Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold29
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: 5511024
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 57772 characters in sequence are not A, C, G, or T
File 21 of 34
Found at i:3146475 original size:48 final size:48
Alignment explanation
Indices: 3146408--3146534 Score: 204
Period size: 48 Copynumber: 2.6 Consensus size: 48
3146398 CATTAGTCCA
3146408 GGTCAAACTCTATTT-TCACCCTTATTTGACTGTATCGACGTTAGAAGCT
1 GGTCAAACT-T-TTTCTCACCCTTATTTGACTGTATCGACGTTAGAAGCT
*
3146457 GGTCAAACTTTTTCTCACCCTTGTTTGACTGTATCGACGTTAGAAGCT
1 GGTCAAACTTTTTCTCACCCTTATTTGACTGTATCGACGTTAGAAGCT
3146505 GGTCAAACTTTTTCTCA-CCTTCATTTGACT
1 GGTCAAACTTTTTCTCACCCTT-ATTTGACT
3146535 ATATTGGCAT
Statistics
Matches: 74, Mismatches: 2, Indels: 5
0.91 0.02 0.06
Matches are distributed among these distances:
47 7 0.09
48 58 0.78
49 9 0.12
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.39
Consensus pattern (48 bp):
GGTCAAACTTTTTCTCACCCTTATTTGACTGTATCGACGTTAGAAGCT
Found at i:3146626 original size:46 final size:46
Alignment explanation
Indices: 3146554--3146979 Score: 254
Period size: 46 Copynumber: 9.3 Consensus size: 46
3146544 TTAAGACTTC
* * *
3146554 GTCAAA-CTTTTTCCATTCTTAATTGACTGTATTAGTTACTACCCTA
1 GTCAAACCCTTTT-CATTCTTATTTGACTGTATTAGTTACCACCCTA
* * *
3146600 GTCAAACCCTTTTCATCCTTGTTTGACTGTA-TCGATTACCACCCTA
1 GTCAAACCCTTTTCATTCTTATTTGACTGTATTAG-TTACCACCCTA
* * * * *
3146646 ATCAAA--CTTTTCATTTTTATTT-AGTTGTATCAGTTACCACCATA
1 GTCAAACCCTTTTCATTCTTATTTGA-CTGTATTAGTTACCACCCTA
* *
3146690 GTCAAACCCTTTTCATTCTCATTTGA-T-TATAACGGTTACC-CCTCTA
1 GTCAAACCCTTTTCATTCTTATTTGACTGTATTA--GTTACCACC-CTA
* * * *
3146736 GTCAAACTCTTTT-ATTCTCATTTAAC--TATGTCGATTACCACCCTA
1 GTCAAACCCTTTTCATTCTTATTTGACTGTAT-TAG-TTACCACCCTA
* * * * * *
3146781 GTCAAACCCTTTTTATTCTTATTTGACTATATCAATTGCCA-CCTT
1 GTCAAACCCTTTTCATTCTTATTTGACTGTATTAGTTACCACCCTA
* * * * * * *
3146826 GTCAAACCTTTTTCGTT-TTCGATTT-ACTATAGTGGTTATCACCC-C
1 GTCAAACCCTTTTCATTCTT--ATTTGACTGTATTAGTTACCACCCTA
* * *
3146871 GATCAAACCCTTTTCATTCTTATTTGACTATA-TCGATTACTACCCTA
1 G-TCAAACCCTTTTCATTCTTATTTGACTGTATTAG-TTACCACCCTA
* * * * ** *
3146918 GTCAAACTCTTTTCATCCTCATTTGATTGTATCCGTTACGACCCTA
1 GTCAAACCCTTTTCATTCTTATTTGACTGTATTAGTTACCACCCTA
* *
3146964 ATCAAACTCTTTTCAT
1 GTCAAACCCTTTTCAT
3146980 CCTCGTTTAA
Statistics
Matches: 299, Mismatches: 55, Indels: 52
0.74 0.14 0.13
Matches are distributed among these distances:
43 1 0.00
44 39 0.13
45 74 0.25
46 171 0.57
47 11 0.04
48 3 0.01
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.41
Consensus pattern (46 bp):
GTCAAACCCTTTTCATTCTTATTTGACTGTATTAGTTACCACCCTA
Found at i:3146855 original size:91 final size:89
Alignment explanation
Indices: 3146589--3146933 Score: 308
Period size: 91 Copynumber: 3.8 Consensus size: 89
3146579 ACTGTATTAG
* * * * **
3146589 TTACTACCCTAGTCAAACCCTTTTCATCCTTGTTTGACTGTATCGATTACCACCCTAATCAAAC-
1 TTACCACCCTAGTCAAACCCTTTTCATTCTTATTTGACTATATCGATTACCA-CCTTGTCAAACT
* *
3146653 TTTTCATTTTTATTTAGT-TGTATC-A
65 TTTTCATTTTCATTTACTATG--TCGA
* * * * *
3146678 GTTACCACCATAGTCAAACCCTTTTCATTCTCATTTGATTATAACGGTTACC-CCTCTAGTCAAA
1 -TTACCACCCTAGTCAAACCCTTTTCATTCTTATTTGACTATATCGATTACCACCT-T-GTCAAA
*
3146742 CTCTTTT-ATTCTCATTTAACTATGTCGA
63 CT-TTTTCATTTTCATTT-ACTATGTCGA
* * *
3146770 TTACCACCCTAGTCAAACCCTTTTTATTCTTATTTGACTATATCAATTGCCACCTTGTCAAACCT
1 TTACCACCCTAGTCAAACCCTTTTCATTCTTATTTGACTATATCGATTACCACCTTGTCAAA-CT
* *
3146835 TTTTCGTTTTCGATTTACTATAGT-GG
65 TTTTCATTTTC-ATTTACTAT-GTCGA
* * * *
3146861 TTATCACCC-CGATCAAACCCTTTTCATTCTTATTTGACTATATCGATTACTACCCTAGTCAAAC
1 TTACCACCCTAG-TCAAACCCTTTTCATTCTTATTTGACTATATCGATTACCA-CCTTGTCAAAC
3146925 TCTTTTCAT
64 T-TTTTCAT
3146934 CCTCATTTGA
Statistics
Matches: 207, Mismatches: 33, Indels: 28
0.77 0.12 0.10
Matches are distributed among these distances:
88 3 0.01
90 59 0.29
91 112 0.54
92 31 0.15
93 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.08, T:0.41
Consensus pattern (89 bp):
TTACCACCCTAGTCAAACCCTTTTCATTCTTATTTGACTATATCGATTACCACCTTGTCAAACTT
TTTCATTTTCATTTACTATGTCGA
Found at i:3146942 original size:137 final size:138
Alignment explanation
Indices: 3146599--3146943 Score: 364
Period size: 137 Copynumber: 2.5 Consensus size: 138
3146589 TTACTACCCT
* * * * *
3146599 AGTCAAACCCTTTTCATCCTTGTTTGACTGTATCGATTACCACCCTAATCAAA-CTTTTCATTTT
1 AGTCAAACCCTTTTCATTCTTATTTGACTATATCGATTACCACCCTAGTCAAACCTTTTCATTCT
* * * *
3146663 TATTT-AGTTGTATCAGTTACCACCATAGTCAAACCCTTTTCATTCTCATTTGATTATAACGGTT
66 TATTTGAGCTATATCAATTACCACCATAGTCAAACCCTTTTCATTCTCATTTGACTATAACGGTT
*
3146727 ACCCCTCT
131 ACCCCTCG
* * * * *
3146735 AGTCAAACTCTTTT-ATTCTCATTTAACTATGTCGATTACCACCCTAGTCAAACCCTTTTTATTC
1 AGTCAAACCCTTTTCATTCTTATTTGACTATATCGATTACCACCCTAGTCAAA-CCTTTTCATTC
* * * * * **
3146799 TTATTTGA-CTATATCAATTGCCACC-TTGTCAAACCTTTTTCGTTTTCGATTT-ACTATAGTGG
65 TTATTTGAGCTATATCAATTACCACCATAGTCAAACCCTTTTCATTCTC-ATTTGACTATAACGG
3146861 TTATCACCC-CG
129 TTA-C-CCCTCG
* *
3146872 A-TCAAACCCTTTTCATTCTTATTTGACTATATCGATTACTACCCTAGTCAAACTCTTTTCATCC
1 AGTCAAACCCTTTTCATTCTTATTTGACTATATCGATTACCACCCTAGTCAAAC-CTTTTCATTC
*
3146936 TCATTTGA
65 TTATTTGA
3146944 TTGTATCCGT
Statistics
Matches: 171, Mismatches: 30, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
135 31 0.18
136 53 0.31
137 83 0.49
138 4 0.02
ACGTcount: A:0.25, C:0.26, G:0.08, T:0.41
Consensus pattern (138 bp):
AGTCAAACCCTTTTCATTCTTATTTGACTATATCGATTACCACCCTAGTCAAACCTTTTCATTCT
TATTTGAGCTATATCAATTACCACCATAGTCAAACCCTTTTCATTCTCATTTGACTATAACGGTT
ACCCCTCG
Found at i:3147390 original size:42 final size:42
Alignment explanation
Indices: 3147170--3147477 Score: 150
Period size: 42 Copynumber: 7.3 Consensus size: 42
3147160 TCAACTTTTG
* * *
3147170 TATCCTTTGTTTACCTATC-AGTTTAGTCCTAGGTAAATCCTTT
1 TATCCTTTGTTTACTTGTCGA-CTTAGTCCTAGGTAAAT-CTTT
* * * * * * *
3147213 TATCCTTTATTGACTTGTCG-GTTCAAT-CTCGGTCAACCTTTT
1 TATCCTTTGTTTACTTGTCGACTT-AGTCCTAGGTAAATC-TTT
*
3147255 TATCCTTTGTTTACTTGTCGACTTAGTCCCAGGTAAATCCTTT
1 TATCCTTTGTTTACTTGTCGACTTAGTCCTAGGTAAAT-CTTT
* * * *
3147298 TATCCTTTG-TTAGCTTGTC-ATTTTA-ACCTTGGTCAA-CTTTT
1 TATCCTTTGTTTA-CTTGTCGA-CTTAGTCCTAGGTAAATC-TTT
* * * *
3147339 GTATTCTTTGTTTACCTATCGACTTAGTCCTGGGTAAATCTTT
1 -TATCCTTTGTTTACTTGTCGACTTAGTCCTAGGTAAATCTTT
* * * * * * * *
3147382 TATCCTTTGTTAACTTAT-TAGTTCATTCAT-GGTCAACCTTTT
1 TATCCTTTGTTTACTTGTCGACTT-AGTCCTAGGTAAATC-TTT
* * * *
3147424 TATCCATTGTTTACCTGTC-AGCTTAGTCCCAAGTAAATCCTTT
1 TATCCTTTGTTTACTTGTCGA-CTTAGTCCTAGGTAAAT-CTTT
3147467 TATCCTTTGTT
1 TATCCTTTGTT
3147478 GGCTTCTTAA
Statistics
Matches: 195, Mismatches: 50, Indels: 40
0.68 0.18 0.14
Matches are distributed among these distances:
40 1 0.01
41 13 0.07
42 98 0.50
43 80 0.41
44 3 0.02
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.47
Consensus pattern (42 bp):
TATCCTTTGTTTACTTGTCGACTTAGTCCTAGGTAAATCTTT
Found at i:3147724 original size:43 final size:44
Alignment explanation
Indices: 3147670--3147819 Score: 139
Period size: 43 Copynumber: 3.5 Consensus size: 44
3147660 CCCTAGTCAA
3147670 CTTTTGTATCCTTTGTTTACCTATCGGCTTAGTCTCAGGTAAAT
1 CTTTTGTATCCTTTGTTTACCTATCGGCTTAGTCTCAGGTAAAT
* * ** * *
3147714 CTTTT-TATCCTTTGTTGACTTATC-AATTCAATCTC-GGTCAA-
1 CTTTTGTATCCTTTGTTTACCTATCGGCTT-AGTCTCAGGTAAAT
* * * *
3147755 CTTTTGTCTCCTTTGTTTACCTATTGGCTTTGTCTCAGGTAACT
1 CTTTTGTATCCTTTGTTTACCTATCGGCTTAGTCTCAGGTAAAT
* *
3147799 -TTCTTTTATCCTTTTTTTACC
1 CTT-TTGTATCCTTTGTTTACC
3147820 AGACTGCTTG
Statistics
Matches: 81, Mismatches: 19, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
41 5 0.06
42 26 0.32
43 30 0.37
44 20 0.25
ACGTcount: A:0.16, C:0.22, G:0.12, T:0.50
Consensus pattern (44 bp):
CTTTTGTATCCTTTGTTTACCTATCGGCTTAGTCTCAGGTAAAT
Found at i:3147784 original size:85 final size:85
Alignment explanation
Indices: 3147036--3147812 Score: 600
Period size: 85 Copynumber: 9.2 Consensus size: 85
3147026 TTAGGTATCA
* * * *
3147036 CTTTTTATCCTTTGTTTACTTCG-C-GTTTAAGCTTCGATCAACTTTCT-TATCCTTTGTTTACC
1 CTTTTTATCCTTTGTTGACTT-GTCAGTTCAATC-TCGGTCAACTTT-TGTATCCTTTGTTTACC
* ** * *
3147098 TGTCGATTTTTGTCTCGGGTAAAT
63 TATCG-GCTTAGTCTCAGGTAAAT
* * * * * *
3147122 CTTTTTCATCCTTTATTGGCTTGTTAGTTTAACCCCGGTCAACTTTTGTATCCTTTGTTTACCTA
1 CTTTTT-ATCCTTTGTTGACTTGTCAGTTCAATCTCGGTCAACTTTTGTATCCTTTGTTTACCTA
* *
3147187 TCAGTTTAGTC-CTAGGTAAAT
65 TCGGCTTAGTCTC-AGGTAAAT
* * * * *
3147208 CCTTTTATCCTTTATTGACTTGTCGGTTCAATCTCGGTCAACCTTTT-TATCCTTTGTTTACTTG
1 CTTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCGGTCAA-CTTTTGTATCCTTTGTTTACCTA
* *
3147272 TCGACTTAGTCCCAGGTAAAT
65 TCGGCTTAGTCTCAGGTAAAT
* * * * * *
3147293 CCTTTTATCCTTTGTT-AGCTTGTCATTTTAACCTTGGTCAACTTTTGTATTCTTTGTTTACCTA
1 CTTTTTATCCTTTGTTGA-CTTGTCAGTTCAATCTCGGTCAACTTTTGTATCCTTTGTTTACCTA
* *
3147357 TCGACTTAGTC-CTGGGTAAAT
65 TCGGCTTAGTCTC-AGGTAAAT
* * * * *
3147378 C-TTTTATCCTTTGTTAACTTATTAGTTCATTCAT-GGTCAACCTTTT-TATCCATTGTTTACCT
1 CTTTTTATCCTTTGTTGACTTGTCAGTTCAATC-TCGGTCAA-CTTTTGTATCCTTTGTTTACCT
* * * *
3147440 GTCAGCTTAGTCCCAAGTAAAT
64 ATCGGCTTAGTCTCAGGTAAAT
* * * * * * * * *
3147462 CCTTTTATCCTTTGTTGGCTTCTTAATTTAACCCCGGTCAACTTTTGTATCCTTTTTTTACCTAT
1 CTTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCGGTCAACTTTTGTATCCTTTGTTTACCTAT
* *
3147527 CAGCTTAGT-TCGAGGTAGAT
66 CGGCTTAGTCTC-AGGTAAAT
* * * *
3147547 CATTTTATCC--T-TTGACTTGTCGGTTCAATC-CTGGTTAACCTTTT-TATCCTTTTTTTACCT
1 CTTTTTATCCTTTGTTGACTTGTCAGTTCAATCTC-GGTCAA-CTTTTGTATCCTTTGTTTACCT
* * *
3147607 ATCTGCTTAGTCCCAAGTAAAT
64 ATCGGCTTAGTCTCAGGTAAAT
* * * ** * * * *
3147629 CTTTTTCTCCTTTATCGGTTTGT-TGATTTAA-CCCTAGTCAACTTTTGTATCCTTTGTTTACCT
1 CTTTTTATCCTTTGTTGACTTGTCAG-TTCAATCTC-GGTCAACTTTTGTATCCTTTGTTTACCT
3147692 ATCGGCTTAGTCTCAGGTAAAT
64 ATCGGCTTAGTCTCAGGTAAAT
* * *
3147714 CTTTTTATCCTTTGTTGACTTATCAATTCAATCTCGGTCAACTTTTGTCTCCTTTGTTTACCTAT
1 CTTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCGGTCAACTTTTGTATCCTTTGTTTACCTAT
* * *
3147779 TGGCTTTGTCTCAGGTAACT
66 CGGCTTAGTCTCAGGTAAAT
*
3147799 TTCTTTTATCCTTT
1 CT-TTTTATCCTTT
3147813 TTTTACCAGA
Statistics
Matches: 558, Mismatches: 103, Indels: 60
0.77 0.14 0.08
Matches are distributed among these distances:
81 1 0.00
82 57 0.10
83 7 0.01
84 80 0.14
85 321 0.58
86 45 0.08
87 40 0.07
88 7 0.01
ACGTcount: A:0.18, C:0.22, G:0.13, T:0.47
Consensus pattern (85 bp):
CTTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCGGTCAACTTTTGTATCCTTTGTTTACCTAT
CGGCTTAGTCTCAGGTAAAT
Found at i:3149429 original size:17 final size:18
Alignment explanation
Indices: 3149401--3149449 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
3149391 TTTTCGACAC
*
3149401 AAAAATATAAAAA-TCAA
1 AAAAATAAAAAAATTCAA
*
3149418 AGAAATAAAAAAATTCAA
1 AAAAATAAAAAAATTCAA
3149436 AAAAATCAAAAAAA
1 AAAAAT-AAAAAAA
3149450 ATAATAATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 11 0.41
18 9 0.33
19 7 0.26
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.14
Consensus pattern (18 bp):
AAAAATAAAAAAATTCAA
Found at i:3149451 original size:10 final size:9
Alignment explanation
Indices: 3149409--3149449 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
3149399 ACAAAAATAT
3149409 AAAAATCAA
1 AAAAATCAA
*
3149418 AGAAAT-AA
1 AAAAATCAA
3149426 AAAAATTCAA
1 AAAAA-TCAA
3149436 AAAAATCAA
1 AAAAATCAA
3149445 AAAAA
1 AAAAA
3149450 ATAATAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 6 0.21
9 15 0.54
10 7 0.25
ACGTcount: A:0.78, C:0.07, G:0.02, T:0.12
Consensus pattern (9 bp):
AAAAATCAA
Found at i:3150526 original size:55 final size:54
Alignment explanation
Indices: 3150428--3150531 Score: 127
Period size: 55 Copynumber: 1.9 Consensus size: 54
3150418 TTTATTGTTT
* *
3150428 TTCTTCATGCCGTGAGCTTATTTTCATTGCTTGATCTTCCTTTGTTGCATCTTC
1 TTCTTCATGCCGTGAACTTATTTTCATTGCTTGATCTTCCTTTGCTGCATCTTC
* * ** * *
3150482 TTCTTCATGCCGTGGAATTTGTTTTCATTTTTTGATTTTTCTTTGCTGCA
1 TTCTTCATGCCGT-GAACTTATTTTCATTGCTTGATCTTCCTTTGCTGCA
3150532 GGTTTTCTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
54 13 0.32
55 28 0.68
ACGTcount: A:0.12, C:0.20, G:0.15, T:0.53
Consensus pattern (54 bp):
TTCTTCATGCCGTGAACTTATTTTCATTGCTTGATCTTCCTTTGCTGCATCTTC
Found at i:3151833 original size:96 final size:97
Alignment explanation
Indices: 3151609--3152046 Score: 612
Period size: 97 Copynumber: 4.5 Consensus size: 97
3151599 AATTTTGTTT
* * * ** * *
3151609 ATCGGGGATACACCAACCCCATTCCTTCGAATGGATACTCCAACCCTGCTTTTAAACTTATCAAA
1 ATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGTTTTTAAACTTATCAAA
* * *
3151674 ATTTCAATCTTATTTTTGGTTGAGTTGTCATC
66 ATTTAAATCTTATTTTTGGTTAAATTGTCATC
* * * **
3151706 ATCGGGGATACTACAACCCCATTCCTACGAGGGGATACTCCAACCCCACTTTTAAACTTATCAAA
1 ATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGTTTTTAAACTTATCAAA
*
3151771 ATTTAAA-CTTATTTTCGGTTAAATTGTCATC
66 ATTTAAATCTTATTTTTGGTTAAATTGTCATC
* *
3151802 ATCGGGGACACTCCAACCCCATTCCTCCGAGGGTATACTCCAACCTCGTTTTTAAACTTATCAAA
1 ATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGTTTTTAAACTTATCAAA
3151867 ATTTAAATCTTATTTTTGGTTAAATT-TCATC
66 ATTTAAATCTTATTTTTGGTTAAATTGTCATC
* * * * *
3151898 ATTGGGGACA-TCCAACCCCGTTCCTTCGAGGGGATACTCTAACCCTGTTTTTAAACTTATCAAA
1 ATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGTTTTTAAACTTATCAAA
3151962 ATTTAAATCTTATTTTTGGTTAAATTGTCATC
66 ATTTAAATCTTATTTTTGGTTAAATTGTCATC
* * * *
3151994 ATCGGAGACACTACAACCCCATTCCTCTGAGGGGATACTCCAACCCCATTTTT
1 ATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGTTTTT
3152047 TAATCAAAAA
Statistics
Matches: 303, Mismatches: 35, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
95 74 0.24
96 113 0.37
97 116 0.38
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (97 bp):
ATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGTTTTTAAACTTATCAAA
ATTTAAATCTTATTTTTGGTTAAATTGTCATC
Found at i:3154518 original size:150 final size:144
Alignment explanation
Indices: 3154256--3154603 Score: 396
Period size: 150 Copynumber: 2.4 Consensus size: 144
3154246 TTTTTTAGAT
* * *
3154256 TTCTAATATTTTTATGGTTATCCATAAGGGTATAAAAATATTCAAAACTTTTCATATCTTTTCGG
1 TTCTAATA-TTCTATGGTTATCCATAGGGGTATAAAAATATTCAAAACTTTTCATATCTTTTCAG
*
3154321 TTCTCCATTAAGGAACGAAATGAAATTTTTTAAAAATAAAAATATAAAAAAATTAAACAAAAATT
65 TTATCCATTAAGGAACGAAATGAAATTTTTTAAAAATAAAAATAT----AAA--AAACAAAAATT
3154386 ATTATCTTAAT-TTTTAAAAAA
124 ATTATCTTAATATTTT-AAAAA
* * * **
3154407 TTCTAATATTCTATGGTTATCTATAGGGGTAAAAAAATCTTCAAAACTTTTTGTATCTTTTCAGT
1 TTCTAATATTCTATGGTTATCCATAGGGGTATAAAAATATTCAAAACTTTTCATATCTTTTCAGT
** * *
3154472 TATTTATTAAGGTACGAAAT-AAATTTTTTTTGAAAATAAAAA-ATAAAAAACAAAAATTATTAT
66 TATCCATTAAGGAACGAAATGAAA--TTTTTTAAAAATAAAAATATAAAAAACAAAAATTATTAT
* *
3154535 CTTAATATTTTAAGAT
129 CTTAATATTTTAAAAA
* * * * *
3154551 TTTTAATATTCCTATGGTTATCCATAGGGTTATAGAAGTTTTCAAAACTTTTC
1 TTCTAATATT-CTATGGTTATCCATAGGGGTATAAAAATATTCAAAACTTTTC
3154604 GATTCTCCAT
Statistics
Matches: 170, Mismatches: 23, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
144 34 0.20
145 39 0.23
146 3 0.02
149 3 0.02
150 67 0.39
151 24 0.14
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (144 bp):
TTCTAATATTCTATGGTTATCCATAGGGGTATAAAAATATTCAAAACTTTTCATATCTTTTCAGT
TATCCATTAAGGAACGAAATGAAATTTTTTAAAAATAAAAATATAAAAAACAAAAATTATTATCT
TAATATTTTAAAAA
Found at i:3167741 original size:32 final size:32
Alignment explanation
Indices: 3167704--3167789 Score: 118
Period size: 32 Copynumber: 2.7 Consensus size: 32
3167694 TGAAAAGGGT
*
3167704 TGCCACTGACTTGTGTAGGCTTAAAAAAAAGG
1 TGCCACTGACTTGTGTGGGCTTAAAAAAAAGG
* ** * *
3167736 TGCCACTAACTTGTGTGGGCTTTGAAAAGAGT
1 TGCCACTGACTTGTGTGGGCTTAAAAAAAAGG
3167768 TGCCACTGACTTGTGTGGGCTT
1 TGCCACTGACTTGTGTGGGCTT
3167790 TGAAAATGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (32 bp):
TGCCACTGACTTGTGTGGGCTTAAAAAAAAGG
Found at i:3167839 original size:28 final size:28
Alignment explanation
Indices: 3167692--3168083 Score: 365
Period size: 28 Copynumber: 13.4 Consensus size: 28
3167682 AAAGTTATGA
3167692 TTTGAAAAGGGTTGCCACTGACTTGTGTAGGC
1 TTTG-AAAGGG-TGCCACTGACTTGTG--GGC
** * *
3167724 TTAAAAAAAAGGTGCCACTAACTTGTGTGGGC
1 TT--TGAAAGGGTGCCACTGAC-T-TGTGGGC
*
3167756 TTTGAAAAGAGTTGCCACTGACTTGTGTGGGC
1 TTTG-AAAG-GGTGCCACTGAC-T-TGTGGGC
** *
3167788 TTTGAAAATGTATGCCACTGACTTATGGGC
1 TTTG-AAA-GGGTGCCACTGACTTGTGGGC
*
3167818 TTTGAAAGGGTGCCACTGACTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * *
3167846 TTTGGAAGGGTGCCAATGATTTGTGTGGGC
1 TTTGAAAGGGTGCCACTGA-CT-TGTGGGC
* *
3167876 TTTGAAAAGAGTGCCACTAACTTGTGGGC
1 TTTG-AAAGGGTGCCACTGACTTGTGGGC
* *
3167905 TTTGAAAGGGTGCCACTGACTTATGAGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
**
3167933 TTTGAAAGAATGCCACTGACTTGT-GGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
*
3167960 TTTGAAAGGGTGCCACTGACTTGTGGGT
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * *
3167988 TTTGAAAGGATGCGACT-ACCTTGTAGGC
1 TTTGAAAGGGTGCCACTGA-CTTGTGGGC
* *
3168016 TTTGAAAGGATGCCACTAACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* *
3168044 TTTGGAAGGATGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
3168072 TTTGAAAAGGGT
1 TTTG-AAAGGGT
3168084 CGTATTGATG
Statistics
Matches: 300, Mismatches: 46, Indels: 31
0.80 0.12 0.08
Matches are distributed among these distances:
27 25 0.08
28 153 0.51
29 21 0.07
30 21 0.07
31 15 0.05
32 54 0.18
33 7 0.02
34 4 0.01
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (28 bp):
TTTGAAAGGGTGCCACTGACTTGTGGGC
Found at i:3168046 original size:111 final size:114
Alignment explanation
Indices: 3167747--3168083 Score: 419
Period size: 111 Copynumber: 2.9 Consensus size: 114
3167737 GCCACTAACT
* * *
3167747 TGTGTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGTGGGCTTTGAAAATGTATGCCACTGACTT
1 TGTGTGGGCTTTGAAAAGAG-TGCCACTAAC-T-TGTAGGCTTTG-AAA-GGATGCCACTGACTT
* * *
3167812 ATGGGCTTTGAAAGGGTGCCACTGACTTGTGGACTTTGGAAGGGTGCCAATGATT
61 ATGGGCTTTGAAAGGATGCCACTGACTTGTGG-CTTTGAAAGGGTGCCAATGATC
* * *
3167867 TGTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTATGAG
1 TGTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTAGGCTTTGAAAGGATGCCACTGACTTATGGG
* *
3167932 CTTTGAAAGAATGCCACTGACTTGTGGCTTTGAAAGGGTGCCACTGA-C
66 CTTTGAAAGGATGCCACTGACTTGTGGCTTTGAAAGGGTGCCAATGATC
* * * * * *
3167980 T-TGTGGGTTTTGAAAGGA-TGCGACTACCTTGTAGGCTTTGAAAGGATGCCACTAACTTGTGGG
1 TGTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTAGGCTTTGAAAGGATGCCACTGACTTATGGG
*
3168043 CTTTGGAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGGT
66 CTTTGAAAGGATGCCACTGACTTGT-GGCTTTG-AAAGGGT
3168084 CGTATTGATG
Statistics
Matches: 195, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
111 61 0.31
112 22 0.11
113 8 0.04
114 18 0.09
115 42 0.22
116 3 0.02
117 11 0.06
118 1 0.01
119 9 0.05
120 20 0.10
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (114 bp):
TGTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTAGGCTTTGAAAGGATGCCACTGACTTATGGG
CTTTGAAAGGATGCCACTGACTTGTGGCTTTGAAAGGGTGCCAATGATC
Found at i:3168622 original size:20 final size:20
Alignment explanation
Indices: 3168597--3168721 Score: 133
Period size: 20 Copynumber: 5.8 Consensus size: 20
3168587 AAAAAGACAG
*
3168597 AATGTATCGATACGTTGAAA
1 AATGTATCGATACATTGAAA
3168617 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
3168637 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
*
3168657 AATGTATTGATACATCTAGGTAAAAGATA
1 AATGTATCGATACAT-T--G----A-A-A
3168686 GAATGTATCGATACATTGAAA
1 -AATGTATCGATACATTGAAA
*
3168707 AATGTATTGATACAT
1 AATGTATCGATACAT
3168722 CTAGGTAAAA
Statistics
Matches: 91, Mismatches: 4, Indels: 20
0.79 0.03 0.17
Matches are distributed among these distances:
20 67 0.74
21 2 0.02
22 1 0.01
23 2 0.02
27 2 0.02
28 1 0.01
29 2 0.02
30 14 0.15
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:3168712 original size:50 final size:50
Alignment explanation
Indices: 3168637--3168731 Score: 190
Period size: 50 Copynumber: 1.9 Consensus size: 50
3168627 TACATTGAAA
3168637 AATGTATCGATACATTGAAAAATGTATTGATACATCTAGGTAAAAGATAG
1 AATGTATCGATACATTGAAAAATGTATTGATACATCTAGGTAAAAGATAG
3168687 AATGTATCGATACATTGAAAAATGTATTGATACATCTAGGTAAAA
1 AATGTATCGATACATTGAAAAATGTATTGATACATCTAGGTAAAA
3168732 AAGTGACTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (50 bp):
AATGTATCGATACATTGAAAAATGTATTGATACATCTAGGTAAAAGATAG
Found at i:3168712 original size:90 final size:91
Alignment explanation
Indices: 3168547--3168721 Score: 273
Period size: 90 Copynumber: 1.9 Consensus size: 91
3168537 TTTTAACTAG
* * *
3168547 ATGTGTCGATACATTGAAAAATGTATCGTTACATTAGGGTAAAAAGACAGAATGTATCGATACGT
1 ATGTATCGATACATTGAAAAATGTATCGATACATTAGGGTAAAAAGACAGAATGTATCGATACAT
3168612 TGAAAAATGTATCGATACATTGAAAA
66 TGAAAAATGTATCGATACATTGAAAA
* *
3168638 ATGTATCGATACATTGAAAAATGTATTGATACATCTA-GGT-AAAAGATAGAATGTATCGATACA
1 ATGTATCGATACATTGAAAAATGTATCGATACAT-TAGGGTAAAAAGACAGAATGTATCGATACA
*
3168701 TTGAAAAATGTATTGATACAT
65 TTGAAAAATGTATCGATACAT
3168722 CTAGGTAAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
90 41 0.53
91 34 0.44
92 2 0.03
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.30
Consensus pattern (91 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATTAGGGTAAAAAGACAGAATGTATCGATACAT
TGAAAAATGTATCGATACATTGAAAA
Found at i:3170591 original size:44 final size:44
Alignment explanation
Indices: 3170528--3170614 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
3170518 CTACAGTGCA
3170528 CAATTTTCATCAAGTTAATGATTGGAGGGTCATCTATGGTTAAC
1 CAATTTTCATCAAGTTAATGATTGGAGGGTCATCTATGGTTAAC
3170572 CAATTTTCATCAAGTTAATGATTGGAGGGTCATCTATGGTTAA
1 CAATTTTCATCAAGTTAATGATTGGAGGGTCATCTATGGTTAA
3170615 TTTGGTTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.37
Consensus pattern (44 bp):
CAATTTTCATCAAGTTAATGATTGGAGGGTCATCTATGGTTAAC
Found at i:3173044 original size:17 final size:17
Alignment explanation
Indices: 3173004--3173044 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
3172994 TCTTTGTTTC
*
3173004 TCTTTATCTATTTCTTT
1 TCTTTTTCTATTTCTTT
* *
3173021 TCCTTTTCTTTTTCTTT
1 TCTTTTTCTATTTCTTT
3173038 TCTTTTT
1 TCTTTTT
3173045 TCTGGGCTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.76
Consensus pattern (17 bp):
TCTTTTTCTATTTCTTT
Found at i:3173047 original size:12 final size:11
Alignment explanation
Indices: 3173004--3173044 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
3172994 TCTTTGTTTC
*
3173004 TCTTTATCTATT
1 TCTTTTTCT-TT
*
3173016 TCTTTTCCTTT
1 TCTTTTTCTTT
3173027 TCTTTTTCTTT
1 TCTTTTTCTTT
3173038 TCTTTTT
1 TCTTTTT
3173045 TCTGGGCTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 19 0.73
12 7 0.27
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.76
Consensus pattern (11 bp):
TCTTTTTCTTT
Found at i:3174500 original size:12 final size:13
Alignment explanation
Indices: 3174432--3174533 Score: 72
Period size: 12 Copynumber: 8.2 Consensus size: 13
3174422 TGATAACTTT
3174432 TAAA-ATAAAGTA
1 TAAATATAAAGTA
3174444 TAAAT-TAAAGTA
1 TAAATATAAAGTA
* * *
3174456 TAAATCTAAATTTT
1 TAAATATAAA-GTA
3174470 TAAA-ATAAAGTA
1 TAAATATAAAGTA
3174482 TAAATATAAA-TA
1 TAAATATAAAGTA
* **
3174494 TAGATATAAAAAA
1 TAAATATAAAGTA
* *
3174507 TAATTTTTAAAGTA
1 TAA-ATATAAAGTA
3174521 -AAATATAAA-TA
1 TAAATATAAAGTA
3174532 TA
1 TA
3174534 TAAATTTATT
Statistics
Matches: 69, Mismatches: 14, Indels: 14
0.71 0.14 0.14
Matches are distributed among these distances:
11 2 0.03
12 38 0.55
13 18 0.26
14 11 0.16
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (13 bp):
TAAATATAAAGTA
Found at i:3174572 original size:21 final size:21
Alignment explanation
Indices: 3174548--3174592 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
3174538 TTTATTCATT
*
3174548 ATTTTTATTATTATAAAAGGA
1 ATTTTTACTATTATAAAAGGA
*
3174569 ATTTTTACTATTTTAAAAGGA
1 ATTTTTACTATTATAAAAGGA
3174590 ATT
1 ATT
3174593 ATGAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (21 bp):
ATTTTTACTATTATAAAAGGA
Found at i:3174710 original size:23 final size:23
Alignment explanation
Indices: 3174679--3174755 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
3174669 GAATTTTAAA
* **
3174679 AAAAATAATTAAATTTAAATAAT
1 AAAAGTAATTAAATAAAAATAAT
*
3174702 AAAAGTAATAAAATAAAAATAATT
1 AAAAGTAATTAAATAAAAATAA-T
** *
3174726 AAATTTAAAT-AATAAAAATAAT
1 AAAAGTAATTAAATAAAAATAAT
3174748 AAAAGTAA
1 AAAAGTAA
3174756 CATTAACTTA
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
22 7 0.16
23 29 0.67
24 7 0.16
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (23 bp):
AAAAGTAATTAAATAAAAATAAT
Found at i:3174712 original size:9 final size:8
Alignment explanation
Indices: 3174695--3174751 Score: 50
Period size: 9 Copynumber: 7.4 Consensus size: 8
3174685 AATTAAATTT
3174695 AAATAATA
1 AAATAATA
3174703 AAAGTAATA
1 AAA-TAATA
3174712 AAAT-A-A
1 AAATAATA
*
3174718 AAATAATT
1 AAATAATA
*
3174726 AAAT--TT
1 AAATAATA
3174732 AAATAATAA
1 AAATAAT-A
3174741 AAATAATA
1 AAATAATA
3174749 AAA
1 AAA
3174752 GTAACATTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
6 11 0.27
7 2 0.05
8 13 0.32
9 15 0.37
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (8 bp):
AAATAATA
Found at i:3174723 original size:37 final size:37
Alignment explanation
Indices: 3174679--3174751 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
3174669 GAATTTTAAA
*
3174679 AAAAATAATTAAATTTAAATAATAAAAGTAATAAAAT
1 AAAAATAATTAAATTTAAATAATAAAAATAATAAAAT
3174716 AAAAATAATTAAATTTAAATAATAAAAATAATAAAA
1 AAAAATAATTAAATTTAAATAATAAAAATAATAAAA
3174752 GTAACATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (37 bp):
AAAAATAATTAAATTTAAATAATAAAAATAATAAAAT
Found at i:3174804 original size:22 final size:22
Alignment explanation
Indices: 3174773--3174820 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
3174763 TTAGTTATTA
3174773 AATTTAAAAAAACAATTAAATC
1 AATTTAAAAAAACAATTAAATC
* **
3174795 AATTTTAAAAATTAATTAAATC
1 AATTTAAAAAAACAATTAAATC
3174817 AATT
1 AATT
3174821 CAGTTATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (22 bp):
AATTTAAAAAAACAATTAAATC
Found at i:3174916 original size:21 final size:20
Alignment explanation
Indices: 3174860--3174954 Score: 90
Period size: 20 Copynumber: 4.8 Consensus size: 20
3174850 TTAATATTTT
*
3174860 AATTATATATTT-TTTAAAAA
1 AATTAT-TATTTATTTTAAAA
* *
3174880 AATTAATAATT-TTTTAAAA
1 AATTATTATTTATTTTAAAA
3174899 AATTATTATTTATATTT-AAA
1 AATTATTATTTAT-TTTAAAA
*
3174919 AATTATTCATTTATTTT-TAA
1 AATTATT-ATTTATTTTAAAA
3174939 AATTATTTATTTATTT
1 AATTA-TTATTTATTT
3174955 ATTTAAAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
19 20 0.31
20 34 0.52
21 11 0.17
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTATTATTTATTTTAAAA
Found at i:3176541 original size:13 final size:13
Alignment explanation
Indices: 3176523--3176550 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3176513 CATTATTCAA
3176523 TGTATCGATACAT
1 TGTATCGATACAT
3176536 TGTATCGATACAT
1 TGTATCGATACAT
3176549 TG
1 TG
3176551 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3181278 original size:95 final size:94
Alignment explanation
Indices: 3181152--3181328 Score: 239
Period size: 95 Copynumber: 1.9 Consensus size: 94
3181142 GTCTCCAATA
* * * *
3181152 ATGACATTTAAGCAAAAGAAAAATTTAATCTTGACTAGTTTAAATACAGGGTTGGAGTATTCTCT
1 ATGACATTTAAACAAAAGAAAAATTTAATCTTGACAAGTTTAAAAACAGGGTTGGAGTATCCTCT
*
3181217 CGGAAGATGGGGTTGGAATACCCCTAATG
66 CGGAACATGGGGTTGGAATACCCCTAATG
* * **
3181246 ATGACAGTTTAAACAAAA-CAAGATTTACATCTTGACAAGTTTAAAAATGGGGTTGGAGTATCCT
1 ATGACA-TTTAAACAAAAGAAAAATTTA-ATCTTGACAAGTTTAAAAACAGGGTTGGAGTATCCT
*
3181310 TTCGGAACATGGGGTTGGA
64 CTCGGAACATGGGGTTGGA
3181329 GTATCCTCGA
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
94 13 0.18
95 58 0.82
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.29
Consensus pattern (94 bp):
ATGACATTTAAACAAAAGAAAAATTTAATCTTGACAAGTTTAAAAACAGGGTTGGAGTATCCTCT
CGGAACATGGGGTTGGAATACCCCTAATG
Found at i:3184289 original size:154 final size:154
Alignment explanation
Indices: 3184094--3184467 Score: 475
Period size: 154 Copynumber: 2.4 Consensus size: 154
3184084 GGTTTCAAAG
* * * * *
3184094 AAATTATGAAAATGCCCCTAGGGGATACCTTCGACGCAAAAGTACCTGATACCCCTGAAGAACTT
1 AAATTACGAAAATG-CCCTAGGGGATAACTTTGACGTAAAAGTACCTGATACCCCTAAAGAACTT
* * * * *
3184159 AAAAAGGATAATAGATGGGATGAACCTATCCTAAATATCTACCTTTGGCATTAAAGCAAACCTGG
65 AAAAAAGATAATAGATGAGATAAACCTATCCTAAATATCTACCTTTGACATAAAAGCAAACCTGG
* *
3184224 TGACAA-TCTAGGACTTATATCT-AA
130 TGACAACT-TAAGACTCATATCTAAA
* ** *
3184248 AAATTACGAAAAAGCCTCTAGGGGATATTTTTGACGTAAAAGTACCTGATACCCCTAAAGGACTT
1 AAATTACGAAAATGCC-CTAGGGGATAACTTTGACGTAAAAGTACCTGATACCCCTAAAGAACTT
* **
3184313 AAAAAAGATAATAGATGAGATAAACCTATCTTAAATATCTACCTTTGACATAAAAGTGAACCTGG
65 AAAAAAGATAATAGATGAGATAAACCTATCCTAAATATCTACCTTTGACATAAAAGCAAACCTGG
*
3184378 TGACAACTTAAGACTCATTTCTAAA
130 TGACAACTTAAGACTCATATCTAAA
* * *
3184403 AAATTACGAATATGCCCTTAGGGGATAACTTTGACGTAAAAGTA-CTCGGTACCCCTAAAGGACT
1 AAATTACGAAAATGCCC-TAGGGGATAACTTTGACGTAAAAGTACCT-GATACCCCTAAAGAACT
3184467 T
64 T
3184468 GAGATAATGC
Statistics
Matches: 191, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
153 2 0.01
154 131 0.69
155 58 0.30
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (154 bp):
AAATTACGAAAATGCCCTAGGGGATAACTTTGACGTAAAAGTACCTGATACCCCTAAAGAACTTA
AAAAAGATAATAGATGAGATAAACCTATCCTAAATATCTACCTTTGACATAAAAGCAAACCTGGT
GACAACTTAAGACTCATATCTAAA
Found at i:3185356 original size:20 final size:20
Alignment explanation
Indices: 3185331--3185401 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
3185321 ATTGGGTTCA
3185331 ATGTATCGATATAATTCACC
1 ATGTATCGATATAATTCACC
3185351 ATGTATCGATATAATTCACC
1 ATGTATCGATATAATTCACC
* * * *
3185371 ATATATTGATACAATTCATC
1 ATGTATCGATATAATTCACC
3185391 ATGTATCGATA
1 ATGTATCGATA
3185402 CCATGTATCG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (20 bp):
ATGTATCGATATAATTCACC
Found at i:3185851 original size:13 final size:13
Alignment explanation
Indices: 3185833--3185858 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3185823 TACAGCAAGT
3185833 ATGTATCGATACA
1 ATGTATCGATACA
3185846 ATGTATCGATACA
1 ATGTATCGATACA
3185859 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3186666 original size:13 final size:13
Alignment explanation
Indices: 3186648--3186672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3186638 TACCAAGAAC
3186648 ATGTATCGATACA
1 ATGTATCGATACA
3186661 ATGTATCGATAC
1 ATGTATCGATAC
3186673 TAAGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3186671 original size:32 final size:33
Alignment explanation
Indices: 3186630--3186693 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
3186620 TATTTCAAGG
3186630 TGTATCGATACCAAG-AACATGTATCGATACAA
1 TGTATCGATACCAAGCAACATGTATCGATACAA
* * *
3186662 TGTATCGATACTAAGCAATATTTATCGATACA
1 TGTATCGATACCAAGCAACATGTATCGATACA
3186694 TCTCGGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (33 bp):
TGTATCGATACCAAGCAACATGTATCGATACAA
Found at i:3189135 original size:163 final size:166
Alignment explanation
Indices: 3188926--3189280 Score: 457
Period size: 163 Copynumber: 2.1 Consensus size: 166
3188916 AAACAAATTA
* * * * *
3188926 TAATTTTTCAAAACTAAATTAATAGGAGTACAATGACAATATTAGATGCATTTTAAAAATTCTAG
1 TAATTTTTCAAAACTAATTTAATGGGAATACAATGACAATATTAGATACATTTTAAAAATTCTAA
* *
3188991 AGCAAAGAAAATCCCCCCGAAAATATTTATGGAATAGAAAAATTGGTTTTTTGA-AAAAAAA-GA
66 AGCAAAGAAAATCCCCCCGAAAATATTTATGGAATAGAAAAATCGATTTTTTGAGAAAAAAAGGA
* **
3189054 TTTTAAAG-AAAAATT-CAAATCTCATGAAAATAAAT
131 TTTTAAAGAAAAAATTAAAAAT-GAATGAAAATAAAT
* * * * *
3189089 TAATTTTTCAAAACTATTTTAATGGGAATTCCATGACATTATTAGATACATTTTAAAAATTTTAA
1 TAATTTTTCAAAACTAATTTAATGGGAATACAATGACAATATTAGATACATTTTAAAAATTCTAA
** * * *
3189154 ATTAAAGAAAATCCTCCCGAAAATATTTATGGATTAGAAAACTCGATTTTTTGAGAAAAAAAGGG
66 AGCAAAGAAAATCCCCCCGAAAATATTTATGGAATAGAAAAATCGATTTTTTGAGAAAAAAA--G
*
3189219 GATTTTAAAGAAAAAATTAAAAATGAATGAAAATGAAT
129 GATTTTAAAGAAAAAATTAAAAATGAATGAAAATAAAT
*
3189257 GAATTTTTCAAAACTAATTTAATG
1 TAATTTTTCAAAACTAATTTAATG
3189281 TAAATTAAAT
Statistics
Matches: 163, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
163 102 0.63
164 7 0.04
167 10 0.06
168 40 0.25
169 4 0.02
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.32
Consensus pattern (166 bp):
TAATTTTTCAAAACTAATTTAATGGGAATACAATGACAATATTAGATACATTTTAAAAATTCTAA
AGCAAAGAAAATCCCCCCGAAAATATTTATGGAATAGAAAAATCGATTTTTTGAGAAAAAAAGGA
TTTTAAAGAAAAAATTAAAAATGAATGAAAATAAAT
Found at i:3198422 original size:13 final size:13
Alignment explanation
Indices: 3198404--3198429 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3198394 TACACAAAGT
3198404 ATGTATCGATACA
1 ATGTATCGATACA
3198417 ATGTATCGATACA
1 ATGTATCGATACA
3198430 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3198427 original size:32 final size:33
Alignment explanation
Indices: 3198386--3198449 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
3198376 TAGCCAAACT
**
3198386 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
3198418 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
3198450 TTGGCTTGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:3206489 original size:16 final size:15
Alignment explanation
Indices: 3206464--3206502 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
3206454 TTCCAAACAC
3206464 AAAAAAAAAAAAGAA
1 AAAAAAAAAAAAGAA
*
3206479 ACAAAACAAAAAAGAA
1 A-AAAAAAAAAAAGAA
3206495 AAAAAAAA
1 AAAAAAAA
3206503 GAGGAAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.90, C:0.05, G:0.05, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAGAA
Found at i:3207598 original size:50 final size:51
Alignment explanation
Indices: 3207498--3207598 Score: 132
Period size: 50 Copynumber: 2.0 Consensus size: 51
3207488 TTTTGTCCTA
* * * *
3207498 AAAGTCCACAATTCAGTGGCATCCCTTTTAAGTCCACGACTTAGTGGCATC
1 AAAGTCCACAACTCAGTGGCATCCATTTTAAGCCCACAACTTAGTGGCATC
* * *
3207549 AAAGTCCACGACTCTGTGGCA-CCATTTTAAGCCCACAACTTCGTGGCATC
1 AAAGTCCACAACTCAGTGGCATCCATTTTAAGCCCACAACTTAGTGGCATC
3207599 TTTTTCCTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
50 25 0.58
51 18 0.42
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.26
Consensus pattern (51 bp):
AAAGTCCACAACTCAGTGGCATCCATTTTAAGCCCACAACTTAGTGGCATC
Found at i:3207618 original size:35 final size:32
Alignment explanation
Indices: 3207573--3207892 Score: 237
Period size: 35 Copynumber: 9.8 Consensus size: 32
3207563 TGTGGCACCA
*
3207573 TTTTAAGCCCACAACTTCGTGGCATCTTTTTCC
1 TTTTAAGCCCACAACTCCGTGGCA-CTTTTTCC
*
3207606 TTTTTAAAGCCCACAACTACGTGGCACTCTTTTTCC
1 -TTTT-AAGCCCACAACTCCGTGGCA--CTTTTTCC
3207642 TTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 -TTTT-AAGCCCACAACTCCGTGGCA--CTTTTTCC
* * *
3207678 TTCTAAGTCCACAACTCCATGGCAC-----CC
1 TTTTAAGCCCACAACTCCGTGGCACTTTTTCC
* *
3207705 GTTTAAGCCCACGACTCCGTGGCAC-----CC
1 TTTTAAGCCCACAACTCCGTGGCACTTTTTCC
* *
3207732 TTTTAAGTCCACGACTCCGTGGCACCCTTTTTTCC
1 TTTTAAGCCCACAACTCCGTGGCA--C-TTTTTCC
* *
3207767 TTTAAAGCCCACAACTACGTGGCACTTTTTTCC
1 TTTTAAGCCCACAACTCCGTGGCAC-TTTTTCC
* ** *
3207800 TTTTAAGTCCAGGACTTCGTGGCACCCTTTTTTCC
1 TTTTAAGCCCACAACTCCGTGGCA--C-TTTTTCC
* *
3207835 TTTAAAGCCCACAACTACGTGGCACTCTTTTCC
1 TTTTAAGCCCACAACTCCGTGGCACT-TTTTCC
* * *
3207868 TTTTAAGTCCACGACTTCGTGGCAC
1 TTTTAAGCCCACAACTCCGTGGCAC
3207893 CTTCTTCTAA
Statistics
Matches: 243, Mismatches: 30, Indels: 27
0.81 0.10 0.09
Matches are distributed among these distances:
27 46 0.19
29 1 0.00
32 2 0.01
33 56 0.23
34 22 0.09
35 72 0.30
36 44 0.18
ACGTcount: A:0.20, C:0.33, G:0.14, T:0.33
Consensus pattern (32 bp):
TTTTAAGCCCACAACTCCGTGGCACTTTTTCC
Found at i:3207759 original size:27 final size:27
Alignment explanation
Indices: 3207676--3207762 Score: 129
Period size: 27 Copynumber: 3.2 Consensus size: 27
3207666 CACTCTTTTT
* * *
3207676 CCTTCTAAGTCCACAACTCCATGGCAC
1 CCTTTTAAGTCCACGACTCCGTGGCAC
* *
3207703 CCGTTTAAGCCCACGACTCCGTGGCAC
1 CCTTTTAAGTCCACGACTCCGTGGCAC
3207730 CCTTTTAAGTCCACGACTCCGTGGCAC
1 CCTTTTAAGTCCACGACTCCGTGGCAC
3207757 CCTTTT
1 CCTTTT
3207763 TTCCTTTAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.20, C:0.39, G:0.16, T:0.25
Consensus pattern (27 bp):
CCTTTTAAGTCCACGACTCCGTGGCAC
Found at i:3207839 original size:68 final size:68
Alignment explanation
Indices: 3207730--3207893 Score: 301
Period size: 68 Copynumber: 2.4 Consensus size: 68
3207720 TCCGTGGCAC
* *
3207730 CCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTTCCTTTAAAGCCCACAACTACGTGGCACTTT
1 CCTTTTAAGTCCACGACTTCGTGGCACCCTTTTTTCCTTTAAAGCCCACAACTACGTGGCACTCT
3207795 TTT
66 TTT
*
3207798 CCTTTTAAGTCCAGGACTTCGTGGCACCCTTTTTTCCTTTAAAGCCCACAACTACGTGGCACTCT
1 CCTTTTAAGTCCACGACTTCGTGGCACCCTTTTTTCCTTTAAAGCCCACAACTACGTGGCACTCT
3207863 TTT
66 TTT
3207866 CCTTTTAAGTCCACGACTTCGTGGCACC
1 CCTTTTAAGTCCACGACTTCGTGGCACC
3207894 TTCTTCTAAA
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 92 1.00
ACGTcount: A:0.19, C:0.32, G:0.15, T:0.34
Consensus pattern (68 bp):
CCTTTTAAGTCCACGACTTCGTGGCACCCTTTTTTCCTTTAAAGCCCACAACTACGTGGCACTCT
TTT
Found at i:3207929 original size:33 final size:33
Alignment explanation
Indices: 3207886--3207997 Score: 156
Period size: 33 Copynumber: 3.4 Consensus size: 33
3207876 CCACGACTTC
3207886 GTGGC-ACCTTCTTCTAAAGCCCACACAAGTCG
1 GTGGCAACCTTCTTCTAAAGCCCACACAAGTCG
* *
3207918 GTGGCAACCTTCTTCCAAAGCCCACATAAGTCG
1 GTGGCAACCTTCTTCTAAAGCCCACACAAGTCG
* *
3207951 GTGGCAACC-ACTTTCTAAAGCCCACACAAGTTG
1 GTGGCAACCTTC-TTCTAAAGCCCACACAAGTCG
3207984 GTGGCAACCCTTCT
1 GTGGCAA-CCTTCT
3207998 AAGTCCAATG
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
32 6 0.09
33 59 0.86
34 3 0.04
35 1 0.01
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (33 bp):
GTGGCAACCTTCTTCTAAAGCCCACACAAGTCG
Found at i:3208111 original size:49 final size:49
Alignment explanation
Indices: 3207997--3208316 Score: 387
Period size: 49 Copynumber: 6.7 Consensus size: 49
3207987 GCAACCCTTC
*
3207997 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC------CAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTTTATCTT
* *
3208040 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTTTATCTT
* * * *
3208089 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTTTATCTT
* * * *
3208138 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC-CTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTTTATCTT
*
3208186 TAAGTCCAGTGTAGCTGGCCTTGAATCAGCACATTGGCAC------CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTTTATCTT
* *
3208229 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTTT--ATCTT
*
3208281 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
3208317 ACATCCTTTT
Statistics
Matches: 242, Mismatches: 20, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
43 77 0.32
44 1 0.00
48 44 0.18
49 84 0.35
52 36 0.15
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTTTATCTT
Found at i:3208268 original size:91 final size:94
Alignment explanation
Indices: 3208135--3208325 Score: 280
Period size: 91 Copynumber: 2.0 Consensus size: 94
3208125 GCACCTTCAT
* * *
3208135 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-T-CACCTTTAAGTCCAGTGT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCCACCTTTAAGTCCAATGT
*
3208198 AGCTGGCCTTGAATCAGCACATTGGCA-C
66 AGCTGGCCTTGAATCAGCACATTGACATC
* * *
3208226 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TTCCACCTTTAAGTCCAAT
3208291 GTAGCTGGCCTTGAATCAGCACATTGACATC
64 GTAGCTGGCCTTGAATCAGCACATTGACATC
3208322 CTTT
1 CTTT
3208326 TTCTCATCTT
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
91 41 0.47
94 1 0.01
95 41 0.47
96 5 0.06
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.31
Consensus pattern (94 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCCACCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGACATC
Found at i:3208304 original size:52 final size:53
Alignment explanation
Indices: 3208226--3208693 Score: 208
Period size: 52 Copynumber: 8.9 Consensus size: 53
3208216 ACATTGGCAC
3208226 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * *
3208278 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * * * *
3208333 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATC-TTTATCACT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCA-T
* * * * * * * * *** * **
3208386 TTTCTCA-TCTTCATCTTTAAG-T--CCAAT-ATTGCTGGCCTTGAACCAGCACATTGGCACCTT
1 CTT-TAAGTC--CA-ATAT-AGCTGGCC-TTGAAT-C-AG-CAT--ATTGGCACCTT---TTC-T
3208446 CAT
51 CAT
* * * *
3208449 TTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC---T-T-AC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * *
3208497 CTTTAAGTCCAGTGTAGCTGGCCTTGAATCAGCACATTGGCA--------C--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
3208540 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * ** *
3208592 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * * *
3208647 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
3208694 ATCACTTTTC
Statistics
Matches: 309, Mismatches: 69, Indels: 75
0.68 0.15 0.17
Matches are distributed among these distances:
43 39 0.13
48 41 0.13
49 1 0.00
50 1 0.00
52 81 0.26
53 11 0.04
54 18 0.06
55 75 0.24
56 3 0.01
57 8 0.03
59 7 0.02
60 5 0.02
61 4 0.01
62 6 0.02
63 6 0.02
64 3 0.01
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:3208454 original size:49 final size:49
Alignment explanation
Indices: 3208394--3208626 Score: 309
Period size: 49 Copynumber: 4.8 Consensus size: 49
3208384 CTTTTCTCAT
* * *
3208394 CTTCATCTTTAAGTCCAATATTGCTGGCCTTGAACCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
*
3208443 CTTCATTTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* *
3208492 CTT-ACCTTTAAGTCCAGTGTAGCTGGCCTTGAATCAGCACATTGGCA-
1 CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* *
3208539 ---C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
*
3208583 CTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 C--TT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
3208627 GTTGACATCC
Statistics
Matches: 161, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
43 39 0.24
48 41 0.25
49 48 0.30
50 1 0.01
52 32 0.20
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:3208488 original size:116 final size:119
Alignment explanation
Indices: 3208275--3208490 Score: 267
Period size: 122 Copynumber: 1.8 Consensus size: 119
3208265 GCACCTTTTC
* * *
3208275 CATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAG
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAACCAGCACATTGACATCC---TTCTCATCTTTAAG
* * *
3208340 CCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTT
63 CCCAATATAGCTGGCCGTGAATCAACACATTGGCATCTTTATCACTTTTCTCATCTT
* * * *
3208397 CATCTTTAAGTCCAATATTGCTGGCCTTGAACCAGCACATTGGCA-CC-T-TCATTTTTAAGTCC
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAACCAGCACATTGACATCCTTCTCATCTTTAAGCCC
* * *
3208459 AATGTAGCTGGCCTTGAATCAGCACATTGGCA
66 AATATAGCTGGCCGTGAATCAACACATTGGCA
3208491 CCTTACCTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
116 38 0.47
117 1 0.01
121 2 0.02
122 40 0.49
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (119 bp):
CATCTTTAAGTCCAATATAGCTGGCCTTGAACCAGCACATTGACATCCTTCTCATCTTTAAGCCC
AATATAGCTGGCCGTGAATCAACACATTGGCATCTTTATCACTTTTCTCATCTT
Found at i:3208558 original size:43 final size:43
Alignment explanation
Indices: 3208450--3208586 Score: 202
Period size: 43 Copynumber: 3.1 Consensus size: 43
3208440 CACCTTCATT
3208450 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTACC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG---C--ACC
*
3208498 TTTAAGTCCAGTGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
* *
3208541 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
3208584 TTT
1 TTT
3208587 TCCATCTTTA
Statistics
Matches: 85, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
43 46 0.54
45 1 0.01
48 38 0.45
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (43 bp):
TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
Found at i:3208582 original size:91 final size:93
Alignment explanation
Indices: 3208450--3208626 Score: 277
Period size: 91 Copynumber: 1.9 Consensus size: 93
3208440 CACCTTCATT
* *
3208450 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TT-ACCTTTAAGTCCAGTGTA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTCACCTTTAAGTCCAATGTA
3208513 GCTGGCCTTGAATCAGCACATTGGCACC
66 GCTGGCCTTGAATCAGCACATTGGCACC
* * *
3208541 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TTT-CACCTTTAAGTCCAATG
3208606 TAGCTGGCCTTGAATCAGCAC
64 TAGCTGGCCTTGAATCAGCAC
3208627 GTTGACATCC
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
91 41 0.53
93 2 0.03
95 34 0.44
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (93 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTCACCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCACC
Found at i:3208653 original size:314 final size:314
Alignment explanation
Indices: 3208084--3208763 Score: 1245
Period size: 314 Copynumber: 2.2 Consensus size: 314
3208074 TGGCACTTTT
* * *
3208084 ATCTTTAAGACCAATGTAGCTGGCCTTG-ACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
1 ATCTTTAAGTCCAATATTGCTGGCCTTGAAC-CAGCACATTGGCACCTTCATCTTTAAGTCCAAT
*
3208148 GTAGCTGGCCTTGACTCAGCACATTGGCACCTCACCTTTAAGTCCAGTGTAGCTGGCCTTGAATC
65 GTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAGTGTAGCTGGCCTTGAATC
3208213 AGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
130 AGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
3208278 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCC
195 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCC
* *
3208343 AATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTC
260 AATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATC
*
3208398 ATCTTTAAGTCCAATATTGCTGGCCTTGAACCAGCACATTGGCACCTTCATTTTTAAGTCCAATG
1 ATCTTTAAGTCCAATATTGCTGGCCTTGAACCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
*
3208463 TAGCTGGCCTTGAATCAGCACATTGGCACCTTACCTTTAAGTCCAGTGTAGCTGGCCTTGAATCA
66 TAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAGTGTAGCTGGCCTTGAATCA
3208528 GCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC
131 GCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC
*
3208593 TTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCA
196 TTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCA
3208658 ATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATC
261 ATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATC
* *
3208712 ATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 ATCTTTAAGTCCAATATTGCTGGCCTTGAACCAGCACATTGGCACCTTCATC
3208764 ATCTTTAAAA
Statistics
Matches: 353, Mismatches: 12, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
314 351 0.99
315 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (314 bp):
ATCTTTAAGTCCAATATTGCTGGCCTTGAACCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
TAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAGTGTAGCTGGCCTTGAATCA
GCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC
TTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCA
ATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATC
Found at i:3208751 original size:67 final size:68
Alignment explanation
Indices: 3208643--3208769 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
3208633 ATCCTTTTTC
* * *
3208643 TCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
3208707 TCA
66 TCA
* * * *
3208710 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCACCTTCATCATCTTT
3208770 AAAACCCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCA
Found at i:3209535 original size:33 final size:33
Alignment explanation
Indices: 3209491--3209557 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
3209481 TTCAACGATT
3209491 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
* *** *
3209524 TGTATCTATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
3209557 T
1 T
3209558 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:3209616 original size:13 final size:13
Alignment explanation
Indices: 3209598--3209625 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3209588 ATTACTCAAA
3209598 TGTATCGATACAT
1 TGTATCGATACAT
3209611 TGTATCGATACAT
1 TGTATCGATACAT
3209624 TG
1 TG
3209626 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3209672 original size:32 final size:32
Alignment explanation
Indices: 3209631--3209706 Score: 152
Period size: 32 Copynumber: 2.4 Consensus size: 32
3209621 CATTGATCTT
3209631 TGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGA
3209663 TGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGA
3209695 TGTATCGATACA
1 TGTATCGATACA
3209707 CTATTAAATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (32 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:3216157 original size:12 final size:12
Alignment explanation
Indices: 3216140--3216164 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3216130 GGGAGAATGC
3216140 ATAAATTTGCTA
1 ATAAATTTGCTA
3216152 ATAAATTTGCTA
1 ATAAATTTGCTA
3216164 A
1 A
3216165 AATTACCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
ATAAATTTGCTA
Found at i:3216788 original size:20 final size:21
Alignment explanation
Indices: 3216765--3216819 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
3216755 ACAATTCAAA
* *
3216765 GTATCGATACATGTTACA-AT
1 GTATCGATACATGTAAAAGAT
*
3216785 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTAAAAGAT
3216806 GTATCGATACATGT
1 GTATCGATACATGT
3216820 CATTGGGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (21 bp):
GTATCGATACATGTAAAAGAT
Found at i:3216885 original size:13 final size:13
Alignment explanation
Indices: 3216867--3216892 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3216857 TACACAAAGT
3216867 ATGTATCGATACA
1 ATGTATCGATACA
3216880 ATGTATCGATACA
1 ATGTATCGATACA
3216893 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3216891 original size:32 final size:33
Alignment explanation
Indices: 3216849--3216912 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
3216839 TAGCCAAACT
* **
3216849 TGTATTGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
3216881 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
3216913 TTGGCTTGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:3222675 original size:20 final size:20
Alignment explanation
Indices: 3222628--3222677 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
3222618 AGAGTTAGGT
* *
3222628 AAAAAAGAAAGAAAGAAGAT
1 AAAAAAGAAAGAAAGAAAAA
* *
3222648 GAAGAAGAAAGAAAGAAAAA
1 AAAAAAGAAAGAAAGAAAAA
3222668 AAAAAAGAAA
1 AAAAAAGAAA
3222678 AAATATGAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (20 bp):
AAAAAAGAAAGAAAGAAAAA
Found at i:3225497 original size:54 final size:54
Alignment explanation
Indices: 3225437--3225544 Score: 191
Period size: 54 Copynumber: 2.0 Consensus size: 54
3225427 AATGCATAAA
*
3225437 ACATCAACAAAATAAGGTTAAGAAGGAGTTATACCTTGGTTGATTTTG-TGGAAG
1 ACATCAACAAAATAAAGTTAAGAAGGAGTTATACCTTGGTTGA-TTTGCTGGAAG
3225491 ACATCAACAAAATAAAGTTAAGAAGGAGTTATACCTTGGTTGATTTGCTGGAAG
1 ACATCAACAAAATAAAGTTAAGAAGGAGTTATACCTTGGTTGATTTGCTGGAAG
3225545 CAAAAACTAG
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
53 4 0.08
54 48 0.92
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (54 bp):
ACATCAACAAAATAAAGTTAAGAAGGAGTTATACCTTGGTTGATTTGCTGGAAG
Found at i:3226741 original size:169 final size:170
Alignment explanation
Indices: 3226439--3226751 Score: 363
Period size: 169 Copynumber: 1.8 Consensus size: 170
3226429 AAAATGGTGA
*
3226439 TTTCAAAGGAAAAAATCATAAATTTATGAAAATGAATTGATCTTTTAAAACTAATTTAATATGAG
1 TTTCAAAGGAAAAAATCATAAATTTATGAAAATGAATTGATCTTTTAAAACTAATTTAATATGAA
* ** * * * * * *
3226504 TTAAATGGTGATTTTGATGAATTTTAAAAATTGAAAGCCGAGAATAATACCCTAGAAAAAAATTT
66 ATAAATAATAATTTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATACCCCAGAAAAAAATTT
*
3226569 ACGGAGTAGAAAATTAAAAATTTATGAGAAAACTATTCAT
131 ACGGAGAAGAAAATTAAAAATTTATGAGAAAACTATTCAT
*
3226609 TTTC-AAGGAAAAATATTCA-AAATTTATG-AAATGAA-TGAAT-TTTTGAGAAA-TGATTTAAT
1 TTTCAAAGGAAAAA-A-TCATAAATTTATGAAAATGAATTG-ATCTTTT-A-AAACTAATTTAAT
* *
3226668 ATGAAATAAATAATAATATTTGATGAATTTTGAAAATTAAAAACCAAGAAAAAT-CCTCCCG-AA
61 ATGAAATAAATAATAAT-TTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATACC-CCAGAAA
* *
3226731 AAAGTTTACGGTGAAGAAAAT
124 AAAATTTACGGAGAAGAAAAT
3226752 CTCGTAATTC
Statistics
Matches: 120, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
168 6 0.05
169 61 0.51
170 50 0.42
171 3 0.03
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.32
Consensus pattern (170 bp):
TTTCAAAGGAAAAAATCATAAATTTATGAAAATGAATTGATCTTTTAAAACTAATTTAATATGAA
ATAAATAATAATTTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATACCCCAGAAAAAAATTT
ACGGAGAAGAAAATTAAAAATTTATGAGAAAACTATTCAT
Found at i:3228139 original size:24 final size:24
Alignment explanation
Indices: 3228107--3228153 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
3228097 AGAACTATTT
3228107 GAGCCTTTCATTCTCATTTGTATA
1 GAGCCTTTCATTCTCATTTGTATA
*
3228131 GAGCCTTTCATTCTTATTTGTAT
1 GAGCCTTTCATTCTCATTTGTAT
3228154 CGAACCTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (24 bp):
GAGCCTTTCATTCTCATTTGTATA
Found at i:3229137 original size:13 final size:13
Alignment explanation
Indices: 3229119--3229144 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3229109 CAATTTTTTG
3229119 TGTATCGATACAT
1 TGTATCGATACAT
3229132 TGTATCGATACAT
1 TGTATCGATACAT
3229145 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3229229 original size:20 final size:20
Alignment explanation
Indices: 3229204--3229274 Score: 99
Period size: 20 Copynumber: 3.6 Consensus size: 20
3229194 CATCCTTTTT
3229204 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
3229224 ATGTATCGATACATT-TTTT
1 ATGTATCGATACATTGCAAC
3229243 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
3229263 ATGTATCGATAC
1 ATGTATCGATAC
3229275 TTTGAATTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 15 0.36
20 27 0.64
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:3229251 original size:39 final size:40
Alignment explanation
Indices: 3229183--3229274 Score: 168
Period size: 39 Copynumber: 2.3 Consensus size: 40
3229173 CTGCCAAGAA
3229183 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAT-CTTTTTATGTATCGATACATTGCAAC
3229224 ATGTATCGATACAT-TTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTATGTATCGATACATTGCAAC
3229263 ATGTATCGATAC
1 ATGTATCGATAC
3229275 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
39 37 0.73
41 14 0.27
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.39
Consensus pattern (40 bp):
ATGTATCGATACATCTTTTTATGTATCGATACATTGCAAC
Found at i:3229879 original size:48 final size:48
Alignment explanation
Indices: 3229824--3229917 Score: 188
Period size: 48 Copynumber: 2.0 Consensus size: 48
3229814 AAATTTTACG
3229824 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
1 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
3229872 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTC
1 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTC
3229918 TTTTATCTCC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.26, C:0.29, G:0.09, T:0.37
Consensus pattern (48 bp):
AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
Found at i:3231778 original size:13 final size:13
Alignment explanation
Indices: 3231760--3231798 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
3231750 ATAATCACCC
*
3231760 TGTATCGATACAG
1 TGTATCGATACAA
3231773 TGTATCGATACAA
1 TGTATCGATACAA
3231786 TGTATCGATACAA
1 TGTATCGATACAA
3231799 GGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3233897 original size:15 final size:15
Alignment explanation
Indices: 3233877--3233907 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3233867 ATTTCGTTTG
*
3233877 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3233892 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3233907 G
1 G
3233908 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:3237986 original size:13 final size:13
Alignment explanation
Indices: 3237968--3237993 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3237958 CAATTTTTTG
3237968 TGTATCGATACAT
1 TGTATCGATACAT
3237981 TGTATCGATACAT
1 TGTATCGATACAT
3237994 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3238078 original size:20 final size:20
Alignment explanation
Indices: 3238053--3238123 Score: 99
Period size: 20 Copynumber: 3.6 Consensus size: 20
3238043 CATCCTTTTT
3238053 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
3238073 ATGTATCGATACATT-TTTT
1 ATGTATCGATACATTGCAAC
3238092 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
3238112 ATGTATCGATAC
1 ATGTATCGATAC
3238124 TTTGAATTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 15 0.36
20 27 0.64
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:3238100 original size:39 final size:40
Alignment explanation
Indices: 3238032--3238123 Score: 168
Period size: 39 Copynumber: 2.3 Consensus size: 40
3238022 CTGCCAAGAA
3238032 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAT-CTTTTTATGTATCGATACATTGCAAC
3238073 ATGTATCGATACAT-TTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTATGTATCGATACATTGCAAC
3238112 ATGTATCGATAC
1 ATGTATCGATAC
3238124 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
39 37 0.73
41 14 0.27
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.39
Consensus pattern (40 bp):
ATGTATCGATACATCTTTTTATGTATCGATACATTGCAAC
Found at i:3240761 original size:20 final size:20
Alignment explanation
Indices: 3240715--3240770 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
3240705 ACCTTAAGTG
* *
3240715 AAATGTATCGATACATGGGA
1 AAATGTATCAATACATGAGA
* * *
3240735 CATTGTATCAATACATGATA
1 AAATGTATCAATACATGAGA
3240755 AAATGTATCAATACAT
1 AAATGTATCAATACAT
3240771 TGTGCCCAAC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.30
Consensus pattern (20 bp):
AAATGTATCAATACATGAGA
Found at i:3241794 original size:254 final size:255
Alignment explanation
Indices: 3241202--3241968 Score: 1090
Period size: 254 Copynumber: 3.0 Consensus size: 255
3241192 TGGGGTATAA
* * * * *
3241202 TTCTTAAAGAGATTATGAGGTTCATATCTTAGCCTTGAAAAGATAAGTATTGTAAGGTTATACTT
1 TTCTTGAAGAGATTGTGAGGTTCTTATCTTAGCCTTGAAAAGATAAGTGTTGTAAGGTTATACCT
* * * * * *
3241267 TTCCTGAAAGGTAAACAATTCGTGTACTGGGTTCTGGTAACACTCTATAAGGAAGTGTCAAGGAG
66 TTCCTGAAAGGTAAACAATTCGTGTAGTGGATTGTGGTAACACTCGACAAGGAAGTGTCGAGGAG
* *
3241332 AGAAGACGTAGGTGCCATGTTTGGACCGAACCTCTATAAATATTTGTGTTGAGTTTTCTCTTTTC
131 AGAGGACGTAGGTGCCGTGTTTGGACCGAACCTCTATAAATATTTGTGTTGAGTTTTCTCTTTTC
* *
3241397 CCTACTTTTTTTATCTTCAAGTTGTTTTCGAAACAATTCTTACAAAATAGTAAAATTTTATGAGG
196 CCTAC-----TTATCTTCAAGTTGTTTTCGAAACAATTCTTACAAAATATTCAAATTTTATGAGG
*
3241462 TTCTTGAAGAGATTGTGAGGTTCTTATCTTAGCCTTGAAAAAATAAGTGTTGTAAGGTTATACCT
1 TTCTTGAAGAGATTGTGAGGTTCTTATCTTAGCCTTGAAAAGATAAGTGTTGTAAGGTTATACCT
* * * *
3241527 TTCTTGAAAGGTAAACAATTCATGTAGTGGATTGTGGTAACACTCGACACGAAAGTGTCGAGGAG
66 TTCCTGAAAGGTAAACAATTCGTGTAGTGGATTGTGGTAACACTCGACAAGGAAGTGTCGAGGAG
*
3241592 AGAGGACGTAAGTGCCGTGTTTGGACCGAACCTCTATAAATATTTGTGTTGAGTTTTCTCTTTTC
131 AGAGGACGTAGGTGCCGTGTTTGGACCGAACCTCTATAAATATTTGTGTTGAGTTTTCTCTTTTC
* * *
3241657 CCTAC-TATCTTCAAGTTGTTTTCAAAATAATTCTTACAAAATATTCAAATTTTGTGAGG
196 CCTACTTATCTTCAAGTTGTTTTCGAAACAATTCTTACAAAATATTCAAATTTTATGAGG
* *
3241716 TTCTTGAAGAGATTGTGAGGTTCTTATCTTGGTCTTGAAAAGATAAGTGTTGTAAGGTTATACCT
1 TTCTTGAAGAGATTGTGAGGTTCTTATCTTAGCCTTGAAAAGATAAGTGTTGTAAGGTTATACCT
* * *
3241781 TTCCT-AGAAGGTAAACAATTCGTGTAGTGGATTGTGGTCACACTTGACAAGGAAGTGTTGAGGA
66 TTCCTGA-AAGGTAAACAATTCGTGTAGTGGATTGTGGTAACACTCGACAAGGAAGTGTCGAGGA
* * *
3241845 -AGGAGGACGTAGGCGCCGTGTTTGAACCAAACCTCTATAAATATTTGTGTTGAGTTTTCTCTTT
130 GA-GAGGACGTAGGTGCCGTGTTTGGACCGAACCTCTATAAATATTTGTGTTGAGTTTTCTCTTT
* * *
3241909 TCCATACTTTCTTTATCTTCAAGTTGTTTTGGATACAATTCTTACAAAATATTCAAATTT
194 TCC---C-TAC-TTATCTTCAAGTTGTTTTCGAAACAATTCTTACAAAATATTCAAATTT
3241969 CAAAAAGAAC
Statistics
Matches: 456, Mismatches: 43, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
253 2 0.00
254 227 0.50
257 1 0.00
258 2 0.00
260 224 0.49
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (255 bp):
TTCTTGAAGAGATTGTGAGGTTCTTATCTTAGCCTTGAAAAGATAAGTGTTGTAAGGTTATACCT
TTCCTGAAAGGTAAACAATTCGTGTAGTGGATTGTGGTAACACTCGACAAGGAAGTGTCGAGGAG
AGAGGACGTAGGTGCCGTGTTTGGACCGAACCTCTATAAATATTTGTGTTGAGTTTTCTCTTTTC
CCTACTTATCTTCAAGTTGTTTTCGAAACAATTCTTACAAAATATTCAAATTTTATGAGG
Found at i:3242650 original size:52 final size:52
Alignment explanation
Indices: 3242561--3242852 Score: 191
Period size: 52 Copynumber: 5.5 Consensus size: 52
3242551 TTGACAAATG
** * * * *
3242561 TGCCAATGTGCAAATTCAAGGCCTA-CGACACTAGACTTAGGGATGATAAGGG
1 TGCCAATGTGCTGATTCAAGGCC-AGCGACATTGGACTTAGAGATGATAAGGA
* * *
3242613 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTT-GAAGATGAGAAGAA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAG-AGATGATAAGGA
* * * * *
3242665 TGCCAATGTCCTGATTTAAGGCCAACGACATTGGGCTTAAAAATGATAAGGATAAGAAGAA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT--AGA-GAT---GATAAG--G-A
* * *
3242726 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTT-GAAGATGAGAAGAA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAG-AGATGATAAGGA
** * * *
3242778 TGCCAATGTGCTGA-TCTAAGGCCATTGAC-TTGGGCTTAAAAATGATAAAGG-
1 TGCCAATGTGCTGATTC-AAGGCCAGCGACATTGGACTTAGAGATGAT-AAGGA
* * *
3242829 TGCCAATATGTTAATTCAAGGCCA
1 TGCCAATGTGCTGATTCAAGGCCA
3242853 TATCGGAGTT
Statistics
Matches: 187, Mismatches: 36, Indels: 35
0.72 0.14 0.14
Matches are distributed among these distances:
51 34 0.18
52 101 0.54
54 1 0.01
55 8 0.04
58 8 0.04
59 1 0.01
61 34 0.18
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (52 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAGAGATGATAAGGA
Found at i:3242755 original size:61 final size:60
Alignment explanation
Indices: 3242652--3242825 Score: 179
Period size: 61 Copynumber: 3.0 Consensus size: 60
3242642 ATTGGACTTG
* * *
3242652 AAGATGAGAAGAATGCCAATGTCCTGATTTAAGGCCAACGACATTGGGCTTAAAAATGAT
1 AAGATAAGAAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAAAAATGAT
* * *
3242712 AAGGATAAGAAGAATGCCAATGTGCTGATTCAAGGCTAGCGACATTGGAC-T-----TG--
1 AA-GATAAGAAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAAAAATGAT
* **
3242765 AAGATGAGAAGAATGCCAATGTGCTGA-TCTAAGGCCATTGAC-TTGGGCTTAAAAATGAT
1 AAGATAAGAAGAATGCCAATGTGCTGATTC-AAGGCCAACGACATTGGGCTTAAAAATGAT
3242824 AA
1 AA
3242826 AGGTGCCAAT
Statistics
Matches: 93, Mismatches: 11, Indels: 21
0.74 0.09 0.17
Matches are distributed among these distances:
51 7 0.08
52 34 0.37
53 2 0.02
55 2 0.02
57 2 0.02
59 2 0.02
60 3 0.03
61 41 0.44
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (60 bp):
AAGATAAGAAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAAAAATGAT
Found at i:3243831 original size:21 final size:20
Alignment explanation
Indices: 3243803--3243841 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
3243793 CATATTTTTG
3243803 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
3243823 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCGATACA
3243842 ATGTCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:3243963 original size:13 final size:13
Alignment explanation
Indices: 3243941--3244001 Score: 62
Period size: 13 Copynumber: 5.2 Consensus size: 13
3243931 ACCAAGGAAA
3243941 TGTATCGATACAT
1 TGTATCGATACAT
*
3243954 TGTATTGATACAT
1 TGTATCGATACAT
3243967 TG-ATC--T---T
1 TGTATCGATACAT
*
3243974 TATATCGATACAT
1 TGTATCGATACAT
3243987 TGTATCGATACAT
1 TGTATCGATACAT
3244000 TG
1 TG
3244002 ATTTGGGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
7 2 0.05
8 3 0.08
10 2 0.05
12 2 0.05
13 29 0.76
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.43
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3248458 original size:150 final size:149
Alignment explanation
Indices: 3248295--3248577 Score: 379
Period size: 149 Copynumber: 1.9 Consensus size: 149
3248285 ATTTATCTCG
* * *
3248295 AAAATATCAATTCAATTTAATTTTATTTATTTTGGAAAATACCATTTCGTACCCTAATGGAAGCC
1 AAAATATCAATTCAATTTAATTTTATTTACTTTCGAAAATACCATTTCGTACCCTAA-GGAAACC
* * * * ** *
3248360 CGAAAGGATACGAAATATTTTTGAAGTCTTTTATAACC-CTACCGATGCCCATAGGAATATAAAA
65 CGAAAAGATACGAAACATTTTTAAAATCTTTTAT-ACCTCTACAAATGCCCATAAGAATATAAAA
*
3248424 GATTAGGAAAAATTTATCCTA
129 AATTAGGAAAAATTTATCCTA
* * * *
3248445 AAAATATTAATTCACTTTAATTTTATTTACTTTCGAACATAGCATTTCGTACCCTAAGGAAACCC
1 AAAATATCAATTCAATTTAATTTTATTTACTTTCGAAAATACCATTTCGTACCCTAAGGAAACCC
* * *
3248510 GAAAAGATATGAAACGTTTTTAAAATCTTTTATACCTTTACAAATGCCCATAAGAATATAAAAAA
66 GAAAAGATACGAAACATTTTTAAAATCTTTTATACCTCTACAAATGCCCATAAGAATATAAAAAA
3248575 TTA
131 TTA
3248578 AAAAATGTAA
Statistics
Matches: 114, Mismatches: 18, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
148 3 0.03
149 60 0.53
150 51 0.45
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.34
Consensus pattern (149 bp):
AAAATATCAATTCAATTTAATTTTATTTACTTTCGAAAATACCATTTCGTACCCTAAGGAAACCC
GAAAAGATACGAAACATTTTTAAAATCTTTTATACCTCTACAAATGCCCATAAGAATATAAAAAA
TTAGGAAAAATTTATCCTA
Found at i:3249244 original size:23 final size:23
Alignment explanation
Indices: 3249213--3249257 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
3249203 ACAAACCTAA
*
3249213 GTATTTTCATATCCCTTAATGAG
1 GTATATTCATATCCCTTAATGAG
3249236 GTATATTCATATCCCTTAATGA
1 GTATATTCATATCCCTTAATGA
3249258 CATAAGCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (23 bp):
GTATATTCATATCCCTTAATGAG
Found at i:3250287 original size:167 final size:167
Alignment explanation
Indices: 3249974--3250308 Score: 381
Period size: 167 Copynumber: 2.0 Consensus size: 167
3249964 AAAAATAATT
* *
3249974 TGAATTTCTCAAAACTGAATTAATGGGAGTTCAATGACAATATTAGATACATTTTAAAAATTTTA
1 TGAATTTCTCAAAACTGAATTAATGGGAATTCAATGACAATATTAGAGACATTTTAAAAATTTTA
* * * **** *
3250039 GACCAAAGAAAATCCCCCCAAAAATATTGATGAAATAGAAAATTTAGTTTTTTGGGACAAGAAAA
66 AACCAAAGAAAATCCCCCCAAAAATATTGATGAAATAGAAAACTTAATTTTTCAAAAAAAGAAAA
3250104 ATCTCAAGGAAAAAAAT-CAAAACCTTATGAAAATGAA
131 ATCTCAAGGAAAAAAATCCAAAA-CTTATGAAAATGAA
* * * *
3250141 TGAATTT-TCGAAAACTG-ATATAATTGGAATTCCATGACATTATTAGAGATATTTTAAAAATTT
1 TGAATTTCTC-AAAACTGAAT-TAATGGGAATTCAATGACAATATTAGAGACATTTTAAAAATTT
* * * * * * *
3250204 TAAACCAAAGCAAATCCCCCCGAAAATATTTATGGATTAGAAAACTTAATTTTTCAAAAAAATAG
64 TAAACCAAAGAAAATCCCCCCAAAAATATTGATGAAATAGAAAACTTAATTTTTCAAAAAAAGAA
** * *
3250269 TGATTTCAAAGG-AAAAAATCCAAAATTTATGAAAATGAA
129 AAATCTC-AAGGAAAAAAATCCAAAACTTATGAAAATGAA
3250308 T
1 T
3250309 TGTTCTTTTA
Statistics
Matches: 139, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
166 4 0.03
167 126 0.91
168 9 0.06
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.30
Consensus pattern (167 bp):
TGAATTTCTCAAAACTGAATTAATGGGAATTCAATGACAATATTAGAGACATTTTAAAAATTTTA
AACCAAAGAAAATCCCCCCAAAAATATTGATGAAATAGAAAACTTAATTTTTCAAAAAAAGAAAA
ATCTCAAGGAAAAAAATCCAAAACTTATGAAAATGAA
Found at i:3252370 original size:175 final size:175
Alignment explanation
Indices: 3252111--3252528 Score: 460
Period size: 175 Copynumber: 2.4 Consensus size: 175
3252101 ATTTGACCAA
* * * * * * *
3252111 GGTGGTAACCATACGTCAAATAGAAAAAAGAAGAGTTTGACTAAGGTTGTAACCATACGCCAAAC
1 GGTGGTAACCATACGTCAAATAGAATAAA-AAGAATCTGACTAGGGTAGTAACCATACGTCAGAC
* ** * * *
3252176 AAAAGAGAGGAAAATTTGACCCTGGTAGTAACCATATGTCAAATCAGAATGAAAAGAATCTGACC
65 AAAAAAGAGGAAAATTTGACCAGGGTAGTAACCATACGCCAAATCAGAATGAAAACAATCTGACC
* ** *
3252241 AGGGTGATAACTATACGTCAGACAG-AAAGAGGTGAATTTAACTAG
130 AGGGTGATAACCATACGTCAGACAGAAAAGAGGCAAACTTAACTAG
* * * * *
3252286 GGTGTTAATCATACGTCAAATTAGAATAAAAAGAATCTGACTAGGGTGGTAACCATACATTAGAC
1 GGTGGTAACCATACGTCAAA-TAGAATAAAAAGAATCTGACTAGGGTAGTAACCATACGTCAGAC
* * * * * * *
3252351 AAAAAAGAGGCAGATTTGACTAGGGTGGTAACCATGCGCCAAATCGGAATGAGAACAATCTGACC
65 AAAAAAGAGGAAAATTTGACCAGGGTAGTAACCATACGCCAAATCAGAATGAAAACAATCTGACC
* * *
3252416 AGGGTGGTAACCATATGTCAGACAGAAAAGAGGCAAACTTGACTAG
130 AGGGTGATAACCATACGTCAGACAGAAAAGAGGCAAACTTAACTAG
* * * * * *
3252462 GGTGGTAACCATACGCCAAACCAAAATGAGAAGAATCTGACCAGGGTAGTAACCATACGTCAGAC
1 GGTGGTAACCATACGTCAAA-TAGAATAAAAAGAATCTGACTAGGGTAGTAACCATACGTCAGAC
3252527 AA
65 AA
3252529 GAAGTAAGAA
Statistics
Matches: 198, Mismatches: 43, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
175 119 0.60
176 79 0.40
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.20
Consensus pattern (175 bp):
GGTGGTAACCATACGTCAAATAGAATAAAAAGAATCTGACTAGGGTAGTAACCATACGTCAGACA
AAAAAGAGGAAAATTTGACCAGGGTAGTAACCATACGCCAAATCAGAATGAAAACAATCTGACCA
GGGTGATAACCATACGTCAGACAGAAAAGAGGCAAACTTAACTAG
Found at i:3252559 original size:45 final size:44
Alignment explanation
Indices: 3252021--3252701 Score: 293
Period size: 44 Copynumber: 15.5 Consensus size: 44
3252011 TCATTTAACC
* * *
3252021 AGGGTGGTAACCATATGTCGAA-C--AATAAGAAAGTAGATTTGACC
1 AGGGTGGTAACCATACGTCAAACCAAAATAAG-AAG-A-ATTTGACT
* * * *
3252065 AGGGTGTTAACCATACATCAAATCAAAATGAA-AAGAATTTGACC
1 AGGGTGGTAACCATACGTCAAACCAAAAT-AAGAAGAATTTGACT
* * * *
3252109 AAGGTGGTAACCATACGTCAAA-TAGAAAAAAGAAGAGTTTGACT
1 AGGGTGGTAACCATACGTCAAACCA-AAATAAGAAGAATTTGACT
* * * * *
3252153 AAGGTTGTAACCATACGCCAAA-CAAAAGAGAGGAA-AATTTGACC
1 AGGGTGGTAACCATACGTCAAACCAAAATA-A-GAAGAATTTGACT
** * * * * * *
3252197 CTGGTAGTAACCATATGTCAAATCAGAATGAA-AAGAATCTGACC
1 AGGGTGGTAACCATACGTCAAACCAAAAT-AAGAAGAATTTGACT
* * * * ** *
3252241 AGGGTGATAACTATACGTCAGA-CAGAAA-GAGGTGAATTTAACT
1 AGGGTGGTAACCATACGTCAAACCA-AAATAAGAAGAATTTGACT
* * ** * * *
3252284 AGGGTGTTAATCATACGTCAAATTAGAATAAAAAGAATCTGACT
1 AGGGTGGTAACCATACGTCAAACCAAAATAAGAAGAATTTGACT
* * * *
3252328 AGGGTGGTAACCATACATTAGA-CAAAA-AAGAGGCAGATTTGACT
1 AGGGTGGTAACCATACGTCAAACCAAAATAAGAAG-A-ATTTGACT
* * * ** * * * *
3252372 AGGGTGGTAACCATGCGCCAAATCGGAATGAGAACAATCTGACC
1 AGGGTGGTAACCATACGTCAAACCAAAATAAGAAGAATTTGACT
* * * * *
3252416 AGGGTGGTAACCATATGTCAGA-CAGAA-AAGAGGCAAACTTGACT
1 AGGGTGGTAACCATACGTCAAACCAAAATAAGAAG--AATTTGACT
* * * *
3252460 AGGGTGGTAACCATACGCCAAACCAAAATGAGAAGAATCTGACC
1 AGGGTGGTAACCATACGTCAAACCAAAATAAGAAGAATTTGACT
* * *
3252504 AGGGTAGTAACCATACGTCAGA-CAAGAAGTAAGAAGAGTTTGACT
1 AGGGTGGTAACCATACGTCAAACCAA-AA-TAAGAAGAATTTGACT
* * * ** ** *
3252549 AGGATGGTAACCATATGTCAAA-C-GAAGGAGGTGAATTTAACT
1 AGGGTGGTAACCATACGTCAAACCAAAATAAGAAGAATTTGACT
* * * * * *
3252591 AAGATGGTAGCCATACGTCAAATCAGAATGAA-AAGAA-TTGACC
1 AGGGTGGTAACCATACGTCAAACCAAAAT-AAGAAGAATTTGACT
* * * * ** * *
3252634 AGAGTGGCAACCAGACGTCAGACTTGAAATGAGAAGAGTTTGACT
1 AGGGTGGTAACCATACGTCAAAC-CAAAATAAGAAGAATTTGACT
* *
3252679 TGGGTGGTAACTATACGTCAAAC
1 AGGGTGGTAACCATACGTCAAAC
3252702 AGAATAGGAA
Statistics
Matches: 466, Mismatches: 140, Indels: 61
0.70 0.21 0.09
Matches are distributed among these distances:
42 37 0.08
43 72 0.15
44 269 0.58
45 72 0.15
46 11 0.02
47 3 0.01
48 2 0.00
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (44 bp):
AGGGTGGTAACCATACGTCAAACCAAAATAAGAAGAATTTGACT
Found at i:3252608 original size:307 final size:305
Alignment explanation
Indices: 3252055--3252646 Score: 674
Period size: 307 Copynumber: 1.9 Consensus size: 305
3252045 ATAAGAAAGT
* * * *
3252055 AGATTTGACCAGGGTGTTAACCATACATCAAATCAAAATGAAAAGAATTTGACCAAGGTGGTAAC
1 AGATTTGACCAGGGTGGTAACCATACACCAAATCAAAATGAAAACAATCTGACCAAGGTGGTAAC
* * *
3252120 CATACGTCAAATAGAAAAAAGAAGAGTTTGACTAAGGTTGTAACCATACGCCAAACAAAAGAGAG
66 CATACGTCAAACAGAAAAAAGAAGAGCTTGACTAAGGTGGTAACCATACGCCAAACAAAAGAGA-
* ** * *
3252185 GAAAATTTGACCCTGGTAGTAACCATATGTCAAATCAGAATGAAAAGAATCTGACCAGGGTGATA
130 GAAAATCTGACCAGGGTAGTAACCATACGTCAAATCAGAATGAAAAGAATCTGACCAGGATGATA
* * * * * * *
3252250 ACTATACGTCAGACAGAAAGAGGTGAATTTAACTAGGGTGTTAATCATACGTCAAATTAGAATAA
195 ACCATACGTCAAACAGAAAGAGGTGAATTTAACTAAGATGGTAACCATACGTCAAATCAGAATAA
* * *
3252315 AAAGAATCTGACTAGGGTGGTAACCATACATTAGACAAAAAAGAGGC
260 AAAGAAT-TGACCAGAGTGGCAACCATACATTAGACAAAAAAGAGGC
* * * ** * *
3252362 AGATTTGACTAGGGTGGTAACCATGCGCCAAATCGGAATGAGAACAATCTGACCAGGGTGGTAAC
1 AGATTTGACCAGGGTGGTAACCATACACCAAATCAAAATGAAAACAATCTGACCAAGGTGGTAAC
* * * *
3252427 CATATGTCAGACAGAAAAGAGGCAA-A-CTTGACTAGGGTGGTAACCATACGCCAAACCAAAATG
66 CATACGTCAAACAGAAAA-AAG-AAGAGCTTGACTAAGGTGGTAACCATACGCCAAA-CAAAA-G
* * * * *
3252490 AGA-AGAATCTGACCAGGGTAGTAACCATACGTCAGA-CAAGAA-GTAAGAAGAGTTTGACTAGG
127 AGAGAAAATCTGACCAGGGTAGTAACCATACGTCAAATC-AGAATG-AA-AAGAATCTGACCAGG
* * * *
3252552 ATGGTAACCATATGTCAAAC-GAAGGAGGTGAATTTAACTAAGATGGTAGCCATACGTCAAATCA
189 ATGATAACCATACGTCAAACAGAAAGAGGTGAATTTAACTAAGATGGTAACCATACGTCAAATCA
*
3252616 GAATGAAAAGAATTGACCAGAGTGGCAACCA
254 GAATAAAAAGAATTGACCAGAGTGGCAACCA
3252647 GACGTCAGAC
Statistics
Matches: 235, Mismatches: 43, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
306 17 0.07
307 177 0.75
308 35 0.15
309 6 0.03
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (305 bp):
AGATTTGACCAGGGTGGTAACCATACACCAAATCAAAATGAAAACAATCTGACCAAGGTGGTAAC
CATACGTCAAACAGAAAAAAGAAGAGCTTGACTAAGGTGGTAACCATACGCCAAACAAAAGAGAG
AAAATCTGACCAGGGTAGTAACCATACGTCAAATCAGAATGAAAAGAATCTGACCAGGATGATAA
CCATACGTCAAACAGAAAGAGGTGAATTTAACTAAGATGGTAACCATACGTCAAATCAGAATAAA
AAGAATTGACCAGAGTGGCAACCATACATTAGACAAAAAAGAGGC
Found at i:3252669 original size:130 final size:131
Alignment explanation
Indices: 3252464--3252701 Score: 316
Period size: 130 Copynumber: 1.8 Consensus size: 131
3252454 TTGACTAGGG
* * * *
3252464 TGGTAACCATACGCCAAACCAAAATGAGAAGAATCTGACCAGGGTAGTAACCATACGTCAGACAA
1 TGGTAACCATACGCCAAACCAAAATGAAAAGAATCTGACCAGAGTAGCAACCAGACGTCAGACAA
* *
3252529 GAAGTAAGAAGAGTTTGACTAGGATGGTAACCATATGTCAAACGAAGGAGGTGAATTTAACTAAG
66 GAAATAAGAAGAGTTTGACTAGGATGGTAACCATACGTCAAACGAAGGAGGTGAATTTAACTAAG
3252594 A
131 A
* * * * * **
3252595 TGGTAGCCATACGTCAAATCAGAATGAAAAGAAT-TGACCAGAGTGGCAACCAGACGTCAGACTT
1 TGGTAACCATACGCCAAACCAAAATGAAAAGAATCTGACCAGAGTAGCAACCAGACGTCAGACAA
* * * *
3252659 GAAATGAGAAGAGTTTGACTTGGGTGGTAACTATACGTCAAAC
66 GAAATAAGAAGAGTTTGACTAGGATGGTAACCATACGTCAAAC
3252702 AGAATAGGAA
Statistics
Matches: 90, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
130 61 0.68
131 29 0.32
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.20
Consensus pattern (131 bp):
TGGTAACCATACGCCAAACCAAAATGAAAAGAATCTGACCAGAGTAGCAACCAGACGTCAGACAA
GAAATAAGAAGAGTTTGACTAGGATGGTAACCATACGTCAAACGAAGGAGGTGAATTTAACTAAG
A
Found at i:3253956 original size:10 final size:9
Alignment explanation
Indices: 3253941--3254003 Score: 67
Period size: 9 Copynumber: 6.9 Consensus size: 9
3253931 TTTTCCTTTA
3253941 ATTTTTTTT
1 ATTTTTTTT
3253950 ATGTTTTTTT
1 AT-TTTTTTT
*
3253960 CTTTTTTTT
1 ATTTTTTTT
3253969 -TCTTTTTTT
1 AT-TTTTTTT
3253978 ATTTTTATTT
1 ATTTTT-TTT
*
3253988 A-TTTATTT
1 ATTTTTTTT
3253996 ATTTTTTT
1 ATTTTTTT
3254004 AGGCATCATA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
8 5 0.11
9 28 0.61
10 13 0.28
ACGTcount: A:0.11, C:0.03, G:0.02, T:0.84
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:3267752 original size:13 final size:13
Alignment explanation
Indices: 3267734--3267758 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3267724 CAATTCTTCA
3267734 TGTATCGATACAG
1 TGTATCGATACAG
3267747 TGTATCGATACA
1 TGTATCGATACA
3267759 AATAGTGGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:3267837 original size:19 final size:18
Alignment explanation
Indices: 3267809--3267880 Score: 63
Period size: 20 Copynumber: 3.7 Consensus size: 18
3267799 ACATTTGTTT
*
3267809 ATGTACCGATACAATGAA
1 ATGTATCGATACAATGAA
*
3267827 CATGTATCGATACAAAGCATA
1 -ATGTATCGATACAATG-A-A
* *
3267848 ACGTATCGATACATCTGAA
1 ATGTATCGATACA-ATGAA
3267867 AGTGTATCGATACA
1 A-TGTATCGATACA
3267881 TACAAGGGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
19 16 0.37
20 25 0.58
21 2 0.05
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (18 bp):
ATGTATCGATACAATGAA
Found at i:3275208 original size:150 final size:151
Alignment explanation
Indices: 3275021--3275315 Score: 394
Period size: 150 Copynumber: 2.0 Consensus size: 151
3275011 AAATAATTAG
*
3275021 AATTTATCCTAAAAATATTAATTCAATTTAATTTTATTTATTTTCAAAAATACCATTTCATACCT
1 AATTTATCCTAAAAATATTAATTCAATTTAATTTTATTTACTTTCAAAAATACCATTTCATACCT
* * * * * * * *
3275086 TAATAGAAGCTCAAAAGGATACGAAATGTTTTTGAAGTCTTTTATACCCCTTCGGTTGCCCATA-
66 TAATAGAAGCCCAAAAGGATACGAAATATTTTTAAAATCTTTCATACCCCTACAGATGCCCATAT
*
3275150 GGAATATAAAAGATTAGAAAA
131 AGAATATAAAAGATTAGAAAA
* * * * * **
3275171 AATTTATCCTAAAAATATTGATTCACTTTAATTTTATTTACTTTCGAAAATAGCTTTTTGTACCT
1 AATTTATCCTAAAAATATTAATTCAATTTAATTTTATTTACTTTCAAAAATACCATTTCATACCT
* * * *
3275236 TAATAGAAGCCCGAAAGGATATGAAATATTTTTAAAATCTTTCATACCTCTACAGATGTCCATAT
66 TAATAGAAGCCCAAAAGGATACGAAATATTTTTAAAATCTTTCATACCCCTACAGATGCCCATAT
3275301 AGAATATAAAAGATT
131 AGAATATAAAAGATT
3275316 TAAAAATATA
Statistics
Matches: 123, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
150 109 0.89
151 14 0.11
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.38
Consensus pattern (151 bp):
AATTTATCCTAAAAATATTAATTCAATTTAATTTTATTTACTTTCAAAAATACCATTTCATACCT
TAATAGAAGCCCAAAAGGATACGAAATATTTTTAAAATCTTTCATACCCCTACAGATGCCCATAT
AGAATATAAAAGATTAGAAAA
Found at i:3276126 original size:11 final size:11
Alignment explanation
Indices: 3276110--3276138 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
3276100 GTTTTTACTA
3276110 TTTTTCTTATT
1 TTTTTCTTATT
3276121 TTTTTC-TATT
1 TTTTTCTTATT
3276131 TTTTTCTT
1 TTTTTCTT
3276139 GCCTTTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTCTTATT
Found at i:3278966 original size:37 final size:39
Alignment explanation
Indices: 3278925--3279003 Score: 99
Period size: 42 Copynumber: 2.0 Consensus size: 39
3278915 CCAGGAAGTG
*
3278925 GAAAGA-G-TTTGACTAGGGTGGTAACCATACGTCAAAT
1 GAAAGAGGATTTGACTAGGGTGCTAACCATACGTCAAAT
*
3278962 GAAAGAGGCGAATTTGACTAGGGTGCTAACCATATGTCAAAT
1 GAAAGA-G-G-ATTTGACTAGGGTGCTAACCATACGTCAAAT
3279004 CAGAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
37 6 0.17
40 1 0.03
42 28 0.80
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (39 bp):
GAAAGAGGATTTGACTAGGGTGCTAACCATACGTCAAAT
Found at i:3279153 original size:132 final size:133
Alignment explanation
Indices: 3278718--3279440 Score: 526
Period size: 132 Copynumber: 5.5 Consensus size: 133
3278708 TCATTTAACT
* * *
3278718 AGGGTGGTAACCATATGTCAAACA-GAAAG-AAAGCAAATTTAACTAGGGTGGTAACCATACATC
1 AGGGTGGTAACCATATGTCAAATAGGAAAGAAAAG--AATTTGACTAGGGTGGTAACCATACGTC
* * * * * * * *
3278781 AAATCAG-AATGA--AACGAATCTAACCAGGGTGGTAACCATACGTTAGA-CAAGAAAGAGGTAG
64 AAACCAGAAATGAGGAA-G-ATTTGACTAGGGTGGTAACCATACGTCAAATCAA-AATGA-GAAG
3278842 -ATTTGACC
125 AATTTGACC
* * * * *
3278850 AGGGTGGTAACCATATGCCAAATTGGAATGAGAAGAATTTGACTAGGGTGGTAACCATATGTC-A
1 AGGGTGGTAACCATATGTCAAATAGGAAAGAAAAGAATTTGACTAGGGTGGTAACCATACGTCAA
* * * **
3278914 ACCAGGAAGTG-GAAAGAGTTTGACTAGGGTGGTAACCATACGTCAAAT-GAAA-GAGGCGAATT
66 ACCA-GAAATGAGGAAGA-TTTGACTAGGGTGGTAACCATACGTCAAATCAAAATGAGAAGAATT
*
3278976 TGACT
129 TGACC
* *
3278981 AGGGTGCTAACCATATGTCAAATCA-GAATGAAAAGAATTTGA-TCAGGGTGGTAACCATACGTC
1 AGGGTGGTAACCATATGTCAAAT-AGGAAAGAAAAGAATTTGACT-AGGGTGGTAACCATACGTC
* * * * * * *
3279044 AGA-TAGAAATGAGGCAGATTTAACTAGGGTGGTAACAATATGCCAAATCAAAATGAGAAGAATT
64 AAACCAGAAATGAGGAAGATTTGACTAGGGTGGTAACCATACGTCAAATCAAAATGAGAAGAATT
3279108 TGACC
129 TGACC
* ** * *
3279113 AGGGTGGTAACCATATGTCAGATAGGAAAGAGGCAG-ATTTGACTAGAGTGGTAACCATGCG-CT
1 AGGGTGGTAACCATATGTCAAATAGGAAAGA-AAAGAATTTGACTAGGGTGGTAACCATACGTC-
* * * * * * *
3279176 AAACTAG-AATGA-GAAGAATCTGACCAGCGTGGT-ACCATAAGTCAAA-CAAGAAATAAGATGA
64 AAACCAGAAATGAGGAAG-ATTTGACTAGGGTGGTAACCATACGTCAAATC-A-AAATGAGAAGA
*
3279237 GTTTGACC
126 ATTTGACC
* * * * * * *
3279245 ATGGTGGTAACCAT-TAGTCAAACAGGAAATGCTAAAGAGTTTGACCATGGTGGTAACCATATGT
1 AGGGTGGTAACCATAT-GTCAAATAGGAAA-G-AAAAGAATTTGACTAGGGTGGTAACCATACGT
* * *
3279309 CAAA-CA-AAATGAGGCAA-ATTTGACTATGGTGGTAACCATACGTCAAATCAGAATGAAAAGAA
63 CAAACCAGAAATGAGG-AAGATTTGACTAGGGTGGTAACCATACGTCAAATCAAAATGAGAAGAA
*
3279371 TCTGACC
127 TTTGACC
* * * * *
3279378 AGGGTGGTAACCATACGTTAGACCTA--AAATGAAAAGAGTTTGACTAGGGTGGTAACTATACGT
1 AGGGTGGTAACCATATGTCA-A-ATAGGAAA-GAAAAGAATTTGACTAGGGTGGTAACCATACGT
3279441 TAAATAGAAT
Statistics
Matches: 465, Mismatches: 90, Indels: 72
0.74 0.14 0.11
Matches are distributed among these distances:
130 35 0.08
131 93 0.20
132 196 0.42
133 94 0.20
134 42 0.09
135 5 0.01
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (133 bp):
AGGGTGGTAACCATATGTCAAATAGGAAAGAAAAGAATTTGACTAGGGTGGTAACCATACGTCAA
ACCAGAAATGAGGAAGATTTGACTAGGGTGGTAACCATACGTCAAATCAAAATGAGAAGAATTTG
ACC
Found at i:3279393 original size:44 final size:44
Alignment explanation
Indices: 3278718--3279460 Score: 457
Period size: 44 Copynumber: 16.9 Consensus size: 44
3278708 TCATTTAACT
* * * *
3278718 AGGGTGGTAACCATATGTCAAA-CAGAAAG-AAAGCAAATTTAACT
1 AGGGTGGTAACCATACGTCAAATCAGAATGAAAAG--AATTTGACC
* * * *
3278762 AGGGTGGTAACCATACATCAAATCAGAATGAAACGAATCTAACC
1 AGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATTTGACC
* * * **
3278806 AGGGTGGTAACCATACGTTAGA-CAAGAAAGAGGTAG-ATTTGACC
1 AGGGTGGTAACCATACGTCAAATC-AGAATGA-AAAGAATTTGACC
* * ** * *
3278850 AGGGTGGTAACCATATGCCAAATTGGAATGAGAAGAATTTGACT
1 AGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATTTGACC
* * * * *
3278894 AGGGTGGTAACCATATGTC-AACCAGGAAGTGGAAAGAGTTTGACT
1 AGGGTGGTAACCATACGTCAAATCA-GAA-TGAAAAGAATTTGACC
* *** *
3278939 AGGGTGGTAACCATACGTCAAAT--GAAAGAGGCGAATTTGACT
1 AGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATTTGACC
* * *
3278981 AGGGTGCTAACCATATGTCAAATCAGAATGAAAAGAATTTGATC
1 AGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATTTGACC
* ** * *
3279025 AGGGTGGTAACCATACGTCAGAT-AGAAATGAGGCAG-ATTTAACT
1 AGGGTGGTAACCATACGTCAAATCAG-AATGA-AAAGAATTTGACC
* * * * *
3279069 AGGGTGGTAACAATATGCCAAATCAAAATGAGAAGAATTTGACC
1 AGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATTTGACC
* * * ** *
3279113 AGGGTGGTAACCATATGTCAGAT-AGGAAAGAGGCAG-ATTTGACT
1 AGGGTGGTAACCATACGTCAAATCA-GAATGA-AAAGAATTTGACC
* * * *
3279157 AGAGTGGTAACCATGCG-CTAAA-CTAGAATGAGAAGAATCTGACC
1 AGGGTGGTAACCATACGTC-AAATC-AGAATGAAAAGAATTTGACC
* * * *
3279201 AGCGTGGT-ACCATAAGTCAAA-CAAGAAAT-AAGATGAGTTTGACC
1 AGGGTGGTAACCATACGTCAAATC-AG-AATGAA-AAGAATTTGACC
* * *
3279245 ATGGTGGTAACCATTA-GTCAAA-CAGGAAATGCTAAAGAGTTTGACC
1 AGGGTGGTAACCA-TACGTCAAATCA-G-AATG-AAAAGAATTTGACC
* * * ** *
3279291 ATGGTGGTAACCATATGTCAAA-CAAAATGAGGCA-AATTTGACT
1 AGGGTGGTAACCATACGTCAAATCAGAATGA-AAAGAATTTGACC
* *
3279334 ATGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATCTGACC
1 AGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATTTGACC
* * * * * *
3279378 AGGGTGGTAACCATACGTTAGACCTAAAATGAAAAGAGTTTGACT
1 AGGGTGGTAACCATACGTCAAATC-AGAATGAAAAGAATTTGACC
* * *
3279423 AGGGTGGTAACTATACGTTAAAT-AGAATAGGAAAGAAT
1 AGGGTGGTAACCATACGTCAAATCAGAAT-GAAAAGAAT
3279461 CTTCGCTGGG
Statistics
Matches: 548, Mismatches: 116, Indels: 70
0.75 0.16 0.10
Matches are distributed among these distances:
42 31 0.06
43 65 0.12
44 313 0.57
45 99 0.18
46 39 0.07
47 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (44 bp):
AGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATTTGACC
Found at i:3280673 original size:9 final size:9
Alignment explanation
Indices: 3280659--3280712 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
3280649 TTTCGTTCGA
3280659 TTTTTTTT-
1 TTTTTTTTC
*
3280667 GTTTTTTTC
1 TTTTTTTTC
3280676 TTTTCTTTTTC
1 -TTT-TTTTTC
3280687 TTTTTTTTC
1 TTTTTTTTC
* *
3280696 TTTTTTATA
1 TTTTTTTTC
3280705 TTTTTTTT
1 TTTTTTTT
3280713 AGGCATAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
8 7 0.18
9 20 0.53
10 5 0.13
11 6 0.16
ACGTcount: A:0.04, C:0.07, G:0.02, T:0.87
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:3280712 original size:28 final size:28
Alignment explanation
Indices: 3280659--3280712 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
3280649 TTTCGTTCGA
* *
3280659 TTTTTTTTGTTTTTTTCTTTTCTTTTTC
1 TTTTTTTTCTTTTTTTATTTTCTTTTTC
3280687 TTTTTTTTCTTTTTTATATTTT-TTTT
1 TTTTTTTTCTTTTTT-TATTTTCTTTT
3280713 AGGCATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.04, C:0.07, G:0.02, T:0.87
Consensus pattern (28 bp):
TTTTTTTTCTTTTTTTATTTTCTTTTTC
Found at i:3283062 original size:21 final size:21
Alignment explanation
Indices: 3283028--3283071 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
3283018 ATACTTTGAG
3283028 TTATTTTTTACTTG-AAAACA
1 TTATTTTTTACTTGAAAAACA
*
3283048 TTATTTTTATGCTTGAAAAACA
1 TTATTTTT-TACTTGAAAAACA
3283070 TT
1 TT
3283072 TATACTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 5 0.24
22 8 0.38
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (21 bp):
TTATTTTTTACTTGAAAAACA
Found at i:3291166 original size:237 final size:237
Alignment explanation
Indices: 3290736--3291205 Score: 712
Period size: 237 Copynumber: 2.0 Consensus size: 237
3290726 TAAAATCAGT
* *
3290736 GTTGCAGTATCTCCGATTGTGAAAATTTAGTGTTTTGAAAATAAAATCGAGGTTGGAGTATCCCC
1 GTTGCAGTATCTCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAACCGAGGTTGGAGTATCCCC
* *
3290801 TCAAAAATAACGGGGTTGGAGTATCCTCGATTGTGGAAAATTGGTGTTTTGGAAATAAAACCAGG
66 TCAAAAATAACAGGGTTGGAGTATCCTCGATTGTGGAAAATTGATGTTTTGGAAATAAAACCAGG
* * * * *
3290866 GTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCTGATTGTGAAAACTTAGTGTTTTG
131 GTTGGAGTATCCACTCAAAAATAACGAGGCTGGAGTATCCCTAATTGTGAAAACTTAGTGTTTTA
*
3290931 GAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGG
196 GAAATAAAACCGGGATTGGAGTATCCCCTCGAAAATAACGGG
* *
3290973 GTTGGAGTATC-CCTGATTGTGAAAAATTGGTGTTTT-AGAAATAAAACCGAGGTTGGAGTATCC
1 GTTGCAGTATCTCC-GATTGTGAAAAATTAGTGTTTTGA-AAATAAAACCGAGGTTGGAGTATCC
* * * **
3291036 CCTCGAAAATAATAGGGTTGGAGTATCCTTGATTGTGGAAAATTGATGTTTTGGAAATAAAACTG
64 CCTCAAAAATAACAGGGTTGGAGTATCCTCGATTGTGGAAAATTGATGTTTTGGAAATAAAACCA
* *
3291101 GGGTTGGAGTATCCACTCAAAAATAACGGGGCTGGAGTATCCCTAATTGTGGAAAA-TTGGTGTT
129 GGGTTGGAGTATCCACTCAAAAATAACGAGGCTGGAGTATCCCTAATTGT-GAAAACTTAGTGTT
*
3291165 TTAGAAATAAAACCGGGATTGGAGTATCCCCTCGGAAATAA
193 TTAGAAATAAAACCGGGATTGGAGTATCCCCTCGAAAATAA
3291206 AAACATGAAT
Statistics
Matches: 210, Mismatches: 20, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
236 3 0.01
237 202 0.96
238 5 0.02
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (237 bp):
GTTGCAGTATCTCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAACCGAGGTTGGAGTATCCCC
TCAAAAATAACAGGGTTGGAGTATCCTCGATTGTGGAAAATTGATGTTTTGGAAATAAAACCAGG
GTTGGAGTATCCACTCAAAAATAACGAGGCTGGAGTATCCCTAATTGTGAAAACTTAGTGTTTTA
GAAATAAAACCGGGATTGGAGTATCCCCTCGAAAATAACGGG
Found at i:3291205 original size:79 final size:78
Alignment explanation
Indices: 3290736--3291197 Score: 626
Period size: 79 Copynumber: 5.8 Consensus size: 78
3290726 TAAAATCAGT
* * * *
3290736 GTTGCAGTATCTCC-GATTGT-GAAAATTTAGTGTTTTGAAAATAAAATCGAGGTTGGAGTATCC
1 GTTGGAGTATC-CCTGATTGTGGAAAA-TTGGTGTTTTGGAAATAAAACCG-GGTTGGAGTATCC
3290799 CCTCAAAAATAACGGG
63 CCTCAAAAATAACGGG
3290815 GTTGGAGTAT-CCTCGATTGTGGAAAATTGGTGTTTTGGAAATAAAACCAGGGTTGGAGTATCCC
1 GTTGGAGTATCCCT-GATTGTGGAAAATTGGTGTTTTGGAAATAAAACC-GGGTTGGAGTATCCC
* *
3290879 CTCAGAAATAACGAG
64 CTCAAAAATAACGGG
*
3290894 GTTGGAGTATCCCTGATTGT-GAAAACTTAGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCC
1 GTTGGAGTATCCCTGATTGTGGAAAA-TTGGTGTTTTGGAAATAAAACC-GGGTTGGAGTATCCC
*
3290958 CTCGAAAATAACGGG
64 CTCAAAAATAACGGG
* *
3290973 GTTGGAGTATCCCTGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
1 GTTGGAGTATCCCTGATTGTGGAAAATTGGTGTTTTGGAAATAAAACCG-GGTTGGAGTATCCCC
* **
3291038 TCGAAAATAATAGG
65 TCAAAAATAACGGG
* * * *
3291052 GTTGGAGTATCCTTGATTGTGGAAAATTGATGTTTTGGAAATAAAACTGGGGTTGGAGTATCCAC
1 GTTGGAGTATCCCTGATTGTGGAAAATTGGTGTTTTGGAAATAAAAC-CGGGTTGGAGTATCCCC
3291117 TCAAAAATAACGGG
65 TCAAAAATAACGGG
* * *
3291131 GCTGGAGTATCCCTAATTGTGGAAAATTGGTGTTTTAGAAATAAAACCGGGATTGGAGTATCCCC
1 GTTGGAGTATCCCTGATTGTGGAAAATTGGTGTTTTGGAAATAAAACCGGG-TTGGAGTATCCCC
3291196 TC
65 TC
3291198 GGAAATAAAA
Statistics
Matches: 341, Mismatches: 32, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
77 2 0.01
78 9 0.03
79 316 0.93
80 14 0.04
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (78 bp):
GTTGGAGTATCCCTGATTGTGGAAAATTGGTGTTTTGGAAATAAAACCGGGTTGGAGTATCCCCT
CAAAAATAACGGG
Found at i:3293218 original size:20 final size:20
Alignment explanation
Indices: 3293193--3293267 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
3293183 AAAATGCCTG
*
3293193 AATGTATCGATACATTGAAA
1 AATGTATCAATACATTGAAA
3293213 AATGTATCGACATA-A-TGAAA
1 AATGTATC-A-ATACATTGAAA
* * *
3293233 AATGTATCAATATAGTGAAC
1 AATGTATCAATACATTGAAA
3293253 AATGTATCAATACAT
1 AATGTATCAATACAT
3293268 CTGGGTAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
18 3 0.06
19 2 0.04
20 38 0.81
21 1 0.02
22 3 0.06
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (20 bp):
AATGTATCAATACATTGAAA
Found at i:3295519 original size:12 final size:12
Alignment explanation
Indices: 3295495--3295534 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
3295485 ATTTTTCCTA
*
3295495 TTTTTCT-TATT
1 TTTTTCTCTCTT
3295506 TTTTTCTCTCTT
1 TTTTTCTCTCTT
3295518 TTTTTCTCTCTT
1 TTTTTCTCTCTT
3295530 TTTTT
1 TTTTT
3295535 TCTGAGTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 7 0.26
12 20 0.74
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTCTCTCTT
Found at i:3296533 original size:166 final size:163
Alignment explanation
Indices: 3295915--3296549 Score: 560
Period size: 162 Copynumber: 3.9 Consensus size: 163
3295905 ACAATATTAG
* ** ** * *
3295915 ATGAATTTTAAAAATTTTAAATTAAGAAAAATCTCCCTGAAAATATTTACAAAGTAGAAAACTTG
1 ATGAATTTTAAAAATTATAAACCAAGAAAAATCTCCCCCAAAACATTTACAAA-TAGAAAACTCG
* * * * ** * * * *
3295980 GTTTTTCAAAAATAGTGGCATTTTAAGGAAAAAATTAATAACTCATGAAAATAAATG-ATTCTTT
65 ATATTTCGAAAATA-AGAAATTTCAAGAAAAAAATGAA-AACTCATGAAAATAAAAGAATT-TTT
* *
3296044 CAAAACTAATTTACTATGAATTAAATGATGATATTTT
127 CAAAACTGATTTAATATGAATTAAATGATGATATTTT
3296081 ATGAATTTTAAAAATTATAAACCAAGAAAAAT-TCCCCCAAAAACATTTACGAAATAGAAAACTC
1 ATGAATTTTAAAAATTATAAACCAAGAAAAATCTCCCCC-AAAACATTTAC-AAATAGAAAACTC
* * * **
3296145 TG-TATTTC-AAAACAAAAGAATTTCAAGGAAAAAATGAAAAACTCATGAAAATAAAA-AA--AA
64 -GATATTTCGAAAATAAGA-AATTTCAAGAAAAAAATG-AAAACTCATGAAAATAAAAGAATTTT
* * * * * *
3296205 TAAAAAATGATTTAATATTAGTTAAATGATGATACTTA
126 TCAAAACTGATTTAATATGAATTAAATGATGATATTTT
* * * * * **
3296243 ATGAATATTAAAAATT-TCAGACCGAGAAAAA-C-CCCTTCAAAAACTTTTATGGAATAGAAAAC
1 ATGAATTTTAAAAATTAT-AAACCAAGAAAAATCTCCC--CCAAAACATTTA-CAAATAGAAAAC
* * * * * *
3296305 TCGATTTTTTG-AAA-AA-AAATTTTAAGGAAAAAATTAGAAAACTCATGAAAATGAATGAATTT
62 TCGATATTTCGAAAATAAGAAATTTCAA-GAAAAAAAT-GAAAACTCATGAAAATAAAAGAATTT
*
3296367 TTCAAAATTGATTTAATATGAATTAAATGATGATATTTT
125 TTCAAAACTGATTTAATATGAATTAAATGATGATATTTT
* * *
3296406 ATGAATTTT-AAAATTATACACTAAGAAAAATCTCCCCCAAAACATTTACAAAGTAAACAAACTC
1 ATGAATTTTAAAAATTATAAACCAAGAAAAATCTCCCCCAAAACATTTACAAA-TAGA-AAACTC
* *
3296470 CATATTTCGAAAATAAGGAAATTTCAAGAAAAAAATGACAAATTCATGAAAATAAAAGAATTTTT
64 GATATTTCGAAAATAA-GAAATTTCAAGAAAAAAATGA-AAACTCATGAAAATAAAAGAATTTTT
3296535 CAAAACTGATTTAAT
127 CAAAACTGATTTAAT
3296550 GGTGATAAAA
Statistics
Matches: 375, Mismatches: 66, Indels: 56
0.75 0.13 0.11
Matches are distributed among these distances:
159 7 0.02
160 25 0.07
161 12 0.03
162 113 0.30
163 55 0.15
164 6 0.02
165 45 0.12
166 100 0.27
167 12 0.03
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (163 bp):
ATGAATTTTAAAAATTATAAACCAAGAAAAATCTCCCCCAAAACATTTACAAATAGAAAACTCGA
TATTTCGAAAATAAGAAATTTCAAGAAAAAAATGAAAACTCATGAAAATAAAAGAATTTTTCAAA
ACTGATTTAATATGAATTAAATGATGATATTTT
Found at i:3301785 original size:21 final size:21
Alignment explanation
Indices: 3301760--3301805 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
3301750 GTAAAGTATT
3301760 GATACCTATGGTAATTATATC
1 GATACCTATGGTAATTATATC
* *
3301781 GATACCTATGGTGATTGTATC
1 GATACCTATGGTAATTATATC
3301802 GATA
1 GATA
3301806 TATCATCGCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (21 bp):
GATACCTATGGTAATTATATC
Found at i:3302454 original size:41 final size:42
Alignment explanation
Indices: 3302397--3302482 Score: 140
Period size: 41 Copynumber: 2.1 Consensus size: 42
3302387 TCCCTTACTC
3302397 ATTTACTTATTTATTTAT-TCACTAACTTACAACTCTAA-CTT
1 ATTTACTTATTTATTTATCT-ACTAACTTACAACTCTAAGCTT
*
3302438 ATTTACTTGTTTATTTATCTACTAACTTACAACTCTAAGCTT
1 ATTTACTTATTTATTTATCTACTAACTTACAACTCTAAGCTT
3302480 ATT
1 ATT
3302483 GTGTTGAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
41 35 0.83
42 7 0.17
ACGTcount: A:0.30, C:0.19, G:0.02, T:0.49
Consensus pattern (42 bp):
ATTTACTTATTTATTTATCTACTAACTTACAACTCTAAGCTT
Found at i:3305602 original size:21 final size:20
Alignment explanation
Indices: 3305568--3305606 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
3305558 ATATTTCCAC
3305568 CATATATAATATATTAATTT
1 CATATATAATATATTAATTT
*
3305588 CATATTTACATATATTAAT
1 CATATATA-ATATATTAAT
3305607 ATAATGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.49
Consensus pattern (20 bp):
CATATATAATATATTAATTT
Found at i:3306360 original size:20 final size:20
Alignment explanation
Indices: 3306331--3306422 Score: 69
Period size: 20 Copynumber: 4.6 Consensus size: 20
3306321 ACAAATCAAA
* *
3306331 GTATCAATACATAGGTATTT
1 GTATCGATACATATGTATTT
** **
3306351 GTATCGATACATATCCAGAT
1 GTATCGATACATATGTATTT
*
3306371 GTATCGATACATCATG-CTTT
1 GTATCGATACAT-ATGTATTT
** *
3306391 GTATCGATACATACATAATT
1 GTATCGATACATATGTATTT
*
3306411 GTATCAATACAT
1 GTATCGATACAT
3306423 GAAATTGGCA
Statistics
Matches: 55, Mismatches: 15, Indels: 4
0.74 0.20 0.05
Matches are distributed among these distances:
19 1 0.02
20 52 0.95
21 2 0.04
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (20 bp):
GTATCGATACATATGTATTT
Found at i:3306484 original size:20 final size:20
Alignment explanation
Indices: 3306459--3306505 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
3306449 TATTTGGATT
*
3306459 GATACATG-GTACATTGTATC
1 GATACATGAATAC-TTGTATC
3306479 GATACATGAATACTTGTATC
1 GATACATGAATACTTGTATC
3306499 GATACAT
1 GATACAT
3306506 TGTTCCAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (20 bp):
GATACATGAATACTTGTATC
Found at i:3310232 original size:21 final size:21
Alignment explanation
Indices: 3310199--3310243 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3310189 TTGCAAGTTG
*
3310199 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
3310221 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
3310241 AAA
1 AAA
3310244 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:3312067 original size:15 final size:15
Alignment explanation
Indices: 3312047--3312077 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3312037 TAAAAATGTC
*
3312047 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
3312062 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
3312077 C
1 C
3312078 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:3314165 original size:13 final size:13
Alignment explanation
Indices: 3314147--3314185 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
3314137 ACATTTTTCT
3314147 TTGTATCGATACA
1 TTGTATCGATACA
3314160 TTGTATCGATACA
1 TTGTATCGATACA
3314173 TTGTATCGATACA
1 TTGTATCGATACA
3314186 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3315912 original size:49 final size:49
Alignment explanation
Indices: 3315855--3315949 Score: 181
Period size: 49 Copynumber: 1.9 Consensus size: 49
3315845 AATCTATAAT
*
3315855 ATGATGTTATTTCCATTGATTGTCTTTCTCGCATATTTATTTTATGGAA
1 ATGATGTTATTTCCATTGATTGTCTTTCTCGCAGATTTATTTTATGGAA
3315904 ATGATGTTATTTCCATTGATTGTCTTTCTCGCAGATTTATTTTATG
1 ATGATGTTATTTCCATTGATTGTCTTTCTCGCAGATTTATTTTATG
3315950 ATGTTTATCT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.21, C:0.13, G:0.15, T:0.52
Consensus pattern (49 bp):
ATGATGTTATTTCCATTGATTGTCTTTCTCGCAGATTTATTTTATGGAA
Found at i:3316800 original size:13 final size:13
Alignment explanation
Indices: 3316782--3316807 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3316772 TACAGCAAGT
3316782 ATGTATCGATACA
1 ATGTATCGATACA
3316795 ATGTATCGATACA
1 ATGTATCGATACA
3316808 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3317655 original size:20 final size:20
Alignment explanation
Indices: 3317626--3317677 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
3317616 TTTCTCATAA
* *
3317626 TGTATTGATACAT-TGCAATT
1 TGTATCGATACATCTG-AATG
*
3317646 TGTATCGATACATCTGTATG
1 TGTATCGATACATCTGAATG
3317666 TGTATCGATACA
1 TGTATCGATACA
3317678 AATAAGGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATCTGAATG
Found at i:3319613 original size:20 final size:20
Alignment explanation
Indices: 3319590--3319644 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
3319580 GATGTATTGA
3319590 TACATTTTTCAATGTATCAG
1 TACATTTTTCAATGTATCAG
* * *
3319610 TACATGTATGAATGTATCAG
1 TACATTTTTCAATGTATCAG
*
3319630 TACATTCTTCAATGT
1 TACATTTTTCAATGT
3319645 GTCGATGCAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.42
Consensus pattern (20 bp):
TACATTTTTCAATGTATCAG
Found at i:3319702 original size:20 final size:20
Alignment explanation
Indices: 3319674--3319746 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
3319664 TTACCCAGAA
3319674 GTATCGATACATTTTTCAAT
1 GTATCGATACATTTTTCAAT
* * * *
3319694 GTATTGATACATGTATGAAT
1 GTATCGATACATTTTTCAAT
* *
3319714 GTATCGATACATTCTTCATT
1 GTATCGATACATTTTTCAAT
3319734 GTATCGATACATT
1 GTATCGATACATT
3319747 CTATCTTTTT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (20 bp):
GTATCGATACATTTTTCAAT
Found at i:3319710 original size:91 final size:91
Alignment explanation
Indices: 3319550--3319774 Score: 337
Period size: 91 Copynumber: 2.5 Consensus size: 91
3319540 TTTTACCTAG
*
3319550 ATGTATCGATACATTCTATCTTTTTACCTAGATGTATTGATACATTTTTCAATGTATCAGTACAT
1 ATGTATCGATACATTCTATCTTTTTACCTAGATGTATCGATACATTTTTCAATGTATCAGTACAT
3319615 GTATGAATGTATC-AGTACATTCTTCA
66 GTATGAATGTATCGA-TACATTCTTCA
* * * * * *
3319641 ATGTGTCGATGCATTTTATCTTTTTACCCAGAAGTATCGATACATTTTTCAATGTAT-TGATACA
1 ATGTATCGATACATTCTATCTTTTTACCTAGATGTATCGATACATTTTTCAATGTATCAG-TACA
3319705 TGTATGAATGTATCGATACATTCTTCA
65 TGTATGAATGTATCGATACATTCTTCA
* *
3319732 TTGTATCGATACATTCTATCTTTTTACCTAGATGTCTCGATAC
1 ATGTATCGATACATTCTATCTTTTTACCTAGATGTATCGATAC
3319775 CTCTAGTTAA
Statistics
Matches: 118, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
90 1 0.01
91 116 0.98
92 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (91 bp):
ATGTATCGATACATTCTATCTTTTTACCTAGATGTATCGATACATTTTTCAATGTATCAGTACAT
GTATGAATGTATCGATACATTCTTCA
Found at i:3322725 original size:30 final size:30
Alignment explanation
Indices: 3322689--3322748 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
3322679 CTTAAGACAT
*
3322689 AGGTTTCAATAGGCATCCAATCATGTCTAG
1 AGGTTTCAATAGGCATCCAATCATGCCTAG
*
3322719 AGGTTTCAATAGGCATCCGATCATGCCTAG
1 AGGTTTCAATAGGCATCCAATCATGCCTAG
3322749 CCCAAAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (30 bp):
AGGTTTCAATAGGCATCCAATCATGCCTAG
Found at i:3333698 original size:11 final size:11
Alignment explanation
Indices: 3333683--3333724 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
3333673 ATACCAAAAA
*
3333683 AAAAAACAAAAC
1 AAAAAA-AAACC
3333695 AAAAAAAAACC
1 AAAAAAAAACC
3333706 AAGAAAAAAACC
1 AA-AAAAAAACC
3333718 AAAAAAA
1 AAAAAAA
3333725 TAAAAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 11 0.39
12 17 0.61
ACGTcount: A:0.83, C:0.14, G:0.02, T:0.00
Consensus pattern (11 bp):
AAAAAAAAACC
Found at i:3333713 original size:15 final size:15
Alignment explanation
Indices: 3333678--3333770 Score: 64
Period size: 15 Copynumber: 6.2 Consensus size: 15
3333668 CCTTCATACC
3333678 AAAAAAAAAAACAAA
1 AAAAAAAAAAACAAA
* *
3333693 ACAAAAAAAAAC--C
1 AAAAAAAAAAACAAA
* *
3333706 AAGAAAAAAACCAAA
1 AAAAAAAAAAACAAA
*
3333721 AAAATAAAAAAATAGAA
1 AAAA-AAAAAAACA-AA
**
3333738 AAAACCAAAAACAAA
1 AAAAAAAAAAACAAA
* **
3333753 AAACAAGCAAACAAA
1 AAAAAAAAAAACAAA
3333768 AAA
1 AAA
3333771 GGGGTCCAAA
Statistics
Matches: 57, Mismatches: 17, Indels: 8
0.70 0.21 0.10
Matches are distributed among these distances:
13 9 0.16
15 29 0.51
16 13 0.23
17 6 0.11
ACGTcount: A:0.82, C:0.13, G:0.03, T:0.02
Consensus pattern (15 bp):
AAAAAAAAAAACAAA
Found at i:3333748 original size:9 final size:8
Alignment explanation
Indices: 3333678--3333770 Score: 57
Period size: 8 Copynumber: 11.4 Consensus size: 8
3333668 CCTTCATACC
3333678 AAAA-AAA
1 AAAACAAA
3333685 AAAACAAA
1 AAAACAAA
*
3333693 ACAAAAAAA
1 A-AAACAAA
*
3333702 AACCAAGAAA
1 AA--AACAAA
3333712 AAAACCAAA
1 AAAA-CAAA
*
3333721 AAAATAAA
1 AAAACAAA
*
3333729 AAAATAGAA
1 AAAACA-AA
*
3333738 AAAAC-CA
1 AAAACAAA
3333745 AAAAC-AA
1 AAAACAAA
*
3333752 AAAACAAG
1 AAAACAAA
*
3333760 CAAACAAA
1 AAAACAAA
3333768 AAA
1 AAA
3333771 GGGGTCCAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
7 16 0.24
8 25 0.37
9 20 0.29
10 7 0.10
ACGTcount: A:0.82, C:0.13, G:0.03, T:0.02
Consensus pattern (8 bp):
AAAACAAA
Done.