Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 101 of 204
Found at i:31408511 original size:26 final size:26
Alignment explanation
Indices: 31408475--31408527 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
31408465 CTGATCAAAA
31408475 AGGGGTTGCTAAGTGCAGATTCCCTG
1 AGGGGTTGCTAAGTGCAGATTCCCTG
*
31408501 AGGGGTTGCTAAGTGCTGATTCCCTG
1 AGGGGTTGCTAAGTGCAGATTCCCTG
31408527 A
1 A
31408528 ATTATTGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCAGATTCCCTG
Found at i:31408551 original size:42 final size:42
Alignment explanation
Indices: 31408504--31408649 Score: 143
Period size: 42 Copynumber: 3.5 Consensus size: 42
31408494 TTCCCTGAGG
* * * *
31408504 GGTTGCTAAGTGCTGATTCCCTGAATTATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTATAAAGGT
* * *
31408546 GGTTGCTAAGTGCTGAATCCACCGTATCCTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTAT-AAAGGT
* * * * *
31408589 GGTTGCTATGTGATGATTCCCCGTATCACTGAATAT-AAGTT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTATAAAGGT
*
31408630 GGTTGCTAAGTGCTAATTCC
1 GGTTGCTAAGTGCTGATTCC
31408650 ACCGAGTAAC
Statistics
Matches: 84, Mismatches: 17, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
40 3 0.04
41 17 0.20
42 31 0.37
43 28 0.33
44 5 0.06
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTATAAAGGT
Found at i:31411028 original size:32 final size:32
Alignment explanation
Indices: 31410987--31411052 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
31410977 CTGAACCAAC
31410987 GGCAAGCTGAACTGGCAAACAAGGAGATCAAA
1 GGCAAGCTGAACTGGCAAACAAGGAGATCAAA
*
31411019 GGCAAGCTGAACTGGCAAACAAGGAGATCGAA
1 GGCAAGCTGAACTGGCAAACAAGGAGATCAAA
31411051 GG
1 GG
31411053 TATATAAGAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.41, C:0.18, G:0.32, T:0.09
Consensus pattern (32 bp):
GGCAAGCTGAACTGGCAAACAAGGAGATCAAA
Found at i:31411822 original size:30 final size:30
Alignment explanation
Indices: 31411787--31411846 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
31411777 TGTATTATTT
* *
31411787 TTAAAAATTTGGTTACTCTTTTTGTAAATA
1 TTAAAAATTAGATTACTCTTTTTGTAAATA
*
31411817 TTAAAAATTAGATTCCTCTTTTTGTAAATA
1 TTAAAAATTAGATTACTCTTTTTGTAAATA
31411847 CTTTCAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.48
Consensus pattern (30 bp):
TTAAAAATTAGATTACTCTTTTTGTAAATA
Found at i:31411941 original size:16 final size:15
Alignment explanation
Indices: 31411908--31411949 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
31411898 AGATGATAAT
31411908 TATTAATATATAATTA
1 TATTAAT-TATAATTA
*
31411924 TATTCATTATAATATA
1 TATTAATTATAAT-TA
31411940 TATTAATTAT
1 TATTAATTAT
31411950 GATCAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:31412568 original size:25 final size:25
Alignment explanation
Indices: 31412516--31412568 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
31412506 TTTTAATTTT
* * *
31412516 ATTATCTAATTTTTTAATTTATTGA
1 ATTATCTAATATTTTAATTAATTAA
31412541 ATTAT-TAATATTTTATATTAATTAA
1 ATTATCTAATATTTTA-ATTAATTAA
31412566 ATT
1 ATT
31412569 TTTGAGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (25 bp):
ATTATCTAATATTTTAATTAATTAA
Found at i:31417358 original size:42 final size:42
Alignment explanation
Indices: 31417299--31417383 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
31417289 TAAATAGACA
*
31417299 TAGTCTACTCTTGTAATCATTCGAATTCGACATAGTGGATTT
1 TAGTCTACTCTTGTAATCATTCGAATTCGACATAGTGAATTT
31417341 TAGTCTACTCTTGTAATCATTCGAATTCGACATAGTGAATTT
1 TAGTCTACTCTTGTAATCATTCGAATTCGACATAGTGAATTT
31417383 T
1 T
31417384 CTTCTTCTCT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.41
Consensus pattern (42 bp):
TAGTCTACTCTTGTAATCATTCGAATTCGACATAGTGAATTT
Found at i:31421155 original size:35 final size:35
Alignment explanation
Indices: 31421109--31421179 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
31421099 GACTTAAATT
31421109 AATCAGGACGTTACAAATCTATCCTCCTAAAAGAA
1 AATCAGGACGTTACAAATCTATCCTCCTAAAAGAA
31421144 AATCAGGACGTTACAAATCTATCCTCCTAAAAGAA
1 AATCAGGACGTTACAAATCTATCCTCCTAAAAGAA
31421179 A
1 A
31421180 TTTTGGCCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.44, C:0.23, G:0.11, T:0.23
Consensus pattern (35 bp):
AATCAGGACGTTACAAATCTATCCTCCTAAAAGAA
Found at i:31425025 original size:29 final size:29
Alignment explanation
Indices: 31424800--31425027 Score: 144
Period size: 29 Copynumber: 7.9 Consensus size: 29
31424790 AGTGGAAAGA
* ** *
31424800 TGATGGTCGTCACCATCCCTTTTTGTAGT
1 TGATGGTCATCACCATCCCTTTTCATAAT
* *
31424829 TGCTGGTCATCACCGTCCCTTTTCATAAT
1 TGATGGTCATCACCATCCCTTTTCATAAT
* ** * *
31424858 TGATAG-CCGCAACTATCCC-TTTC-TTAT
1 TGATGGTCATC-ACCATCCCTTTTCATAAT
** * *
31424885 TCGATGGTCATCACCATTGCTTTTAACAAT
1 T-GATGGTCATCACCATCCCTTTTCATAAT
*
31424915 TGATGGTCATCACCATCCCTTTTAATAA-
1 TGATGGTCATCACCATCCCTTTTCATAAT
* * * * *
31424943 TCAGTAGT--TGAAGCTATCCCTTTTAATAAT
1 TGA-TGGTCAT-CA-CCATCCCTTTTCATAAT
* * *
31424973 CGATGGTCATCACCATCCTTTTTCATAGT
1 TGATGGTCATCACCATCCCTTTTCATAAT
*
31425002 TGATGGTCGTCACCATCCCTTTTCAT
1 TGATGGTCATCACCATCCCTTTTCAT
31425028 TGGTCAATGA
Statistics
Matches: 148, Mismatches: 40, Indels: 22
0.70 0.19 0.10
Matches are distributed among these distances:
27 5 0.03
28 18 0.12
29 119 0.80
30 5 0.03
31 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (29 bp):
TGATGGTCATCACCATCCCTTTTCATAAT
Found at i:31425042 original size:30 final size:29
Alignment explanation
Indices: 31424958--31425042 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 29
31424948 AGTTGAAGCT
* * * * *
31424958 ATCCCTTTTAATAATCGATGGTCATCACC
1 ATCCCTTTTCATAGTCAATGATCGTCACC
* ** *
31424987 ATCCTTTTTCATAGTTGATGGTCGTCACC
1 ATCCCTTTTCATAGTCAATGATCGTCACC
*
31425016 ATCCCTTTTCATTGGTCAATGATCGTC
1 ATCCCTTTTCA-TAGTCAATGATCGTC
31425043 GTTACGCCGT
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
29 34 0.76
30 11 0.24
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.39
Consensus pattern (29 bp):
ATCCCTTTTCATAGTCAATGATCGTCACC
Found at i:31428086 original size:20 final size:20
Alignment explanation
Indices: 31428061--31428098 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
31428051 ATTCTCTGAA
*
31428061 AAGTTTCAATTATGTAACAT
1 AAGTTTCAATTATATAACAT
31428081 AAGTTTCAATTATATAAC
1 AAGTTTCAATTATATAAC
31428099 GATATACGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (20 bp):
AAGTTTCAATTATATAACAT
Found at i:31438172 original size:38 final size:38
Alignment explanation
Indices: 31438121--31438196 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
31438111 GATTTCGGGA
31438121 TAGAGTTGTGTAATAAGGGGATTCTGAGTAGTGGATGT
1 TAGAGTTGTGTAATAAGGGGATTCTGAGTAGTGGATGT
31438159 TAGAGTTGTGTAATAAGGGGATTCTGAGTAGTGGATGT
1 TAGAGTTGTGTAATAAGGGGATTCTGAGTAGTGGATGT
31438197 GTAGTGAGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.03, G:0.37, T:0.34
Consensus pattern (38 bp):
TAGAGTTGTGTAATAAGGGGATTCTGAGTAGTGGATGT
Found at i:31439827 original size:28 final size:28
Alignment explanation
Indices: 31439787--31439864 Score: 147
Period size: 28 Copynumber: 2.8 Consensus size: 28
31439777 CAGTACAGCG
31439787 TGGGCCTTAGCCCAATACAATAACAATA
1 TGGGCCTTAGCCCAATACAATAACAATA
*
31439815 TGGGCCTTAGCCCAATATAATAACAATA
1 TGGGCCTTAGCCCAATACAATAACAATA
31439843 TGGGCCTTAGCCCAATACAATA
1 TGGGCCTTAGCCCAATACAATA
31439865 TCGGTACAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.23
Consensus pattern (28 bp):
TGGGCCTTAGCCCAATACAATAACAATA
Found at i:31440258 original size:27 final size:27
Alignment explanation
Indices: 31440228--31440341 Score: 106
Period size: 27 Copynumber: 4.2 Consensus size: 27
31440218 GGTATAACAG
*
31440228 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTAATTCGA
* ** *
31440255 TCATTTTA-ACTGATTAGGGTAATTCGG
1 TCATTTTACCCT-ATGGGGGTAATTCGA
* * *
31440282 TCATTTTACCGTATAGGGGCAATTC-A
1 TCATTTTACCCTATGGGGGTAATTCGA
* *
31440308 GTCATTTTATCCTGTGGGGGTAATTCGA
1 -TCATTTTACCCTATGGGGGTAATTCGA
31440336 TCATTT
1 TCATTT
31440342 ATTGACCTCT
Statistics
Matches: 67, Mismatches: 16, Indels: 8
0.74 0.18 0.09
Matches are distributed among these distances:
26 2 0.03
27 63 0.94
28 2 0.03
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTAATTCGA
Found at i:31454890 original size:27 final size:27
Alignment explanation
Indices: 31454856--31455045 Score: 222
Period size: 27 Copynumber: 7.1 Consensus size: 27
31454846 CACTATTGTA
*
31454856 ACCGAAATACCCCCATAGGGTAGAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
** * * *
31454883 ATTGAAATACCCCTATAGGGTAGAATA
1 ACCGAAATACCCCCATAGGGTAAAATG
*
31454910 ACTGAAATACCCCCATA-GGTGAAAATG
1 ACCGAAATACCCCCATAGGGT-AAAATG
* *
31454937 ACCAAAACACCCCCATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
* * *
31454964 ACCAAAATAGCCCCATAGGGTAGAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
*
31454991 ACCAAAATA-CCCCATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
* *
31455017 ATCGAAATACCCTCATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
31455044 AC
1 AC
31455046 TGATATGGCC
Statistics
Matches: 141, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
26 26 0.18
27 112 0.79
28 3 0.02
ACGTcount: A:0.42, C:0.23, G:0.18, T:0.17
Consensus pattern (27 bp):
ACCGAAATACCCCCATAGGGTAAAATG
Found at i:31455173 original size:26 final size:26
Alignment explanation
Indices: 31455137--31455218 Score: 101
Period size: 26 Copynumber: 3.2 Consensus size: 26
31455127 ATGGGGTTGG
*
31455137 GATACTGTTACTAGCAGCTTTGCTGC
1 GATACTGTTACTAGCAGCTTTGCTAC
* *
31455163 GATACTGTTACTGGCAGCTTAGCTAC
1 GATACTGTTACTAGCAGCTTTGCTAC
* * * *
31455189 GATACTATTACTAGTAGCTCTGCTAT
1 GATACTGTTACTAGCAGCTTTGCTAC
31455215 GATA
1 GATA
31455219 TTGGTGTGTT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (26 bp):
GATACTGTTACTAGCAGCTTTGCTAC
Found at i:31467335 original size:5 final size:5
Alignment explanation
Indices: 31467325--31467375 Score: 52
Period size: 5 Copynumber: 10.2 Consensus size: 5
31467315 ACCGTGCATG
* *
31467325 ATAAA ATAAA ATAAA A-AACA A-AAA CAAAAA ATAAA ATAAA ATACA ATAAA
1 ATAAA ATAAA ATAAA ATAA-A ATAAA -ATAAA ATAAA ATAAA ATAAA ATAAA
31467375 A
1 A
31467376 GCAAAAGCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
4 3 0.08
5 34 0.85
6 3 0.08
ACGTcount: A:0.80, C:0.06, G:0.00, T:0.14
Consensus pattern (5 bp):
ATAAA
Found at i:31467422 original size:6 final size:6
Alignment explanation
Indices: 31467406--31467454 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
31467396 AAAAATAAAC
*
31467406 AAATA- AAATAT AAATAT AAATAT AACTA- AAATAT AAA-ACT AAAT-T
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATA-T AAATAT
31467451 AAAT
1 AAAT
31467455 CACTTTGGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
5 15 0.39
6 23 0.61
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (6 bp):
AAATAT
Found at i:31467974 original size:15 final size:15
Alignment explanation
Indices: 31467951--31467985 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
31467941 TTTTATTTTG
*
31467951 AAAAAAAATAAAAGT
1 AAAAAAAATAAAAAT
*
31467966 AAAATAAATAAAAAT
1 AAAAAAAATAAAAAT
31467981 AAAAA
1 AAAAA
31467986 CACTCAGGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (15 bp):
AAAAAAAATAAAAAT
Found at i:31475027 original size:158 final size:158
Alignment explanation
Indices: 31474739--31475055 Score: 598
Period size: 158 Copynumber: 2.0 Consensus size: 158
31474729 GATTGAACCC
*
31474739 ATAAGTTGGTGTTTCGGGGTTGTATAAGAGGTGTATTAATTAATTTCTATATTGATTTAAGTTAA
1 ATAAGTTGGTGTTTAGGGGTTGTATAAGAGGTGTATTAATTAATTTCTATATTGATTTAAGTTAA
*
31474804 TTTAATTTAATTTAGGTCTATTTTAAAGTTTATTAAAAAACAACAAGATTCGCTAGTGTGCTGCG
66 TTTAATTTAATTTAGGCCTATTTTAAAGTTTATTAAAAAACAACAAGATTCGCTAGTGTGCTGCG
*
31474869 AAAGGGCGTAAATAATGTGTGGGTCTAA
131 AAAGGGCATAAATAATGTGTGGGTCTAA
31474897 ATAAGTTGGTGTTTAGGGGTTGTATAAGAGGTGTATTAATTAATTTCTATATTGATTTAAGTTAA
1 ATAAGTTGGTGTTTAGGGGTTGTATAAGAGGTGTATTAATTAATTTCTATATTGATTTAAGTTAA
*
31474962 TTTAATTTAATTTAGGCCTGTTTTAAAGTTTATTAAAAAACAACAAGATTCGCTAGTGTGCTGCG
66 TTTAATTTAATTTAGGCCTATTTTAAAGTTTATTAAAAAACAACAAGATTCGCTAGTGTGCTGCG
31475027 AAAGGGCATAAATAATGTGTGGGTCTAA
131 AAAGGGCATAAATAATGTGTGGGTCTAA
31475055 A
1 A
31475056 CTCAAAACTT
Statistics
Matches: 155, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
158 155 1.00
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (158 bp):
ATAAGTTGGTGTTTAGGGGTTGTATAAGAGGTGTATTAATTAATTTCTATATTGATTTAAGTTAA
TTTAATTTAATTTAGGCCTATTTTAAAGTTTATTAAAAAACAACAAGATTCGCTAGTGTGCTGCG
AAAGGGCATAAATAATGTGTGGGTCTAA
Found at i:31485301 original size:5 final size:5
Alignment explanation
Indices: 31485291--31485315 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
31485281 CAAACGGACC
31485291 TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT
31485316 CACTTTAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:31505347 original size:24 final size:24
Alignment explanation
Indices: 31505320--31505368 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
31505310 AGCCTTTAAG
31505320 TTAGTTTTTCCCTACCCTAGTTGT
1 TTAGTTTTTCCCTACCCTAGTTGT
31505344 TTAGTTTTTCCCTACCCTAGTTGT
1 TTAGTTTTTCCCTACCCTAGTTGT
31505368 T
1 T
31505369 CACCATGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.24, G:0.12, T:0.51
Consensus pattern (24 bp):
TTAGTTTTTCCCTACCCTAGTTGT
Found at i:31509088 original size:16 final size:19
Alignment explanation
Indices: 31509064--31509100 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
31509054 TTTCAACGTG
31509064 ATTCGTA-TTCAAAA-GTT
1 ATTCGTATTTCAAAATGTT
31509081 ATTC-TATTTCAAAATGTT
1 ATTCGTATTTCAAAATGTT
31509099 AT
1 AT
31509101 CAATTTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.11
17 11 0.61
18 5 0.28
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (19 bp):
ATTCGTATTTCAAAATGTT
Found at i:31509106 original size:17 final size:19
Alignment explanation
Indices: 31509071--31509115 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
31509061 GTGATTCGTA
*
31509071 TTCAAAA-GTTATTCTA-T
1 TTCAAAATGTTATTCAATT
31509088 TTCAAAATGTTA-TCAATT
1 TTCAAAATGTTATTCAATT
31509106 TTCAAAATGT
1 TTCAAAATGT
31509116 CACTTATTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (19 bp):
TTCAAAATGTTATTCAATT
Found at i:31513315 original size:17 final size:16
Alignment explanation
Indices: 31513293--31513324 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
31513283 TTACAGATTA
31513293 TTGGAAGCTTGATCGGG
1 TTGGAAGCTTG-TCGGG
31513310 TTGGAAGCTTGTCGG
1 TTGGAAGCTTGTCGG
31513325 AAATCCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.16, C:0.12, G:0.41, T:0.31
Consensus pattern (16 bp):
TTGGAAGCTTGTCGGG
Found at i:31524005 original size:66 final size:66
Alignment explanation
Indices: 31523922--31524063 Score: 239
Period size: 66 Copynumber: 2.2 Consensus size: 66
31523912 TTAACATAAG
* **
31523922 TGATTGGAACATCTATCAGGGCAGCTTCATCAATGATTGGAACATCTATCGGGGCAGTTTCATCA
1 TGATTGGAACATCTATCAGAGCAGCTTCATCAATGATTGGAACATCTATCGGGGCAACTTCATCA
31523987 T
66 T
*
31523988 TGATTGGAATATCTATCAGAGCAGCTTCATCAATGATTGGAACATCTATCGGGGCAACTTCATCA
1 TGATTGGAACATCTATCAGAGCAGCTTCATCAATGATTGGAACATCTATCGGGGCAACTTCATCA
31524053 T
66 T
*
31524054 TGATTAGAAC
1 TGATTGGAAC
31524064 TCCTATTGGG
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 70 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (66 bp):
TGATTGGAACATCTATCAGAGCAGCTTCATCAATGATTGGAACATCTATCGGGGCAACTTCATCA
T
Found at i:31524086 original size:33 final size:33
Alignment explanation
Indices: 31523922--31524087 Score: 217
Period size: 33 Copynumber: 5.0 Consensus size: 33
31523912 TTAACATAAG
* *
31523922 TGATTGGAACATCTATCAGGGCAGCTTCATCAA
1 TGATTGGAACATCTATCGGGGCAGCTTCATCAT
*
31523955 TGATTGGAACATCTATCGGGGCAGTTTCATCAT
1 TGATTGGAACATCTATCGGGGCAGCTTCATCAT
* * * *
31523988 TGATTGGAATATCTATCAGAGCAGCTTCATCAA
1 TGATTGGAACATCTATCGGGGCAGCTTCATCAT
*
31524021 TGATTGGAACATCTATCGGGGCAACTTCATCAT
1 TGATTGGAACATCTATCGGGGCAGCTTCATCAT
* * *
31524054 TGATTAGAAC-TCCTATTGGGGTAGCTTCATCAT
1 TGATTGGAACAT-CTATCGGGGCAGCTTCATCAT
31524087 T
1 T
31524088 TTGTTCGACT
Statistics
Matches: 115, Mismatches: 17, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
32 1 0.01
33 114 0.99
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (33 bp):
TGATTGGAACATCTATCGGGGCAGCTTCATCAT
Found at i:31531613 original size:25 final size:25
Alignment explanation
Indices: 31531585--31531640 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
31531575 ACGCATGAGT
31531585 TGTGAATAA-GTATGCTCACACGAGC
1 TGTGAA-AAGGTATGCTCACACGAGC
*
31531610 TGTGAAAATGGGTCTGCTCACACGAGC
1 TGTGAAAA--GGTATGCTCACACGAGC
31531637 TGTG
1 TGTG
31531641 GGCCAGAACG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 2 0.07
25 6 0.22
27 19 0.70
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (25 bp):
TGTGAAAAGGTATGCTCACACGAGC
Found at i:31537535 original size:27 final size:27
Alignment explanation
Indices: 31537496--31537547 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
31537486 TTTAAATGTG
* *
31537496 AAGGGGCTGCTAAGTGTTGATTCCCCC
1 AAGGGGCTACTAAGTGCTGATTCCCCC
*
31537523 AAGGGGTTACTAAGTGCTGATTCCC
1 AAGGGGCTACTAAGTGCTGATTCCC
31537548 GGAATCATTG
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:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (27 bp):
AAGGGGCTACTAAGTGCTGATTCCCCC
Found at i:31537651 original size:43 final size:42
Alignment explanation
Indices: 31537560--31537664 Score: 147
Period size: 43 Copynumber: 2.5 Consensus size: 42
31537550 AATCATTGGT
*
31537560 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
* * * *
31537602 GGTTGCTAAGTGCTGATTCCACTGTATTTTTGAATGTGAATGG
1 GGTTGCTAAGTGCTGATTCCACCGTA-TCTTAAATGTGAAAGG
*
31537645 GGTTGCTAAGAGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
31537665 CCAAATCACT
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
42 24 0.43
43 32 0.57
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
Found at i:31545098 original size:102 final size:102
Alignment explanation
Indices: 31544922--31545124 Score: 336
Period size: 102 Copynumber: 2.0 Consensus size: 102
31544912 ATTGAATATA
* * * *
31544922 AAGGGGTTGCTAAGTGCTAATTCTCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGCTAATACTCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
*
31544987 TTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCT
66 TTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCT
*
31545024 AAGGGGTTGCTAAGTGCTGATAC-CCGGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTAT
1 AAGGGGTTGCTAAGTGCTAATACTCC-GAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTAT
31545088 CTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
65 CTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
31545125 GATTCGCTGG
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
101 2 0.02
102 92 0.98
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.32
Consensus pattern (102 bp):
AAGGGGTTGCTAAGTGCTAATACTCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
TTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCT
Found at i:31545145 original size:33 final size:34
Alignment explanation
Indices: 31545103--31545236 Score: 119
Period size: 33 Copynumber: 3.7 Consensus size: 34
31545093 ATGTGAAAGG
31545103 GGTTGCTAAGTGCTGATTCC-CCGATTCGCTGGT
1 GGTTGCTAAGTGCTGATTCCACCGATTCGCTGGT
* * *
31545136 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCG-A--TTCG---CTG---GT
* *
31545179 GGTTGCTAAGTGCTGATTCC-CCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCACCGATTCGCTGGT
*
31545212 GGTTGCTAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCCACCGA
31545237 AAATGGATAA
Statistics
Matches: 81, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
33 40 0.49
34 7 0.09
35 1 0.01
36 2 0.02
37 3 0.04
39 1 0.01
40 2 0.02
41 1 0.01
42 3 0.04
43 21 0.26
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.31
Consensus pattern (34 bp):
GGTTGCTAAGTGCTGATTCCACCGATTCGCTGGT
Found at i:31545197 original size:76 final size:75
Alignment explanation
Indices: 31545024--31545235 Score: 334
Period size: 76 Copynumber: 2.8 Consensus size: 75
31545014 TGATTCCCCT
* * * *
31545024 AAGGGGTTGCTAAGTGCTGATACCCGGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
31545089 TTAAATGTGA
66 TTAAATGTGA
* *
31545099 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCGCTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCGTA-T
* *
31545164 TTTGAATGTGA
65 CTTAAATGTGA
*
31545175 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCG
31545236 AAAATGGATA
Statistics
Matches: 125, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
75 57 0.46
76 68 0.54
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTAAATGTGA
Found at i:31547427 original size:30 final size:27
Alignment explanation
Indices: 31547364--31547428 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 27
31547354 TTCTTGATTT
*
31547364 ATATTATAAAAATATTATTTAATTAAA
1 ATATTATAAAAATATTATTAAATTAAA
*
31547391 ATATTATAAAATATATTAATTAAAGTTAAG
1 ATATTATAAAA-ATATT-ATTAAA-TTAAA
31547421 ATATTATA
1 ATATTATA
31547429 TTATAGGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 11 0.33
28 5 0.15
29 5 0.15
30 12 0.36
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (27 bp):
ATATTATAAAAATATTATTAAATTAAA
Found at i:31548983 original size:22 final size:23
Alignment explanation
Indices: 31548929--31548988 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
31548919 CCGAGTAGGT
31548929 ACTTTATGTGTCGTACATCAGGC
1 ACTTTATGTGTCGTACATCAGGC
*
31548952 ACTTTATGTGTCGTACCTCAGGC
1 ACTTTATGTGTCGTACATCAGGC
31548975 AC-TTATGTGTCGTA
1 ACTTTATGTGTCGTA
31548989 TATTGATCAG
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 12 0.33
23 24 0.67
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (23 bp):
ACTTTATGTGTCGTACATCAGGC
Found at i:31549198 original size:12 final size:12
Alignment explanation
Indices: 31549155--31549198 Score: 70
Period size: 12 Copynumber: 3.6 Consensus size: 12
31549145 AGGAAATTTA
31549155 AAATTGTGGATTG
1 AAATTGT-GATTG
*
31549168 AAATTGAGATTG
1 AAATTGTGATTG
31549180 AAATTGTGATTG
1 AAATTGTGATTG
31549192 AAATTGT
1 AAATTGT
31549199 TACATGTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 23 0.79
13 6 0.21
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.39
Consensus pattern (12 bp):
AAATTGTGATTG
Found at i:31555590 original size:10 final size:10
Alignment explanation
Indices: 31555572--31555613 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
31555562 AACATAAAGT
*
31555572 AAATAAAATA
1 AAATGAAATA
31555582 AAATGAAATA
1 AAATGAAATA
31555592 AAA-GAAAGT-
1 AAATGAAA-TA
31555601 AAATGAAATA
1 AAATGAAATA
31555611 AAA
1 AAA
31555614 GAAGGAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
9 8 0.29
10 20 0.71
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.17
Consensus pattern (10 bp):
AAATGAAATA
Found at i:31556700 original size:22 final size:23
Alignment explanation
Indices: 31556639--31556705 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
31556629 GGCTTTGCCG
* *
31556639 ATCAAGCACTTTATGTGCCGTAC
1 ATCAGGCACTTTATGTGTCGTAC
31556662 ATCAGGCACTTTATGTGTCGTAC
1 ATCAGGCACTTTATGTGTCGTAC
*
31556685 CTCAGGCAC-TTATGTGTCGTA
1 ATCAGGCACTTTATGTGTCGTA
31556706 TATTGATTAG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 12 0.29
23 29 0.71
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAC
Found at i:31556897 original size:12 final size:12
Alignment explanation
Indices: 31556872--31556927 Score: 85
Period size: 12 Copynumber: 4.6 Consensus size: 12
31556862 AGGAAATTTA
31556872 AAATTGTGGATTG
1 AAATTGT-GATTG
*
31556885 AAATTGAGATTG
1 AAATTGTGATTG
31556897 AAATTGTGATTG
1 AAATTGTGATTG
*
31556909 AAATAGTGATTG
1 AAATTGTGATTG
31556921 AAATTGT
1 AAATTGT
31556928 TACATGTGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
12 33 0.85
13 6 0.15
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.38
Consensus pattern (12 bp):
AAATTGTGATTG
Found at i:31562498 original size:9 final size:9
Alignment explanation
Indices: 31562484--31562514 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
31562474 GTTAAACGAA
31562484 TCGAGTTAT
1 TCGAGTTAT
*
31562493 TCGAGTTAA
1 TCGAGTTAT
31562502 TCGAGTTAT
1 TCGAGTTAT
31562511 TCGA
1 TCGA
31562515 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:31562589 original size:18 final size:18
Alignment explanation
Indices: 31562568--31562604 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
31562558 TGAGTTTTCG
31562568 AATTTGAATAACTCGAAT
1 AATTTGAATAACTCGAAT
*
31562586 AATTTGAATAATTCGAAT
1 AATTTGAATAACTCGAAT
31562604 A
1 A
31562605 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (18 bp):
AATTTGAATAACTCGAAT
Found at i:31571355 original size:28 final size:28
Alignment explanation
Indices: 31571315--31571436 Score: 190
Period size: 28 Copynumber: 4.4 Consensus size: 28
31571305 AACAGTACAG
31571315 TGTGGGCCTTAGCCCAATACAATAACAA
1 TGTGGGCCTTAGCCCAATACAATAACAA
31571343 TGTGGGCCTTAGCCCAATACAATAACAA
1 TGTGGGCCTTAGCCCAATACAATAACAA
* *
31571371 TGTGGGCCTTAGCCCAATATAGTAACAA
1 TGTGGGCCTTAGCCCAATACAATAACAA
* * *
31571399 CGTAGGCCTTAGCCCAATACAGTAACAA
1 TGTGGGCCTTAGCCCAATACAATAACAA
*
31571427 TGTGGACCTT
1 TGTGGGCCTT
31571437 GAACCCAAGA
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 86 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAATAACAA
Found at i:31572717 original size:28 final size:27
Alignment explanation
Indices: 31572671--31572756 Score: 127
Period size: 28 Copynumber: 3.1 Consensus size: 27
31572661 CTATTCAGTA
* *
31572671 ACAATACAGTGTAGGCCTTAGCCCAAT
1 ACAATACAATGTGGGCCTTAGCCCAAT
31572698 ACAATAGCAATGTGGGCCTTAGCCCAAT
1 ACAATA-CAATGTGGGCCTTAGCCCAAT
*
31572726 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAAT-ACAATGTGGGCCTTAGCCCAAT
31572754 ACA
1 ACA
31572757 GTAATAATTT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
27 6 0.11
28 47 0.87
29 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.21
Consensus pattern (27 bp):
ACAATACAATGTGGGCCTTAGCCCAAT
Found at i:31572757 original size:28 final size:28
Alignment explanation
Indices: 31572684--31572773 Score: 144
Period size: 28 Copynumber: 3.2 Consensus size: 28
31572674 ATACAGTGTA
* *
31572684 GGCCTTAGCCCAATACAATAGCAATGTG
1 GGCCTTAGCCCAATACAGTAACAATGTG
31572712 GGCCTTAGCCCAATACAGTAACAATGTG
1 GGCCTTAGCCCAATACAGTAACAATGTG
* *
31572740 GGCCTTAGCCCAATACAGTAATAATTTG
1 GGCCTTAGCCCAATACAGTAACAATGTG
31572768 GGCCTT
1 GGCCTT
31572774 GAACCCAAGA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (28 bp):
GGCCTTAGCCCAATACAGTAACAATGTG
Found at i:31580290 original size:25 final size:25
Alignment explanation
Indices: 31580231--31580329 Score: 67
Period size: 25 Copynumber: 4.0 Consensus size: 25
31580221 TATGAGCTGT
* * **
31580231 AATCGGTAAGCTCTTTCAAAATGAG
1 AATCAGTAAGCTCTTACAAGCTGAG
* *
31580256 TAATGA-TAAGCTCTTGCAAGCTGA-
1 -AATCAGTAAGCTCTTACAAGCTGAG
* * *
31580280 ATATCGGTAAGCTCATACGAGCTGAG
1 A-ATCAGTAAGCTCTTACAAGCTGAG
* *
31580306 AATCAGTAAGCTCTCACGAGCTGA
1 AATCAGTAAGCTCTTACAAGCTGA
31580330 AATAGGTAAC
Statistics
Matches: 57, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
23 1 0.02
24 2 0.04
25 50 0.88
26 4 0.07
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.25
Consensus pattern (25 bp):
AATCAGTAAGCTCTTACAAGCTGAG
Found at i:31587674 original size:16 final size:17
Alignment explanation
Indices: 31587643--31587675 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
31587633 TTATTCATAT
*
31587643 TTCATATACATGTATCA
1 TTCATATACATATATCA
31587660 TTCAT-TACATATATCA
1 TTCATATACATATATCA
31587676 ATATATCAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.42
Consensus pattern (17 bp):
TTCATATACATATATCA
Found at i:31587891 original size:26 final size:24
Alignment explanation
Indices: 31587849--31587915 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
31587839 TCCTATACAT
* *
31587849 GTATGCTCATACAAGCTCTTAAATCG
1 GTATGCTCTTACAAGCT-GT-AATCG
*
31587875 GTATGCTCTTACGAGCTGTAATCG
1 GTATGCTCTTACAAGCTGTAATCG
* *
31587899 GTAAGCTCTTTCAAGCT
1 GTATGCTCTTACAAGCT
31587916 AAGTAACTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 19 0.54
25 1 0.03
26 15 0.43
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (24 bp):
GTATGCTCTTACAAGCTGTAATCG
Found at i:31601252 original size:88 final size:92
Alignment explanation
Indices: 31601087--31601273 Score: 276
Period size: 95 Copynumber: 2.1 Consensus size: 92
31601077 CAAAAAAATC
*
31601087 TTAAATATATTAAAGCCTAAAATATAAATCTTAGGGCTAAAAATAAAATTTAATCCAATGAATAT
1 TTAAATATATTAAAGCCTAAAATATAAATCTTAGGGCTAAAAATAAAATTAAATCC-ATG-ATAT
*
31601152 TCATAACCTAAATACTAAACTAAAATTTAA
64 CCATAACCTAAATACTAAACTAAAATTT-A
31601182 TTAAATATATTAAAGCCTAAAATATAAATCTTAGGGCTAAAAATAAAA-TAAAT-C-TG-T-TCC
1 TTAAATATATTAAAGCCTAAAATATAAATCTTAGGGCTAAAAATAAAATTAAATCCATGATATCC
* *
31601242 ATAACCTAAATTCTGAACTAAAATTTA
66 ATAACCTAAATACTAAACTAAAATTTA
31601269 TTAAA
1 TTAAA
31601274 AACTAAATCT
Statistics
Matches: 88, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
87 6 0.07
88 26 0.30
89 1 0.01
91 2 0.02
93 1 0.01
94 4 0.05
95 48 0.55
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (92 bp):
TTAAATATATTAAAGCCTAAAATATAAATCTTAGGGCTAAAAATAAAATTAAATCCATGATATCC
ATAACCTAAATACTAAACTAAAATTTA
Found at i:31602883 original size:38 final size:38
Alignment explanation
Indices: 31602832--31602926 Score: 111
Period size: 37 Copynumber: 2.5 Consensus size: 38
31602822 CACCACTTCG
* * *
31602832 ACCACCCTGCACACCACAATAGGGCCATGAGAGACACA
1 ACCACCCTACACACCACAATAGGACCATAAGAGACACA
* * *
31602870 ACCACCCTACACACCAC-ATAGGACCATAATAGGCCCA
1 ACCACCCTACACACCACAATAGGACCATAAGAGACACA
* *
31602907 TCCACCCTACAGACCACAAT
1 ACCACCCTACACACCACAAT
31602927 TGTGGAACTA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
37 30 0.62
38 18 0.38
ACGTcount: A:0.37, C:0.40, G:0.13, T:0.11
Consensus pattern (38 bp):
ACCACCCTACACACCACAATAGGACCATAAGAGACACA
Found at i:31624663 original size:128 final size:128
Alignment explanation
Indices: 31624435--31624691 Score: 460
Period size: 128 Copynumber: 2.0 Consensus size: 128
31624425 AGTGAAGACT
* *
31624435 AGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGTAGT
1 AGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * *
31624500 AGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCTGATTTAAGCC
66 AGTGGAGCAGATCGAAGACGGCGAATCTGATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCC
*
31624563 AGCCTTATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
31624628 AGTGGAGCAGATCGAAGACGGCGAATCTGATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCC
66 AGTGGAGCAGATCGAAGACGGCGAATCTGATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCC
31624691 A
1 A
31624692 AAAACCCTAT
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 123 1.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (128 bp):
AGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGGCGAATCTGATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCC
Found at i:31624742 original size:128 final size:127
Alignment explanation
Indices: 31624440--31624762 Score: 373
Period size: 128 Copynumber: 2.5 Consensus size: 127
31624430 AGACTAGCCT
* * * * * *
31624440 TATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGTAGTAGTGG
1 TATCACCCTAAGCAGCAGTGGAATAGGTTGAAAACT-AAGACCTTATCTCCCTAAGTAGTAGTGG
* * * * *
31624505 AGTAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCTGATTTAAGCCAGCCT
65 AGCAGATCGAAGACGGCGAATCTGATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCAACCC
* * * * * * *
31624568 TATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCACCCTAAGCAGCAGTGGAATAGGTTGAAAACTA-AGACCTTATCTCCCTAAGTAGTAGTGG
31624633 AGCAGATCGAAGACGGCGAATCTGATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCAAAAACC
65 AGCAGATCGAAGACGGCGAATCTGATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCC---AACC
31624698 C
127 C
* * * *
31624699 TATCACTCT-GGACAGCAGTGGAATAGGTTGAAGACT-AG-CCTTATCTCCTTAAGTAGTAGTGG
1 TATCACCCTAAG-CAGCAGTGGAATAGGTTGAAAACTAAGACCTTATCTCCCTAAGTAGTAGTGG
31624761 AG
65 AG
31624763 TAGGTTAAAA
Statistics
Matches: 171, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
128 139 0.81
129 2 0.01
130 1 0.01
131 29 0.17
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (127 bp):
TATCACCCTAAGCAGCAGTGGAATAGGTTGAAAACTAAGACCTTATCTCCCTAAGTAGTAGTGGA
GCAGATCGAAGACGGCGAATCTGATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCAACCC
Found at i:31624754 original size:172 final size:172
Alignment explanation
Indices: 31624563--31625040 Score: 821
Period size: 172 Copynumber: 2.8 Consensus size: 172
31624553 GATTTAAGCC
*
31624563 AGCCTTATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGT
* *
31624628 AGTGGAGCAGATCGAAGACGGCGAATCTGATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCAA
66 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCAC
31624693 AAACCCTATCACTCTGGACAGCAGTGGAATAGGTTGAAGACT
131 AAACCCTATCACTCTGGACAGCAGTGGAATAGGTTGAAGACT
* * *
31624735 AGCCTTATCTCCTTAAGTAGTAGTGGAGTAGGTTAAAAATTGCAAATCTTATCTCCCTAAGCAGT
1 AGCCTTATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGT
* * *
31624800 AGTGGAGCAGATCGAAGACGACGAATCTTATCTTCTCCAAGAGTAGGGAAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCAC
*
31624865 AAACCCTATCACTCTGGACATCAGTGGAATAGGTTGAAGACT
131 AAACCCTATCACTCTGGACAGCAGTGGAATAGGTTGAAGACT
*
31624907 AGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGT
1 AGCCTTATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGT
* * * *
31624972 GGTGGAGCAGATTGAAGACAGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAAATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCAC
31625037 AAAC
131 AAAC
31625041 ATTATCTCCC
Statistics
Matches: 285, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
172 285 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (172 bp):
AGCCTTATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCAC
AAACCCTATCACTCTGGACAGCAGTGGAATAGGTTGAAGACT
Found at i:31624827 original size:44 final size:44
Alignment explanation
Indices: 31624438--31625263 Score: 243
Period size: 44 Copynumber: 19.1 Consensus size: 44
31624428 GAAGACTAGC
* * * *
31624438 CTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTG-C-AGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGACGA-AT
* * * *
31624482 CTTATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGACGGCGAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAAT
* * * * **
31624526 CTTATCTTCCC-CAGGAGTAG-GGAAGCTGATTTAAG-C--C-AGC
1 CTTATC-TCCCTAAGCAGTAGTGG-AGCAGATTGAAGACGACGAAT
* * * * **
31624566 CTTATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAAATTAC-AGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGA-AT
* *
31624610 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAAT
* * * * * ** *
31624654 CTGATCTTCCC-CAGGAGTAG-GGAAGCAGATTTAAG-CCAAAAAC
1 CTTATC-TCCCTAAGCAGTAGTGG-AGCAGATTGAAGACGACGAAT
* * * * * ** * * *
31624697 CCTATCACTCT-GGACAGCAGTGGAATAGGTTGAAGACTA-G--C
1 CTTATCTCCCTAAG-CAGTAGTGGAGCAGATTGAAGACGACGAAT
* * * * * * * *
31624738 CTTATCTCCTTAAGTAGTAGTGGAGTAGGTTAAAAATTG-CAAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGACGAAT
*
31624782 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAAT
* * * *
31624826 CTTATCTTCTCC-AAG-AGTAG-GGAAGCAGATTTAAG-CCACAAAC
1 CTTATC-TC-CCTAAGCAGTAGTGG-AGCAGATTGAAGACGACGAAT
* * * * ** * * *
31624869 CCTATCACTCT-GGACA-TCAGTGGAATAGGTTGAAGACTA-G--C
1 CTTATCTCCCTAAG-CAGT-AGTGGAGCAGATTGAAGACGACGAAT
* * * *
31624910 CTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTG-C-AGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGACGA-AT
*
31624954 CTTATCTCCCTAAGCAGTGGTGGAGCAGATTGAAGAC-AGCGAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGA-CGAAT
* * * * * *
31624998 CTTATCTTCCC-CAGGAGTAG-GGAAGCAAATTTAAG-CCAC-AAA
1 CTTATC-TCCCTAAGCAGTAGTGG-AGCAGATTGAAGACGACGAAT
* * * * **
31625040 CATTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTAC-AGAT
1 C-TTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGA-AT
** * * * *
31625085 CTTATCTCTTTAAGCAGTAGTAGAGTAGATCGAAGACGGCGAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAAT
* * * * *
31625129 CTTATCTTCCCT-AGGAGTAG-GGAAGCAGATTTAAGTC-ACAAAC
1 CTTATC-TCCCTAAGCAGTAGTGG-AGCAGATTGAAGACGACGAAT
** * * * * * * *
31625172 CTTATCTCTTTGAGCAGCAGTGGAGTAGGTTGAAAACTA-TAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGA-AT
* * * *
31625216 CTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACAATGAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAAT
31625260 CTTA
1 CTTA
31625264 CTTCCCAGGT
Statistics
Matches: 559, Mismatches: 165, Indels: 116
0.67 0.20 0.14
Matches are distributed among these distances:
39 4 0.01
40 21 0.04
41 57 0.10
42 18 0.03
43 100 0.18
44 330 0.59
45 27 0.05
46 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAAT
Found at i:31624905 original size:87 final size:87
Alignment explanation
Indices: 31624641--31624905 Score: 202
Period size: 87 Copynumber: 3.1 Consensus size: 87
31624631 GGAGCAGATC
* * * * *
31624641 GAAGACGGCGAATCTGATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCAAAAACCCTATCACT
1 GAAGACGACGAATCTTATCTTCTCCAAGAGTAGGGAAGCAGATTTAAGCCACAAACCCTATCACT
*
31624706 CTGGACAGCAGTGGAATAGGTT
66 CTGGACATCAGTGGAATAGGTT
* * * * * * * **** * *
31624728 GAAGACTA-G--CCTTATCTCCT-TAAGTAGTAGTGG-AGTAGGTTAAAAATTGCAAATCTTATC
1 GAAGACGACGAATCTTATCTTCTCCAAG-AGTAG-GGAAGCAGATT-TAAGCCACAAACCCTATC
* * * ** * *
31624788 TCCCT-AAGCAGT-AGTGGAGCAGATC
63 ACTCTGGA-CA-TCAGTGGAATAGGTT
31624813 GAAGACGACGAATCTTATCTTCTCCAAGAGTAGGGAAGCAGATTTAAGCCACAAACCCTATCACT
1 GAAGACGACGAATCTTATCTTCTCCAAGAGTAGGGAAGCAGATTTAAGCCACAAACCCTATCACT
31624878 CTGGACATCAGTGGAATAGGTT
66 CTGGACATCAGTGGAATAGGTT
31624900 GAAGAC
1 GAAGAC
31624906 TAGCCTTATC
Statistics
Matches: 120, Mismatches: 46, Indels: 24
0.63 0.24 0.13
Matches are distributed among these distances:
83 2 0.02
84 19 0.16
85 33 0.28
86 3 0.03
87 39 0.32
88 21 0.17
89 3 0.03
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (87 bp):
GAAGACGACGAATCTTATCTTCTCCAAGAGTAGGGAAGCAGATTTAAGCCACAAACCCTATCACT
CTGGACATCAGTGGAATAGGTT
Found at i:31625064 original size:131 final size:131
Alignment explanation
Indices: 31624911--31625269 Score: 522
Period size: 131 Copynumber: 2.7 Consensus size: 131
31624901 AAGACTAGCC
* * *
31624911 TTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGTGGTG
1 TTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTG
*
31624976 GAGCAGATTGAAGACAGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAAATTTAAGCCACAAAC
66 GAGCAGATCGAAGACAGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAAATTTAAGCCACAAAC
31625041 A
131 A
** *
31625042 TTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCTTTAAGCAGTAGTA
1 TTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTG
* * * * *
31625107 GAGTAGATCGAAGACGGCGAATCTTATCTTCCCTAGGAGTAGGGAAGCAGATTTAAGTCACAAAC
66 GAGCAGATCGAAGACAGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAAATTTAAGCCACAAAC
*
31625172 C
131 A
** * * * *
31625173 TTATCTCTTTGAGCAGCAGTGGAGTAGGTTGAAAACTATAGATCTTATCTCCCTAAACAGTAGTG
1 TTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTG
**
31625238 GAGCAGATCGAAGACAATGAATCTTA-CTTCCC
66 GAGCAGATCGAAGACAGCGAATCTTATCTTCCC
31625270 AGGTGATGCA
Statistics
Matches: 202, Mismatches: 26, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
130 6 0.03
131 196 0.97
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (131 bp):
TTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCGAAGACAGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAAATTTAAGCCACAAAC
A
Found at i:31628428 original size:21 final size:19
Alignment explanation
Indices: 31628403--31628451 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
31628393 ATAATACATT
*
31628403 TTTTTTAATTATTATCAATA
1 TTTTTTAAAT-TTATCAATA
*
31628423 TGTTTTAAATTTATCAATA
1 TTTTTTAAATTTATCAATA
31628442 TTATTTTAAA
1 TT-TTTTAAA
31628452 AGTATATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTTTTAAATTTATCAATA
Found at i:31628448 original size:20 final size:19
Alignment explanation
Indices: 31628414--31628451 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
31628404 TTTTTAATTA
*
31628414 TTATCAATATGTTTTAAAT
1 TTATCAATATATTTTAAAT
31628433 TTATCAATATTATTTTAAA
1 TTATCAATA-TATTTTAAA
31628452 AGTATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (19 bp):
TTATCAATATATTTTAAAT
Found at i:31637541 original size:33 final size:33
Alignment explanation
Indices: 31637499--31637598 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 33
31637489 AGTCGAACAA
*
31637499 AATGATGAAGCTGCCTCGATAGTTGTTCCAATC
1 AATGATGAAGCTGCCTCGATAGATGTTCCAATC
* *
31637532 AATGATGAAGCTGCC-CTGATAAATGTTGCAATC
1 AATGATGAAGCTGCCTC-GATAGATGTTCCAATC
* *
31637565 ATTGATGAAGCTGCCTTGATAGATGTTCCAATC
1 AATGATGAAGCTGCCTCGATAGATGTTCCAATC
31637598 A
1 A
31637599 CTTATGTTGA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
32 1 0.02
33 57 0.98
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (33 bp):
AATGATGAAGCTGCCTCGATAGATGTTCCAATC
Found at i:31639524 original size:17 final size:19
Alignment explanation
Indices: 31639491--31639525 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31639481 GGCGAAAAGA
31639491 AATTTTTCTTTTGAAAATC
1 AATTTTTCTTTTGAAAATC
31639510 AATTTTT-TTTT-AAAAT
1 AATTTTTCTTTTGAAAAT
31639526 TAAATAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 4 0.25
19 7 0.44
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (19 bp):
AATTTTTCTTTTGAAAATC
Found at i:31639870 original size:90 final size:89
Alignment explanation
Indices: 31639706--31639872 Score: 194
Period size: 90 Copynumber: 1.9 Consensus size: 89
31639696 CGATTTGGGA
* * * *
31639706 TTTATTCCCGCCGTTCAACGGATCTTATTCCATTTTTTATTTTATTTCCAAATAGGAAATTAACG
1 TTTATTCCCGCCATTCAACGGATCTTATTCCATTATTTATTTTATTTCCAAAGAGGAAATTAAAG
*
31639771 GTAATTAAAATCCGTTCAACAGAT
66 GTAAATAAAATCCGTTCAACAGAT
* * * * * *
31639795 TTTATTCTCGCCATTCAATGGATTTTATTCTATTAATTTGTTTTATTTTCAAACGA-GAAATTAA
1 TTTATTCCCGCCATTCAACGGATCTTATTCCATT-ATTTATTTTATTTCCAAA-GAGGAAATTAA
31639859 AGAG-AAATAAAATC
64 AG-GTAAATAAAATC
31639873 TGTTTCAGGA
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
89 29 0.45
90 33 0.52
91 2 0.03
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.41
Consensus pattern (89 bp):
TTTATTCCCGCCATTCAACGGATCTTATTCCATTATTTATTTTATTTCCAAAGAGGAAATTAAAG
GTAAATAAAATCCGTTCAACAGAT
Found at i:31640034 original size:79 final size:79
Alignment explanation
Indices: 31639863--31640342 Score: 495
Period size: 79 Copynumber: 6.1 Consensus size: 79
31639853 AATTAAAGAG
* * * * * * *
31639863 AAATAAAATCTGTTTC-AGGATTGACTCCCACTGTTCAACGATTCTCTTCCAAAATTTTGATTTG
1 AAATAAAATCTGTTTCGA-GATTGATTCCCGCTGTTCAACGATTTTATTCC-AAATTTGGTTTTA
**
31639927 TTTCCAAAAACAAGTA
64 TTTCCAAAAATGAGTA
* *
31639943 AAATAAAATCTGTTTCGAGATTGATTCCCGCCGTTCAACGATTTTATTTCAAATTTGGTTTTATT
1 AAATAAAATCTGTTTCGAGATTGATTCCCGCTGTTCAACGATTTTATTCCAAATTTGGTTTTATT
* *
31640008 TCCGAAAACGAGTA
66 TCCAAAAATGAGTA
* * * * **
31640022 AAATAAAATCTGTTTCGGGATTGATTCCTGTTGTTCAATGATTTTATTCCAAATTTTATTTTATT
1 AAATAAAATCTGTTTCGAGATTGATTCCCGCTGTTCAACGATTTTATTCCAAATTTGGTTTTATT
*
31640087 TCCAAAAATGAATA
66 TCCAAAAATGAGTA
* ** * * *
31640101 AAATAAAATCCT-TTTCGAGATTGATACTTGCAGTTCAACAATTTTATTCCAAATTTGATTTTAT
1 AAATAAAAT-CTGTTTCGAGATTGATTCCCGCTGTTCAACGATTTTATTCCAAATTTGGTTTTAT
31640165 TTCCAAAAATGAGTA
65 TTCCAAAAATGAGTA
** * * * * *
31640180 AAATAAAATCCATTCCGGGATTGATTCCCGCTGTTCAACGAATTTATTTCAAATTT-TTCTTTAT
1 AAATAAAATCTGTTTCGAGATTGATTCCCGCTGTTCAACGATTTTATTCCAAATTTGGT-TTTAT
31640244 TTCCAAAAATGAGTA
65 TTCCAAAAATGAGTA
* * ** * * *
31640259 AAATAAAACCTGTTTCGGGATTGATTCCCGCCATTCAACAGA-TTTATTAC-ATTTTGGTTTTGT
1 AAATAAAATCTGTTTCGAGATTGATTCCCGCTGTTCAAC-GATTTTATTCCAAATTTGGTTTTAT
*
31640322 TGCCAAAAATGAG-A
65 TTCCAAAAATGAGTA
*
31640336 AATTAAA
1 AAATAAA
31640343 TTAAATAAAA
Statistics
Matches: 340, Mismatches: 54, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
77 7 0.02
78 22 0.06
79 264 0.78
80 46 0.14
81 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (79 bp):
AAATAAAATCTGTTTCGAGATTGATTCCCGCTGTTCAACGATTTTATTCCAAATTTGGTTTTATT
TCCAAAAATGAGTA
Found at i:31640120 original size:158 final size:159
Alignment explanation
Indices: 31639863--31640330 Score: 556
Period size: 158 Copynumber: 3.0 Consensus size: 159
31639853 AATTAAAGAG
* * * * * *
31639863 AAATAAAATCTGTTTCAGGATTGACTCCCACTGTTCAACGATTCTCTTCCAAAATTTTGA-TTTG
1 AAATAAAATCTGTTTCGGGATTGATTCCCGCTGTTCAACGATTTTATTCC-AAATTTT-ATTTTA
*
31639927 TTTCCAAAAA-CAAGTAAAATAAAAT-CTGTTTCGAGATTGATTCCCGCCGTTCAACGATTTTAT
64 TTTCCAAAAATGAA-TAAAATAAAATCCTGTTTCGAGATTGATTCCCGCCGTTCAACGATTTTAT
* *
31639990 TTCAAATTTGGTTTTATTTCCGAAAACGAGTA
128 TACAAATTTGGTTTTATTTCCAAAAACGAGTA
* * *
31640022 AAATAAAATCTGTTTCGGGATTGATTCCTGTTGTTCAATGATTTTATTCCAAATTTTATTTTATT
1 AAATAAAATCTGTTTCGGGATTGATTCCCGCTGTTCAACGATTTTATTCCAAATTTTATTTTATT
* ** * * *
31640087 TCCAAAAATGAATAAAATAAAATCCT-TTTCGAGATTGATACTTGCAGTTCAACAATTTTATTCC
66 TCCAAAAATGAATAAAATAAAATCCTGTTTCGAGATTGATTCCCGCCGTTCAACGATTTTATTAC
* *
31640151 AAATTTGATTTTATTTCCAAAAATGAGTA
131 AAATTTGGTTTTATTTCCAAAAACGAGTA
** * * *
31640180 AAATAAAATCCATTCCGGGATTGATTCCCGCTGTTCAACGAATTTATTTCAAATTTT-TCTTTAT
1 AAATAAAATCTGTTTCGGGATTGATTCCCGCTGTTCAACGATTTTATTCCAAATTTTAT-TTTAT
* * *
31640244 TTCCAAAAATGAGTAAAATAAAA-CCTGTTTCGGGATTGATTCCCGCCATTCAACAGA-TTTATT
65 TTCCAAAAATGAATAAAATAAAATCCTGTTTCGAGATTGATTCCCGCCGTTCAAC-GATTTTATT
* * *
31640307 AC-ATTTTGGTTTTGTTGCCAAAAA
129 ACAAATTTGGTTTTATTTCCAAAAA
31640331 TGAGAAATTA
Statistics
Matches: 263, Mismatches: 40, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
157 23 0.09
158 193 0.73
159 47 0.18
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.38
Consensus pattern (159 bp):
AAATAAAATCTGTTTCGGGATTGATTCCCGCTGTTCAACGATTTTATTCCAAATTTTATTTTATT
TCCAAAAATGAATAAAATAAAATCCTGTTTCGAGATTGATTCCCGCCGTTCAACGATTTTATTAC
AAATTTGGTTTTATTTCCAAAAACGAGTA
Found at i:31640467 original size:86 final size:87
Alignment explanation
Indices: 31640282--31640481 Score: 233
Period size: 86 Copynumber: 2.3 Consensus size: 87
31640272 TTCGGGATTG
* * * *
31640282 ATTCCCGCCATTCAAC-AGATTTATTACATTTTGGTTTTGTTGCCAAAAATGAGAAATTAAATTA
1 ATTCCCGCCGTTTAACAAGATTTATTTCATTTTGATTTTGTTGCCAAAAATGAGAAATTAAATTA
*
31640346 AATAAAATCTATTTCGAAATTT
66 AATAAAATATATTTCGAAATTT
* ** * **
31640368 GTTCCCGCCGTTTAGTAAGATTTATTTGATTTT-ATTTTGTTTTCAAAAATGAGAAATTAAATTA
1 ATTCCCGCCGTTTAACAAGATTTATTTCATTTTGATTTTGTTGCCAAAAATGAGAAATTAAATTA
* **
31640432 AATAAAATATGTTTCGGGATTT
66 AATAAAATATATTTCGAAATTT
* *
31640454 ATTCTCGCTGTTTAACAAGATTTTATTT
1 ATTCCCGCCGTTTAACAAGA-TTTATTT
31640482 TGTTTCCAAA
Statistics
Matches: 93, Mismatches: 19, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
86 72 0.77
87 21 0.23
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (87 bp):
ATTCCCGCCGTTTAACAAGATTTATTTCATTTTGATTTTGTTGCCAAAAATGAGAAATTAAATTA
AATAAAATATATTTCGAAATTT
Found at i:31640521 original size:74 final size:76
Alignment explanation
Indices: 31640395--31640556 Score: 208
Period size: 74 Copynumber: 2.2 Consensus size: 76
31640385 AGATTTATTT
* *
31640395 GATTTTATTTTGTTTTCAAAAATGAGAAATTAAATTAAATAAAATATGTTTCGGGATTTATT-CT
1 GATTTTATTTTGTTTTCAAAAATGAGAAATTAAATTAAATAAAATATATTTCGGGAGTTATTCCT
31640459 -CGCTGTTTAACAA
66 ACG--GTTTAA-AA
* * *
31640472 GATTTTATTTTG-TTTC-CAAATTAG-AATTAAATTAAATAAAATCTATTTCGGGAGTTATTCCT
1 GATTTTATTTTGTTTTCAAAAATGAGAAATTAAATTAAATAAAATATATTTCGGGAGTTATTCCT
*
31640534 ACGGTTTAATA
66 ACGGTTTAAAA
31640545 GATTTTATTTTG
1 GATTTTATTTTG
31640557 ATATAATTTT
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
73 13 0.17
74 38 0.49
75 8 0.10
76 6 0.08
77 12 0.16
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (76 bp):
GATTTTATTTTGTTTTCAAAAATGAGAAATTAAATTAAATAAAATATATTTCGGGAGTTATTCCT
ACGGTTTAAAA
Found at i:31645628 original size:51 final size:50
Alignment explanation
Indices: 31645564--31645899 Score: 279
Period size: 51 Copynumber: 6.7 Consensus size: 50
31645554 TATCGATGAA
* * *
31645564 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAAT-TTGGT
* * * * *
31645615 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGAG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAA-ATTTG-GT
* * * * *
31645666 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA-TTTGGT
* * * * * *
31645717 TACATGTGTGGTACTAAGTGAAGGCTACTATG-GATACCGGA-AAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-TACC-GATAA-ATTTGGT
* * *
31645768 CACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGAT-AAATTTGGT
* * ** *
31645818 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTG-TAAAACTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATTTGGT
* * *
31645867 CATGAGTGTAGTACTATGTCAAGGCTACTACGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGT
31645900 CTATTGAATG
Statistics
Matches: 228, Mismatches: 45, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
49 37 0.16
50 44 0.19
51 143 0.63
52 4 0.02
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATTTGGT
Found at i:31645740 original size:102 final size:102
Alignment explanation
Indices: 31645564--31645847 Score: 373
Period size: 102 Copynumber: 2.8 Consensus size: 102
31645554 TATCGATGAA
*
31645564 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACT-ATGGTCACATGTGTAGTA
*
31645628 CTAAGTGAAGGCTACTATGTG-TACC-GAGAAGTTTTGAG-
65 CTAAGTGAAGGCTACTATG-GATACCGGA-AAGCTTTG-GT
* * *
31645666 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTATGGTTACATGTGTGGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
31645731 TAAGTGAAGGCTACTATGGATACCGGAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGGATACCGGAAAGCTTTGGT
* * * * * *
31645768 CACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAACT-TGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGT-AAACTATGGTCACATGTGTAGTA
*
31645831 CTATGTGAAGGCTACTA
65 CTAAGTGAAGGCTACTA
31645848 CGTGAACTGT
Statistics
Matches: 162, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
101 35 0.22
102 124 0.77
103 3 0.02
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGGATACCGGAAAGCTTTGGT
Found at i:31652139 original size:51 final size:51
Alignment explanation
Indices: 31652075--31652417 Score: 294
Period size: 51 Copynumber: 6.8 Consensus size: 51
31652065 TATCGATGAA
* * *
31652075 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGCATCGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGGT
* * * * * * *
31652126 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGAG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTG-GT
* * *
31652177 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTA-TGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TATTGGT
* * * * * * *
31652228 TACATGTGTGGTACTAAGTGAAGGCTACTATG-GATACCGGA-AAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-TATC-GATAA-ATATTGGT
* * *
31652279 CACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-TCGATAAATA-TTGGT
* * *
31652329 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-AACTG-TAAA-ACTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GATAAATATTGGT
*
31652378 CATGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
31652418 ATGATAAAAA
Statistics
Matches: 234, Mismatches: 43, Indels: 31
0.76 0.14 0.10
Matches are distributed among these distances:
49 39 0.17
50 52 0.22
51 139 0.59
52 4 0.02
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGGT
Found at i:31652251 original size:102 final size:101
Alignment explanation
Indices: 31652075--31652416 Score: 376
Period size: 102 Copynumber: 3.4 Consensus size: 101
31652065 TATCGATGAA
* * *
31652075 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGCATCGATAAA-TAATGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACT-ATGGTCACATGTGTAGTA
31652139 CTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGAG
65 CTAAGTGAAGGCTACTATGTGTACCGAGAAG-TTTGAG
* * * *
31652177 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTATGGTTACATGTGTGGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
31652242 TAAGTGAAGGCTACTATG-GATACCG-GAAAGCTTTG-G
66 TAAGTGAAGGCTACTATGTG-TACCGAG-AAG-TTTGAG
* * * * *
31652278 TCACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAACT-TGATCACGTGTGTAGT
1 -CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGT-AAACTATGGTCACATGTGTAGT
* * * * ** *
31652341 ACTATGTGAAGGCTACTACGTGAACTGTA-AA-ACTGAT
64 ACTAAGTGAAGGCTACTATGTGTACCG-AGAAGTTTGAG
*
31652378 CATGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
31652417 AATGATAAAA
Statistics
Matches: 204, Mismatches: 26, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
99 34 0.17
100 2 0.01
101 42 0.21
102 125 0.61
103 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAGAAGTTTGAG
Found at i:31657508 original size:27 final size:27
Alignment explanation
Indices: 31657467--31657534 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
31657457 ATAAAGGCAA
*
31657467 AAAATCTACCAAATAACATATAATGCGAT
1 AAAATC-ACC-AATAACATATAATACGAT
* * *
31657496 AAATTCATCAATATCATATAATACGAT
1 AAAATCACCAATAACATATAATACGAT
31657523 AAAATCACCAAT
1 AAAATCACCAAT
31657535 CCCCTCGGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 26 0.79
28 2 0.06
29 5 0.15
ACGTcount: A:0.51, C:0.18, G:0.04, T:0.26
Consensus pattern (27 bp):
AAAATCACCAATAACATATAATACGAT
Found at i:31658402 original size:28 final size:28
Alignment explanation
Indices: 31658370--31658423 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
31658360 GTAACAAAAC
*
31658370 AATGTGGGCCTTAGCCCGATACAGTAAT
1 AATGTGGGCCTTAGCCCAATACAGTAAT
*
31658398 AATGTGGGCCTTAGCCCAATATAGTA
1 AATGTGGGCCTTAGCCCAATACAGTA
31658424 TCAGAATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (28 bp):
AATGTGGGCCTTAGCCCAATACAGTAAT
Found at i:31658754 original size:32 final size:32
Alignment explanation
Indices: 31658703--31658780 Score: 104
Period size: 32 Copynumber: 2.5 Consensus size: 32
31658693 GAATGGCTAC
* * *
31658703 AAGCCATAAGTA-CAGTAATATGATTGGCATA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
*
31658734 AAGCCATCAGTAGTAGTAATATGATCGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGGCACA
*
31658766 CAGCCATCAGTAGCA
1 AAGCCATCAGTAGCA
31658781 TCGTAGCATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 11 0.28
32 29 0.73
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (32 bp):
AAGCCATCAGTAGCAGTAATATGATCGGCACA
Found at i:31658814 original size:26 final size:26
Alignment explanation
Indices: 31658785--31658834 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
31658775 GTAGCATCGT
*
31658785 AGCATAGCTGCCAGCAACAGTATAAC
1 AGCAAAGCTGCCAGCAACAGTATAAC
*
31658811 AGCAAAGTTGCCAGCAACAGTATA
1 AGCAAAGCTGCCAGCAACAGTATA
31658835 TATGGCCAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (26 bp):
AGCAAAGCTGCCAGCAACAGTATAAC
Found at i:31658949 original size:24 final size:24
Alignment explanation
Indices: 31658922--31659056 Score: 126
Period size: 24 Copynumber: 5.6 Consensus size: 24
31658912 CCACGCTCAG
**
31658922 AATCAATCATACAAATCACAGACA
1 AATCAATCATTTAAATCACAGACA
** *** *
31658946 AATCAGCCATACCAATCATAGACA
1 AATCAATCATTTAAATCACAGACA
*
31658970 AATCCAATCATTTAAATCATAGACA
1 AAT-CAATCATTTAAATCACAGACA
* * * * *
31658995 CATCGATCATTTACATCTCAAACA
1 AATCAATCATTTAAATCACAGACA
*
31659019 AATCAATCATTTACATCACAGACA
1 AATCAATCATTTAAATCACAGACA
31659043 AATCAATCATTTAA
1 AATCAATCATTTAA
31659057 CCCCGAGGGG
Statistics
Matches: 90, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
24 72 0.80
25 18 0.20
ACGTcount: A:0.47, C:0.24, G:0.04, T:0.24
Consensus pattern (24 bp):
AATCAATCATTTAAATCACAGACA
Found at i:31659105 original size:27 final size:27
Alignment explanation
Indices: 31659074--31659136 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
31659064 GGGCAAAATT
* * *
31659074 ATCATTTTTCCCTATAGGGGTATTACT
1 ATCATTTTACCCTACAGGGGTATTACA
*
31659101 GTCATTTTACCCTACAGGGGTATTACA
1 ATCATTTTACCCTACAGGGGTATTACA
31659128 ATCATTTTA
1 ATCATTTTA
31659137 TAACATAGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.41
Consensus pattern (27 bp):
ATCATTTTACCCTACAGGGGTATTACA
Found at i:31659132 original size:54 final size:54
Alignment explanation
Indices: 31659075--31659380 Score: 210
Period size: 54 Copynumber: 5.7 Consensus size: 54
31659065 GGCAAAATTA
* * * *
31659075 TCATTTTTCCCTATAGGGGTATTACTGTCATTTTACCCTACAGGGGTATTACAA
1 TCATTTTACCCTATAGGGGCATTACAGTCATTTTACCCTACAGGGGTATTACAG
** * * *** * * *
31659129 TCATTTTATAAC-ATAGGGGCATAACAGTCA-TTAAATGTCACAGTGGCATAACAG
1 TCATTTTA-CCCTATAGGGGCATTACAGTCATTTTACCCT-ACAGGGGTATTACAG
* * * * *
31659183 TCA-TTTA--ATATCATGAGGGCATAATAGTCA-TTTATCCCTACATGGGTAGTACAG
1 TCATTTTACCCTAT-A-G-GGGCATTACAGTCATTTTA-CCCTACAGGGGTATTACAG
* * * * *
31659237 TCATTTTACCTTATAGGGGCATAACGGTCACTTTACCCTACAGGGGTATTACGG
1 TCATTTTACCCTATAGGGGCATTACAGTCATTTTACCCTACAGGGGTATTACAG
* * ** * **
31659291 TTATTTTACCCTATAAGGGCATTACAGTCATTTTACCCTACAACGGCATTATGG
1 TCATTTTACCCTATAGGGGCATTACAGTCATTTTACCCTACAGGGGTATTACAG
* * *
31659345 TCATTTTACCCTACAGGGGTATTACGGTCATTTTAC
1 TCATTTTACCCTATAGGGGCATTACAGTCATTTTAC
31659381 AAATATTGGG
Statistics
Matches: 195, Mismatches: 46, Indels: 22
0.74 0.17 0.08
Matches are distributed among these distances:
51 2 0.01
52 1 0.01
53 9 0.05
54 168 0.86
55 11 0.06
56 1 0.01
57 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (54 bp):
TCATTTTACCCTATAGGGGCATTACAGTCATTTTACCCTACAGGGGTATTACAG
Found at i:31659159 original size:27 final size:27
Alignment explanation
Indices: 31659129--31659216 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 27
31659119 GGTATTACAA
* *
31659129 TCATTTTATAACATAGGGGCATAACAG
1 TCATTTAATATCATAGGGGCATAACAG
* * * *
31659156 TCATTAAATGTCACAGTGGCATAACAG
1 TCATTTAATATCATAGGGGCATAACAG
*
31659183 TCATTTAATATCAT-GAGGGCATAATAG
1 TCATTTAATATCATAG-GGGCATAACAG
31659210 TCATTTA
1 TCATTTA
31659217 TCCCTACATG
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
26 1 0.02
27 48 0.98
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (27 bp):
TCATTTAATATCATAGGGGCATAACAG
Found at i:31659266 original size:27 final size:27
Alignment explanation
Indices: 31659209--31659380 Score: 175
Period size: 27 Copynumber: 6.4 Consensus size: 27
31659199 GGGCATAATA
* * * *
31659209 GTCA-TTTATCCCTACATGGGTAGTACA
1 GTCATTTTA-CCCTACAGGGGCATTACG
* * *
31659236 GTCATTTTACCTTATAGGGGCATAACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
31659263 GTCACTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
31659290 GTTATTTTACCCTATAAGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
** *
31659317 GTCATTTTACCCTACAACGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
*
31659344 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
31659371 GTCATTTTAC
1 GTCATTTTAC
31659381 AAATATTGGG
Statistics
Matches: 117, Mismatches: 27, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
27 113 0.97
28 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:31659319 original size:81 final size:81
Alignment explanation
Indices: 31659232--31659380 Score: 226
Period size: 81 Copynumber: 1.8 Consensus size: 81
31659222 ACATGGGTAG
* * ** *
31659232 TACAGTCATTTTACCTTATAGGGGCATAACGGTCACTTTACCCTACAGGGGTATTACGGTTATTT
1 TACAGTCATTTTACCCTACAACGGCATAACGGTCACTTTACCCTACAGGGGTATTACGGTCATTT
31659297 TACCCTATAAGGGCAT
66 TACCCTATAAGGGCAT
* * *
31659313 TACAGTCATTTTACCCTACAACGGCATTATGGTCATTTTACCCTACAGGGGTATTACGGTCATTT
1 TACAGTCATTTTACCCTACAACGGCATAACGGTCACTTTACCCTACAGGGGTATTACGGTCATTT
31659378 TAC
66 TAC
31659381 AAATATTGGG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 60 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (81 bp):
TACAGTCATTTTACCCTACAACGGCATAACGGTCACTTTACCCTACAGGGGTATTACGGTCATTT
TACCCTATAAGGGCAT
Found at i:31660694 original size:25 final size:25
Alignment explanation
Indices: 31660639--31660687 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
31660629 ATTCAAACAC
*
31660639 TCCAACGACAGAGTTCAAATCCAAA
1 TCCAACAACAGAGTTCAAATCCAAA
31660664 TCCAACAACAGAGTTCAAATCCAA
1 TCCAACAACAGAGTTCAAATCCAA
31660688 CACCAACTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.45, C:0.29, G:0.10, T:0.16
Consensus pattern (25 bp):
TCCAACAACAGAGTTCAAATCCAAA
Found at i:31662798 original size:42 final size:41
Alignment explanation
Indices: 31662667--31662978 Score: 223
Period size: 43 Copynumber: 7.4 Consensus size: 41
31662657 TTTCCTGAGG
* * * * * *
31662667 GGTTTCTAAGTGCTGATTCCCCGAATTATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATAAA-GT
* * * *
31662709 GGTTGCTAAGTGCTGATTCCACCGTAT-ATTTGATTGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGTATCA-CTGAATAT-AAAGT
* *
31662752 GGTTGCTATGTGCTGATTCCCCGTATCACTAAATATAAATGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATAAA-GT
* ** * * *
31662794 GGTTGATAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGTATCACTGAATAT-AAAGT
* * * *
31662837 GGTTGCTATGTGTTGATTCCCCGTATTACTAAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATAAA-GT
* ** ** * * *
31662879 GGTTGCTAAGTTCTGATTCCACTATATCTTTGATTGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGTATCACTGAATAT-AAAGT
* *
31662922 GGTTGCTATGTGTTGATTCCCCGTATCACTGAAT-TAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATAAA-GT
31662963 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
31662979 ATCCACCGAG
Statistics
Matches: 208, Mismatches: 51, Indels: 23
0.74 0.18 0.08
Matches are distributed among these distances:
40 3 0.01
41 22 0.11
42 86 0.41
43 88 0.42
44 9 0.04
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATAAAGT
Found at i:31662807 original size:85 final size:85
Alignment explanation
Indices: 31662664--31662986 Score: 468
Period size: 85 Copynumber: 3.8 Consensus size: 85
31662654 AGATTTCCTG
* * * * * * * *
31662664 AGGGGTTTCTAAGTGCTGATTCCCCGAATTATTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTAAATATAAAGGTGGTTGCTAAGTGCTGATTCC
*
31662729 ACCGTATATTTGATTGTGAA
66 ACCGTATCTTTGATTGTGAA
* *
31662749 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTAAATATAAATGTGGTTGATAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTAAATATAAAGGTGGTTGCTAAGTGCTGATTCC
31662814 ACCGTATCTTTGATTGTGAA
66 ACCGTATCTTTGATTGTGAA
* * *
31662834 AGGGGTTGCTATGTGTTGATTCCCCGTATTACTAAATATAAAGGTGGTTGCTAAGTTCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTAAATATAAAGGTGGTTGCTAAGTGCTGATTCC
**
31662899 ACTATATCTTTGATTGTGAA
66 ACCGTATCTTTGATTGTGAA
* * *
31662919 AGGGGTTGCTATGTGTTGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGCTGAATCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTAAATATAAAGGTGGTTGCTAAGTGCTGATTCC
31662983 ACCG
66 ACCG
31662987 AGTAACGGAT
Statistics
Matches: 214, Mismatches: 24, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
84 27 0.13
85 187 0.87
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (85 bp):
AGGGGTTGCTATGTGCTGATTCCCCGTATCACTAAATATAAAGGTGGTTGCTAAGTGCTGATTCC
ACCGTATCTTTGATTGTGAA
Found at i:31665771 original size:27 final size:27
Alignment explanation
Indices: 31665725--31666022 Score: 319
Period size: 27 Copynumber: 11.1 Consensus size: 27
31665715 TATAACAGTT
* *
31665725 ATTTTACCTTAT-GGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * * *
31665751 ATCTTATCCTATGGTGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
31665778 ATTCTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
31665805 ATTTTACCCTATGGGGGTATTTCTGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * *
31665832 ATTCTACCTTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
31665859 ATTCTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
31665886 ATTTTACCCTATAGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * **
31665913 ATTTTACCTTACGAAGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
31665940 ATTTTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * * * *
31665967 ATTCTACCTTATAGAGATATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * ** *
31665994 CTTTTACCCAATGAAGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
31666021 AT
1 AT
31666023 AACAGTGTAA
Statistics
Matches: 223, Mismatches: 48, Indels: 1
0.82 0.18 0.00
Matches are distributed among these distances:
26 9 0.04
27 214 0.96
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGGTC
Found at i:31666022 original size:81 final size:81
Alignment explanation
Indices: 31665725--31666015 Score: 352
Period size: 81 Copynumber: 3.6 Consensus size: 81
31665715 TATAACAGTT
* * * **
31665725 ATTTTACCTTAT-GGGGTATTTTGGTCATCTTATCC-TATGGTGGTATTTCGATCATTCTACCCT
1 ATTTTACCCTATAGGGGTATTTCGGTCATTTTA-CCTTATGAAGGTATTTCGATCATTCTACCCT
*
31665788 ATGGGGGTATTTCGATC
65 ATGGGGGTATTTCGGTC
* * * **
31665805 ATTTTACCCTATGGGGGTATTTCTGTCATTCTACCTTATGGGGGTATTTCGATCATTCTACCCTA
1 ATTTTACCCTATAGGGGTATTTCGGTCATTTTACCTTATGAAGGTATTTCGATCATTCTACCCTA
*
31665870 TGGGGGTATTTTGGTC
66 TGGGGGTATTTCGGTC
* * * *
31665886 ATTTTACCCTATAGGGGTATTTCGATCATTTTACCTTACGAAGGTATTTCGGTCATTTTACCCTA
1 ATTTTACCCTATAGGGGTATTTCGGTCATTTTACCTTATGAAGGTATTTCGATCATTCTACCCTA
31665951 TGGGGGTATTTCGGTC
66 TGGGGGTATTTCGGTC
* * * * * **
31665967 ATTCTACCTTATAGAGATATTTCGGTCCTTTTACCCAATGAAGGTATTT
1 ATTTTACCCTATAGGGGTATTTCGGTCATTTTACCTTATGAAGGTATTT
31666016 TGGTCATAAC
Statistics
Matches: 182, Mismatches: 27, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
80 13 0.07
81 169 0.93
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (81 bp):
ATTTTACCCTATAGGGGTATTTCGGTCATTTTACCTTATGAAGGTATTTCGATCATTCTACCCTA
TGGGGGTATTTCGGTC
Found at i:31666220 original size:20 final size:21
Alignment explanation
Indices: 31666195--31666234 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
31666185 TGAGCCCACA
*
31666195 TGGCCCATTTCGGCC-AAACG
1 TGGCCCATTACGGCCTAAACG
31666215 TGGCCCATTACGGCCTAAAC
1 TGGCCCATTACGGCCTAAAC
31666235 CCATGGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.23, C:0.35, G:0.23, T:0.20
Consensus pattern (21 bp):
TGGCCCATTACGGCCTAAACG
Found at i:31674701 original size:17 final size:17
Alignment explanation
Indices: 31674681--31674729 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
31674671 TTTCATTTAG
31674681 TTTTATATTTTATATTT
1 TTTTATATTTTATATTT
* *
31674698 TTTTATATTTTTTTGTTT
1 TTTTATA-TTTTATATTT
31674716 TTATTATATTTTAT
1 TT-TTATATTTTAT
31674730 CTGGCACTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 7 0.26
18 15 0.56
19 5 0.19
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTATATTTTATATTT
Found at i:31674703 original size:10 final size:10
Alignment explanation
Indices: 31674688--31674727 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
31674678 TAGTTTTATA
31674688 TTTTATATTT
1 TTTTATATTT
31674698 TTTTATATTT
1 TTTTATATTT
*
31674708 TTTTGT-TTT
1 TTTTATATTT
*
31674717 TATTATATTT
1 TTTTATATTT
31674727 T
1 T
31674728 ATCTGGCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (10 bp):
TTTTATATTT
Found at i:31674842 original size:17 final size:17
Alignment explanation
Indices: 31674804--31674844 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
31674794 TTAAAGCTAG
31674804 TTTTTT-TTCTTTTGAT
1 TTTTTTCTTCTTTTGAT
31674820 TTTTTTCTTCTTTTG-T
1 TTTTTTCTTCTTTTGAT
31674836 TTCTTTTCT
1 TT-TTTTCT
31674845 ACCCAACCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.02, C:0.12, G:0.05, T:0.80
Consensus pattern (17 bp):
TTTTTTCTTCTTTTGAT
Found at i:31674909 original size:14 final size:13
Alignment explanation
Indices: 31674865--31674924 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 13
31674855 AATGATTTCA
* *
31674865 TTTAGTTTTATAT
1 TTTATTTTTTTAT
* *
31674878 TTTATATTTATA-
1 TTTATTTTTTTAT
*
31674890 TTTATTTTTTTGTT
1 TTTATTTTTTT-AT
*
31674904 TTTATTTATTTAT
1 TTTATTTTTTTAT
31674917 TTTATTTT
1 TTTATTTT
31674925 GCACTGTAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
12 9 0.24
13 18 0.49
14 10 0.27
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (13 bp):
TTTATTTTTTTAT
Found at i:31674909 original size:18 final size:19
Alignment explanation
Indices: 31674875--31674924 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
31674865 TTTAGTTTTA
31674875 TATTTTATATTTATATTTATT
1 TATTTTAT-TTT-TATTTATT
*
31674896 T-TTTTGTTTTTATTTATT
1 TATTTTATTTTTATTTATT
31674914 TATTTTATTTT
1 TATTTTATTTT
31674925 GCACTGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 9 0.35
19 11 0.42
20 5 0.19
21 1 0.04
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (19 bp):
TATTTTATTTTTATTTATT
Found at i:31676625 original size:12 final size:10
Alignment explanation
Indices: 31676588--31676617 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
31676578 AAATCTGTTG
31676588 AAAA-TAATC
1 AAAATTAATC
31676597 AAAATTAATC
1 AAAATTAATC
31676607 AAAATTAATC
1 AAAATTAATC
31676617 A
1 A
31676618 TAAAATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAATTAATC
Found at i:31677131 original size:22 final size:22
Alignment explanation
Indices: 31677087--31677130 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
31677077 ATTTTTGTTC
* *
31677087 TGAAAAAAAGAGAGAGAAAAAA
1 TGAAAAAAAGAAAAAGAAAAAA
31677109 TGAAAAAAATGAAAAAGAAAAA
1 TGAAAAAAA-GAAAAAGAAAAA
31677131 TATATATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (22 bp):
TGAAAAAAAGAAAAAGAAAAAA
Found at i:31683506 original size:19 final size:19
Alignment explanation
Indices: 31683482--31683520 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
31683472 TATTTTAGGG
31683482 ATATTTTAGCATGATTAGA
1 ATATTTTAGCATGATTAGA
31683501 ATATTTTAGCATGATTAGA
1 ATATTTTAGCATGATTAGA
31683520 A
1 A
31683521 CTCTACTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.41
Consensus pattern (19 bp):
ATATTTTAGCATGATTAGA
Found at i:31688077 original size:12 final size:12
Alignment explanation
Indices: 31688060--31688092 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
31688050 TATACAGACC
31688060 ATTAAGCTT-AAA
1 ATTAAG-TTCAAA
31688072 ATTAAGTTCAAA
1 ATTAAGTTCAAA
31688084 ATTAAGTTC
1 ATTAAGTTC
31688093 CGAGGGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 2 0.10
12 18 0.90
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (12 bp):
ATTAAGTTCAAA
Found at i:31690445 original size:43 final size:43
Alignment explanation
Indices: 31690388--31690724 Score: 449
Period size: 43 Copynumber: 7.8 Consensus size: 43
31690378 TTTTAGAAAA
31690388 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * **
31690431 AAATGCCGCAAAAGACCAAGACCTTTAGCGGCGCTTTAGCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * * **
31690474 AAATGCCGCTAAAAACCAGGAACTTTAGCGGCGCTTTAGCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
*
31690517 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTATCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
31690560 AAACGCCGCTAAAGACTAAGACCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * *
31690603 AAATGCCGCTAAAAACCAAGACCTTTAACGGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
31690646 AAACGCAGGTAAAGAACAAGACCTTTAGCGGCACTTTTACCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * *
31690689 AAACGCCGCTAAAGATCATGACCTTTAGCGACGCTT
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTT
31690725 CTATTAAAAA
Statistics
Matches: 255, Mismatches: 39, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 255 1.00
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.19
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:31690528 original size:129 final size:128
Alignment explanation
Indices: 31690388--31690724 Score: 496
Period size: 129 Copynumber: 2.6 Consensus size: 128
31690378 TTTTAGAAAA
* *
31690388 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAATGCCGCAAAAGACCAAGAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* * *
31690453 CTTTAGCGGCGCTTTAGCCACAAATGCCGCTAAAAACCAGGAACTTTAGCGGCGCTT-TAGCCAC
66 CTTTAGCGGCGCTTTA-CCACAAATGCCGCTAAAAACCAAGAACTTTAACGGCGCTTCT-CCCAC
* *
31690517 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTATCCCACAAACGCCGCTAAAGACTAAGAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
*
31690582 CTTTAGCGGCGCTTTTACCACAAATGCCGCTAAAAACCAAGACCTTTAACGGCGCTTCTCCCAC
66 CTTTAGCGGCGC-TTTACCACAAATGCCGCTAAAAACCAAGAACTTTAACGGCGCTTCTCCCAC
* * * * * * *
31690646 AAACGCAGGTAAAGAACAAGACCTTTAGCGGCACTTTTACCACAAACGCCGCTAAAGATCATGAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
*
31690711 CTTTAGCGACGCTT
66 CTTTAGCGGCGCTT
31690725 CTATTAAAAA
Statistics
Matches: 188, Mismatches: 18, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
128 2 0.01
129 181 0.96
130 5 0.03
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.19
Consensus pattern (128 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
CTTTAGCGGCGCTTTACCACAAATGCCGCTAAAAACCAAGAACTTTAACGGCGCTTCTCCCAC
Found at i:31690796 original size:41 final size:42
Alignment explanation
Indices: 31690686--31690797 Score: 122
Period size: 41 Copynumber: 2.6 Consensus size: 42
31690676 GCACTTTTAC
* *
31690686 CACAAACGCCGCTAAAGATCATGACCTTTAGCGACGCTTCTATT
1 CACAAACGCCACTAAA-A-CATGACTTTTAGCGACGCTTCTATT
* *
31690730 -AAAAACGCCACTATAACATTGACTTTTAGCGACGCTT-T-TT
1 CACAAACGCCACTAAAACA-TGACTTTTAGCGACGCTTCTATT
*
31690770 CACAAACGCCACTAAAAGCATAACTTTT
1 CACAAACGCCACTAAAA-CATGACTTTT
31690798 TTAAAAAAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
40 2 0.03
41 24 0.41
42 20 0.34
43 12 0.21
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (42 bp):
CACAAACGCCACTAAAACATGACTTTTAGCGACGCTTCTATT
Found at i:31694202 original size:21 final size:21
Alignment explanation
Indices: 31694153--31694202 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
31694143 GGGGGTTTCA
31694153 AGGGGGGAAATTAGGGATTTT
1 AGGGGGGAAATTAGGGATTTT
* *
31694174 AGGAGGGAAAGTTGGGGATTTT
1 AGGGGGGAAA-TTAGGGATTTT
31694196 -GGGGGGA
1 AGGGGGGA
31694203 GGGGATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.26, C:0.00, G:0.50, T:0.24
Consensus pattern (21 bp):
AGGGGGGAAATTAGGGATTTT
Found at i:31694462 original size:107 final size:110
Alignment explanation
Indices: 31694346--31694613 Score: 398
Period size: 114 Copynumber: 2.4 Consensus size: 110
31694336 AAAATTTTGC
* *
31694346 GGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAACACCGTTATTTCTTACCT
1 GGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAACACCGCTATTGCTTACCT
*
31694411 ATTGCGGC-AATTT-T-CGCCGCTAAATGTTTTGCTATATAAAAT
66 ATTGCGGCGAATTTATACGCCACTAAATGTTTTGCTATATAAAAT
* *
31694453 GGCTATTTTTTAAAGTAAAATTATTTTTTGTGTCGTTTTTTATAAAACGCCGCTATTGCTTACCT
1 GGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAACACCGCTATTGCTTACCT
* **
31694518 TTTGCGGCGTTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAAT
66 ATTGCGGCGAATTTAT----ACGCCACTAAATGTTTTGCTATATAAAAT
*
31694567 GGCCATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAA
1 GGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAA
31694614 ATGCCGCTAA
Statistics
Matches: 144, Mismatches: 10, Indels: 7
0.89 0.06 0.04
Matches are distributed among these distances:
107 68 0.47
108 3 0.02
109 1 0.01
114 72 0.50
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (110 bp):
GGCTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAACACCGCTATTGCTTACCT
ATTGCGGCGAATTTATACGCCACTAAATGTTTTGCTATATAAAAT
Found at i:31694624 original size:76 final size:78
Alignment explanation
Indices: 31694517--31694679 Score: 260
Period size: 76 Copynumber: 2.1 Consensus size: 78
31694507 ATTGCTTACC
*
31694517 TTTTGCGGCGTTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGGC-C-ATTTTTT-A
1 TTTTGTGGCGTTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGGCGCTATTTTTTAA
31694579 AAGTAAAATTATT
66 AAGTAAAATTATT
* *
31694592 TTTTGTGGCGTTTTTTATAAAAATGCCGCTAAATGTTTTGCTATATAAAATGGCGCTATTTTTTA
1 TTTTGTGGCG-TTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGGCGCTATTTTTTA
31694657 AAAGTAAAATTATT
65 AAAGTAAAATTATT
*
31694671 TTCTGTGGC
1 TTTTGTGGC
31694680 TCCGCAATAA
Statistics
Matches: 80, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
75 9 0.11
76 41 0.51
77 1 0.01
78 7 0.09
79 22 0.28
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (78 bp):
TTTTGTGGCGTTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGGCGCTATTTTTTAA
AAGTAAAATTATT
Found at i:31695568 original size:7 final size:7
Alignment explanation
Indices: 31695558--31695582 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
31695548 ACTAACTCTT
31695558 AACCCCA
1 AACCCCA
31695565 AACCCCA
1 AACCCCA
31695572 AACCCCA
1 AACCCCA
31695579 AACC
1 AACC
31695583 ACTAACCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.56, G:0.00, T:0.00
Consensus pattern (7 bp):
AACCCCA
Found at i:31695734 original size:89 final size:89
Alignment explanation
Indices: 31695566--31695734 Score: 241
Period size: 89 Copynumber: 1.9 Consensus size: 89
31695556 TTAACCCCAA
* *
31695566 ACCCCAAACCCCAAACCACTAACCTCTAAACCTTATTTAATATAGAAATTAAAAAACACTAATTA
1 ACCCCAAACCCCAAACCACTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTA
*
31695631 ATCTAAATCATAAACCCTAACCCG
66 ATCTAAACCATAAACCCTAACCCG
* * * * *
31695655 ACCCCAAATCCCTAACC-CTTAACCCCTAAATATTATTTAATATATAAATTAAAACACACTAATT
1 ACCCCAAACCCCAAACCAC-TAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATT
*
31695719 AATCTAAACCCTAAAC
65 AATCTAAACCATAAAC
31695735 TATAATGATA
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
88 1 0.01
89 69 0.99
ACGTcount: A:0.46, C:0.28, G:0.01, T:0.25
Consensus pattern (89 bp):
ACCCCAAACCCCAAACCACTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTA
ATCTAAACCATAAACCCTAACCCG
Found at i:31696098 original size:41 final size:41
Alignment explanation
Indices: 31696051--31696236 Score: 282
Period size: 41 Copynumber: 4.5 Consensus size: 41
31696041 CGCTTCTTGG
* *
31696051 AAAACGCCGCTAAAGATCTGAGCATTAGCAGCGCTTTTTCA
1 AAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTTTA
* * * *
31696092 GAAACGCCGGTAAAGATTTGAGTATTAGCGGCGCTTTTTTA
1 AAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTTTA
* *
31696133 AAAATGCCACTAAAGATCTGAGCATTAGCGGCGCTTTTTTA
1 AAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTTTA
*
31696174 AAAACGCCGCTAAAGATCTGAGCTTTAGCGGCGCTTTTTTAA
1 AAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTTT-A
31696216 AAAACGCCGCTAAAGATCTGA
1 AAAACGCCGCTAAAGATCTGA
31696237 AAGGTAGAAA
Statistics
Matches: 129, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 107 0.83
42 22 0.17
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (41 bp):
AAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTTTA
Found at i:31705123 original size:41 final size:41
Alignment explanation
Indices: 31705052--31705162 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 41
31705042 AGTTAATTAA
* *
31705052 CCCTGAATTGCACATACA-TGCCCCTATTTGTACTTTAGTAC
1 CCCTGAATTGCACATA-AGTGCCCCTGTTTGTACTTCAGTAC
* * *
31705093 CCCTCAATTGTACATAAGTGCCTCTGTTTGTACTTCAGTAC
1 CCCTGAATTGCACATAAGTGCCCCTGTTTGTACTTCAGTAC
* * *
31705134 CCTTGAATTGCATATACGTGCCCCTGTTT
1 CCCTGAATTGCACATAAGTGCCCCTGTTT
31705163 ACACTCTGAT
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 1 0.02
41 57 0.98
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (41 bp):
CCCTGAATTGCACATAAGTGCCCCTGTTTGTACTTCAGTAC
Found at i:31709706 original size:40 final size:40
Alignment explanation
Indices: 31709658--31710285 Score: 1103
Period size: 40 Copynumber: 15.7 Consensus size: 40
31709648 GCAAACACCT
* * *
31709658 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31709698 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
31709738 TTGCCTTCGGGTCATAGCCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31709778 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
31709818 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31709858 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31709898 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
31709938 TTGCCTTCGGGTCTTAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31709978 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31710018 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31710058 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31710098 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31710138 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31710178 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31710218 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31710258 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
31710286 TCCAATGCTC
Statistics
Matches: 561, Mismatches: 27, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 561 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:31717487 original size:40 final size:40
Alignment explanation
Indices: 31717439--31718067 Score: 1078
Period size: 40 Copynumber: 15.7 Consensus size: 40
31717429 GCAAACACCT
* * *
31717439 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31717479 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
31717519 TTGCCTTCGGGTCATAGCCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31717559 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
31717599 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31717639 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31717679 TTGCCTTCGGGTCTTAGCCCGGATATATATAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATAT-CAACTCGCATAA
* * *
31717720 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31717760 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31717800 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
31717840 TTGCCTTCGGGTCTTAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31717880 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31717920 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31717960 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31718000 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31718040 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
31718068 TCCAATGCTC
Statistics
Matches: 557, Mismatches: 31, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
40 520 0.93
41 37 0.07
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:31720895 original size:19 final size:17
Alignment explanation
Indices: 31720873--31720920 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
31720863 TGTTTATCTC
*
31720873 AAGTAATTATTATTTAAAT
1 AAGTAATT-TTACTT-AAT
31720892 AAGTGAATTTTACTTAAT
1 AAGT-AATTTTACTTAAT
*
31720910 TAGTAATTTTA
1 AAGTAATTTTA
31720921 GACATGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 7 0.27
18 6 0.23
19 9 0.35
20 4 0.15
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (17 bp):
AAGTAATTTTACTTAAT
Found at i:31726785 original size:16 final size:16
Alignment explanation
Indices: 31726764--31726795 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31726754 TGGTTGAATG
*
31726764 GTATACTTAGTACCAT
1 GTATACGTAGTACCAT
31726780 GTATACGTAGTACCAT
1 GTATACGTAGTACCAT
31726796 TTGGTATGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (16 bp):
GTATACGTAGTACCAT
Found at i:31730019 original size:23 final size:23
Alignment explanation
Indices: 31729993--31730039 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
31729983 AAGCTGGAAG
*
31729993 AAAGACTAGACTTAATAGCTTGT
1 AAAGACTAAACTTAATAGCTTGT
31730016 AAAGACTAAACTTAATAGCTTGT
1 AAAGACTAAACTTAATAGCTTGT
31730039 A
1 A
31730040 TCAGGTGAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (23 bp):
AAAGACTAAACTTAATAGCTTGT
Found at i:31731745 original size:22 final size:23
Alignment explanation
Indices: 31731719--31731775 Score: 62
Period size: 27 Copynumber: 2.3 Consensus size: 23
31731709 TACAGCATTG
31731719 GTACAGTGTG-GGCCTTAGCCCA
1 GTACAGTGTGTGGCCTTAGCCCA
*
31731741 TTACAGTAACAGTGTGGCCTTAGCCCA
1 GTACAGT----GTGTGGCCTTAGCCCA
31731768 GTACAGTG
1 GTACAGTG
31731776 AAAATGTGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
22 6 0.21
23 1 0.04
26 3 0.11
27 18 0.64
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (23 bp):
GTACAGTGTGTGGCCTTAGCCCA
Found at i:31731764 original size:27 final size:28
Alignment explanation
Indices: 31731721--31731804 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
31731711 CAGCATTGGT
*
31731721 ACAGTGTGGGCCTTAGCCCATTACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
*
31731749 ACAGTGT-GGCCTTAGCCCAGTACAGTGA
1 ACAGTGTGGGCCTTAGCCCAATACAGT-A
* *
31731777 A-AATGTGGGTCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
31731804 A
1 A
31731805 ACAGAATAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
27 24 0.48
28 26 0.52
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.24
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAGTA
Found at i:31732194 original size:27 final size:27
Alignment explanation
Indices: 31732164--31732415 Score: 190
Period size: 27 Copynumber: 9.3 Consensus size: 27
31732154 AAGGGTATAA
31732164 CAGTCATTTTACCCTTCAGGGGTATTT
1 CAGTCATTTTACCCTTCAGGGGTATTT
* *** * *
31732191 CAGTTATTTTAAATTTCAAGTGTATTT
1 CAGTCATTTTACCCTTCAGGGGTATTT
* *
31732218 CGGTCATTTTACCCATC-GAGGGTATTT
1 CAGTCATTTTACCCTTCAG-GGGTATTT
* *
31732245 C-GATCATTATACCCATCAGGGGTATTT
1 CAG-TCATTTTACCCTTCAGGGGTATTT
* * *
31732272 CGGTCATTTTACCCATCAAGGGTATTT
1 CAGTCATTTTACCCTTCAGGGGTATTT
* * * *
31732299 TAATTATTTTACCCTTC-GAGGTTATTT
1 CAGTCATTTTACCCTTCAG-GGGTATTT
* *
31732326 C-GAACATTTTACCCATC-GAGGGTATTT
1 CAG-TCATTTTACCCTTCAG-GGGTATTT
* * *
31732353 CAATCATTTTACCCTTCAAGGCTATTT
1 CAGTCATTTTACCCTTCAGGGGTATTT
* * *
31732380 CGGTCATTTTACCCTTTAAGGGTATTT
1 CAGTCATTTTACCCTTCAGGGGTATTT
*
31732407 CGGTCATTT
1 CAGTCATTT
31732416 GCCCATGAAT
Statistics
Matches: 178, Mismatches: 39, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
26 1 0.01
27 175 0.98
28 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (27 bp):
CAGTCATTTTACCCTTCAGGGGTATTT
Found at i:31732291 original size:81 final size:80
Alignment explanation
Indices: 31732167--31732415 Score: 284
Period size: 81 Copynumber: 3.1 Consensus size: 80
31732157 GGTATAACAG
* * ***
31732167 TCATTTTACCCTTCAGGGGTATTTCAGTTATTTTAAATTTCAAGTGTATTTCGGTCATTTTACCC
1 TCATTTTACCCATCAGGGGTATTTCAGTCATTTTACCCTTCAAG-GTATTTCGGTCATTTTACCC
*
31732232 ATCGAGGGTATTTCGA
65 TTCGAGGGTATTTCGA
* * * *** *
31732248 TCATTATACCCATCAGGGGTATTTCGGTCATTTTACCCATCAAGGGTATTTTAATTATTTTACCC
1 TCATTTTACCCATCAGGGGTATTTCAGTCATTTTACCCTTCAA-GGTATTTCGGTCATTTTACCC
*
31732313 TTCGAGGTTATTTCGA
65 TTCGAGGGTATTTCGA
* *
31732329 ACATTTTACCCATC-GAGGGTATTTCAATCATTTTACCCTTCAAGGCTATTTCGGTCATTTTACC
1 TCATTTTACCCATCAG-GGGTATTTCAGTCATTTTACCCTTCAAGG-TATTTCGGTCATTTTACC
** *
31732393 CTTTAAGGGTATTTCGG
64 CTTCGAGGGTATTTCGA
31732410 TCATTT
1 TCATTT
31732416 GCCCATGAAT
Statistics
Matches: 137, Mismatches: 28, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
80 3 0.02
81 133 0.97
82 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (80 bp):
TCATTTTACCCATCAGGGGTATTTCAGTCATTTTACCCTTCAAGGTATTTCGGTCATTTTACCCT
TCGAGGGTATTTCGA
Found at i:31732415 original size:54 final size:53
Alignment explanation
Indices: 31732166--31732407 Score: 268
Period size: 54 Copynumber: 4.5 Consensus size: 53
31732156 GGGTATAACA
* * * * ***
31732166 GTCATTTTACCCTTCAGGGGTATTTCAGTTATTTTAAATTTCAAGTGTATTTCG
1 GTCATTTTACCCATCAAGGGTATTTCAATCATTTTACCCTTCAAG-GTATTTCG
* * * * *
31732220 GTCATTTTACCCATCGAGGGTATTTCGATCATTATACCCATCAGGGGTATTTCG
1 GTCATTTTACCCATCAAGGGTATTTCAATCATTTTACCCTTCA-AGGTATTTCG
* * *
31732274 GTCATTTTACCCATCAAGGGTATTTTAATTATTTTACCCTTCGAGGTTATTTCG
1 GTCATTTTACCCATCAAGGGTATTTCAATCATTTTACCCTTCAAGG-TATTTCG
** *
31732328 AACATTTTACCCATCGAGGGTATTTCAATCATTTTACCCTTCAAGGCTATTTCG
1 GTCATTTTACCCATCAAGGGTATTTCAATCATTTTACCCTTCAAGG-TATTTCG
* *
31732382 GTCATTTTACCCTTTAAGGGTATTTC
1 GTCATTTTACCCATCAAGGGTATTTC
31732408 GGTCATTTGC
Statistics
Matches: 154, Mismatches: 32, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
53 2 0.01
54 151 0.98
55 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (53 bp):
GTCATTTTACCCATCAAGGGTATTTCAATCATTTTACCCTTCAAGGTATTTCG
Found at i:31739567 original size:26 final size:26
Alignment explanation
Indices: 31739493--31739568 Score: 91
Period size: 26 Copynumber: 3.0 Consensus size: 26
31739483 ACACCAATAT
* * *
31739493 CGCAGCAAAGCTACTAG-AATAATAA
1 CGCAGCAAAGCTGCTAGTAACAGTAA
* **
31739518 CGCAGCAAAGCTGCCAGTTGCAGTAA
1 CGCAGCAAAGCTGCTAGTAACAGTAA
31739544 CGCAGCAAAGCTGCTAGTAACAGTA
1 CGCAGCAAAGCTGCTAGTAACAGTA
31739569 TATGTGGCAA
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 15 0.37
26 26 0.63
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (26 bp):
CGCAGCAAAGCTGCTAGTAACAGTAA
Found at i:31739764 original size:28 final size:28
Alignment explanation
Indices: 31739728--31739789 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
31739718 CATATTTTAA
*
31739728 CTTCTAGGGGTATAACAGTCATTTTACC
1 CTTCGAGGGGTATAACAGTCATTTTACC
**
31739756 CTTCGA-GGGTATTTCAGTCATTTTACC
1 CTTCGAGGGGTATAACAGTCATTTTACC
*
31739783 CATCGAG
1 CTTCGAG
31739790 TGTATTTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 24 0.83
28 5 0.17
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (28 bp):
CTTCGAGGGGTATAACAGTCATTTTACC
Found at i:31739816 original size:54 final size:54
Alignment explanation
Indices: 31739744--31740021 Score: 283
Period size: 54 Copynumber: 5.1 Consensus size: 54
31739734 GGGGTATAAC
* *
31739744 AGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCATCGAGTGTATTTT
1 AGTCATTTTACTCTTCGAGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTT
* * * *
31739798 AGTCATTATACTCATCGAGGGTATTTCGGTCATTATACCCATCGAGGGTATTTT
1 AGTCATTTTACTCTTCGAGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTT
* * *
31739852 GGTAATTTTACT-TATC-AGGGGTATTTCAGTTATTTTACCCATCGAGGGTATTTT
1 AGTCATTTTACTCT-TCGA-GGGTATTTCAGTCATTTTACCCATCGAGGGTATTTT
* ** * * ** *
31739906 GGTCATTTTTTTGTTCGAGAGTATTTTGGTTATTTTACCCATCGAGGGTATTTT
1 AGTCATTTTACTCTTCGAGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTT
* * * * * * * *
31739960 -GGCAATTTTACCCTTCAATGCTCTTTCAGTCATGTTACCCTTCGAGGGTATTTT
1 AGTC-ATTTTACTCTTCGAGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTT
31740014 AGTCATTT
1 AGTCATTT
31740022 GCCCACGAAT
Statistics
Matches: 183, Mismatches: 35, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
53 3 0.02
54 176 0.96
55 4 0.02
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (54 bp):
AGTCATTTTACTCTTCGAGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTT
Found at i:31739913 original size:27 final size:27
Alignment explanation
Indices: 31739744--31740021 Score: 236
Period size: 27 Copynumber: 10.3 Consensus size: 27
31739734 GGGGTATAAC
* *
31739744 AGTCATTTTACCCTTCGAGGGTATTTC
1 AGTCATTTTACCCATCGAGGGTATTTT
*
31739771 AGTCATTTTACCCATCGAGTGTATTTT
1 AGTCATTTTACCCATCGAGGGTATTTT
* * *
31739798 AGTCATTATACTCATCGAGGGTATTTC
1 AGTCATTTTACCCATCGAGGGTATTTT
* *
31739825 GGTCATTATACCCATCGAGGGTATTTT
1 AGTCATTTTACCCATCGAGGGTATTTT
* * ** *
31739852 GGTAATTTTACTTATC-AGGGGTATTTC
1 AGTCATTTTACCCATCGA-GGGTATTTT
*
31739879 AGTTATTTTACCCATCGAGGGTATTTT
1 AGTCATTTTACCCATCGAGGGTATTTT
* ***** *
31739906 GGTCATTTTTTTGTTCGAGAGTATTTT
1 AGTCATTTTACCCATCGAGGGTATTTT
* *
31739933 GGTTATTTTACCCATCGAGGGTATTTT
1 AGTCATTTTACCCATCGAGGGTATTTT
* * * * * * *
31739960 -GGCAATTTTACCCTTCAATGCTCTTTC
1 AGTC-ATTTTACCCATCGAGGGTATTTT
* *
31739987 AGTCATGTTACCCTTCGAGGGTATTTT
1 AGTCATTTTACCCATCGAGGGTATTTT
31740014 AGTCATTT
1 AGTCATTT
31740022 GCCCACGAAT
Statistics
Matches: 196, Mismatches: 51, Indels: 8
0.77 0.20 0.03
Matches are distributed among these distances:
26 2 0.01
27 191 0.97
28 3 0.02
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (27 bp):
AGTCATTTTACCCATCGAGGGTATTTT
Found at i:31739924 original size:108 final size:108
Alignment explanation
Indices: 31739748--31740021 Score: 343
Period size: 108 Copynumber: 2.5 Consensus size: 108
31739738 TATAACAGTC
* * *
31739748 ATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCATCGAGTGTATTTTAGTCATTATACTCAT
1 ATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTTAGTCATTTTACTCAT
* *
31739813 CGAGGGTATTTCGGTCATTATACCCATCGAGGGTATTTTGGTA
66 CGAGAGTATTTCGGTCATTATACCCATCGAGGGTATTTTGGCA
* * * * ** **
31739856 ATTTTA-CTTATCAGGGGTATTTCAGTTATTTTACCCATCGAGGGTATTTTGGTCATTTTTTTGT
1 ATTTTACCCT-TCAAGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTTAGTCATTTTACTCA
* * *
31739920 TCGAGAGTATTTTGGTTATTTTACCCATCGAGGGTATTTTGGCA
65 TCGAGAGTATTTCGGTCATTATACCCATCGAGGGTATTTTGGCA
* * * * *
31739964 ATTTTACCCTTCAATGCTCTTTCAGTCATGTTACCCTTCGAGGGTATTTTAGTCATTT
1 ATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTTAGTCATTT
31740022 GCCCACGAAT
Statistics
Matches: 139, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
107 2 0.01
108 135 0.97
109 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.43
Consensus pattern (108 bp):
ATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCCATCGAGGGTATTTTAGTCATTTTACTCAT
CGAGAGTATTTCGGTCATTATACCCATCGAGGGTATTTTGGCA
Found at i:31741983 original size:12 final size:13
Alignment explanation
Indices: 31741959--31741987 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
31741949 GGGCTAAAAC
31741959 TATTGCATTTATT
1 TATTGCATTTATT
31741972 TATTGC-TTTATT
1 TATTGCATTTATT
31741984 TATT
1 TATT
31741988 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:31748632 original size:50 final size:50
Alignment explanation
Indices: 31748532--31748821 Score: 327
Period size: 50 Copynumber: 5.7 Consensus size: 50
31748522 TAAAGAGATT
31748532 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGACGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATGAGACGTC
*
31748588 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGACGTC
* *
31748638 CCATGTAAGACCATGTCTGGGACATGGCGTTCGCACCGAGATGAGA-GATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGACG-TC
** * * *
31748688 CCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAGAAC-TC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG-ACGTC
* * * * * *
31748738 CCATGTAAGACCATATCTGGGATATGGCATTTGCA--GTACATGAAACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGACGTC
* *
31748787 CCATGTATGACCATGTCTGGGACATGGCTTTGGCA
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA
31748822 TGTTATTATC
Statistics
Matches: 205, Mismatches: 24, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
48 3 0.01
49 38 0.19
50 123 0.60
51 1 0.00
53 3 0.01
55 2 0.01
56 35 0.17
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGACGTC
Done.