAATTACCATTTTACCCCCGATTTAC
29924418 AAAATTACTA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
64 4 0.08
65 44 0.92
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.39
Consensus pattern (65 bp):
TTACAGAATTACCGTTTTACCCCTAACTTACAGAATTACCATTTTACCCCCGATTTACCCTCGGC
Found at i:29924426 original size:27 final size:28
Alignment explanation
Indices: 29924345--29924426 Score: 114
Period size: 27 Copynumber: 3.0 Consensus size: 28
29924335 ATTTTACCCC
* *
29924345 CGTTTTACCCTCGGCTTACATAATTA-T
1 CGTTTTACCCTCGACTTACAAAATTACT
*
29924372 CGTTTTACCCTCGACTTACAGAATTACT
1 CGTTTTACCCTCGACTTACAAAATTACT
*
29924400 -GTTTTACCCTCGATTTACAAAATTACT
1 CGTTTTACCCTCGACTTACAAAATTACT
29924427 AAAATACCTT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.39
Consensus pattern (28 bp):
CGTTTTACCCTCGACTTACAAAATTACT
Found at i:29924434 original size:27 final size:27
Alignment explanation
Indices: 29924404--29924571 Score: 108
Period size: 27 Copynumber: 6.2 Consensus size: 27
29924394 ATTACTGTTT
*
29924404 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* * * **
29924431 TACCTTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
29924458 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* * * *** *
29924485 TACCATTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
29924512 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
*
29924539 TACCC-CTGATTTACAAAGTTA-CAGAAA
1 TACCCTC-GATTTACAAAATTACCA-AAA
29924566 TACCCT
1 TACCCT
29924572 TGACTTTCTA
Statistics
Matches: 110, Mismatches: 26, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
26 3 0.03
27 107 0.97
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:29924462 original size:54 final size:54
Alignment explanation
Indices: 29924404--29924542 Score: 190
Period size: 54 Copynumber: 2.6 Consensus size: 54
29924394 ATTACTGTTT
* ** * *
29924404 TACCCTCGATTTACAAAATTACTAAAATACCTTTGGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCATTGGTTTGTAAAATTACCAAAA
* * *
29924458 TACCC-CTAGTTTGTAAAATTACCAAAATACCATTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCATTGGTTTGTAAAATTACCAAAA
29924512 TACCCTCAATTTGTAAAATTACCAAAATACC
1 TACCCTCAATTTGTAAAATTACCAAAATACC
29924543 CCTGATTTAC
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 72 0.97
55 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCATTGGTTTGTAAAATTACCAAAA
Found at i:29924566 original size:54 final size:54
Alignment explanation
Indices: 29924404--29924571 Score: 146
Period size: 54 Copynumber: 3.1 Consensus size: 54
29924394 ATTACTGTTT
* ** * ** *
29924404 TACCCTCGATTTACAAAATTACTAAAATACCTTTGGTTTGTA-AAATTACCA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCACTGATTTG-ACAAATTA-CAGAAA
* * * ** *
29924458 TACCC-CTAGTTTGTAAAATTACCAAAATACCATTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCACTGATTTGACAAATTACAGAAA
*
29924512 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTT-ACAAAGTTACAGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCACTGATTTGACAAA-TTACAGAAA
29924566 TACCCT
1 TACCCT
29924572 TGACTTTCTA
Statistics
Matches: 94, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
53 5 0.05
54 88 0.94
55 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCACTGATTTGACAAATTACAGAAA
Found at i:29924751 original size:27 final size:27
Alignment explanation
Indices: 29924687--29924751 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
29924677 ACCCCTAAAA
*
29924687 GGTAAAAAGACCATAAAGCCCCTGTAG
1 GGTAAAATGACCATAAAGCCCCTGTAG
* * *
29924714 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCATAA-AGCCCCTGTAG
29924741 GGTAAAATGAC
1 GGTAAAATGAC
29924752 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCATAAAGCCCCTGTAG
Found at i:29925999 original size:9 final size:9
Alignment explanation
Indices: 29925987--29926043 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
29925977 TTTGATAAAC
29925987 ATGATATGT
1 ATGATATGT
*
29925996 ATGATATGCAC
1 ATGATATG--T
*
29926007 ATGACATGT
1 ATGATATGT
*
29926016 ATGATATGCGC
1 ATGATAT--GT
29926027 ATGATATGT
1 ATGATATGT
29926036 ATGATATG
1 ATGATATG
29926044 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:29926010 original size:20 final size:20
Alignment explanation
Indices: 29925985--29926055 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
29925975 ATTTTGATAA
29925985 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
29926005 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
29926025 GCATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
29926045 ACATGAGATGT
1 ACATGATATGT
29926056 TCATAAATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:29926132 original size:23 final size:23
Alignment explanation
Indices: 29926102--29926267 Score: 269
Period size: 23 Copynumber: 7.1 Consensus size: 23
29926092 AGGAAGTGCA
29926102 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
29926125 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
29926148 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
29926172 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
29926195 AAAGGGCTTATGCCCCAGTGATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
29926219 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
29926242 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
29926265 AAA
1 AAA
29926268 AGAGGCAAGG
Statistics
Matches: 132, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
23 90 0.68
24 42 0.32
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:29926193 original size:47 final size:47
Alignment explanation
Indices: 29926102--29926269 Score: 284
Period size: 47 Copynumber: 3.6 Consensus size: 47
29926092 AGGAAGTGCA
*
29926102 AAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
29926148 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
29926195 AAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
29926242 AAAGGGCTTTTGCCCCAGTTATTAAAAG
1 AAAGGGCTTATGCCCCAGTTATCAAAAG
29926270 AGGCAAGGCC
Statistics
Matches: 115, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
46 22 0.19
47 93 0.81
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:29926213 original size:70 final size:71
Alignment explanation
Indices: 29926100--29926267 Score: 277
Period size: 70 Copynumber: 2.4 Consensus size: 71
29926090 GGAGGAAGTG
* * *
29926100 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
29926164 AGTTAT
66 AGTTAT
29926170 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
29926235 AGTTAT
66 AGTTAT
* *
29926241 -TAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
29926268 AGAGGCAAGG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
70 71 0.77
71 21 0.23
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
AGTTAT
Found at i:29926472 original size:42 final size:42
Alignment explanation
Indices: 29926409--29926500 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
29926399 TAGTCTCCCC
* **
29926409 AAATGGGTTTGCATACATTCATTGGTATT-TCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTAT-ATGTGATATTG
* *
29926451 AAATGGGCTTGCATTCTTTCATTGACATTATATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTATATGTGATATTG
29926493 AAATGGGC
1 AAATGGGC
29926501 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTATATGTGATATTG
Found at i:29926560 original size:31 final size:31
Alignment explanation
Indices: 29926524--29926587 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
29926514 CGTTTACAGT
*
29926524 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
29926555 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
29926586 AA
1 AA
29926588 TGTGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:29930948 original size:43 final size:44
Alignment explanation
Indices: 29930879--29931018 Score: 129
Period size: 51 Copynumber: 3.0 Consensus size: 44
29930869 GAAATTATAA
* * * * *
29930879 ATCCGAACTTGTTGAGAGGTCCGAGTTCATTATGGATGTG-AGC
1 ATCCGAGCTCGTTGAGTGGTCTGAGTTCATTATGGATGTGTAAC
29930922 ATCCGAGCTCGTTGAGTGGTCTGAGTTCATGATGGATGCGATGCATGTAAC
1 ATCCGAGCTCGTTGAGTGGTCTGAGTTCAT--T--ATG-GATG--TGTAAC
** * *
29930973 ATTTGAGCTCGTTGAGTGGTCTGAGTTCGTTATGGATGTGTTAC
1 ATCCGAGCTCGTTGAGTGGTCTGAGTTCATTATGGATGTGTAAC
29931017 AT
1 AT
29931019 GTTATGAGGT
Statistics
Matches: 80, Mismatches: 9, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
43 26 0.32
44 7 0.09
45 1 0.01
46 4 0.05
47 6 0.08
48 4 0.05
49 1 0.01
50 2 0.03
51 29 0.36
ACGTcount: A:0.21, C:0.15, G:0.31, T:0.34
Consensus pattern (44 bp):
ATCCGAGCTCGTTGAGTGGTCTGAGTTCATTATGGATGTGTAAC
Found at i:29936300 original size:19 final size:19
Alignment explanation
Indices: 29936254--29936301 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
29936244 GTATATATTT
29936254 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
29936272 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
29936291 TAAGTTTTATT
1 TAAATTTTATT
29936302 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:29936362 original size:42 final size:42
Alignment explanation
Indices: 29936316--29936398 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
29936306 TTCTAGGAAT
*
29936316 ATTTTATTTTATCTTTTACTAGTTTATTAGAATAAGGGAACA
1 ATTTTATTTTATCTTTAACTAGTTTATTAGAATAAGGGAACA
* * *
29936358 ATTTTCTTTTATGTTTAAGTAGTTTATTAGAATAAGGGAAC
1 ATTTTATTTTATCTTTAACTAGTTTATTAGAATAAGGGAAC
29936399 TACTTTCCCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (42 bp):
ATTTTATTTTATCTTTAACTAGTTTATTAGAATAAGGGAACA
Found at i:29945439 original size:40 final size:40
Alignment explanation
Indices: 29945331--29945540 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
29945321 CGGGATTTAA
* * * * *
29945331 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
29945371 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
29945411 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
29945451 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
29945491 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
29945531 CCGGATATAT
1 CCGGATATAT
29945541 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:29952662 original size:40 final size:40
Alignment explanation
Indices: 29952554--29952723 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
29952544 CGGGATTTAA
* * * * *
29952554 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
29952594 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
29952634 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
29952674 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
29952714 CCGGATATAT
1 CCGGATATAT
29952724 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:29953919 original size:82 final size:82
Alignment explanation
Indices: 29953811--29953978 Score: 309
Period size: 82 Copynumber: 2.0 Consensus size: 82
29953801 ACTCCTATGA
**
29953811 TGAGATTGTTGCAAAATTATGTTAAGTTCGAATGATCTGAAAAATTTCAGCAAAGTTTTGAGAAA
1 TGAGATTGTTGCAAAAGGATGTTAAGTTCGAATGATCTGAAAAATTTCAGCAAAGTTTTGAGAAA
29953876 TCGAAGGCATTATTGAC
66 TCGAAGGCATTATTGAC
29953893 TGAGATTGTTGCAAAAGGATGTTAAGTTCGAATGATCTGAAAAATTTCAGCAAAGTTTTGAGAAA
1 TGAGATTGTTGCAAAAGGATGTTAAGTTCGAATGATCTGAAAAATTTCAGCAAAGTTTTGAGAAA
*
29953958 TTGAAGGCATTATTGAC
66 TCGAAGGCATTATTGAC
29953975 TGAG
1 TGAG
29953979 GCACCAATTT
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (82 bp):
TGAGATTGTTGCAAAAGGATGTTAAGTTCGAATGATCTGAAAAATTTCAGCAAAGTTTTGAGAAA
TCGAAGGCATTATTGAC
Found at i:29962011 original size:21 final size:21
Alignment explanation
Indices: 29961978--29962031 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
29961968 TGATGCTGCC
*
29961978 GAAGAAGAAGTTG-T-TGGAA
1 GAAGAAAAAGTTGTTGTGGAA
* *
29961997 -AAGCAGAAGTTGTTGTGGAA
1 GAAGAAAAAGTTGTTGTGGAA
29962017 GAAGAAAAAGTTGTT
1 GAAGAAAAAGTTGTT
29962032 CAAAATGAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 11 0.38
19 1 0.03
20 5 0.17
21 12 0.41
ACGTcount: A:0.41, C:0.02, G:0.33, T:0.24
Consensus pattern (21 bp):
GAAGAAAAAGTTGTTGTGGAA
Found at i:29962022 original size:18 final size:18
Alignment explanation
Indices: 29961978--29962022 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
29961968 TGATGCTGCC
29961978 GAAGAAGAAGTTGTTGGA
1 GAAGAAGAAGTTGTTGGA
* *
29961996 AAAGCAGAAGTTGTTGTG-
1 GAAGAAGAAGTTGTTG-GA
29962014 GAAGAAGAA
1 GAAGAAGAA
29962023 AAAGTTGTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.42, C:0.02, G:0.36, T:0.20
Consensus pattern (18 bp):
GAAGAAGAAGTTGTTGGA
Found at i:29963458 original size:42 final size:42
Alignment explanation
Indices: 29963352--29963502 Score: 171
Period size: 43 Copynumber: 3.5 Consensus size: 42
29963342 TATTTTATCG
** *
29963352 TGTAAGACCACGTCTGGGATGTTGGCATAG-ACTTATGATTTGCA
1 TGTAAGACCACGTCTGGGACATTGGCATCGTA-TT-TGATTT-CA
*
29963396 TGTAAGACCACGTCTAGGACATTGGCATCGTATTTGATTTCA
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTCA
* *
29963438 TGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCG-TATTTGATTTCA
* *
29963481 TGTAAGACTACGTCTAGGACAT
1 TGTAAGACCACGTCTGGGACAT
29963503 CAGCTTTGTA
Statistics
Matches: 93, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
41 1 0.01
42 28 0.30
43 34 0.37
44 29 0.31
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTCA
Found at i:29967534 original size:18 final size:18
Alignment explanation
Indices: 29967511--29967546 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
29967501 AAACAATTTC
29967511 AAGCCACATTTATCCATA
1 AAGCCACATTTATCCATA
29967529 AAGCCACATTTATCCATA
1 AAGCCACATTTATCCATA
29967547 TATTCATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.06, T:0.28
Consensus pattern (18 bp):
AAGCCACATTTATCCATA
Found at i:29970179 original size:47 final size:46
Alignment explanation
Indices: 29970105--29970196 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 46
29970095 GTCCCGAAGG
* * * *
29970105 CATTCGTGCTGTTGTTTATCCGGGCTAAGTCCTGAAGGCATTCGTC
1 CATTCGTGCTGCTATTTATCCAGGCTAAGTCCCGAAGGCATTCGTC
29970151 CATTCGTGCTGCTATTATATCCAGGCTAAGTCCCGAAGGCATTCGT
1 CATTCGTGCTGCTATT-TATCCAGGCTAAGTCCCGAAGGCATTCGT
29970197 GCTGGTGTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 14 0.34
47 27 0.66
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.33
Consensus pattern (46 bp):
CATTCGTGCTGCTATTTATCCAGGCTAAGTCCCGAAGGCATTCGTC
Found at i:29970208 original size:39 final size:39
Alignment explanation
Indices: 29970151--29970382 Score: 340
Period size: 39 Copynumber: 5.9 Consensus size: 39
29970141 GGCATTCGTC
* * *
29970151 CATTCGTGCTGCTATTATATCCAGGCTAAGTCCCGAAGG
1 CATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGG
*
29970190 CATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCAAAGG
1 CATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGG
*
29970229 CATTCGTGCTGCTGTTATATCCGGGCTAAGTCCCGAAGG
1 CATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGG
29970268 CATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGG
1 CATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGG
* *
29970307 CATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCTGTAGG
1 CATTCGTGCTGGTGTTATATCCGGGCT-AAGTCCCGAAGG
* * *
29970347 C-TTTGTGCTGGTATTATATCCGAGCTTAAAGTCCCG
1 CATTCGTGCTGGTGTTATATCCGGGC-T-AAGTCCCG
29970383 CATGCTTTGT
Statistics
Matches: 178, Mismatches: 13, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 158 0.89
40 20 0.11
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.30
Consensus pattern (39 bp):
CATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGG
Found at i:29976643 original size:38 final size:39
Alignment explanation
Indices: 29976587--29976809 Score: 292
Period size: 38 Copynumber: 5.5 Consensus size: 39
29976577 TAATGGAGAA
29976587 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
29976626 TTATATCC-GGCTAAGTCCCGAAGGCATTCGTGCATTCGTGCTGG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC--T-G-G-T-G
29976670 TATTATATCCGGGCTAAGT-CCGAAGGCATTCGTGCTGGTG
1 --TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
29976710 TT-TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
29976748 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
29976787 TTATATCCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
29976810 CATGCTTTGT
Statistics
Matches: 168, Mismatches: 3, Indels: 25
0.86 0.02 0.13
Matches are distributed among these distances:
37 14 0.08
38 50 0.30
39 40 0.24
40 24 0.14
41 2 0.01
42 2 0.01
43 2 0.01
44 2 0.01
46 24 0.14
47 8 0.05
ACGTcount: A:0.18, C:0.23, G:0.29, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:29976678 original size:46 final size:46
Alignment explanation
Indices: 29976611--29976742 Score: 176
Period size: 46 Copynumber: 3.0 Consensus size: 46
29976601 AGTCCCGAAG
29976611 GCATTCGTGCTGGTGTTATATCC-GGCTAAGTCCCGAAGGCATTCGT
1 GCATTCGTGCTGGT-TTATATCCGGGCTAAGTCCCGAAGGCATTCGT
29976657 GCATTCGTGCTGGTATTATATCCGGGCTAAGT-CCGAAGGCATTCGT
1 GCATTCGTGCTGGT-TTATATCCGGGCTAAGTCCCGAAGGCATTCGT
29976703 GC--T-G-G-T-G-TT-TATCCGGGCTAAGTCCCGAAGGCATTCGT
1 GCATTCGTGCTGGTTTATATCCGGGCTAAGTCCCGAAGGCATTCGT
29976741 GC
1 GC
29976743 TGGTGTTATA
Statistics
Matches: 83, Mismatches: 1, Indels: 12
0.86 0.01 0.12
Matches are distributed among these distances:
37 14 0.17
38 18 0.22
40 1 0.01
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 38 0.46
47 8 0.10
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.30
Consensus pattern (46 bp):
GCATTCGTGCTGGTTTATATCCGGGCTAAGTCCCGAAGGCATTCGT
Found at i:29976728 original size:84 final size:85
Alignment explanation
Indices: 29976586--29976796 Score: 300
Period size: 84 Copynumber: 2.6 Consensus size: 85
29976576 ATAATGGAGA
29976586 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGCTAAGTCCCGAAGGC
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGCTAAGTCCCGAAGGC
29976651 ATTCGTGCATTCGTGCTGGT
66 ATTCGTGCATTCGTGCTGGT
29976671 ATTATATCCGGGCTAAGT-CCGAAGGCATTCGTGCTGGTGTT-TATCCGGGCTAAGTCCCGAAGG
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCC-GGCTAAGTCCCGAAGG
29976734 CATTCGTGC--T-G-G-T-G-
65 CATTCGTGCATTCGTGCTGGT
* * *
29976748 -TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTATTATATCCGG
1 ATTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGG
29976797 GCTTAAAGTC
Statistics
Matches: 119, Mismatches: 3, Indels: 16
0.86 0.02 0.12
Matches are distributed among these distances:
76 13 0.11
77 18 0.15
78 13 0.11
79 1 0.01
80 1 0.01
81 1 0.01
82 1 0.01
83 5 0.04
84 48 0.40
85 18 0.15
ACGTcount: A:0.18, C:0.23, G:0.29, T:0.30
Consensus pattern (85 bp):
ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGCTAAGTCCCGAAGGC
ATTCGTGCATTCGTGCTGGT
Found at i:29980653 original size:30 final size:30
Alignment explanation
Indices: 29980619--29980679 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
29980609 TCCTTAACTC
29980619 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
29980649 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
29980679 A
1 A
29980680 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:29985076 original size:23 final size:23
Alignment explanation
Indices: 29985028--29985218 Score: 283
Period size: 24 Copynumber: 8.1 Consensus size: 23
29985018 CCTTGCCTCT
* *
29985028 TTTAATAACTGGGACAAAAAGCCC
1 TTTAATAACTGGGGC-ATAAGCCC
*
29985052 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
29985075 TTTTGATCACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
29985099 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
29985122 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
29985146 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
29985170 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
29985193 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
29985216 TTT
1 TTT
29985219 TGCACTTCCT
Statistics
Matches: 155, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
23 75 0.48
24 80 0.52
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:29985103 original size:47 final size:47
Alignment explanation
Indices: 29985026--29985220 Score: 302
Period size: 47 Copynumber: 4.1 Consensus size: 47
29985016 GGCCTTGCCT
* * * *
29985026 CTTTTAATAACTGGGACAAAAAGCCCTTTAATAACTGGGGCGTAAGCC
1 CTTTTGATAACTGGGGC-ATAAGCCCTTTAATAACTGGGGCATAAGCC
*
29985074 CTTTTGATCACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
*
29985121 CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCC
*
29985169 C-TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
29985215 CTTTTG
1 CTTTTG
29985221 CACTTCCTCC
Statistics
Matches: 135, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
46 22 0.16
47 77 0.57
48 36 0.27
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (47 bp):
CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
Found at i:29985144 original size:71 final size:70
Alignment explanation
Indices: 29985028--29985220 Score: 323
Period size: 71 Copynumber: 2.7 Consensus size: 70
29985018 CCTTGCCTCT
* * * *
29985028 TTTAATAACTGGGACAAAAAGCCCTTTAATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGCAT
1 TTTAATAACTGGGGC-ATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAT
29985093 AAGCCC
65 AAGCCC
*
29985099 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAT
1 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAT
29985164 AAGCCC
65 AAGCCC
29985170 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTG
1 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTG
29985221 CACTTCCTCC
Statistics
Matches: 115, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
70 34 0.30
71 81 0.70
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (70 bp):
TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
AGCCC
Found at i:29985291 original size:9 final size:9
Alignment explanation
Indices: 29985277--29985333 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
29985267 ATCTCATGTG
29985277 CATATCATA
1 CATATCATA
*
29985286 CATATCATGTG
1 CATATCA--TA
29985297 CATATCATA
1 CATATCATA
* *
29985306 CATGTCATGTG
1 CATATCA--TA
29985317 CATATCATA
1 CATATCATA
29985326 CATATCAT
1 CATATCAT
29985334 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:29985295 original size:20 final size:20
Alignment explanation
Indices: 29985270--29985335 Score: 123
Period size: 20 Copynumber: 3.3 Consensus size: 20
29985260 TATGAAAATC
29985270 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
29985290 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
29985310 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
29985330 TCATGT
1 TCATGT
29985336 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:29985300 original size:11 final size:11
Alignment explanation
Indices: 29985270--29985324 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
29985260 TATGAAAATC
29985270 TCATGTGCATA
1 TCATGTGCATA
*
29985281 TCA--TACATA
1 TCATGTGCATA
29985290 TCATGTGCATA
1 TCATGTGCATA
* *
29985301 TCA--TACATG
1 TCATGTGCATA
29985310 TCATGTGCATA
1 TCATGTGCATA
29985321 TCAT
1 TCAT
29985325 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:29987633 original size:3 final size:3
Alignment explanation
Indices: 29987625--29987650 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
29987615 TAAAAACTAA
29987625 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
29987651 CCATAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:29993289 original size:40 final size:39
Alignment explanation
Indices: 29993234--29993347 Score: 147
Period size: 40 Copynumber: 2.8 Consensus size: 39
29993224 TATATTTATT
*
29993234 CCCTGAATGCACATTCATGCCTCTGTTTGTACTTCGATAC
1 CCCTGAATGCACATTCGTGCC-CTGTTTGTACTTCGATAC
* * *
29993274 CCCTGAATGGACATTCGTGCCCCTGCTTGTACTTCGGTAC
1 CCCTGAATGCACATTCGTG-CCCTGTTTGTACTTCGATAC
* *
29993314 CCCTAAATGCACATTCGTGCCCTTGTTAGTACTT
1 CCCTGAATGCACATTCGTGCCC-TGTTTGTACTT
29993348 TGGCACTCCT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.05
40 59 0.92
41 2 0.03
ACGTcount: A:0.18, C:0.31, G:0.18, T:0.33
Consensus pattern (39 bp):
CCCTGAATGCACATTCGTGCCCTGTTTGTACTTCGATAC
Done.