Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 34 of 325
Found at i:8154306 original size:29 final size:29
Alignment explanation
Indices: 8154268--8154324 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
8154258 ATGGAAGAGG
* *
8154268 TGAAGAACTTGTTCGTTGAGAGTTCGTGA
1 TGAAGAACTTGTTCATTGAGAATTCGTGA
8154297 TGAAGAACTTGTTCATTGAGAATTCGTG
1 TGAAGAACTTGTTCATTGAGAATTCGTG
8154325 TCAATGTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.35
Consensus pattern (29 bp):
TGAAGAACTTGTTCATTGAGAATTCGTGA
Found at i:8156204 original size:20 final size:20
Alignment explanation
Indices: 8156179--8156221 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8156169 TTTTATAAGA
**
8156179 TAATATAATGTTAAAATAAT
1 TAATATAAAATTAAAATAAT
*
8156199 TAATATAAAATTGAAATAAT
1 TAATATAAAATTAAAATAAT
8156219 TAA
1 TAA
8156222 AAATATTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (20 bp):
TAATATAAAATTAAAATAAT
Found at i:8161107 original size:93 final size:93
Alignment explanation
Indices: 8160948--8161139 Score: 366
Period size: 93 Copynumber: 2.1 Consensus size: 93
8160938 GTATAATGCA
*
8160948 CTTTTGTGGTGGATGCAATAATCTTTAGATATTTTATTAATTTGGAAGTTTATGAAAATTTTGAC
1 CTTTTTTGGTGGATGCAATAATCTTTAGATATTTTATTAATTTGGAAGTTTATGAAAATTTTGAC
8161013 ATGAGCCTAATGATTATTGTTGTTACAG
66 ATGAGCCTAATGATTATTGTTGTTACAG
*
8161041 CTTTTTTGGTGGATGCAATAGTCTTTAGATATTTTATTAATTTGGAAGTTTATGAAAATTTTGAC
1 CTTTTTTGGTGGATGCAATAATCTTTAGATATTTTATTAATTTGGAAGTTTATGAAAATTTTGAC
8161106 ATGAGCCTAATGATTATTGTTGTTACAG
66 ATGAGCCTAATGATTATTGTTGTTACAG
8161134 CTTTTT
1 CTTTTT
8161140 ATATGAACCA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 97 1.00
ACGTcount: A:0.28, C:0.08, G:0.19, T:0.46
Consensus pattern (93 bp):
CTTTTTTGGTGGATGCAATAATCTTTAGATATTTTATTAATTTGGAAGTTTATGAAAATTTTGAC
ATGAGCCTAATGATTATTGTTGTTACAG
Found at i:8162928 original size:43 final size:43
Alignment explanation
Indices: 8162846--8162928 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
8162836 ATCTGCAAAT
* *
8162846 TGCTATGTATCCACAGCCAAAGGCAGATTCCATCTGCGGGTAC
1 TGCTATGTATCCACAACCAAAGGCAGATTCCATCGGCGGGTAC
**
8162889 TGCTATGTATCCACAACCAAAGGTTGATTCCAAT-GGCGGG
1 TGCTATGTATCCACAACCAAAGGCAGATTCC-ATCGGCGGG
8162929 GTTTATGCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 33 0.94
44 2 0.06
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (43 bp):
TGCTATGTATCCACAACCAAAGGCAGATTCCATCGGCGGGTAC
Found at i:8163846 original size:15 final size:16
Alignment explanation
Indices: 8163828--8163860 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8163818 ATCTCAAAAG
*
8163828 AATAAAGATAA-CAAA
1 AATAAAGAAAACCAAA
8163843 AATAAAGAAAACCAAA
1 AATAAAGAAAACCAAA
8163859 AA
1 AA
8163861 CTCCTGAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.76, C:0.09, G:0.06, T:0.09
Consensus pattern (16 bp):
AATAAAGAAAACCAAA
Found at i:8180275 original size:29 final size:29
Alignment explanation
Indices: 8180206--8180263 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
8180196 ATCTTAGTTT
8180206 AATAAATGAGTTGCTGGACATTTATTCAA
1 AATAAATGAGTTGCTGGACATTTATTCAA
8180235 AATAAATGAGTTGCTGGACATTTATTCAA
1 AATAAATGAGTTGCTGGACATTTATTCAA
8180264 CTCATCTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.34
Consensus pattern (29 bp):
AATAAATGAGTTGCTGGACATTTATTCAA
Found at i:8182745 original size:6 final size:6
Alignment explanation
Indices: 8182736--8182762 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8182726 AAAAAGAAAA
8182736 TGAGAT TGAGAT TGAGAT TGAGAT TGA
1 TGAGAT TGAGAT TGAGAT TGAGAT TGA
8182763 AAAAGAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (6 bp):
TGAGAT
Found at i:8182773 original size:18 final size:18
Alignment explanation
Indices: 8182725--8182774 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
8182715 AAAAGAAAAC
*
8182725 GAAAAAGAAAATGAGATT
1 GAAAAAGAAATTGAGATT
* ** *
8182743 GAGATTGAGATTGAGATT
1 GAAAAAGAAATTGAGATT
8182761 GAAAAAGAAATTGA
1 GAAAAAGAAATTGA
8182775 AAAAGAGTTT
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.26, T:0.22
Consensus pattern (18 bp):
GAAAAAGAAATTGAGATT
Found at i:8184632 original size:19 final size:19
Alignment explanation
Indices: 8184608--8184646 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
8184598 TAAATTGAAG
8184608 TATGTTTGCTTTGCCCAAT
1 TATGTTTGCTTTGCCCAAT
8184627 TATGTTTGCTTTGCCCAAT
1 TATGTTTGCTTTGCCCAAT
8184646 T
1 T
8184647 GAGATTATTG
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:0.15, C:0.21, G:0.15, T:0.49
Consensus pattern (19 bp):
TATGTTTGCTTTGCCCAAT
Found at i:8185744 original size:96 final size:96
Alignment explanation
Indices: 8185578--8185796 Score: 237
Period size: 96 Copynumber: 2.3 Consensus size: 96
8185568 TGAGATCCCA
* * * * *
8185578 TGTAAAACCATGTATGGGACATGGCATTGGCATCGAGATGAGATCTCGTATAAGACTATGTCTAG
1 TGTAAAACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGCTAGTATAAGACCATATCTAG
* *
8185643 GACATGGCATCGGCATTGATATGCG-TGCTAG
66 GACATGGCATCGACATCGATATGCGAT-CTAG
* * * *
8185674 TGTAATACCATGTCTGGGACATGGCATTGGCCTCGACG-TGTGAGCTAGTGTAAGACCATATCT-
1 TGTAAAACCATGTCTGGGACATGGCATTGGCATCGA-GATGAGAGCTAGTATAAGACCATATCTA
* * * *
8185737 GGAACATGGCATCGATATCGATATGTGATTTCG
65 GG-ACATGGCATCGACATCGATATGCGATCTAG
* *
8185770 TGTAAGACCATGTCTGGGACATAGCAT
1 TGTAAAACCATGTCTGGGACATGGCAT
8185797 CATTATGGGA
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
95 2 0.02
96 99 0.96
97 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (96 bp):
TGTAAAACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGCTAGTATAAGACCATATCTAG
GACATGGCATCGACATCGATATGCGATCTAG
Found at i:8185764 original size:48 final size:48
Alignment explanation
Indices: 8185578--8185797 Score: 206
Period size: 48 Copynumber: 4.6 Consensus size: 48
8185568 TGAGATCCCA
* * * * * * *
8185578 TGTAAAACCATGTATGGGACATGGCATTGGCATCGAGATGAGATCTCG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCTAG
* * * * * *
8185626 TATAAGACTATGTCTAGGACATGGCATCGGCATTGATATGCGTGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCTAG
* * * **
8185674 TGTAATACCATGTCTGGGACATGGCATTGGCCTCGACGTGTGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCTAG
* * ** ** *
8185722 TGTAAGACCATATCTGGAACATGGCATCGATATCGATATGTGATTTCG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCTAG
*
8185770 TGTAAGACCATGTCTGGGACATAGCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
8185798 ATTATGGGAC
Statistics
Matches: 134, Mismatches: 38, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
48 134 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCTAG
Found at i:8188039 original size:2 final size:2
Alignment explanation
Indices: 8188032--8188059 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8188022 TGATGTTAGC
8188032 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8188060 AAGCTAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8189829 original size:29 final size:31
Alignment explanation
Indices: 8189797--8189854 Score: 77
Period size: 29 Copynumber: 1.9 Consensus size: 31
8189787 TGTGCATTAT
*
8189797 ATATATATGCTGAA-TT-AAGT-TGTAAAAGA
1 ATATAAATG-TGAAGTTGAAGTATGTAAAAGA
8189826 ATATAAATGTGAAGTTGAAGTATGTAAAA
1 ATATAAATGTGAAGTTGAAGTATGTAAAA
8189855 TATAAACTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 4 0.16
31 7 0.28
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.33
Consensus pattern (31 bp):
ATATAAATGTGAAGTTGAAGTATGTAAAAGA
Found at i:8195161 original size:21 final size:20
Alignment explanation
Indices: 8195134--8195182 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
8195124 AATAGAAATT
*
8195134 ATGAATGAC-AGGAAATTGTC
1 ATGAATGACAAGG-AATTGAC
8195154 AGTGAATGACAAGGAATTGAC
1 A-TGAATGACAAGGAATTGAC
8195175 ATGAATGA
1 ATGAATGA
8195183 TTCTATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 8 0.31
21 15 0.58
22 3 0.12
ACGTcount: A:0.43, C:0.08, G:0.27, T:0.22
Consensus pattern (20 bp):
ATGAATGACAAGGAATTGAC
Found at i:8202117 original size:21 final size:21
Alignment explanation
Indices: 8202093--8202157 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
8202083 CTTTCTATTT
8202093 AGCTCTTATGAGCTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
*
8202114 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
*
8202135 AGCT-TT-TGAGCTTCTGTTT
1 AGCTCTTATGAGCTTCTGTTC
8202154 AGCT
1 AGCT
8202158 TTCAAGCTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.37
20 2 0.05
21 24 0.59
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (21 bp):
AGCTCTTATGAGCTTCTGTTC
Found at i:8202147 original size:19 final size:19
Alignment explanation
Indices: 8202102--8202171 Score: 95
Period size: 19 Copynumber: 3.6 Consensus size: 19
8202092 TAGCTCTTAT
8202102 GAGCTTCTGTTCAGCTCTTAC
1 GAGCTTCTGTTCAGCT-TT-C
*
8202123 GAGCTTCTGTTCAGCTTTT
1 GAGCTTCTGTTCAGCTTTC
*
8202142 GAGCTTCTGTTTAGCTTTC
1 GAGCTTCTGTTCAGCTTTC
*
8202161 AAGCTTCTGTT
1 GAGCTTCTGTT
8202172 GGCATATTCG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 27 0.60
20 2 0.04
21 16 0.36
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (19 bp):
GAGCTTCTGTTCAGCTTTC
Found at i:8202369 original size:21 final size:19
Alignment explanation
Indices: 8202343--8202390 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 19
8202333 AATAGATGTT
*
8202343 ATGAATGACAGGAAATTGTC
1 ATGAATGACAGG-AATTGAC
8202363 AATGAATGACAGGAATTGAC
1 -ATGAATGACAGGAATTGAC
8202383 ATGAATGA
1 ATGAATGA
8202391 TTTTATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 8 0.31
20 6 0.23
21 12 0.46
ACGTcount: A:0.44, C:0.08, G:0.25, T:0.23
Consensus pattern (19 bp):
ATGAATGACAGGAATTGAC
Found at i:8204914 original size:93 final size:93
Alignment explanation
Indices: 8204804--8204976 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
8204794 CGCCCATAAG
*
8204804 CGAACTCAAACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAAACTCAACTCAACGAGCTCGGACGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
*
8204869 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAATTCGGATGCCTAGTTACATTTCA
** * *
8204897 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTATCCATAAGTGAACTCGGACTCAATTCA
1 CGAACTCAAACTCAACTCAACGAGCTCGGACGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
8204962 ACGAATTCGGATGCC
66 ACGAATTCGGATGCC
8204977 CAAATATCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCAAACTCAACTCAACGAGCTCGGACGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
ACGAATTCGGATGCCTAGTTACATTTCA
Found at i:8204972 original size:46 final size:46
Alignment explanation
Indices: 8204797--8204972 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
8204787 TGTAACCCGC
** * *
8204797 CCATAAGCGAACTCAAACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTAT
* * * *
8204843 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGT-T
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGTAT
* *
8204889 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTAT
* * *
8204936 CCATAAGTGAACTCGGACTCAATTCAACGAATTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
8204973 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
45 2 0.02
46 66 0.62
47 36 0.34
48 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTAT
Found at i:8205083 original size:38 final size:38
Alignment explanation
Indices: 8205032--8205108 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
8205022 TCGTACTCCT
*
8205032 TTACCATTCTCCTTGGAATACTAATGACGATACTTTGG
1 TTACCATTCTCCTTGGAATACCAATGACGATACTTTGG
8205070 TTACCATTCTCCTTGGAATACCAATGACGATACTTTGG
1 TTACCATTCTCCTTGGAATACCAATGACGATACTTTGG
8205108 T
1 T
8205109 AGTCTTTCAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (38 bp):
TTACCATTCTCCTTGGAATACCAATGACGATACTTTGG
Found at i:8211741 original size:25 final size:25
Alignment explanation
Indices: 8211712--8211773 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
8211702 ATTGACTCCT
* *
8211712 TTAAAAATTATAAAGATATAGACTA
1 TTAAAAATTATAAAAATATAAACTA
8211737 TTAAAAATTATAAAAATATAAACTA
1 TTAAAAATTATAAAAATATAAACTA
8211762 TTAAAAATTATA
1 TTAAAAATTATA
8211774 CTTTGCCACT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (25 bp):
TTAAAAATTATAAAAATATAAACTA
Found at i:8214887 original size:9 final size:9
Alignment explanation
Indices: 8214870--8214906 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
8214860 TGAGTTTTCG
8214870 AATTCGAAT
1 AATTCGAAT
*
8214879 AACTCGAAT
1 AATTCGAAT
8214888 AATTCGAAT
1 AATTCGAAT
*
8214897 GATTCGAAT
1 AATTCGAAT
8214906 A
1 A
8214907 TCAAACAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:8215323 original size:19 final size:20
Alignment explanation
Indices: 8215287--8215324 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
8215277 TTATTGCCCA
* *
8215287 AAACTTTTTATTTTTCACCT
1 AAACTTTTTACTTCTCACCT
8215307 AAAC-TTTTACTTCTCACC
1 AAACTTTTTACTTCTCACC
8215325 CTTTATTCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.47
Consensus pattern (20 bp):
AAACTTTTTACTTCTCACCT
Found at i:8227175 original size:41 final size:41
Alignment explanation
Indices: 8227130--8227214 Score: 125
Period size: 41 Copynumber: 2.1 Consensus size: 41
8227120 CTTTGTCTTC
* * *
8227130 TTTGTAACATTTCCAAATTCGGCTATAACGTCTAGGCTGGG
1 TTTGTAACATTTCCAAATTCAGCCATAACGTCTAGGCCGGG
* *
8227171 TTTGTAACATTTCCAAATTTAGCCATAATGTCTAGGCCGGG
1 TTTGTAACATTTCCAAATTCAGCCATAACGTCTAGGCCGGG
8227212 TTT
1 TTT
8227215 AAGGTGTTAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (41 bp):
TTTGTAACATTTCCAAATTCAGCCATAACGTCTAGGCCGGG
Found at i:8231389 original size:3 final size:3
Alignment explanation
Indices: 8231381--8231434 Score: 99
Period size: 3 Copynumber: 17.7 Consensus size: 3
8231371 AAATGGATAG
8231381 AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8231427 AAT AAT AA
1 AAT AAT AA
8231435 AAAACTATAT
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 47 0.94
4 3 0.06
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8234199 original size:493 final size:492
Alignment explanation
Indices: 8233272--8234219 Score: 1583
Period size: 493 Copynumber: 1.9 Consensus size: 492
8233262 TCAAATGTTT
* *
8233272 TGTAACACCCCAAACCCGGCCTAGACGTTATGGCTGAATCAAGCTGCGTCACATGAGAGTACTTT
1 TGTAACACCCCAAACCCGGCCTAGACGTTATGGCCGAATCAAGCGGCGTCACATGAGAGTACTTT
* * *
8233337 TAGGGAACCCTTTTAGAAAACCTTATCAAGTGAAAATAGTGAAGTTTATTATCTTTACTTAAGTT
66 TAGGAAACCCTTTTAAAAAACCTTATCAAGTGAAAATAGTGAAGTTTATTATCTTTACTTAAATT
* * * *
8233402 GGGAAATCTCTCTTCCAATTATTACGTGAAAACATTTAATTAACGCGGAAGCTAAACCTTCGTTA
131 GGGAAATCTCTATTCCAATTATTACGTGAAAACATTTAATTAACGCGAAAGCTAAACATTCATTA
*
8233467 ATTCATAAATAAAAAATTTAACAATTTAAAATCCCAAAATAAACCCAAGAATAGTTTGAGCCCAA
196 ATTCATAAATAAAAAATTTAACAATTTAAAATCCCAAAATAAACCCAAGAATAGTTCGAGCCCAA
8233532 ATACATATTAATCCCAAAACATATATTTAAGTAAAGCAGGCAAAATAAAGTGTTACACAAAAATC
261 ATACATATTAATCCCAAAACATATATTTAAGTAAAGCAGGCAAAATAAAGTGTTACACAAAAATC
* * * * *
8233597 CGTAAATGTCTACCGGTGGTCACCATCGAGTCCTCCGTAACACCGATCTATCTACTGTTGAGGAT
326 CGAAAATGTCTACCAGTGGTCACCATCGAGTCCTCCATAACACCGATCCATCTACTGCTGAGGAT
8233662 TACCTGACAAACAAAATAAACAAAAGGGTGAGTTTTCACAAACTCAGTGTGTACATCCCCACAAA
391 TACCTGACAAACAAAATAAACAAAAGGGTGAGTTTTCACAAACTCAGTGTGTACATCCCCACAAA
8233727 TAGCCGAGTTTTGAACCCGGGCTCTGATACCACTAAA
456 TAGCCGAGTTTTGAACCCGGGCTCTGATACCACTAAA
* * ** *
8233764 TGTAACACCCTAAACTCGGCCTAGACGTTATGGCCGAATCTGGCGGCGTCACATTAGAGTACTTT
1 TGTAACACCCCAAACCCGGCCTAGACGTTATGGCCGAATCAAGCGGCGTCACATGAGAGTACTTT
* **
8233829 TAGGAAACCCTTTTAAAAAACCTTATCAAGTGAAAAATCGTTCAGTTTATTATCTTTACTTAAAT
66 TAGGAAACCCTTTTAAAAAACCTTATCAAGTG-AAAATAGTGAAGTTTATTATCTTTACTTAAAT
* *
8233894 TGGGAAATCTCTATTCCAATTATTATGTGAAAACATTTCATTAACGCGAAAGCTAAA-ATATCAT
130 TGGGAAATCTCTATTCCAATTATTACGTGAAAACATTTAATTAACGCGAAAGCTAAACAT-TCAT
8233958 TAATTCATAAATAAAAAATTTAACAATTTAAAATCCCAAAATAAACCCAAGAATAGTTCGAGCCC
194 TAATTCATAAATAAAAAATTTAACAATTTAAAATCCCAAAATAAACCCAAGAATAGTTCGAGCCC
*
8234023 AAATACATATTAATCCCAAAACATATATTTAAGTAAAGCATGCAAAATAAAGTGTTACACAAAAA
259 AAATACATATTAATCCCAAAACATATATTTAAGTAAAGCAGGCAAAATAAAGTGTTACACAAAAA
* * *
8234088 TCCGAAAATGTCTACCAGTGGTCACCATCGAGTTCTCTATCACACCGATCCATCTACTGCTGAGG
324 TCCGAAAATGTCTACCAGTGGTCACCATCGAGTCCTCCATAACACCGATCCATCTACTGCTGAGG
** *
8234153 ATTATTTGACAAACAAAATAAACAAAAGGGTGAGTTTTCGCAAACTCAGTGTGTACATCCCCACA
389 ATTACCTGACAAACAAAATAAACAAAAGGGTGAGTTTTCACAAACTCAGTGTGTACATCCCCACA
8234218 AA
454 AA
8234220 CAGCATGCAT
Statistics
Matches: 422, Mismatches: 32, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
492 89 0.21
493 333 0.79
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.27
Consensus pattern (492 bp):
TGTAACACCCCAAACCCGGCCTAGACGTTATGGCCGAATCAAGCGGCGTCACATGAGAGTACTTT
TAGGAAACCCTTTTAAAAAACCTTATCAAGTGAAAATAGTGAAGTTTATTATCTTTACTTAAATT
GGGAAATCTCTATTCCAATTATTACGTGAAAACATTTAATTAACGCGAAAGCTAAACATTCATTA
ATTCATAAATAAAAAATTTAACAATTTAAAATCCCAAAATAAACCCAAGAATAGTTCGAGCCCAA
ATACATATTAATCCCAAAACATATATTTAAGTAAAGCAGGCAAAATAAAGTGTTACACAAAAATC
CGAAAATGTCTACCAGTGGTCACCATCGAGTCCTCCATAACACCGATCCATCTACTGCTGAGGAT
TACCTGACAAACAAAATAAACAAAAGGGTGAGTTTTCACAAACTCAGTGTGTACATCCCCACAAA
TAGCCGAGTTTTGAACCCGGGCTCTGATACCACTAAA
Found at i:8234403 original size:40 final size:40
Alignment explanation
Indices: 8234343--8234438 Score: 115
Period size: 40 Copynumber: 2.5 Consensus size: 40
8234333 ATCTCCGTCT
* *
8234343 AACCCAACACA-C-TATGTGGGGATAAAATCGACCCACCC
1 AACCCTACACACCATATATGGGGATAAAATCGACCCACCC
** * * *
8234381 ATTCCTGCACACCATATATGGGGATATAATCGACCCATCC
1 AACCCTACACACCATATATGGGGATAAAATCGACCCACCC
8234421 AACCCTACACACCATATA
1 AACCCTACACACCATATA
8234439 GTACCGTATC
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
38 7 0.15
39 1 0.02
40 38 0.83
ACGTcount: A:0.35, C:0.33, G:0.12, T:0.19
Consensus pattern (40 bp):
AACCCTACACACCATATATGGGGATAAAATCGACCCACCC
Found at i:8246599 original size:11 final size:12
Alignment explanation
Indices: 8246581--8246616 Score: 63
Period size: 12 Copynumber: 2.9 Consensus size: 12
8246571 TAACCCAATC
8246581 CAAAAAAAAAAT
1 CAAAAAAAAAAT
8246593 CAAAAAAAAAAT
1 CAAAAAAAAAAT
8246605 CAAAAAAGAAAA
1 CAAAAAA-AAAA
8246617 AACCTAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 19 0.83
13 4 0.17
ACGTcount: A:0.83, C:0.08, G:0.03, T:0.06
Consensus pattern (12 bp):
CAAAAAAAAAAT
Found at i:8246830 original size:22 final size:24
Alignment explanation
Indices: 8246804--8246853 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
8246794 TATTTTGGAG
8246804 AGAAGA-A-ATTTTTTGAGATTCA
1 AGAAGAGATATTTTTTGAGATTCA
*
8246826 AGAAGAGATTTTTTTTTGAGATTCA
1 AGAAGAGA-TATTTTTTGAGATTCA
8246851 AGA
1 AGA
8246854 GGGGATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 6 0.25
23 1 0.04
25 17 0.71
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (24 bp):
AGAAGAGATATTTTTTGAGATTCA
Found at i:8246846 original size:25 final size:25
Alignment explanation
Indices: 8246812--8246868 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 25
8246802 AGAGAAGAAA
8246812 TTTTTTGAGATTCAAGAAGAGATTT
1 TTTTTTGAGATTCAAGAAGAGATTT
* *
8246837 TTTTTTGAGATTCAAGAGGGGATTT
1 TTTTTTGAGATTCAAGAAGAGATTT
8246862 TTCTTTT
1 TT-TTTT
8246869 TTTTGAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.25, C:0.05, G:0.21, T:0.49
Consensus pattern (25 bp):
TTTTTTGAGATTCAAGAAGAGATTT
Found at i:8246862 original size:22 final size:22
Alignment explanation
Indices: 8246804--8246863 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 22
8246794 TATTTTGGAG
*
8246804 AGAAGAAATTTTTTGAGATTCA
1 AGAAGAGATTTTTTGAGATTCA
8246826 AGAAGAGATTTTTTTTTGAGATTCA
1 AGAAGAGA---TTTTTTGAGATTCA
* *
8246851 AGAGGGGATTTTT
1 AGAAGAGATTTTT
8246864 CTTTTTTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
22 12 0.38
25 20 0.62
ACGTcount: A:0.33, C:0.03, G:0.23, T:0.40
Consensus pattern (22 bp):
AGAAGAGATTTTTTGAGATTCA
Found at i:8247349 original size:3 final size:3
Alignment explanation
Indices: 8247341--8247378 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
8247331 TGCATTTTAA
8247341 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
8247379 GTGTATATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:8247480 original size:3 final size:3
Alignment explanation
Indices: 8247472--8247504 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
8247462 TGTATTTCTA
8247472 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8247505 ATGGTAGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8247630 original size:16 final size:15
Alignment explanation
Indices: 8247599--8247641 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
8247589 CCTTCATTCC
*
8247599 ATTATTATTATTACT
1 ATTATTATTTTTACT
8247614 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
8247630 ATCATTATTTTT
1 ATTATTATTTTT
8247642 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:8247766 original size:16 final size:16
Alignment explanation
Indices: 8247745--8247776 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8247735 CTATTGTTAC
8247745 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
8247761 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
8247777 ATTATTATAA
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:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:8247818 original size:11 final size:13
Alignment explanation
Indices: 8247788--8247819 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
8247778 TTATTATAAT
8247788 TTATTATTGTTAC
1 TTATTATTGTTAC
8247801 TTATTATT-TTAC
1 TTATTATTGTTAC
8247813 -TATTATT
1 TTATTATT
8247820 ATCTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 4 0.21
13 8 0.42
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (13 bp):
TTATTATTGTTAC
Found at i:8248017 original size:22 final size:22
Alignment explanation
Indices: 8247987--8248047 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
8247977 TTATTATATC
*
8247987 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATTATTGTTATA
* * *
8248009 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATTATTGTTATA
* *
8248031 TTTTCCT-TTATTTTTGT
1 TTTTACTATTATTATTGT
8248048 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTTACTATTATTATTGTTATA
Found at i:8248021 original size:3 final size:3
Alignment explanation
Indices: 8247776--8248002 Score: 69
Period size: 3 Copynumber: 76.3 Consensus size: 3
8247766 TTCTCATCAC
* * *
8247776 TAT TAT TAT AATT TAT TAT TGT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
8247822 CTAA TA- TAT CAT CAT TAT CAT TAT T-T TCAT TAT AACT TAA TA- GAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
* * * * *
8247867 CAT TAT TAT TAT TAT TAT TAT TAT TAT TAG CAC TACT T-T TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* * * ** * * *
8247912 TAT TAT T-T AAT ATAT TAT TTT TAC TAT TAT CGT CA- TAT TGT TAC
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
8247956 TAT TAC TAT TA- TAT TAT TA- TGT TAT TA- TAT CTTT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
8247999 TAT T
1 TAT T
8248003 GTTGTATTTT
Statistics
Matches: 160, Mismatches: 46, Indels: 36
0.66 0.19 0.15
Matches are distributed among these distances:
2 16 0.10
3 128 0.80
4 16 0.10
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:8260287 original size:205 final size:205
Alignment explanation
Indices: 8259935--8260929 Score: 1728
Period size: 205 Copynumber: 4.9 Consensus size: 205
8259925 GTAATAGGCC
* * *
8259935 ACACATAGCAGATCTCGCCTTCAGACGATTTCA--CTGAAGCAGATCCAAGATGGTTTGGCATCC
1 ACACATAGCAGATCTCACCTTCAGATG-TTT-ATGCTGAAGCGGATCCAAGATGGTTTGGCATCC
8259998 TTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCA
64 TTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCA
8260063 AATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTT
129 AATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTT
8260128 GATGGAGAGCAG
194 GATGGAGAGCAG
8260140 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
*
8260205 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTATGATGAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
8260270 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
8260335 TGGAGAGCAG
196 TGGAGAGCAG
* *
8260345 ACACATAGCAGATCTCACCTTCAGATGATTT-CGCTGAAGCAGATCCAAGATGGTTTGGCATCCT
1 ACACATAGCAGATCTCACCTTCAGATG-TTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCT
8260409 TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAA
65 TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAA
8260474 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
130 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
8260539 ATGGAGAGCAG
195 ATGGAGAGCAG
8260550 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
8260615 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
8260680 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
8260745 TGGAGAGCAG
196 TGGAGAGCAG
* *
8260755 ACACATAGCAGATCTCACCTTCGGATGTTTATGCTGAAGCGGATCCAAGATGGATTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
* * * * ** * * *
8260820 ATGCTTACAAGGAACAAATCGAA-TCATAGTTGATTTGGCTTTCGCGTGCTTACGTTAAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
* * * * * *
8260884 TCTAAGATGATTTGGCATCTCTGTATTGTCAGGGATCAAATCGAAG
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAG
8260930 AAATAAATCT
Statistics
Matches: 760, Mismatches: 26, Indels: 9
0.96 0.03 0.01
Matches are distributed among these distances:
203 1 0.00
204 80 0.11
205 676 0.89
206 3 0.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (205 bp):
ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
TGGAGAGCAG
Found at i:8261061 original size:44 final size:43
Alignment explanation
Indices: 8260983--8261068 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 43
8260973 GATTTCAGCA
* *
8260983 TGGCATCCCTGTGTTTATAAGGAGCAAGTTGAAGACAGCAGATT
1 TGGCATCCCTGTGTTTATAAGGAACAAGTCGAAGA-AGCAGATT
**
8261027 TGGCATCCCTGTGTTTATGGGGAAC-AGATCGAAGAAGCAGAT
1 TGGCATCCCTGTGTTTATAAGGAACAAG-TCGAAGAAGCAGAT
8261069 CAAGAACTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 9 0.24
44 28 0.76
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (43 bp):
TGGCATCCCTGTGTTTATAAGGAACAAGTCGAAGAAGCAGATT
Found at i:8261296 original size:14 final size:13
Alignment explanation
Indices: 8261277--8261313 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
8261267 AACCCAACCC
8261277 AAAAAAAAAATCA
1 AAAAAAAAAATCA
8261290 AAAAAAAAAATCA
1 AAAAAAAAAATCA
8261303 AAAAAGAAAAA
1 AAAAA-AAAAA
8261314 ACCTAATCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.86, C:0.05, G:0.03, T:0.05
Consensus pattern (13 bp):
AAAAAAAAAATCA
Found at i:8261520 original size:22 final size:24
Alignment explanation
Indices: 8261494--8261542 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
8261484 TATTTTGGAG
8261494 AGAAGA-A-ATTTTTTGAGATTCA
1 AGAAGAGATATTTTTTGAGATTCA
*
8261516 AGAAGAGATTTTTTTTGAGATTCA
1 AGAAGAGATATTTTTTGAGATTCA
8261540 AGA
1 AGA
8261543 GGGGATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 6 0.25
23 1 0.04
24 17 0.71
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (24 bp):
AGAAGAGATATTTTTTGAGATTCA
Found at i:8261534 original size:24 final size:24
Alignment explanation
Indices: 8261502--8261552 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
8261492 AGAGAAGAAA
8261502 TTTTTTGAGATTCAAGAAGAGATT
1 TTTTTTGAGATTCAAGAAGAGATT
* *
8261526 TTTTTTGAGATTCAAGAGGGGATT
1 TTTTTTGAGATTCAAGAAGAGATT
8261550 TTT
1 TTT
8261553 CTTTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.04, G:0.24, T:0.45
Consensus pattern (24 bp):
TTTTTTGAGATTCAAGAAGAGATT
Found at i:8261551 original size:21 final size:22
Alignment explanation
Indices: 8261494--8261552 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 22
8261484 TATTTTGGAG
*
8261494 AGAAGAAATTTTTTGAGATTCA
1 AGAAGAGATTTTTTGAGATTCA
8261516 AGAAGAGATTTTTTTTGAGATTCA
1 AGAAGAGA--TTTTTTGAGATTCA
* *
8261540 AGAGGGGATTTTT
1 AGAAGAGATTTTT
8261553 CTTTTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 12 0.38
24 20 0.62
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (22 bp):
AGAAGAGATTTTTTGAGATTCA
Found at i:8262039 original size:3 final size:3
Alignment explanation
Indices: 8262031--8262074 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
8262021 TGCATTTTAA
8262031 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
8262075 GTGTATATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:8262178 original size:3 final size:3
Alignment explanation
Indices: 8262170--8262201 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
8262160 TATTTCTATA
8262170 TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8262202 ATATGGTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:8262329 original size:16 final size:15
Alignment explanation
Indices: 8262298--8262340 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
8262288 CCTTCATTCC
*
8262298 ATTATTATTATTACT
1 ATTATTATTTTTACT
8262313 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
8262329 ATCATTATTTTT
1 ATTATTATTTTT
8262341 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:8262465 original size:16 final size:16
Alignment explanation
Indices: 8262444--8262475 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8262434 CTATTGTTAC
8262444 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
8262460 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
8262476 ATTATTATAA
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:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:8262517 original size:11 final size:13
Alignment explanation
Indices: 8262487--8262518 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
8262477 TTATTATAAT
8262487 TTATTATTGTTAC
1 TTATTATTGTTAC
8262500 TTATTATT-TTAC
1 TTATTATTGTTAC
8262512 -TATTATT
1 TTATTATT
8262519 ATCTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 4 0.21
13 8 0.42
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (13 bp):
TTATTATTGTTAC
Found at i:8262719 original size:22 final size:22
Alignment explanation
Indices: 8262689--8262749 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
8262679 TTATTATATC
*
8262689 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATTATTGTTATA
* * *
8262711 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATTATTGTTATA
* *
8262733 TTTTCCT-TTATTTTTGT
1 TTTTACTATTATTATTGT
8262750 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTTACTATTATTATTGTTATA
Found at i:8262723 original size:3 final size:3
Alignment explanation
Indices: 8262475--8262704 Score: 66
Period size: 3 Copynumber: 77.3 Consensus size: 3
8262465 TTCTCATCAC
* * *
8262475 TAT TAT TAT AATT TAT TAT TGT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
8262521 CTAA TA- TAT CAT CAT TAT CAT TAT T-T TCAT TAT AACT TAA TA- GAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
* * * * *
8262566 CAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAG CAC TACT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* * * * ** * *
8262611 TAC TAT TAT T-T AAT ATAT TAT TTT TAC TAT TAT CGT CA- TAT TGT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
8262655 TAC TAT TAC TAT TA- TAT TAT TA- TGT TAT TA- TAT CTTT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
8262698 TAT TAT T
1 TAT TAT T
8262705 GTTGTATTTT
Statistics
Matches: 163, Mismatches: 46, Indels: 36
0.67 0.19 0.15
Matches are distributed among these distances:
2 16 0.10
3 131 0.80
4 16 0.10
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:8266690 original size:6 final size:6
Alignment explanation
Indices: 8266679--8266706 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
8266669 TACATAATGC
8266679 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
8266707 CTATGTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:8267327 original size:25 final size:26
Alignment explanation
Indices: 8267299--8267353 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
8267289 GCAAAATTTT
* * *
8267299 ATAATAATA-TTTATATTAATATTAA
1 ATAAAAATATTTTATATTAAAATAAA
*
8267324 ATAAAAATATTTTTTATTAAAATAAA
1 ATAAAAATATTTTATATTAAAATAAA
8267350 ATAA
1 ATAA
8267354 CCCCACCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
ATAAAAATATTTTATATTAAAATAAA
Found at i:8275149 original size:15 final size:15
Alignment explanation
Indices: 8275129--8275157 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8275119 CTTTGTTTGA
8275129 CTATTTATTTATGTT
1 CTATTTATTTATGTT
8275144 CTATTTATTTATGT
1 CTATTTATTTATGT
8275158 GTAATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (15 bp):
CTATTTATTTATGTT
Found at i:8279154 original size:29 final size:30
Alignment explanation
Indices: 8279107--8279174 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
8279097 TGGCCCAAGA
* *
8279107 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
8279137 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
8279167 GCAAATAT
1 GTAAATAT
8279175 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:8281651 original size:46 final size:46
Alignment explanation
Indices: 8281598--8281918 Score: 482
Period size: 46 Copynumber: 7.0 Consensus size: 46
8281588 AGTGTGCTCT
* *
8281598 CTGATATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
8281644 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
8281690 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGTAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
8281736 CTGATATGAAATGTGTAAGACCATGGTTGGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTT-GAAAGATACCATGGCAAC
* * *
8281783 CTGATACGAAATGTGCAAGACCATGGTTGAAAGATACTATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
8281829 CTGATATGAAATGTCTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
8281875 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
8281919 TCATGTCAAA
Statistics
Matches: 255, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
45 1 0.00
46 212 0.83
47 42 0.16
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:8281848 original size:139 final size:138
Alignment explanation
Indices: 8281598--8281918 Score: 482
Period size: 139 Copynumber: 2.3 Consensus size: 138
8281588 AGTGTGCTCT
* * * *
8281598 CTGATATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAGCCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATACGAAATGTGCAAG
* *
8281663 ACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTCTAAGACCATGGTTGAAAGATACC
* *
8281728 ATGGTAGC
131 ATGGCAAC
8281736 CTGATATGAAATGTGTAAGACCATGGTTGGAAAGATACCATGGCAACCTGATACGAAATGTGCAA
1 CTGATATGAAATGTGTAAGACCATGGTT-GAAAGATACCATGGCAACCTGATACGAAATGTGCAA
*
8281801 GACCATGGTTGAAAGATACTATGGCAACCTGATATGAAATGTCTAAGACCATGGTTGAAAGATAC
65 GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTCTAAGACCATGGTTGAAAGATAC
8281866 CATGGCAAC
130 CATGGCAAC
* * * * * *
8281875 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
8281919 TCATGTCAAA
Statistics
Matches: 166, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
138 43 0.26
139 123 0.74
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.23
Consensus pattern (138 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATACGAAATGTGCAAG
ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTCTAAGACCATGGTTGAAAGATACC
ATGGCAAC
Found at i:8287662 original size:24 final size:24
Alignment explanation
Indices: 8287635--8287681 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
8287625 TTTAGAAAAT
8287635 TTTGTATTTA-CGTTTTGAGGGTTC
1 TTTGTATTTAGCGTTTT-AGGGTTC
* *
8287659 TTTGTTTTTAGGGTTTTAGGGTT
1 TTTGTATTTAGCGTTTTAGGGTT
8287682 TAATTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.11, C:0.04, G:0.28, T:0.57
Consensus pattern (24 bp):
TTTGTATTTAGCGTTTTAGGGTTC
Found at i:8289438 original size:3 final size:3
Alignment explanation
Indices: 8289432--8289469 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
8289422 AGGTGCTTTC
8289432 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8289470 AAGATTGCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8290014 original size:32 final size:31
Alignment explanation
Indices: 8289970--8290033 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 31
8289960 AAAAAAAAAC
8289970 TATTTTTTTTACTATTTTCTTGCTGTT-TTT
1 TATTTTTTTTACTATTTTCTTGCTGTTCTTT
*
8290000 TATTGTTTTGTTACTATTTTCTTGTTGTTCTTT
1 TATT-TTTT-TTACTATTTTCTTGCTGTTCTTT
8290033 T
1 T
8290034 CACTATTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 4 0.13
31 4 0.13
32 18 0.60
33 4 0.13
ACGTcount: A:0.09, C:0.09, G:0.09, T:0.72
Consensus pattern (31 bp):
TATTTTTTTTACTATTTTCTTGCTGTTCTTT
Found at i:8293732 original size:14 final size:15
Alignment explanation
Indices: 8293713--8293745 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8293703 GTAACAAAAT
*
8293713 AAAT-AAAGTAATAA
1 AAATAAAAGAAATAA
8293727 AAATAAAAGAAATAA
1 AAATAAAAGAAATAA
8293742 AAAT
1 AAAT
8293746 GTAGTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (15 bp):
AAATAAAAGAAATAA
Found at i:8293991 original size:12 final size:12
Alignment explanation
Indices: 8293974--8294012 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
8293964 AGTAAAAGAT
8293974 AATAAATATATA
1 AATAAATATATA
*
8293986 AATAAATAAATAA
1 AATAAATATAT-A
8293999 AATAATATATATA
1 AATAA-ATATATA
8294012 A
1 A
8294013 GATCTATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 10 0.43
13 8 0.35
14 5 0.22
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AATAAATATATA
Found at i:8308981 original size:5 final size:5
Alignment explanation
Indices: 8308961--8308997 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
8308951 GAGCGTACAC
* *
8308961 ATTCT ACTCG ATTCT ATTCT ATTCT ATTCT ATTCT AT
1 ATTCT ATTCT ATTCT ATTCT ATTCT ATTCT ATTCT AT
8308998 AGTCTTCTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.22, C:0.22, G:0.03, T:0.54
Consensus pattern (5 bp):
ATTCT
Found at i:8309247 original size:14 final size:14
Alignment explanation
Indices: 8309225--8309254 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8309215 TTCATCTCCC
*
8309225 TTCATCTTTCACCT
1 TTCACCTTTCACCT
8309239 TTCACCTTTCACCT
1 TTCACCTTTCACCT
8309253 TT
1 TT
8309255 GATTTTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.37, G:0.00, T:0.50
Consensus pattern (14 bp):
TTCACCTTTCACCT
Found at i:8309794 original size:91 final size:91
Alignment explanation
Indices: 8309691--8309931 Score: 220
Period size: 91 Copynumber: 2.6 Consensus size: 91
8309681 ATACCAAAAT
* *
8309691 TTTCAGCAATTAAAACGGTCATTTAACAACTTTTGAACATCATTTAAATCACATTTAAGCATCAT
1 TTTCAACAATTAAAACCGTCATTTAACAACTTTTGAACATCATTTAAATCACATTTAAGCATCAT
* *
8309756 CTACA-CATACATTTAGACAACATAA-
66 -TAAAGCATACAATTAGACAACATAAC
* * * * * *
8309781 TTTCCAACTATTAAAACCG-CATATTAATATCTTTT-AGACATCATTTAAATCACCTTTGAGTAT
1 TTT-CAACAATTAAAACCGTCAT-TTAACAACTTTTGA-ACATCATTTAAATCACATTTAAGCAT
* *
8309844 CATTAAAGCATACAATTAGATACCATAAC
63 CATTAAAGCATACAATTAGACAACATAAC
* **** * * * * *
8309873 TTTCAAGAATTAAAGTTATTATCTGACCACTTTCGAACATCATTTAAATCACATTTAAG
1 TTTCAACAATTAAAACCGTCATTTAACAACTTTTGAACATCATTTAAATCACATTTAAG
8309932 TAGCACATTT
Statistics
Matches: 117, Mismatches: 27, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
90 10 0.09
91 101 0.86
92 6 0.05
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.34
Consensus pattern (91 bp):
TTTCAACAATTAAAACCGTCATTTAACAACTTTTGAACATCATTTAAATCACATTTAAGCATCAT
TAAAGCATACAATTAGACAACATAAC
Found at i:8311824 original size:42 final size:42
Alignment explanation
Indices: 8311778--8311923 Score: 233
Period size: 42 Copynumber: 3.5 Consensus size: 42
8311768 ATTTTATAGT
8311778 ATATCGATGCCAATAGCCCAG-CTATGGTCTTACACGAATCTC
1 ATATCGATGCCAATAGCCCAGAC-ATGGTCTTACACGAATCTC
* *
8311820 ATATCGATGCCAATATCCCAGACATGGTCTTACACAAATCTC
1 ATATCGATGCCAATAGCCCAGACATGGTCTTACACGAATCTC
8311862 ATATCGATGCCAAT-GTCCCAGACATGGTCTTACACGAATCTC
1 ATATCGATGCCAATAG-CCCAGACATGGTCTTACACGAATCTC
*
8311904 ATATCGATGCCAATATCCCA
1 ATATCGATGCCAATAGCCCA
8311924 TGCCAATGTC
Statistics
Matches: 96, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
42 95 0.99
43 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (42 bp):
ATATCGATGCCAATAGCCCAGACATGGTCTTACACGAATCTC
Found at i:8311948 original size:55 final size:55
Alignment explanation
Indices: 8311868--8311972 Score: 201
Period size: 55 Copynumber: 1.9 Consensus size: 55
8311858 TCTCATATCG
*
8311868 ATGCCAATGTCCCAGACATGGTCTTACACGAATCTCATATCGATGCCAATATCCC
1 ATGCCAATGTCCCAGACATGATCTTACACGAATCTCATATCGATGCCAATATCCC
8311923 ATGCCAATGTCCCAGACATGATCTTACACGAATCTCATATCGATGCCAAT
1 ATGCCAATGTCCCAGACATGATCTTACACGAATCTCATATCGATGCCAAT
8311973 GTTCCAGAGA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (55 bp):
ATGCCAATGTCCCAGACATGATCTTACACGAATCTCATATCGATGCCAATATCCC
Found at i:8311948 original size:97 final size:97
Alignment explanation
Indices: 8311826--8312005 Score: 306
Period size: 97 Copynumber: 1.9 Consensus size: 97
8311816 TCTCATATCG
*
8311826 ATGCCAATATCCCAGACATGGTCTTACACAAATCTCATATCGATGCCAATGTCCCAGACATGGTC
1 ATGCCAATATCCCAGACATGATCTTACACAAATCTCATATCGATGCCAATGTCCCAGACATGGTC
8311891 TTACACGAATCTCATATCGATGCCAATATCCC
66 TTACACGAATCTCATATCGATGCCAATATCCC
* * * *
8311923 ATGCCAATGTCCCAGACATGATCTTACACGAATCTCATATCGATGCCAATGTTCCAGAGATGGTC
1 ATGCCAATATCCCAGACATGATCTTACACAAATCTCATATCGATGCCAATGTCCCAGACATGGTC
*
8311988 TTACATGAATCTCATATC
66 TTACACGAATCTCATATC
8312006 CCAGTAATCC
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 77 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (97 bp):
ATGCCAATATCCCAGACATGATCTTACACAAATCTCATATCGATGCCAATGTCCCAGACATGGTC
TTACACGAATCTCATATCGATGCCAATATCCC
Found at i:8311980 original size:42 final size:42
Alignment explanation
Indices: 8311923--8312005 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
8311913 CCAATATCCC
8311923 ATGCCAATGTCCCAGACATGATCTTACACGAATCTCATATCG
1 ATGCCAATGTCCCAGACATGATCTTACACGAATCTCATATCG
* * * *
8311965 ATGCCAATGTTCCAGAGATGGTCTTACATGAATCTCATATC
1 ATGCCAATGTCCCAGACATGATCTTACACGAATCTCATATC
8312006 CCAGTAATCC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGATCTTACACGAATCTCATATCG
Found at i:8316858 original size:47 final size:47
Alignment explanation
Indices: 8316749--8316860 Score: 147
Period size: 47 Copynumber: 2.4 Consensus size: 47
8316739 CCGGGATAAG
* *
8316749 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGAAACAAATCCGGAACTTTAACAGTATAGTA
* * *
8316796 CACAAAGTACTTCATCGAAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGAAACAAATCCGGAACTTTAACAGTA-TAGTA
8316843 CACATAGTG-TCTCATCGA
1 CACATAGTGCT-TCATCGA
8316861 CTCAATGTCG
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGAAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:8320798 original size:37 final size:37
Alignment explanation
Indices: 8320748--8320822 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
8320738 ATCTTCGTAT
*
8320748 AAGATAGTTGGCATATTTTCCTGTAAAGGCAAATTAC
1 AAGATAGTTGGCATATTTTCCTATAAAGGCAAATTAC
8320785 AAGATAGTTGGCATATTTTCCTATAAAGGCAAATTAC
1 AAGATAGTTGGCATATTTTCCTATAAAGGCAAATTAC
8320822 A
1 A
8320823 TATCTTCTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.32
Consensus pattern (37 bp):
AAGATAGTTGGCATATTTTCCTATAAAGGCAAATTAC
Found at i:8338560 original size:31 final size:31
Alignment explanation
Indices: 8338494--8338560 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
8338484 ATTACTAAAC
*
8338494 TATTTAAAAGTTTTCATTTAAGTCACTGAAT
1 TATTTAAAAGTTTTCATTTAAGTCACTGAAA
* *
8338525 TATTTGAAAGTTTTTATTTAAGTCACT-AAGA
1 TATTTAAAAGTTTTCATTTAAGTCACTGAA-A
8338556 TATTT
1 TATTT
8338561 TCTTTAAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 2 0.06
31 30 0.94
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.48
Consensus pattern (31 bp):
TATTTAAAAGTTTTCATTTAAGTCACTGAAA
Found at i:8346858 original size:5 final size:5
Alignment explanation
Indices: 8346846--8346911 Score: 105
Period size: 5 Copynumber: 13.0 Consensus size: 5
8346836 AAGAAAATAT
* *
8346846 TATTA TGTTA TGTTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
8346896 TATTA TATTA TGATTA
1 TATTA TATTA T-ATTA
8346912 AAGTATAAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
5 54 0.93
6 4 0.07
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:8347145 original size:13 final size:13
Alignment explanation
Indices: 8347129--8347170 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
8347119 GAAACATGGG
8347129 AAAGAAAGAAGAA
1 AAAGAAAGAAGAA
8347142 AAAGAAAGAAAGAA
1 AAAGAAAG-AAGAA
* *
8347156 AAAGGAAGGAGAA
1 AAAGAAAGAAGAA
8347169 AA
1 AA
8347171 TTTAGGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAGAA
Found at i:8359649 original size:49 final size:49
Alignment explanation
Indices: 8359589--8359686 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
8359579 GCGTTAAATA
*
8359589 TATTATTTTATATGTAATGTTATATATTACTCATTAAAAAAAATTAGTT
1 TATTATCTTATATGTAATGTTATATATTACTCATTAAAAAAAATTAGTT
*
8359638 TATTATCTTATATGTAATGTTATATATTACTCTTTAAAAAAAATTAGTT
1 TATTATCTTATATGTAATGTTATATATTACTCATTAAAAAAAATTAGTT
8359687 AAACCACATT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.49
Consensus pattern (49 bp):
TATTATCTTATATGTAATGTTATATATTACTCATTAAAAAAAATTAGTT
Found at i:8361267 original size:14 final size:14
Alignment explanation
Indices: 8361248--8361274 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8361238 ATTGTGAAAT
8361248 GTTTGAAATTAATA
1 GTTTGAAATTAATA
8361262 GTTTGAAATTAAT
1 GTTTGAAATTAAT
8361275 TACTATATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (14 bp):
GTTTGAAATTAATA
Found at i:8364658 original size:14 final size:14
Alignment explanation
Indices: 8364639--8364665 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8364629 CAATTCCATC
8364639 TTCTTTTTTTTTTT
1 TTCTTTTTTTTTTT
8364653 TTCTTTTTTTTTT
1 TTCTTTTTTTTTT
8364666 ATTGTTCGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (14 bp):
TTCTTTTTTTTTTT
Found at i:8367563 original size:2 final size:2
Alignment explanation
Indices: 8367556--8367587 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8367546 ATTTCAATGT
8367556 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
8367588 TATATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:8369258 original size:13 final size:13
Alignment explanation
Indices: 8369242--8369275 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
8369232 GTTTCTCAAG
8369242 AATTTTTCAATGA
1 AATTTTTCAATGA
8369255 AATTTTT-AATGA
1 AATTTTTCAATGA
*
8369267 AAATTTTCA
1 AATTTTTCA
8369276 TTTTTTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (13 bp):
AATTTTTCAATGA
Found at i:8369265 original size:12 final size:14
Alignment explanation
Indices: 8369242--8369273 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
8369232 GTTTCTCAAG
8369242 AATTTTTCAATG-A
1 AATTTTTCAATGAA
8369255 AATTTTT-AATGAA
1 AATTTTTCAATGAA
8369268 AATTTT
1 AATTTT
8369274 CATTTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (14 bp):
AATTTTTCAATGAA
Found at i:8370339 original size:16 final size:15
Alignment explanation
Indices: 8370315--8370344 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
8370305 TACTAATGAC
8370315 AAAAAAAAAAAGAAA
1 AAAAAAAAAAAGAAA
8370330 AAAAAGAAAAAAGAA
1 AAAAA-AAAAAAGAA
8370345 TACTTGAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAGAAA
Found at i:8377391 original size:43 final size:43
Alignment explanation
Indices: 8377261--8377391 Score: 122
Period size: 43 Copynumber: 3.1 Consensus size: 43
8377251 AGCTCAAACA
* * * * *
8377261 ATGCC-ATATCCCAGATATGGTCTTACATGTAATCATATATCG
1 ATGCCAATGTCCCAGAAATGGTCTTACATGTAATCACATTTTG
* * * * * * *
8377303 ATGCCACTGTCCCATAAAGGGTCTTACACGAAATC-GATTAATG
1 ATGCCAATGTCCCAGAAATGGTCTTACATGTAATCACATT-TTG
*
8377346 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATTTTG
1 ATGCCAATGTCCCAGAAATGGTCTTACATGTAATCACATTTTG
8377389 ATG
1 ATG
8377392 ATCCTAATGT
Statistics
Matches: 67, Mismatches: 19, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
42 7 0.10
43 57 0.85
44 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (43 bp):
ATGCCAATGTCCCAGAAATGGTCTTACATGTAATCACATTTTG
Found at i:8384121 original size:22 final size:22
Alignment explanation
Indices: 8384096--8384137 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8384086 TTTCTTTCTT
8384096 TTCTTTGT-TTCTTTTTATTTCA
1 TTCTTT-TATTCTTTTTATTTCA
*
8384118 TTCTTTTATTTTTTTTATTT
1 TTCTTTTATTCTTTTTATTT
8384138 ACTTTGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.79
Consensus pattern (22 bp):
TTCTTTTATTCTTTTTATTTCA
Found at i:8388643 original size:19 final size:19
Alignment explanation
Indices: 8388619--8388659 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
8388609 AAATTTTATA
8388619 AAATATGGAAATAACACAC
1 AAATATGGAAATAACACAC
8388638 AAATATGGAAATAACACAC
1 AAATATGGAAATAACACAC
8388657 AAA
1 AAA
8388660 GTAAGCTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.61, C:0.15, G:0.10, T:0.15
Consensus pattern (19 bp):
AAATATGGAAATAACACAC
Found at i:8389015 original size:43 final size:43
Alignment explanation
Indices: 8388959--8389132 Score: 133
Period size: 43 Copynumber: 4.1 Consensus size: 43
8388949 TTCTCAAACA
* * *
8388959 ATGCC-ATATCCCAGATATGGTCTTACATGTAATCATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCATATATCG
* * * * **
8389001 ATGCCACTGTCCCAGATA-GGATCTTACACGAAAACGAT-TAAAG
1 ATGCCAATGTCCCAGACATGG-TCTTACACGTAATC-ATATATCG
* * *
8389044 TTGTCAATGTCCCAGACATGGTCTTACACGTAATC-TCA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAT-ATAT-CG
* * * *
8389087 ATGCCAATGTCCTAGACATGGTCTTACATGTAATCACATTTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCATATATCG
8389130 ATG
1 ATG
8389133 ATCCTAATGT
Statistics
Matches: 100, Mismatches: 23, Indels: 17
0.71 0.16 0.12
Matches are distributed among these distances:
41 1 0.01
42 8 0.08
43 86 0.86
44 5 0.05
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCATATATCG
Found at i:8392954 original size:24 final size:24
Alignment explanation
Indices: 8392927--8392974 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
8392917 TGAATGTATG
8392927 ACAATTTAGACATTCACTGCATGA
1 ACAATTTAGACATTCACTGCATGA
*
8392951 ACAATTTAGACATTCATTGCATGA
1 ACAATTTAGACATTCACTGCATGA
8392975 TAATCCATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (24 bp):
ACAATTTAGACATTCACTGCATGA
Found at i:8395179 original size:3 final size:3
Alignment explanation
Indices: 8395167--8395233 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
8395157 AGAAAGAGAA
8395167 AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8395214 AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
8395234 ACTGAATGAT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 61 0.97
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8395318 original size:14 final size:13
Alignment explanation
Indices: 8395300--8395406 Score: 60
Period size: 14 Copynumber: 8.2 Consensus size: 13
8395290 CGAAAAATAA
*
8395300 AAAAAATAGAAAT
1 AAAAAATAAAAAT
8395313 AGAAAAATAAAAAT
1 A-AAAAATAAAAAT
8395327 -AAAAATAAAAAT
1 AAAAAATAAAAAT
* * *
8395339 -TATAA-AAATAT
1 AAAAAATAAAAAT
8395350 AAAAAATTAAAAAT
1 AAAAAA-TAAAAAT
** *
8395364 ATAAGTATAAGAAT
1 A-AAAAATAAAAAT
* *
8395378 AATAAAT-AAATT
1 AAAAAATAAAAAT
*
8395390 AGTAAAATAAAAAT
1 A-AAAAATAAAAAT
8395404 AAA
1 AAA
8395407 TAGTATAACA
Statistics
Matches: 68, Mismatches: 19, Indels: 14
0.67 0.19 0.14
Matches are distributed among these distances:
11 5 0.07
12 22 0.32
13 9 0.13
14 29 0.43
15 3 0.04
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:8395331 original size:35 final size:35
Alignment explanation
Indices: 8395274--8395406 Score: 97
Period size: 35 Copynumber: 3.6 Consensus size: 35
8395264 TTGTAATGAT
* *
8395274 AATAGTAAAAA-AAAAACGAAAAATAAAAAAAATAGA
1 AATAG-AAAAATAAAAA-TAAAAATAAAAAAAATAAA
**
8395310 AATAGAAAAATAAAAATAAAAATAAAAATTATAAA
1 AATAGAAAAATAAAAATAAAAATAAAAAAAATAAA
* * * *
8395345 AATATAAAAAATTAAAAATATAAGTATAAGAATAATAAATA
1 AATA-GAAAAA-TAAAAATA-AA-AATAAAAAAAAT-AA-A
*
8395386 AATTAGTAAAATAAAAATAAA
1 AA-TAGAAAAATAAAAATAAA
8395407 TAGTATAACA
Statistics
Matches: 79, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
35 24 0.30
36 15 0.19
37 8 0.10
38 2 0.03
39 11 0.14
40 10 0.13
41 7 0.09
42 2 0.03
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.20
Consensus pattern (35 bp):
AATAGAAAAATAAAAATAAAAATAAAAAAAATAAA
Found at i:8395338 original size:6 final size:6
Alignment explanation
Indices: 8395279--8395406 Score: 57
Period size: 6 Copynumber: 20.7 Consensus size: 6
8395269 ATGATAATAG
* * * * *
8395279 TAAAAA -AAAAA CGAAAAA TAAAAA -AAATA GAAATA GAAAAA TAAAAA
1 TAAAAA TAAAAA -TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
* * * * *
8395326 TAAAAA TAAAAA TTATAA -AAATA TAAAAAA TTAAAAA TATAAGTA TAAGAA
1 TAAAAA TAAAAA TAAAAA TAAAAA T-AAAAA -TAAAAA TA-AA-AA TAAAAA
*
8395377 TAATAAA T-AAAT TAGTAAAA TAAAAA TAAA
1 TAA-AAA TAAAAA TA--AAAA TAAAAA TAAA
8395407 TAGTATAACA
Statistics
Matches: 94, Mismatches: 16, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
5 14 0.15
6 51 0.54
7 20 0.21
8 9 0.10
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:8395353 original size:16 final size:15
Alignment explanation
Indices: 8395292--8395367 Score: 63
Period size: 16 Copynumber: 5.1 Consensus size: 15
8395282 AAAAAAAACG
8395292 AAAAATAAAAA-A-A
1 AAAAATAAAAATATA
8395305 ATAGAAATAGAAAA-AT-
1 A-A-AAATA-AAAATATA
8395321 AAAAATAAAAATA-A
1 AAAAATAAAAATATA
*
8395335 AAATTATAAAAATATA
1 AAA-AATAAAAATATA
8395351 AAAAATTAAAAATATA
1 AAAAA-TAAAAATATA
8395367 A
1 A
8395368 GTATAAGAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
13 5 0.10
14 10 0.19
15 16 0.31
16 21 0.40
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (15 bp):
AAAAATAAAAATATA
Found at i:8395393 original size:23 final size:22
Alignment explanation
Indices: 8395367--8395429 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
8395357 TAAAAATATA
8395367 AGTATAAGAATAATAAATAAATT
1 AGTATAA-AATAATAAATAAATT
8395390 AG--TAAAATAA-AAATAAA-T
1 AGTATAAAATAATAAATAAATT
8395408 AGTATAACAATTAAT-AATAAAT
1 AGTATAA-AA-TAATAAATAAAT
8395430 AAAATAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
18 3 0.09
19 7 0.21
20 8 0.24
21 5 0.15
22 9 0.26
23 2 0.06
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (22 bp):
AGTATAAAATAATAAATAAATT
Found at i:8395396 original size:51 final size:49
Alignment explanation
Indices: 8395292--8395408 Score: 121
Period size: 51 Copynumber: 2.3 Consensus size: 49
8395282 AAAAAAAACG
*
8395292 AAAAATAAAAAAAATAGAAATAGAAAAATAAAAATAAAAATAAAAATTAT
1 AAAAATAAAAAAAATAAAAATAGAAAAATAAAAATAAAAAT-AAAATTAT
* * ** *
8395342 AAAAATATAAAAAATTAAAAATATAAGTATAAGAATAATAAAT-AAATTAGT
1 AAAAATA-AAAAAAATAAAAATAGAAAAATAAAAATAA-AAATAAAATTA-T
8395393 -AAAATAAAAATAAATA
1 AAAAATAAAAA-AAATA
8395409 GTATAACAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
49 4 0.07
50 23 0.41
51 25 0.45
52 4 0.07
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (49 bp):
AAAAATAAAAAAAATAAAAATAGAAAAATAAAAATAAAAATAAAATTAT
Found at i:8395412 original size:41 final size:41
Alignment explanation
Indices: 8395316--8395443 Score: 126
Period size: 41 Copynumber: 3.2 Consensus size: 41
8395306 TAGAAATAGA
*
8395316 AAAATAAAAATAAAA--ATAAAAATT-ATAA-AAATATAAA-
1 AAAATAAAAATAAAAGTATAACAATTAATAATAAATA-AAAT
* * * * *
8395353 AAATTAAAAATATAAGTATAAGAA-TAATAAATAAAT-TAGT
1 AAAATAAAAATAAAAGTATAACAATTAAT-AATAAATAAAAT
8395393 AAAATAAAAATAAATAGTATAACAATTAATAATAAATAAAAT
1 AAAATAAAAATAAA-AGTATAACAATTAATAATAAATAAAAT
8395435 AAAATAAAA
1 AAAATAAAA
8395444 TTGGGGTGAT
Statistics
Matches: 72, Mismatches: 10, Indels: 13
0.76 0.11 0.14
Matches are distributed among these distances:
37 13 0.18
38 1 0.01
39 9 0.12
40 14 0.19
41 20 0.28
42 15 0.21
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.25
Consensus pattern (41 bp):
AAAATAAAAATAAAAGTATAACAATTAATAATAAATAAAAT
Found at i:8395414 original size:15 final size:15
Alignment explanation
Indices: 8395292--8395437 Score: 54
Period size: 15 Copynumber: 9.6 Consensus size: 15
8395282 AAAAAAAACG
* *
8395292 AAAAATAAAAAAAAT
1 AAAAATAAATAATAT
*
8395307 AGAAATAGAA-AA-AT
1 AAAAATA-AATAATAT
8395321 AAAAATAAA-AATA-
1 AAAAATAAATAATAT
8395334 AAAATTATAAA-AATAT
1 AAAA--ATAAATAATAT
8395350 AAAAAATTAAA-AATAT
1 -AAAAA-TAAATAATAT
**
8395366 AAGTATAAGAATAATA-
1 AAAAAT-A-AATAATAT
* * *
8395382 AATAAATTAGTAAAAT
1 AA-AAATAAATAATAT
*
8395398 AAAAATAAATAGTAT
1 AAAAATAAATAATAT
* * *
8395413 AACAATTAATAATAA
1 AAAAATAAATAATAT
8395428 ATAAAATAAA
1 A-AAAATAAA
8395438 ATAAAATTGG
Statistics
Matches: 99, Mismatches: 19, Indels: 25
0.69 0.13 0.17
Matches are distributed among these distances:
13 8 0.08
14 10 0.10
15 48 0.48
16 23 0.23
17 10 0.10
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.23
Consensus pattern (15 bp):
AAAAATAAATAATAT
Found at i:8405560 original size:2 final size:2
Alignment explanation
Indices: 8405553--8405585 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8405543 ATTATTTGAA
8405553 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8405586 AGTTGTGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8432341 original size:61 final size:61
Alignment explanation
Indices: 8432215--8432462 Score: 374
Period size: 61 Copynumber: 4.1 Consensus size: 61
8432205 AAATAAAGAA
* * * *
8432215 AAACCTCCT-CAAGATCTTAAACCCAAATC-AAAAATCTTAAATTAAGAACTCTCAAATTGG
1 AAACCTCCTCCAA-ATCTTAAACCCAAATCGAAAATTCCTAAATAAAGAACTCCCAAATTGG
* **
8432275 AAACCTCTTCCAAATCTTAAACCCAAATCGAAAATTCCTAAATTCAGAACTCCCAAATTGG
1 AAACCTCCTCCAAATCTTAAACCCAAATCGAAAATTCCTAAATAAAGAACTCCCAAATTGG
* *
8432336 AAACCTCTTCCAAATCTTAAACCCAAATCGAAAATTCCTAAATAAAAAACTCCCAAATTGG
1 AAACCTCCTCCAAATCTTAAACCCAAATCGAAAATTCCTAAATAAAGAACTCCCAAATTGG
**
8432397 AAACCTCCTCCAAATCTTAAACCCAAATAAAAAATTCCTAAATAAAGAACTCCCAAATTGG
1 AAACCTCCTCCAAATCTTAAACCCAAATCGAAAATTCCTAAATAAAGAACTCCCAAATTGG
8432458 AAACC
1 AAACC
8432463 CATAAATCAC
Statistics
Matches: 174, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
60 24 0.14
61 150 0.86
ACGTcount: A:0.45, C:0.26, G:0.06, T:0.23
Consensus pattern (61 bp):
AAACCTCCTCCAAATCTTAAACCCAAATCGAAAATTCCTAAATAAAGAACTCCCAAATTGG
Found at i:8432393 original size:30 final size:30
Alignment explanation
Indices: 8432357--8432454 Score: 74
Period size: 30 Copynumber: 3.2 Consensus size: 30
8432347 AAATCTTAAA
*
8432357 CCCAAATCGAAAATTCCTAAATAAAAAACT
1 CCCAAATAGAAAATTCCTAAATAAAAAACT
* ** ***
8432387 CCCAAATTGGAAACCTCCTCCAAATCTTAAA--
1 CCCAAA-TAGAAAATTCCT--AAATAAAAAACT
* *
8432418 CCCAAATAAAAAATTCCTAAATAAAGAACT
1 CCCAAATAGAAAATTCCTAAATAAAAAACT
8432448 CCCAAAT
1 CCCAAAT
8432455 TGGAAACCCA
Statistics
Matches: 49, Mismatches: 14, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
28 6 0.12
30 21 0.43
31 15 0.31
33 7 0.14
ACGTcount: A:0.49, C:0.27, G:0.04, T:0.20
Consensus pattern (30 bp):
CCCAAATAGAAAATTCCTAAATAAAAAACT
Found at i:8433125 original size:11 final size:11
Alignment explanation
Indices: 8433106--8433136 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
8433096 CTATTTAACT
*
8433106 TTTTTTTTCCA
1 TTTTGTTTCCA
8433117 TTTTGTTTCCA
1 TTTTGTTTCCA
8433128 TTTTGTTTC
1 TTTTGTTTC
8433137 TTCTTCTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.06, C:0.16, G:0.06, T:0.71
Consensus pattern (11 bp):
TTTTGTTTCCA
Found at i:8439062 original size:21 final size:20
Alignment explanation
Indices: 8439034--8439072 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
8439024 CAGTACAATA
8439034 TTAAAAATAATTTATTATGT
1 TTAAAAATAATTTATTATGT
*
8439054 TTAAGAAATATTTTATTAT
1 TTAA-AAATAATTTATTAT
8439073 TTATTTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
TTAAAAATAATTTATTATGT
Found at i:8449901 original size:20 final size:20
Alignment explanation
Indices: 8449872--8449911 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
8449862 AATATGATAA
*
8449872 GGAAAAAACCAATGGGGAAG
1 GGAAAAAACCAATGGAGAAG
* *
8449892 GGAAAGAACCGATGGAGAAG
1 GGAAAAAACCAATGGAGAAG
8449912 TGAACTGATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.10, G:0.38, T:0.05
Consensus pattern (20 bp):
GGAAAAAACCAATGGAGAAG
Found at i:8457604 original size:13 final size:13
Alignment explanation
Indices: 8457583--8457612 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8457573 AGGGACACGA
*
8457583 CCGTGTGCCACTC
1 CCGTATGCCACTC
8457596 CCGTATGCCACTC
1 CCGTATGCCACTC
8457609 CCGT
1 CCGT
8457613 GTGAAGGTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.47, G:0.20, T:0.23
Consensus pattern (13 bp):
CCGTATGCCACTC
Found at i:8458004 original size:40 final size:40
Alignment explanation
Indices: 8457945--8458022 Score: 113
Period size: 39 Copynumber: 1.9 Consensus size: 40
8457935 GCTATTGCAT
* * *
8457945 ATTGTATCTGAGATGGGCCAAGGCTCTAAATTATATCTGAG
1 ATTGTATCCGAGATGGGCCAAGGC-CTAAACTAAATCTGAG
8457986 ATTGTATCCGA-ATGGGCCAAGGCCTAAACTAAATCTG
1 ATTGTATCCGAGATGGGCCAAGGCCTAAACTAAATCTG
8458023 TAACGGGCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 12 0.35
40 12 0.35
41 10 0.29
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (40 bp):
ATTGTATCCGAGATGGGCCAAGGCCTAAACTAAATCTGAG
Found at i:8460960 original size:2 final size:2
Alignment explanation
Indices: 8460953--8461006 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
8460943 CTTTATTTGG
8460953 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8460995 AT AT AT AT AT AT
1 AT AT AT AT AT AT
8461007 TTTAATTTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8461205 original size:18 final size:19
Alignment explanation
Indices: 8461163--8461205 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
8461153 AATATTTTGC
*
8461163 ATAAT-TATTTTAATAAAA
1 ATAATATATTTGAATAAAA
*
8461181 ATGATATATTTGAATAAAA
1 ATAATATATTTGAATAAAA
8461200 A-AATAT
1 ATAATAT
8461206 TATAATTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (19 bp):
ATAATATATTTGAATAAAA
Found at i:8468926 original size:22 final size:21
Alignment explanation
Indices: 8468901--8468951 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 21
8468891 TCCCACTTTT
8468901 TCAATTCA-CTCAAAACTCTCTC
1 TCAATTCATCTC-AAAC-CTCTC
*
8468923 TCAATTCATTCTCAATCCTCTC
1 TCAATTCA-TCTCAAACCTCTC
8468945 TCAATTC
1 TCAATTC
8468952 TCTATTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 20 0.77
23 3 0.12
24 3 0.12
ACGTcount: A:0.27, C:0.35, G:0.00, T:0.37
Consensus pattern (21 bp):
TCAATTCATCTCAAACCTCTC
Found at i:8468954 original size:11 final size:11
Alignment explanation
Indices: 8468917--8468977 Score: 63
Period size: 11 Copynumber: 5.5 Consensus size: 11
8468907 CACTCAAAAC
8468917 TCTCTCTCAAT
1 TCTCTCTCAAT
8468928 TCAT-TCTCAAT
1 TC-TCTCTCAAT
*
8468939 CCTCTCTCAAT
1 TCTCTCTCAAT
* *
8468950 TCTCTATTAAT
1 TCTCTCTCAAT
8468961 TCT-TACTCAAT
1 TCTCT-CTCAAT
8468972 TCTCTC
1 TCTCTC
8468978 AGTTCAATCT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
10 2 0.05
11 36 0.90
12 2 0.05
ACGTcount: A:0.21, C:0.33, G:0.00, T:0.46
Consensus pattern (11 bp):
TCTCTCTCAAT
Found at i:8469023 original size:25 final size:25
Alignment explanation
Indices: 8468989--8469044 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
8468979 GTTCAATCTC
8468989 TTTTTTATTAAAATTGTATTAAG-T
1 TTTTTTATTAAAATTGTATTAAGAT
** *
8469013 TTTTTTAATTAATTTTGTATTACGAT
1 TTTTTT-ATTAAAATTGTATTAAGAT
8469039 TTTTTT
1 TTTTTT
8469045 GTATGTATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 6 0.22
25 14 0.52
26 7 0.26
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (25 bp):
TTTTTTATTAAAATTGTATTAAGAT
Found at i:8469152 original size:5 final size:5
Alignment explanation
Indices: 8469142--8469168 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
8469132 TATTATTATT
8469142 TTTAA TTTAA TTTAA TTTAA TTTAA TT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TT
8469169 ATTTTTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTAA
Found at i:8476888 original size:34 final size:34
Alignment explanation
Indices: 8476850--8476918 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
8476840 AAATTATTTG
*
8476850 TTAGCATGGTATATAAAACAAATAGTATCATATC
1 TTAGCATGGCATATAAAACAAATAGTATCATATC
*
8476884 TTAGCATGGCATATAAAACAAATAGTGTCATATC
1 TTAGCATGGCATATAAAACAAATAGTATCATATC
8476918 T
1 T
8476919 GTATGAATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (34 bp):
TTAGCATGGCATATAAAACAAATAGTATCATATC
Found at i:8479338 original size:16 final size:16
Alignment explanation
Indices: 8479317--8479347 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8479307 AATTTTAATT
8479317 AATTAATTAATTTTCC
1 AATTAATTAATTTTCC
8479333 AATTAATTAATTTTC
1 AATTAATTAATTTTC
8479348 TCAACTCGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTAATTAATTTTCC
Found at i:8479338 original size:20 final size:18
Alignment explanation
Indices: 8479303--8479344 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 18
8479293 AAACATCATA
8479303 AATTAATTTTAATTAATT
1 AATTAATTTTAATTAATT
8479321 AATTAATTTTCCAATTAATT
1 AATTAATTTT--AATTAATT
8479341 AATT
1 AATT
8479345 TTCTCAACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 10 0.45
20 12 0.55
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (18 bp):
AATTAATTTTAATTAATT
Found at i:8481766 original size:24 final size:24
Alignment explanation
Indices: 8481695--8481766 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 24
8481685 CGAAAGAGTG
* *
8481695 TCCCGTTACTAGCCCTTTCGAA-CT
1 TCCCGTTAATAGCTC-TTCGAAGCT
* * *
8481719 TCCCGTTTTATGGTTCTT-GTAAGCT
1 TCCCG-TTAATAGCTCTTCG-AAGCT
8481744 TCCCGTTAATAGCTCTTCGAAGC
1 TCCCGTTAATAGCTCTTCGAAGC
8481767 ATCTCGATTG
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
23 1 0.03
24 22 0.61
25 13 0.36
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.38
Consensus pattern (24 bp):
TCCCGTTAATAGCTCTTCGAAGCT
Found at i:8481950 original size:25 final size:25
Alignment explanation
Indices: 8481845--8481973 Score: 70
Period size: 25 Copynumber: 5.2 Consensus size: 25
8481835 GGCTTTTCGT
* * **
8481845 GAGCTTCCTGATTAAAGGCTTTTTG
1 GAGCTTCCTGATTAATGGCTATCCG
* * *
8481870 TGAGCTTCCCG-TTAATGGCTCTCCA
1 -GAGCTTCCTGATTAATGGCTATCCG
* **
8481895 GAGCTTCCCGA-T-ATCGGCTCA-CTT
1 GAGCTTCCTGATTAAT-GGCT-ATCCG
*
8481919 GAACTTCCTGA-TATATGGCTATCCG
1 GAGCTTCCTGATTA-ATGGCTATCCG
* *
8481944 GAGCTTCCTGATTAATGGCTCTTCG
1 GAGCTTCCTGATTAATGGCTATCCG
8481969 GAGCT
1 GAGCT
8481974 ACCCATTATT
Statistics
Matches: 80, Mismatches: 16, Indels: 15
0.72 0.14 0.14
Matches are distributed among these distances:
23 2 0.03
24 27 0.34
25 38 0.47
26 13 0.16
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (25 bp):
GAGCTTCCTGATTAATGGCTATCCG
Found at i:8484365 original size:19 final size:20
Alignment explanation
Indices: 8484328--8484368 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
8484318 TACAACACAA
*
8484328 TTCAATTTTATATTTAATAT
1 TTCAATTTTATATTCAATAT
8484348 TTCAATTTT-TATTCAATAT
1 TTCAATTTTATATTCAATAT
8484367 TT
1 TT
8484369 GCCTAAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (20 bp):
TTCAATTTTATATTCAATAT
Found at i:8484805 original size:18 final size:18
Alignment explanation
Indices: 8484777--8484818 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
8484767 AGTCGTGGGT
8484777 TCTTCTTTCTTTCTCTTTC
1 TCTT-TTTCTTTCTCTTTC
*
8484796 TCTTTTTCTTTTTCTTTC
1 TCTTTTTCTTTCTCTTTC
8484814 T-TTTT
1 TCTTTT
8484819 GTTTCATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.18
18 14 0.64
19 4 0.18
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TCTTTTTCTTTCTCTTTC
Found at i:8484817 original size:10 final size:10
Alignment explanation
Indices: 8484779--8484833 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
8484769 TCGTGGGTTC
8484779 TTCTTTCTTT
1 TTCTTTCTTT
* *
8484789 CTCTTTC-TC
1 TTCTTTCTTT
8484798 TT-TTTCTTT
1 TTCTTTCTTT
8484807 TTCTTTCTTT
1 TTCTTTCTTT
*
8484817 TTGTTTCATTT
1 TTCTTTC-TTT
*
8484828 TGCTTT
1 TTCTTT
8484834 TGTCTTTATT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
8 4 0.11
9 5 0.14
10 19 0.54
11 7 0.20
ACGTcount: A:0.02, C:0.20, G:0.04, T:0.75
Consensus pattern (10 bp):
TTCTTTCTTT
Found at i:8484823 original size:28 final size:27
Alignment explanation
Indices: 8484779--8484840 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
8484769 TCGTGGGTTC
* *
8484779 TTCTTTCTTTCTCTTTCTCTTTTTCTTT
1 TTCTTTCTTTCTCTTTC-ATTTTGCTTT
* *
8484807 TTCTTTCTTTTTGTTTCATTTTGCTTT
1 TTCTTTCTTTCTCTTTCATTTTGCTTT
8484834 TGTCTTT
1 T-TCTTT
8484841 ATTTATTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 9 0.31
28 20 0.69
ACGTcount: A:0.02, C:0.19, G:0.05, T:0.74
Consensus pattern (27 bp):
TTCTTTCTTTCTCTTTCATTTTGCTTT
Found at i:8486944 original size:16 final size:17
Alignment explanation
Indices: 8486912--8486944 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
8486902 CCCGAGAGGT
8486912 AAAATTAGTTAAATGAG
1 AAAATTAGTTAAATGAG
*
8486929 AAAATTA-TTAATTGAG
1 AAAATTAGTTAAATGAG
8486945 TCCCTTAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (17 bp):
AAAATTAGTTAAATGAG
Found at i:8487424 original size:15 final size:16
Alignment explanation
Indices: 8487404--8487445 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
8487394 TAGAGCCTAG
*
8487404 TTTTTTGTTTTGTT-T
1 TTTTTTGTTTTATTCT
*
8487419 TTTTTTTTTTTATTCT
1 TTTTTTGTTTTATTCT
8487435 TTTTCTTGTTT
1 TTTT-TTGTTT
8487446 ACCTTGTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 12 0.55
16 5 0.23
17 5 0.23
ACGTcount: A:0.02, C:0.05, G:0.07, T:0.86
Consensus pattern (16 bp):
TTTTTTGTTTTATTCT
Done.