Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold72
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: 5928628
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 261288 characters in sequence are not A, C, G, or T
File 17 of 39
Found at i:2481038 original size:88 final size:88
Alignment explanation
Indices: 2480835--2481041 Score: 252
Period size: 88 Copynumber: 2.4 Consensus size: 88
2480825 ACGCAAATCG
* * * **
2480835 TTTGACTAGGGTGGTAACCATACATCAAACAAGAAGGAGGCAGATTTGACTAGGGTAGTAACTTT
1 TTTGACTAGGGTGGTAACCATACGTCAGACAAGAAGGAGGCAGACTTGACTAGGGTAGTAACCAT
*
2480900 ACATCTAATCAAAATGAAAAGAA
66 ACATCAAATCAAAATGAAAAGAA
* * ** * * * * * *
2480923 TCTGACCAGGGTGGTAATGATATGTCAGATAAGGAGGATGCAGACTTGACTAGGGTGGTGACCAT
1 TTTGACTAGGGTGGTAACCATACGTCAGACAAGAAGGAGGCAGACTTGACTAGGGTAGTAACCAT
**
2480988 ATGTCAAATCAAAATGAAAAGAA
66 ACATCAAATCAAAATGAAAAGAA
2481011 TTTGACTAGGGTGGTAACCATACGTCAGACA
1 TTTGACTAGGGTGGTAACCATACGTCAGACA
2481042 GGAAAGATGC
Statistics
Matches: 95, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
88 95 1.00
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (88 bp):
TTTGACTAGGGTGGTAACCATACGTCAGACAAGAAGGAGGCAGACTTGACTAGGGTAGTAACCAT
ACATCAAATCAAAATGAAAAGAA
Found at i:2481631 original size:90 final size:90
Alignment explanation
Indices: 2481401--2481775 Score: 354
Period size: 90 Copynumber: 4.2 Consensus size: 90
2481391 GAGATATCCC
** * *
2481401 TGCCCCAAA-GAAATCAGGCTTTGTGATGCATCAATACCATCTAATGATTGTGTGAATG-GAATA
1 TGCCCCAAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAATGATTGAATGAA-GAGGAGA
* * * *
2481464 TGATTAGGAATGTGGGGGCTGCACTT
65 TCATTGGGAATGTGAGGGCTGCACCT
* * * * * * *
2481490 TGCCCC-CAGAAAATCAAGCTTCGCGATGTATCAATACCATCTAGTGATTGAATGAAGAGGAGAT
1 TGCCCCAAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAATGATTGAATGAAGAGGAGAT
* *
2481554 CATTGCGAATGTAAGGGCTGCACCT
66 CATTGGGAATGTGAGGGCTGCACCT
* *
2481579 TGCCCCAAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAATGGTTGAAT-AA-AGGGGAT
1 TGCCCCAAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAATGATTGAATGAAGAGGAGAT
* *
2481642 CTGATTGGGAATGTGTGGGCTACACCT
66 C--ATTGGGAATGTGAGGGCTGCACCT
* * * * * * *
2481669 TGCCTCAAAGGATATCAGGCTTTGTGATGCATCAATACTATCTAGT-AGTTGGATGAAGGGGATA
1 TGCCCCAAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAATGA-TTGAATGAAGAGGAGA
* *
2481733 TGATTGGGAA-GTTGTAGGTCAT--ACCT
65 TCATTGGGAATG-TG-AGGGC-TGCACCT
2481759 TGCCCCAAAGGAAATCA
1 TGCCCCAAAGGAAATCA
2481776 AGAGATATGA
Statistics
Matches: 231, Mismatches: 44, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
88 9 0.04
89 77 0.33
90 135 0.58
91 5 0.02
92 5 0.02
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (90 bp):
TGCCCCAAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAATGATTGAATGAAGAGGAGAT
CATTGGGAATGTGAGGGCTGCACCT
Found at i:2481938 original size:9 final size:8
Alignment explanation
Indices: 2481889--2481964 Score: 53
Period size: 8 Copynumber: 8.6 Consensus size: 8
2481879 TTTTCAGAAA
2481889 TTTTTTTC
1 TTTTTTTC
*
2481897 TTTTTCCTC
1 TTTTT-TTC
*
2481906 ATTTTTCTC
1 -TTTTTTTC
*
2481915 TCTTTTTC
1 TTTTTTTC
*
2481923 TTATTTTC
1 TTTTTTTC
2481931 ATTTTTTTTC
1 --TTTTTTTC
2481941 AATTTTTTTC
1 --TTTTTTTC
2481951 TCTTTTTTC
1 T-TTTTTTC
2481960 TTTTT
1 TTTTT
2481965 CAACATCCAA
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
8 22 0.39
9 13 0.23
10 21 0.38
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTTTC
Found at i:2484128 original size:10 final size:10
Alignment explanation
Indices: 2484101--2484144 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
2484091 CATTTCCTTA
2484101 TTTTTCATTTT
1 TTTTTC-TTTT
2484112 TTTTTCTTTT
1 TTTTTCTTTT
2484122 TTTTTCTTTCT
1 TTTTTCTTT-T
*
2484133 TTCTCTCTTTT
1 TT-TTTCTTTT
2484144 T
1 T
2484145 GCACTTTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 13 0.43
11 11 0.37
12 6 0.20
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:2484494 original size:15 final size:16
Alignment explanation
Indices: 2484469--2484498 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2484459 TGAAAGGTCA
2484469 TTCCTCAAGAAAAAGG
1 TTCCTCAAGAAAAAGG
2484485 TTCC-CAAGAAAAAG
1 TTCCTCAAGAAAAAG
2484499 ACTCTTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.47, C:0.20, G:0.17, T:0.17
Consensus pattern (16 bp):
TTCCTCAAGAAAAAGG
Found at i:2490722 original size:37 final size:38
Alignment explanation
Indices: 2490674--2490784 Score: 190
Period size: 37 Copynumber: 3.0 Consensus size: 38
2490664 TCTACGTTAC
2490674 ATGCTTTGCATCATCATTTCATGCTTTCACAACTTTCT
1 ATGCTTTGCATCATCATTTCATGCTTTCACAACTTTCT
*
2490712 -TGCTTTGCATCATCATTTCATGCTTTCATAACTTT-T
1 ATGCTTTGCATCATCATTTCATGCTTTCACAACTTTCT
*
2490748 ATGCTTTGCATCTTCATTTCATGCTTTCACAACTTTC
1 ATGCTTTGCATCATCATTTCATGCTTTCACAACTTTC
2490785 ATTCATTCAT
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
36 1 0.01
37 67 0.99
ACGTcount: A:0.20, C:0.25, G:0.08, T:0.47
Consensus pattern (38 bp):
ATGCTTTGCATCATCATTTCATGCTTTCACAACTTTCT
Found at i:2490857 original size:17 final size:17
Alignment explanation
Indices: 2490835--2490885 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
2490825 ATTTTGAAGA
2490835 AATTTTTTATTTTTGAT
1 AATTTTTTATTTTTGAT
* *
2490852 AA-TTTTGATTTTTTAT
1 AATTTTTTATTTTTGAT
*
2490868 TATTTTATTATTTTTGAT
1 AATTTT-TTATTTTTGAT
2490886 TTTTCCAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 13 0.48
17 5 0.19
18 9 0.33
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
AATTTTTTATTTTTGAT
Found at i:2490873 original size:25 final size:23
Alignment explanation
Indices: 2490836--2490889 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
2490826 TTTTGAAGAA
2490836 ATTTTTTATTTTTGA-TAATTTTG
1 ATTTTTTATTTTT-ATTAATTTTG
*
2490859 ATTTTTTATTATTTTATTATTTTTG
1 ATTTTTTA-T-TTTTATTAATTTTG
2490884 ATTTTT
1 ATTTTT
2490890 CCAAACAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 8 0.30
24 2 0.07
25 17 0.63
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (23 bp):
ATTTTTTATTTTTATTAATTTTG
Found at i:2495355 original size:155 final size:157
Alignment explanation
Indices: 2495111--2495416 Score: 422
Period size: 155 Copynumber: 2.0 Consensus size: 157
2495101 AAGGTATCGG
* * * * *
2495111 GTACTTTTACGTCAAAGGTATCCCTTAGGGGCATTTTGGTAATTTTTTAATATCGAGTCCTAGGT
1 GTACTTTTACGTCAAAGATATCCCTTAGGGGCATTTTGATAATTTTTTAATACCAACTCCTAGGT
* *
2495176 CATCACCGGGTCCGCTTTTATGCTGAAAGTGGATATTTAGGATAGGTTCATCTCAGTTGAAATC-
66 CATCACCAGGTCCGCTTTTATGCTGAAAGTGGATATTTAGGATAGGTTCATCTCAGTTAAAATCT
2495240 CTTTTT-AAGTCCTTTAAGGGAATTGA
131 CTTTTTAAAGTCCTTTAAGGGAATTGA
* *
2495266 GTACTTTTACGGT-AAAGATATCTCTTAGGGGCATTTTTATAATTTTTTAGA-ACCAACTCCTAG
1 GTACTTTTAC-GTCAAAGATATCCCTTAGGGGCATTTTGATAATTTTTTA-ATACCAACTCCTAG
* * * * *
2495329 GTCATCACTAGTTCTGCTTTTATGCTGAAGGTGGATATTTTGGATAGGTTCATCTCAGTTAAAAT
64 GTCATCACCAGGTCCGCTTTTATGCTGAAAGTGGATATTTAGGATAGGTTCATCTCAGTTAAAAT
* *
2495394 CTTTTTTTAAAGTCTTTTAAGGG
129 CTCTTTTTAAAGTCCTTTAAGGG
2495417 TGTCAGGTAC
Statistics
Matches: 131, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
155 110 0.84
156 8 0.06
157 13 0.10
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (157 bp):
GTACTTTTACGTCAAAGATATCCCTTAGGGGCATTTTGATAATTTTTTAATACCAACTCCTAGGT
CATCACCAGGTCCGCTTTTATGCTGAAAGTGGATATTTAGGATAGGTTCATCTCAGTTAAAATCT
CTTTTTAAAGTCCTTTAAGGGAATTGA
Found at i:2499303 original size:76 final size:76
Alignment explanation
Indices: 2499043--2499449 Score: 462
Period size: 76 Copynumber: 5.3 Consensus size: 76
2499033 TGGAGATAAC
* * * * * *
2499043 AACGGGGTCGGAGTATCCCCGATTACAAAAAATCGAT-TTTTAAAAATAAAATCAGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGA-T--GAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGT
*
2499107 ATCCCCGT-GAAAAT
63 GTCCCC-TCGAAAAT
* ** ** *
2499121 AATGGGGTTGGAGTATCCGCAATTATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTAGAGT
1 AACGGGGTTGGAGTATCC-C--CGATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGT
* *
2499186 ATCCCC-CAAAAAT
63 GTCCCCTCGAAAAT
* *
2499199 AACGGGGTTGGAGTATCCCTGATGAAAAATTGATATTTTAGAAACAAAACCGGGGTTGGAGTGTC
1 AACGGGGTTGGAGTATCCCCGATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTGTC
2499264 CCCTCGAAAAT
66 CCCTCGAAAAT
* *
2499275 AACAGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTGTC
1 AACGGGGTTGGAGTATCCCCGATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTGTC
* *
2499340 CCATCGGAAAT
66 CCCTCGAAAAT
* * * * * * *
2499351 AACAGGGCTGGAGTATCCCTGATGAAAAATTGATGTTTTAGAAATAAAGCTGAGGTTGGAGTGTC
1 AACGGGGTTGGAGTATCCCCGATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTGTC
2499416 CCCTC-AGAAAT
66 CCCTCGA-AAAT
2499427 AACGGGGTTGGAGTATCCCCGAT
1 AACGGGGTTGGAGTATCCCCGAT
2499450 TGTGAAAAGT
Statistics
Matches: 287, Mismatches: 35, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
75 43 0.15
76 164 0.57
77 1 0.00
78 47 0.16
79 30 0.10
80 1 0.00
81 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.25
Consensus pattern (76 bp):
AACGGGGTTGGAGTATCCCCGATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTGTC
CCCTCGAAAAT
Found at i:2499392 original size:152 final size:150
Alignment explanation
Indices: 2499070--2499496 Score: 489
Period size: 152 Copynumber: 2.8 Consensus size: 150
2499060 CCCGATTACA
* * * * * *
2499070 AAAAATCGATTTTTAAAAATAAAATCAGGGTTGGAGTATCCCCGT-GAAAATAATGGGGTTGGAG
1 AAAAATTGATTTTTAGAAATAAAACCGGGGTTGGAGTGTCCCC-TCGAAAATAACGGGGTTGGAG
** * * *
2499134 TATCCGCAATTATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTAGAGTATCCCCCAAAAAT
65 TATCC-C--CGATGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCCAAAAAT
* *
2499199 AACGGGGTTGGAGTATCCCTGATG
127 AACAGGGCTGGAGTATCCCTGATG
* *
2499223 AAAAATTGATATTTTAGAAACAAAACCGGGGTTGGAGTGTCCCCTCGAAAATAACAGGGTTGGAG
1 AAAAATTGAT-TTTTAGAAATAAAACCGGGGTTGGAGTGTCCCCTCGAAAATAACGGGGTTGGAG
* * * **
2499288 TATCCCCGATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTGTCCCATCGGAAATAA
65 TATCCCCGATGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC-CCAAAAATAA
2499353 CAGGGCTGGAGTATCCCTGATG
129 CAGGGCTGGAGTATCCCTGATG
* * *
2499375 AAAAATTGATGTTTTAGAAATAAAGCTGAGGTTGGAGTGTCCCCTC-AGAAATAACGGGGTTGGA
1 AAAAATTGAT-TTTTAGAAATAAAACCGGGGTTGGAGTGTCCCCTCGA-AAATAACGGGGTTGGA
* * * * *
2499439 GTATCCCCGATTGTGAAAAGTCGATGTTCTGGAAATAAAATCGGAGTTGGAGTATCCC
64 GTATCCCCGA---TGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
2499497 TGATTATGGA
Statistics
Matches: 234, Mismatches: 33, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
151 42 0.18
152 93 0.40
153 11 0.05
154 50 0.21
155 38 0.16
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.26
Consensus pattern (150 bp):
AAAAATTGATTTTTAGAAATAAAACCGGGGTTGGAGTGTCCCCTCGAAAATAACGGGGTTGGAGT
ATCCCCGATGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCCAAAAATAACA
GGGCTGGAGTATCCCTGATG
Found at i:2499495 original size:51 final size:50
Alignment explanation
Indices: 2499433--2499762 Score: 308
Period size: 51 Copynumber: 6.5 Consensus size: 50
2499423 AAATAACGGG
* *
2499433 GTTGGAGTATCCCCGATTGTGAAAAGTCGATGTTCTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAA-TCGATGTTTTGGAAATAAAATCGGA
* * * * *
2499484 GTTGGAGTATCCCTGATTATGGAAAATGGGTGTTTTAGAAATGAAATCGGA
1 GTTGGAGTATCCCCGATTAT-GAAAATCGATGTTTTGGAAATAAAATCGGA
** * * * *
2499535 GTTGGAGTATCCCTAATTAAGAGAAATTGATGTTTTGGAAATGAAACCAGGA
1 GTTGGAGTATCCCCGATTATGA-AAATCGATGTTTTGGAAATAAAATC-GGA
* * * *
2499587 -TTGGAGTATCCTCGATTGTGAAAAGTCGGTGTTCT-GATAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAA-TCGATGTTTTGGA-AATAAAATCGGA
* * *
2499637 GTTGGAGTATCCCCGATTATGAAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATG-AAAATCGATGTTTTGGAAATAAAATCGGA
* * * * * *
2499688 GCTGGAGTATCCCTGATTAAGAGAAATTGATGTTTTGGAAATGAAACCGG-
1 GTTGGAGTATCCCCGATTATGA-AAATCGATGTTTTGGAAATAAAATCGGA
*
2499738 GATTGGAGTATCCCCGA-GATGAAAA
1 G-TTGGAGTATCCCCGATTATGAAAA
2499763 ATCTAGAAAT
Statistics
Matches: 230, Mismatches: 39, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
49 3 0.01
50 15 0.07
51 198 0.86
52 14 0.06
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTATGAAAATCGATGTTTTGGAAATAAAATCGGA
Found at i:2499614 original size:153 final size:153
Alignment explanation
Indices: 2499434--2499754 Score: 554
Period size: 153 Copynumber: 2.1 Consensus size: 153
2499424 AATAACGGGG
*
2499434 TTGGAGTATCCCCGATTGTGAAAAGTCGATGTTCTGGA-AATAAAATCGGAGTTGGAGTATCCCT
1 TTGGAGTATCCCCGATTGTGAAAAGTCGATGTTCT-GATAATAAAATCGGAGTTGGAGTATCCCC
* * *
2499498 GATTATGGAAAATGGGTGTTTTAGAAATGAAATCGGAGTTGGAGTATCCCTAATTAAGAGAAATT
65 GATTATGAAAAATGGGTGTTTTAGAAATAAAATCGGAGCTGGAGTATCCCTAATTAAGAGAAATT
2499563 GATGTTTTGGAAATGAAACCAGGA
130 GATGTTTTGGAAATGAAACCAGGA
* *
2499587 TTGGAGTATCCTCGATTGTGAAAAGTCGGTGTTCTGATAATAAAATCGGAGTTGGAGTATCCCCG
1 TTGGAGTATCCCCGATTGTGAAAAGTCGATGTTCTGATAATAAAATCGGAGTTGGAGTATCCCCG
*
2499652 ATTATGAAAAATGGGTGTTTTAGAAATAAAATCGGAGCTGGAGTATCCCTGATTAAGAGAAATTG
66 ATTATGAAAAATGGGTGTTTTAGAAATAAAATCGGAGCTGGAGTATCCCTAATTAAGAGAAATTG
*
2499717 ATGTTTTGGAAATGAAACCGGGA
131 ATGTTTTGGAAATGAAACCAGGA
2499740 TTGGAGTATCCCCGA
1 TTGGAGTATCCCCGA
2499755 GATGAAAAAT
Statistics
Matches: 158, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
152 2 0.01
153 156 0.99
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (153 bp):
TTGGAGTATCCCCGATTGTGAAAAGTCGATGTTCTGATAATAAAATCGGAGTTGGAGTATCCCCG
ATTATGAAAAATGGGTGTTTTAGAAATAAAATCGGAGCTGGAGTATCCCTAATTAAGAGAAATTG
ATGTTTTGGAAATGAAACCAGGA
Found at i:2499753 original size:102 final size:101
Alignment explanation
Indices: 2499433--2499765 Score: 345
Period size: 102 Copynumber: 3.3 Consensus size: 101
2499423 AAATAACGGG
* * *
2499433 GTTGGAGTATCCCCGATTGTGAAAAGTCGATGTTCTGGAAATAAAATCGGAGTTGGAGTATCCCT
1 GTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCT
*
2499498 GATTATG-GAAAATGGGTGTTTTAGAAATGAAATCGGA
66 GATTATGAG-AAATCGGTGTTTT-GAAATGAAATCGGA
** * * * * *
2499535 GTTGGAGTATCCCTAATTAAGAGAAATTGATGTTTTGGAAATGAAACCAGGA-TTGGAGTAT-CC
1 GTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTGGAAATAAAATC-GGAGTTGGAGTATCCC
* * *
2499598 TCGATTGTGA-AAAGTCGGTGTTCTGATAATAAAATCGGA
65 T-GATTATGAGAAA-TCGGTGTTTTGA-AATGAAATCGGA
* * * *
2499637 GTTGGAGTATCCCCGATTATGAAAAATGGGTGTTTTAGAAATAAAATCGGAGCTGGAGTATCCCT
1 GTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCT
* * * *
2499702 GATTAAGAGAAATTGATGTTTTGGAAATGAAACCGG-
66 GATTATGAGAAATCGGTGTTTT-GAAATGAAATCGGA
*
2499738 GATTGGAGTATCCCCGA-GATGAAAAATC
1 G-TTGGAGTATCCCCGATTATGAAAAATC
2499766 TAGAAATTTA
Statistics
Matches: 188, Mismatches: 33, Indels: 21
0.78 0.14 0.09
Matches are distributed among these distances:
101 21 0.11
102 156 0.83
103 11 0.06
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (101 bp):
GTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCT
GATTATGAGAAATCGGTGTTTTGAAATGAAATCGGA
Found at i:2506572 original size:28 final size:27
Alignment explanation
Indices: 2506537--2506613 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 27
2506527 GGAATAAAAC
** *
2506537 CGAGGTTGGAGTATCCCTTTGGAAGTAA
1 CGAGGTTGGAGTATCCCGAT-GAAATAA
*
2506565 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGAGGTTGGAGTAT-CCCGATGAAATAA
2506593 CGAGGTTGGAGTATCCTCGAT
1 CGAGGTTGGAGTATCC-CGAT
2506614 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 2 0.05
28 36 0.86
29 4 0.10
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (27 bp):
CGAGGTTGGAGTATCCCGATGAAATAA
Found at i:2506666 original size:52 final size:49
Alignment explanation
Indices: 2506596--2506779 Score: 179
Period size: 52 Copynumber: 3.6 Consensus size: 49
2506586 GAAATAACGA
* * * *
2506596 GGTTGGAGTATCCTCGATTGTGAAAAATTGGCGTTTTTGGAAATAAAATCG
1 GGTT-GAGTATCCCCGATTATGAAAAATTGGTG-TTTTGGAAATAAAACCG
* * *
2506647 GAGTTAGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCAG
1 G-GTT-GAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGGAAATAAAACC-G
* * * *
2506700 GGTTGAAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTG-AGTATCCCCGATTAT-GAAAAATTGGTGTTTTGGAAATAAAACC-G
2506752 GGTTGGAGTATCCCCGATTATGAAAAAT
1 GGTT-GAGTATCCCCGATTATGAAAAAT
2506780 CAATATTTTG
Statistics
Matches: 110, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
51 9 0.08
52 88 0.80
53 13 0.12
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (49 bp):
GGTTGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACCG
Found at i:2506804 original size:51 final size:52
Alignment explanation
Indices: 2506689--2506817 Score: 161
Period size: 51 Copynumber: 2.5 Consensus size: 52
2506679 GTGTTTTGAA
* * * * * *
2506689 AATAAAACCAGGGTTGAAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGC
1 AATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAGC
* *
2506741 AATAAAACCGGGGTTGGAGTATCCCCGATTAT-GAAAAATCAATATTTTGGG
1 AATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAGC
**
2506792 AATAAAGTCGGGGTTGGAGTATCCCC
1 AATAAAACCGGGGTTGGAGTATCCCC
2506818 TCGGAGGTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
51 38 0.57
52 29 0.43
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (52 bp):
AATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAGC
Found at i:2506863 original size:27 final size:28
Alignment explanation
Indices: 2506800--2506871 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 28
2506790 GGAATAAAGT
**
2506800 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGAGGAGGTAA
* * *
2506828 CGAGGTTGGAGTATCCCCGATGA-TTAA
1 CGGGGTTGGAGTATCCCCGAGGAGGTAA
2506855 CGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
2506872 AATGAAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
27 19 0.50
28 19 0.50
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAGGTAA
Found at i:2506906 original size:102 final size:105
Alignment explanation
Indices: 2506749--2506950 Score: 257
Period size: 102 Copynumber: 1.9 Consensus size: 105
2506739 GCAATAAAAC
* * **
2506749 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGGAATAAAGTCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGA-TATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
* ** *
2506814 CCCCTCGGAGGTAACGAGGTTGGAGTATCCCCGATGATTAA
65 CCCCTCAGAAATAACGAGGTTGGAATATCCCCGATGATTAA
* * *
2506855 CGGGGTTGGAGTAT-CCC-A-ATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTGTC
1 CGGGGTTGGAGTATCCCCGATATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATC
* *
2506917 CCTTCAGAAATAACGGGGTTGGAATATCCCCGAT
66 CCCTCAGAAATAACGAGGTTGGAATATCCCCGAT
2506951 TGTGAAAAGT
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
102 65 0.78
104 1 0.01
105 3 0.04
106 14 0.17
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (105 bp):
CGGGGTTGGAGTATCCCCGATATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATC
CCCTCAGAAATAACGAGGTTGGAATATCCCCGATGATTAA
Found at i:2506999 original size:51 final size:51
Alignment explanation
Indices: 2506934--2507052 Score: 161
Period size: 51 Copynumber: 2.3 Consensus size: 51
2506924 AAATAACGGG
* * * *
2506934 GTTGGAATATCCCCGATTGT-GAAAAGTCGGTGCTTTGGAAATAAAATCGGA
1 GTTGGAATATCCCCGATTATGGAAAA-TAGGTGCTTTAGAAATAAAATCAGA
*
2506985 GTT-GAAGTATCCCCGATTATGGAAAATAGGTGTTTTAGAAATAAAATCAGA
1 GTTGGAA-TATCCCCGATTATGGAAAATAGGTGCTTTAGAAATAAAATCAGA
2507036 GTTGGAATATCCCCGAT
1 GTTGGAATATCCCCGAT
2507053 CAACAAAAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
50 3 0.05
51 49 0.82
52 8 0.13
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (51 bp):
GTTGGAATATCCCCGATTATGGAAAATAGGTGCTTTAGAAATAAAATCAGA
Found at i:2509377 original size:13 final size:13
Alignment explanation
Indices: 2509359--2509384 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2509349 ACAAAGATCC
2509359 ATGTATCGATACA
1 ATGTATCGATACA
2509372 ATGTATCGATACA
1 ATGTATCGATACA
2509385 CAGAAAAATG
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:2509383 original size:33 final size:33
Alignment explanation
Indices: 2509341--2509404 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
2509331 AATTTCAAAC
***
2509341 GTATCGATACAAAGATCCATGTATCGATACAAT
1 GTATCGATACAAAGAAAAATGTATCGATACAAT
*
2509374 GTATCGATACACAGAAAAATGTATCGATACA
1 GTATCGATACAAAGAAAAATGTATCGATACA
2509405 TTTCCTTGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (33 bp):
GTATCGATACAAAGAAAAATGTATCGATACAAT
Found at i:2510299 original size:28 final size:28
Alignment explanation
Indices: 2510268--2510353 Score: 72
Period size: 27 Copynumber: 3.1 Consensus size: 28
2510258 TGAGGACTAA
2510268 AAAGTGCCACCAACTCGTGTGGGCTTTG
1 AAAGTGCCACCAACTCGTGTGGGCTTTG
** ** *
2510296 AAAG-GCGTCCTGCTC-TTTGAGGAC--TG
1 AAAGTGCCACCAACTCGTGTG-GG-CTTTG
*
2510322 AAAGTGCCACCAACTTGTGTGGGCTTTG
1 AAAGTGCCACCAACTCGTGTGGGCTTTG
2510350 AAAG
1 AAAG
2510354 GCGTCTTGCT
Statistics
Matches: 41, Mismatches: 11, Indels: 12
0.64 0.17 0.19
Matches are distributed among these distances:
26 10 0.24
27 17 0.41
28 14 0.34
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (28 bp):
AAAGTGCCACCAACTCGTGTGGGCTTTG
Found at i:2510435 original size:59 final size:59
Alignment explanation
Indices: 2510252--2511085 Score: 1391
Period size: 59 Copynumber: 14.3 Consensus size: 59
2510242 AGTGTATCCT
* * * *
2510252 GCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT----G-AAAGGCGTCCT
1 GCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* **
2510307 GCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTCTT
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * *
2510361 GCTCTTTGAGGACTGAAGGTACCACCAACTTGTGTGGGCTTTAAAAAAAAAGGTGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
2510420 GCTCTTTGAGGACTGAAGGTGCTACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
2510479 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * *
2510538 TCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGTCCT
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
2510597 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
2510656 GCTCTTTGAGGACTGAAGGTGCTACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* *
2510715 ACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
2510774 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCTC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
2510833 GCTCTTTGAGGACTGTAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
2510892 GCTCTTTTAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* *
2510951 GCTCTTTGAGGATTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCT
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
2511010 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
2511069 GCTCTTTGAGGACTGAA
1 GCTCTTTGAGGACTGAA
2511086 AAGCGGAAGG
Statistics
Matches: 738, Mismatches: 36, Indels: 6
0.95 0.05 0.01
Matches are distributed among these distances:
54 77 0.10
55 14 0.02
59 647 0.88
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (59 bp):
GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
Found at i:2512086 original size:16 final size:16
Alignment explanation
Indices: 2512067--2512116 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
2512057 CTTTTCTCTC
*
2512067 TTTTTCTTTGTTTTGT
1 TTTTTTTTTGTTTTGT
2512083 TTTTTTTTTGTTTTGT
1 TTTTTTTTTGTTTTGT
*
2512099 TTTTTTTTTCTTTT-T
1 TTTTTTTTTGTTTTGT
2512114 TTT
1 TTT
2512117 GAAGAGAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 4 0.12
16 28 0.88
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.88
Consensus pattern (16 bp):
TTTTTTTTTGTTTTGT
Found at i:2512093 original size:11 final size:11
Alignment explanation
Indices: 2512067--2512116 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
2512057 CTTTTCTCTC
*
2512067 TTTTTCTTTGT
1 TTTTTTTTTGT
*
2512078 TTTGTTTTT-T
1 TTTTTTTTTGT
*
2512088 TTTTGTTTTGT
1 TTTTTTTTTGT
*
2512099 TTTTTTTTTCT
1 TTTTTTTTTGT
2512110 TTTTTTT
1 TTTTTTT
2512117 GAAGAGAAGG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
10 8 0.25
11 24 0.75
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:2512116 original size:15 final size:16
Alignment explanation
Indices: 2512052--2512116 Score: 69
Period size: 16 Copynumber: 3.9 Consensus size: 16
2512042 AAGCAGGTTC
*
2512052 TTTTTCTTTTCTCTCTTT
1 TTTTTCTTTTGT-T-TTT
*
2512070 TTCTTTGTTTTGTTTTT
1 TT-TTTCTTTTGTTTTT
*
2512087 TTTTTGTTTTGTTTTT
1 TTTTTCTTTTGTTTTT
2512103 TTTTTCTTTT-TTTT
1 TTTTTCTTTTGTTTT
2512117 GAAGAGAAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
15 4 0.09
16 23 0.53
17 5 0.12
18 3 0.07
19 8 0.19
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (16 bp):
TTTTTCTTTTGTTTTT
Found at i:2524379 original size:20 final size:22
Alignment explanation
Indices: 2524354--2524398 Score: 76
Period size: 20 Copynumber: 2.1 Consensus size: 22
2524344 AAAATGCTTG
2524354 AATGTATCGATACAT-T-GTAA
1 AATGTATCGATACATCTGGTAA
2524374 AATGTATCGATACATCTGGTAA
1 AATGTATCGATACATCTGGTAA
2524396 AAT
1 AAT
2524399 TTCAAACGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 15 0.65
21 1 0.04
22 7 0.30
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (22 bp):
AATGTATCGATACATCTGGTAA
Found at i:2525743 original size:58 final size:59
Alignment explanation
Indices: 2525304--2526122 Score: 1128
Period size: 58 Copynumber: 14.3 Consensus size: 59
2525294 AGTGTATCCT
* * * *
2525304 GCTCTTTGAGGACTAAAAAGTGCCA-CAACTCGTGTGGGCTTT----G-AAAGGCGTCCT
1 GCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* **
2525358 GCTCTTTGAGGACTGAAAG-GCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTCTT
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* *
2525411 G-TCCTTTGAGGACTGAAGGTACCA-CAACTTGTGTGGGCTTTAAAA-AAAAGGGTGTCCC
1 GCT-CTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA-GGCGTCCC
*
2525469 GCTCTTTGAGGACTGAAGGTGCTACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGT--C
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
2525526 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGGTGGGCTTTAAAAGAAAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGT-GTGGGCTTTAAAAG--AAAAGGCGTCCC
* * *
2525588 TCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGT-CT
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
2525646 GCTC-TTGAGGACTGAAGGTGCCACCAAC-TGTGTGGGCTTTAAGA-AAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
2525702 GCTCTTTGAGGACTGAAGGTGCTACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* *
2525761 ACTC-TTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
2525819 GCTC-TTGAGGACTGAAGGTGCACACCAACTTGTGTGGGCTTTAAAAGAAAA-GCGT-CC
1 GCTCTTTGAGGACTGAAGGTGC-CACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
2525876 GCTCTTTGAGGACTGTAGGTGCCACCAAACTTGTGTGGGCTTT-AAA-AAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACC-AACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* *
2525934 GCTCTTTTAGGACTGAAGTTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* *
2525993 GCTCTTTGAGGATTG-AGGTGCCACCAACTTGTGTGGGC-TTAAAAGAAAAGGCGTCCT
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
2526050 GCTC-TTGAGGACTGAA-GTGCCACCAACTTGTGT-GGC-TTAAAAGAAAAGGCGGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC-GTCCC
2526106 GCTCTTTGAGGACTGAA
1 GCTCTTTGAGGACTGAA
2526123 AAGCGGAAGG
Statistics
Matches: 698, Mismatches: 36, Indels: 59
0.88 0.05 0.07
Matches are distributed among these distances:
52 5 0.01
53 64 0.09
54 17 0.02
55 25 0.04
56 58 0.08
57 151 0.22
58 215 0.31
59 103 0.15
60 13 0.02
61 14 0.02
62 33 0.05
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (59 bp):
GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
Found at i:2525971 original size:115 final size:116
Alignment explanation
Indices: 2525304--2526122 Score: 1114
Period size: 115 Copynumber: 7.1 Consensus size: 116
2525294 AGTGTATCCT
* * * * *
2525304 GCTCTTTGAGGACTAAAAAGTGCCA-CAACTCGTGTGGGCTTT----GAAAGGCGTCCTGCTCTT
1 GCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAGGCGTCCCGCTCTT
* *
2525364 TGAGGACTGAAAG-GCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTCTT
65 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTC-C
* *
2525411 G-TCCTTTGAGGACTGAAGGTACCA-CAACTTGTGTGGGCTTTAAAAAAAAGGGTGTCCCGCTCT
1 GCT-CTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAA-GGCGTCCCGCTCT
*
2525474 TTGAGGACTGAAGGTGCTACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGT-C
64 TTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCC
*
2525526 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGGTGGGCTTTAAAAGAAAAAAGGCGTCCCTCT
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGT-GTGGGCTTT--AA-AAAAAAGGCGTCCCGCT
* *
2525591 CTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGTCT
62 CTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCC
*
2525646 GCTC-TTGAGGACTGAAGGTGCCACCAAC-TGTGTGGGCTTTAAGAAAAAGGCGTCCCGCTCTTT
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAGGCGTCCCGCTCTTT
*
2525709 GAGGACTGAAGGTGCTACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCC
66 GAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCC
* *
2525760 -CACTCTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGTCCCGCTC-
1 GCTCT-TTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-AAAAGGCGTCCCGCTCT
2525823 TTGAGGACTGAAGGTGCACACCAACTTGTGTGGGCTTTAAAAGAAAA-GCGTCC
64 TTGAGGACTGAAGGTGC-CACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCC
*
2525876 GCTCTTTGAGGACTGTAGGTGCCACCAAACTTGTGTGGGCTTT-AAAAAAAGGCGTCCCGCTCTT
1 GCTCTTTGAGGACTGAAGGTGCCACC-AACTTGTGTGGGCTTTAAAAAAAAGGCGTCCCGCTCTT
* *
2525940 TTAGGACTGAAGTTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
65 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGT-CC
* *
2525993 GCTCTTTGAGGATTG-AGGTGCCACCAACTTGTGTGGGC-TTAAAAGAAAAGGCGTCCTGCTC-T
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-AAAAGGCGTCCCGCTCTT
2526055 TGAGGACTGAA-GTGCCACCAACTTGTGT-GGC-TTAAAAGAAAAGGCGGTCCC
65 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC-GT-CC
2526106 GCTCTTTGAGGACTGAA
1 GCTCTTTGAGGACTGAA
2526123 AAGCGGAAGG
Statistics
Matches: 644, Mismatches: 35, Indels: 59
0.87 0.05 0.08
Matches are distributed among these distances:
106 24 0.04
107 12 0.02
110 3 0.00
111 24 0.04
112 35 0.05
113 24 0.04
114 86 0.13
115 118 0.18
116 115 0.18
117 104 0.16
118 3 0.00
119 86 0.13
120 10 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (116 bp):
GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAGGCGTCCCGCTCTTT
GAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCC
Found at i:2527094 original size:15 final size:14
Alignment explanation
Indices: 2527076--2527123 Score: 64
Period size: 15 Copynumber: 3.5 Consensus size: 14
2527066 CTTTTCTCTC
*
2527076 TTTTCTTTGTTTTG
1 TTTTTTTTGTTTTG
2527090 TTTTTTTTTGTTTTG
1 -TTTTTTTTGTTTTG
2527105 TTTTTTTT-TTTT-
1 TTTTTTTTGTTTTG
2527117 TTTTTTT
1 TTTTTTT
2527124 GAAGAGAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
12 7 0.22
13 4 0.12
14 8 0.25
15 13 0.41
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.90
Consensus pattern (14 bp):
TTTTTTTTGTTTTG
Found at i:2527096 original size:1 final size:1
Alignment explanation
Indices: 2527085--2527123 Score: 51
Period size: 1 Copynumber: 39.0 Consensus size: 1
2527075 CTTTTCTTTG
* * *
2527085 TTTTGTTTTTTTTTGTTTTGTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2527124 GAAGAGAAGG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (1 bp):
T
Found at i:2527106 original size:20 final size:20
Alignment explanation
Indices: 2527081--2527124 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
2527071 CTCTCTTTTC
2527081 TTTGTTTTGTTTTTTTTTGT
1 TTTGTTTTGTTTTTTTTTGT
* *
2527101 TTTGTTTTTTTTTTTTTTTT
1 TTTGTTTTGTTTTTTTTTGT
2527121 TTTG
1 TTTG
2527125 AAGAGAAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (20 bp):
TTTGTTTTGTTTTTTTTTGT
Found at i:2536819 original size:27 final size:28
Alignment explanation
Indices: 2536756--2536827 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 28
2536746 GGAATAAAGT
**
2536756 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGAGGAGGTAA
* * *
2536784 CGAGGTTGGAGTATCCCCGATGA-TTAA
1 CGGGGTTGGAGTATCCCCGAGGAGGTAA
2536811 CGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
2536828 AATGAAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
27 19 0.50
28 19 0.50
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAGGTAA
Found at i:2536887 original size:102 final size:104
Alignment explanation
Indices: 2536703--2536905 Score: 259
Period size: 102 Copynumber: 2.0 Consensus size: 104
2536693 TAGCAATAAA
* * **
2536703 AACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGGAATAAAGTCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGA-TATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGT
* ** *
2536768 ATCCCCTCGGAGGTAACGAGGTTGGAGTATCCCCGATGATT
65 ATCCCCTCAGAAATAACG-GGTTGGAATATCCCCGATGATT
* * *
2536809 AACGGGGTTGGAGTAT-CCC-A-ATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTG
1 AACGGGGTTGGAGTATCCCCGATATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTA
*
2536871 TCCCTTCAGAAATAACGGGTTGGAATATCCCCGAT
66 TCCCCTCAGAAATAACGGGTTGGAATATCCCCGAT
2536906 TGTGAAAAGT
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
101 17 0.20
102 48 0.56
104 1 0.01
105 3 0.04
106 16 0.19
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (104 bp):
AACGGGGTTGGAGTATCCCCGATATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTA
TCCCCTCAGAAATAACGGGTTGGAATATCCCCGATGATT
Found at i:2536954 original size:51 final size:51
Alignment explanation
Indices: 2536889--2537007 Score: 163
Period size: 51 Copynumber: 2.3 Consensus size: 51
2536879 GAAATAACGG
* *
2536889 GTTGGAATATCCCCGATTGT-GAAAAGTAGGTGCTTTGGAAATAAAATC-GAA
1 GTTGGAATATCCCCGATTATGGAAAA-TAGGTGCTTTAGAAATAAAATCAG-A
*
2536940 GTT-GAAGTATCCCCGATTATGGAAAATAGGTGTTTTAGAAATAAAATCAGA
1 GTTGGAA-TATCCCCGATTATGGAAAATAGGTGCTTTAGAAATAAAATCAGA
2536991 GTTGGAATATCCCCGAT
1 GTTGGAATATCCCCGAT
2537008 CAACAAAAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
50 3 0.05
51 49 0.80
52 9 0.15
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.29
Consensus pattern (51 bp):
GTTGGAATATCCCCGATTATGGAAAATAGGTGCTTTAGAAATAAAATCAGA
Found at i:2539332 original size:13 final size:13
Alignment explanation
Indices: 2539314--2539339 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2539304 ACAAAGATCC
2539314 ATGTATCGATACA
1 ATGTATCGATACA
2539327 ATGTATCGATACA
1 ATGTATCGATACA
2539340 CAGAAAAATG
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:2539338 original size:33 final size:33
Alignment explanation
Indices: 2539296--2539359 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
2539286 ATTTTCAAAC
***
2539296 GTATCGATACAAAGATCCATGTATCGATACAAT
1 GTATCGATACAAAGAAAAATGTATCGATACAAT
*
2539329 GTATCGATACACAGAAAAATGTATCGATACA
1 GTATCGATACAAAGAAAAATGTATCGATACA
2539360 TTTCCTTGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (33 bp):
GTATCGATACAAAGAAAAATGTATCGATACAAT
Found at i:2540252 original size:28 final size:28
Alignment explanation
Indices: 2540221--2540306 Score: 72
Period size: 27 Copynumber: 3.1 Consensus size: 28
2540211 TGAGGACTAA
2540221 AAAGTGCCACCAACTCGTGTGGGCTTTG
1 AAAGTGCCACCAACTCGTGTGGGCTTTG
** ** *
2540249 AAAG-GCGTCCTGCTC-TTTGAGGAC--TG
1 AAAGTGCCACCAACTCGTGTG-GG-CTTTG
*
2540275 AAAGTGCCACCAACTTGTGTGGGCTTTG
1 AAAGTGCCACCAACTCGTGTGGGCTTTG
2540303 AAAG
1 AAAG
2540307 GCGTCTTGCT
Statistics
Matches: 41, Mismatches: 11, Indels: 12
0.64 0.17 0.19
Matches are distributed among these distances:
26 10 0.24
27 17 0.41
28 14 0.34
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (28 bp):
AAAGTGCCACCAACTCGTGTGGGCTTTG
Found at i:2540449 original size:59 final size:59
Alignment explanation
Indices: 2540205--2541037 Score: 1382
Period size: 59 Copynumber: 14.3 Consensus size: 59
2540195 AGTGTATCCT
* * * *
2540205 GCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT----G-AAAGGCGTCCT
1 GCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* **
2540260 GCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTCTT
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* *
2540314 GCTCTTTGAGGACTGAAGGTACCACCAACTTGTGTGGGCTTTAAAA-AAAAGGTGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
2540372 GCTCTTTGAGGACTGAAGGTGCTACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
2540431 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * **
2540490 TCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGTCTT
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
2540549 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
2540608 GCTCTTTGAGGACTGAAGGTGCTACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* *
2540667 ACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
2540726 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCTC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
2540785 GCTCTTTGAGGACTGTAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
2540844 GCTCTTTTAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* *
2540903 GCTCTTTGAGGATTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCT
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
2540962 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
2541021 GCTCTTTGAGGACTGAA
1 GCTCTTTGAGGACTGAA
2541038 AAGCGGAAGG
Statistics
Matches: 736, Mismatches: 36, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
54 77 0.10
55 14 0.02
58 52 0.07
59 593 0.81
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (59 bp):
GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
Found at i:2542037 original size:16 final size:16
Alignment explanation
Indices: 2542018--2542068 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
2542008 CTTTTCTCTC
*
2542018 TTTTTCTTTGTTTTGT
1 TTTTTTTTTGTTTTGT
2542034 TTTTTTTTTGTTTTGT
1 TTTTTTTTTGTTTTGT
*
2542050 TTTTTTTTTCTTTT-T
1 TTTTTTTTTGTTTTGT
2542065 TTTT
1 TTTT
2542069 GAAGAGAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
15 5 0.15
16 28 0.85
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.88
Consensus pattern (16 bp):
TTTTTTTTTGTTTTGT
Found at i:2542044 original size:11 final size:11
Alignment explanation
Indices: 2542018--2542068 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
2542008 CTTTTCTCTC
*
2542018 TTTTTCTTTGT
1 TTTTTTTTTGT
*
2542029 TTTGTTTTT-T
1 TTTTTTTTTGT
*
2542039 TTTTGTTTTGT
1 TTTTTTTTTGT
*
2542050 TTTTTTTTTCT
1 TTTTTTTTTGT
2542061 TTTTTTTT
1 TTTTTTTT
2542069 GAAGAGAAGG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
10 8 0.24
11 25 0.76
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:2542067 original size:15 final size:16
Alignment explanation
Indices: 2542003--2542068 Score: 71
Period size: 16 Copynumber: 4.0 Consensus size: 16
2541993 AAGCAGGTTC
*
2542003 TTTTTCTTTTCTCTCTTT
1 TTTTTCTTTTGT-T-TTT
*
2542021 TTCTTTGTTTTGTTTTT
1 TT-TTTCTTTTGTTTTT
*
2542038 TTTTTGTTTTGTTTTT
1 TTTTTCTTTTGTTTTT
2542054 TTTTTCTTTT-TTTTT
1 TTTTTCTTTTGTTTTT
2542069 GAAGAGAAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
15 5 0.11
16 23 0.52
17 5 0.11
18 3 0.07
19 8 0.18
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (16 bp):
TTTTTCTTTTGTTTTT
Found at i:2554620 original size:28 final size:28
Alignment explanation
Indices: 2554544--2554620 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
2554534 GGAATAAAGC
*
2554544 CGAGGTTGGAGTATCCCCTCG--GAAGTAA
1 CGAGGTTGGAGTAT--CCTCGATGAAATAA
* *
2554572 TGGGGTTGGAGTATTCC-CGATGAAATAA
1 CGAGGTTGGAGTA-TCCTCGATGAAATAA
2554600 CGAGGTTGGAGTATCCTCGAT
1 CGAGGTTGGAGTATCCTCGAT
2554621 TGTGAAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
26 2 0.05
27 5 0.12
28 32 0.80
29 1 0.03
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (28 bp):
CGAGGTTGGAGTATCCTCGATGAAATAA
Found at i:2554673 original size:52 final size:50
Alignment explanation
Indices: 2554604--2554786 Score: 195
Period size: 52 Copynumber: 3.5 Consensus size: 50
2554594 AAATAACGAG
* * *
2554604 GTTGGAGTATCCTCGATTGTGAAAAATTGGCGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTG-TTTTGGAAATAAAA-CGGA
* * * *
2554656 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACTGA
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGGAAATAAAACGGA
* * * * * *
2554707 GGTTGAAGTATCCCCGATTGTGAAAAAATTAGTGTTTTAGCAATAAAACCGGG
1 -GTTGGAGTATCCCCGATTATG-AAAAATTGGTGTTTTGGAAATAAAA-CGGA
2554760 GTTGGAGTATCCCCGATTATGAAAAAT
1 GTTGGAGTATCCCCGATTATGAAAAAT
2554787 CAATATTTTG
Statistics
Matches: 108, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
51 10 0.09
52 86 0.80
53 12 0.11
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACGGA
Found at i:2554812 original size:51 final size:52
Alignment explanation
Indices: 2554696--2554824 Score: 143
Period size: 51 Copynumber: 2.5 Consensus size: 52
2554686 GTGTTTTGAA
* * * * * * *
2554696 AATAAAACTGAGGTTGAAGTATCCCCGATTGTGAAAAAATTAGTGTTTTAGC
1 AATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAAATCAATATTTTAGC
* *
2554748 AATAAAACCGGGGTTGGAGTATCCCCGATTATG-AAAAATCAATATTTTGGG
1 AATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAAATCAATATTTTAGC
***
2554799 AATAAAGTTGGGGTTGGAGTATCCCC
1 AATAAAACCGGGGTTGGAGTATCCCC
2554825 TCGGAGGTAA
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
51 36 0.55
52 29 0.45
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (52 bp):
AATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAAATCAATATTTTAGC
Found at i:2554850 original size:28 final size:27
Alignment explanation
Indices: 2554810--2554879 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
2554800 ATAAAGTTGG
**
2554810 GGTTGGAGTATCCCCTCGGAGGTAACGA
1 GGTTGGAGTATCCCCGAGGA-GTAACGA
* *
2554838 GGTTGGAGTATCCCCGATGATTAACGA
1 GGTTGGAGTATCCCCGAGGAGTAACGA
2554865 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
2554880 AATGAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.24
Consensus pattern (27 bp):
GGTTGGAGTATCCCCGAGGAGTAACGA
Found at i:2554870 original size:27 final size:27
Alignment explanation
Indices: 2554832--2554884 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
2554822 CCCTCGGAGG
*
2554832 TAACGAGGTTGGAGTATCCCCGATGAT
1 TAACGAGGTTGGAGTATCCCCAATGAT
2554859 TAACGAGGTTGGAGTATCCCCAATGA
1 TAACGAGGTTGGAGTATCCCCAATGA
2554885 AAAATTGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (27 bp):
TAACGAGGTTGGAGTATCCCCAATGAT
Found at i:2555010 original size:51 final size:51
Alignment explanation
Indices: 2554942--2555062 Score: 165
Period size: 51 Copynumber: 2.4 Consensus size: 51
2554932 AAATAACAGG
* *
2554942 GTTGGAATATCCTCGATTGT-GAAAAGTCGGTGCTTTGGAAATAAAATCGGA
1 GTTGGAATATCCCCGATTGTGGAAAA-TCGGTGCTTTAGAAATAAAATCGGA
* * *
2554993 GTT-GAAGTATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAA-TATCCCCGATTGTGGAAAATCGGTGCTTTAGAAATAAAATCGGA
2555044 GTTGGAATATCCCCGATTG
1 GTTGGAATATCCCCGATTG
2555063 CGGAGAATTG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
50 3 0.05
51 50 0.82
52 8 0.13
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GTTGGAATATCCCCGATTGTGGAAAATCGGTGCTTTAGAAATAAAATCGGA
Found at i:2557755 original size:88 final size:86
Alignment explanation
Indices: 2557653--2558110 Score: 397
Period size: 88 Copynumber: 5.2 Consensus size: 86
2557643 TTCCTTTTTC
* * *
2557653 CTGTCTGACGTATGGTTATCACCCT-GATTAGATTCTTTTTATTCCGATTTGACGTATGGTTACC
1 CTGTCTGATGTATGGTTACCA-CCTAG-TCAGATTCTTTTTATTCCGATTTGACGTATGGTTACC
* *
2557717 ACCACGCTCAAATATGCCTCTCTT
64 ACCATGGTCAAATATGCCTCT-TT
* * * *
2557741 CTGTCTGATATATGGTTACCACCTTAGTCAGATTCTTTTCATTCTGATTTGACGTATGGTTACTA
1 CTGTCTGATGTATGGTTACCACC-TAGTCAGATTCTTTTTATTCCGATTTGACGTATGGTTACCA
2557806 CCATGGTCAAATCA-GCCTCTTT
65 CCATGGTCAAAT-ATGCCTCTTT
* * **
2557828 CTTGTCTGATGTATGATTACCATCCTAGTCAAATT-TTTTTCATTTGGATTTGACGTATGGTTAC
1 C-TGTCTGATGTATGGTTACCA-CCTAGTCAGATTCTTTTT-ATTCCGATTTGACGTATGGTTAC
*
2557892 CATCC-TGGTCAAATCTGCCTCTTT
63 CA-CCATGGTCAAATATGCCTCTTT
* * ** * ** *
2557916 TTGTCTGACGTATAATTACCACCTTAGTCAGATTCTTTTCATTTTGATTTGAC--ATGGTTGCCA
1 CTGTCTGATGTATGGTTACCACC-TAGTCAGATTCTTTTTATTCCGATTTGACGTATGGTTACCA
* * * *
2557979 CCCTGGTCAAATCTACCTCATT
65 CCATGGTCAAATATGCCTCTTT
* * * * * * *
2558001 CTTGTCTGACGTATGATTACCACACTGGTCAGATTCTTTTCATTCTGATTTGACATTTGGTTACC
1 C-TGTCTGATGTATGGTTACCAC-CTAGTCAGATTCTTTTTATTCCGATTTGACGTATGGTTACC
* * * *
2558066 ACCTTGGTTAAATCTGCCTCCTT
64 ACCATGGTCAAATATGCCTCTTT
* **
2558089 CTTGTTTGACATATGGTTACCA
1 C-TGTCTGATGTATGGTTACCA
2558111 TCCTGCTGAA
Statistics
Matches: 316, Mismatches: 39, Indels: 30
0.82 0.10 0.08
Matches are distributed among these distances:
84 2 0.01
85 26 0.08
86 49 0.16
87 49 0.16
88 184 0.58
89 6 0.02
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.41
Consensus pattern (86 bp):
CTGTCTGATGTATGGTTACCACCTAGTCAGATTCTTTTTATTCCGATTTGACGTATGGTTACCAC
CATGGTCAAATATGCCTCTTT
Found at i:2557799 original size:44 final size:43
Alignment explanation
Indices: 2557658--2558069 Score: 184
Period size: 44 Copynumber: 9.4 Consensus size: 43
2557648 TTTTCCTGTC
* * * *
2557658 TGACGTATGGTTATCACCCT-GATTAGATTCTTTTTATTCCGATT
1 TGACGTATGGTTACCA-CCTAG-TCAGATTCTTTTCATTCTGATT
* * * *
2557702 TGACGTATGGTTACCACC-ACGCTCAAATATGCCTCTC-TTCTG-TC
1 TGACGTATGGTTACCACCTA-G-TCAGAT-T-CTTTTCATTCTGATT
**
2557746 TGATATATGGTTACCACCTTAGTCAGATTCTTTTCATTCTGATT
1 TGACGTATGGTTACCACC-TAGTCAGATTCTTTTCATTCTGATT
* * * *** * *
2557790 TGACGTATGGTTACTACCATGGTCA-AATCAGCCTCTTTCTTG-TC
1 TGACGTATGGTTACCACC-TAGTCAGATTC-TTTTCATTC-TGATT
* * * *
2557834 TGATGTATGATTACCATCCTAGTCAAATTTTTTTCATT-TGGATT
1 TGACGTATGGTTACCA-CCTAGTCAGATTCTTTTCATTCT-GATT
* * ** * * *
2557878 TGACGTATGGTTACCATCCTGGTCA-AATCTGCCTCTTTTTG-TC
1 TGACGTATGGTTACCA-CCTAGTCAGATTCT-TTTCATTCTGATT
** *
2557921 TGACGTATAATTACCACCTTAGTCAGATTCTTTTCATTTTGATT
1 TGACGTATGGTTACCACC-TAGTCAGATTCTTTTCATTCTGATT
* * * ** *
2557965 TGAC--ATGGTTGCCACCCTGGTCA-AATCTACCTCATTCTTG-TC
1 TGACGTATGGTTACCA-CCTAGTCAGATTCT-TTTCATTC-TGATT
* *
2558007 TGACGTATGATTACCACACTGGTCAGATTCTTTTCATTCTGATT
1 TGACGTATGGTTACCAC-CTAGTCAGATTCTTTTCATTCTGATT
* *
2558051 TGACATTTGGTTACCACCT
1 TGACGTATGGTTACCACCT
2558070 TGGTTAAATC
Statistics
Matches: 269, Mismatches: 72, Indels: 55
0.68 0.18 0.14
Matches are distributed among these distances:
41 4 0.01
42 29 0.11
43 51 0.19
44 164 0.61
45 17 0.06
46 4 0.01
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.41
Consensus pattern (43 bp):
TGACGTATGGTTACCACCTAGTCAGATTCTTTTCATTCTGATT
Found at i:2558053 original size:173 final size:174
Alignment explanation
Indices: 2557654--2558102 Score: 532
Period size: 173 Copynumber: 2.6 Consensus size: 174
2557644 TCCTTTTTCC
* * * * * *
2557654 TGTCTGACGTATGGTTATCACCCTGATTAGATTCTTTTTATTCCGATTTGACGTATGGTTACCAC
1 TGTCTGACGTATGATTACCA-CCTGGTCAGATTCTTTTCATTCTGATTTGACGTATGGTTACCAC
* * * * **
2557719 CACGCTCAAATATGCCTCTCTTCTGTCTGATATATGGTTACCACCTTAGTCAGATTCTTTTCATT
65 CATGGTCAAATCTGCCTCTCTTCTGTCTGACATATAATTACCACCTTAGTCAGATTCTTTTCATT
* *
2557784 CTGATTTGACGTATGGTTACTACCATGGTCAAATCAGCCTCTTTCT
130 CTGATTTGACG-ATGGTTACCACCATGGTCAAATCAGCCTCATTCT
* * * *
2557830 TGTCTGATGTATGATTACCATCCTAGTCAAATTTTTTTCATT-TGGATTTGACGTATGGTTACCA
1 TGTCTGACGTATGATTACCA-CCTGGTCAGATTCTTTTCATTCT-GATTTGACGTATGGTTACCA
* *
2557894 TCC-TGGTCAAATCTGCCTCT-TTTTGTCTGACGTATAATTACCACCTTAGTCAGATTCTTTTCA
64 -CCATGGTCAAATCTGCCTCTCTTCTGTCTGACATATAATTACCACCTTAGTCAGATTCTTTTCA
* * *
2557957 TTTTGATTTGAC-ATGGTTGCCACCCTGGTCAAATCTA-CCTCATTCT
128 TTCTGATTTGACGATGGTTACCACCATGGTCAAATC-AGCCTCATTCT
* *
2558003 TGTCTGACGTATGATTACCACACTGGTCAGATTCTTTTCATTCTGATTTGACATTTGGTTACCAC
1 TGTCTGACGTATGATTACCAC-CTGGTCAGATTCTTTTCATTCTGATTTGACGTATGGTTACCAC
* * *
2558068 CTTGGTTAAATCTGCCTC-CTTCTTGTTTGACATAT
65 CATGGTCAAATCTGCCTCTCTTC-TGTCTGACATAT
2558103 GGTTACCATC
Statistics
Matches: 231, Mismatches: 34, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
172 3 0.01
173 99 0.43
174 12 0.05
175 49 0.21
176 66 0.29
177 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (174 bp):
TGTCTGACGTATGATTACCACCTGGTCAGATTCTTTTCATTCTGATTTGACGTATGGTTACCACC
ATGGTCAAATCTGCCTCTCTTCTGTCTGACATATAATTACCACCTTAGTCAGATTCTTTTCATTC
TGATTTGACGATGGTTACCACCATGGTCAAATCAGCCTCATTCT
Found at i:2558281 original size:43 final size:41
Alignment explanation
Indices: 2558234--2558459 Score: 177
Period size: 43 Copynumber: 5.3 Consensus size: 41
2558224 CTCGGGAAAA
* *
2558234 TTTCTTTATCCCTTTTTTGCCCATCGGCTCAGACCCGAGAGAT
1 TTTCTTTAT--CTTTTTTGCCCATCGGCTTAGACCCGAGAGAC
* ** * * * *
2558277 TTTCTTCATCTTTTATATGTTCGTCGGATTAGACCTGTGAGAC
1 TTTCTTTATCTTTT-T-TGCCCATCGGCTTAGACCCGAGAGAC
* * **
2558320 TTTCTTTATCCTTTGTTTGCCTACCATCTTAGACCCGAGAGAC
1 TTTCTTTAT-CTTT-TTTGCCCATCGGCTTAGACCCGAGAGAC
* * *
2558363 TTTCTTTATTTTTTTTGCCCGTCGGCTTAAACCCGAGAGA-
1 TTTCTTTATCTTTTTTGCCCATCGGCTTAGACCCGAGAGAC
* * * *
2558403 TTTCTTTATCTTTTGTCTACCCATCGGCTCAAACCCG-GTAGAT
1 TTTCTTTATCTTTT-T-TGCCCATCGGCTTAGACCCGAG-AGAC
2558446 TTTCTTTATCTTTT
1 TTTCTTTATCTTTT
2558460 ATCTACCTAT
Statistics
Matches: 144, Mismatches: 31, Indels: 16
0.75 0.16 0.08
Matches are distributed among these distances:
40 13 0.09
41 28 0.19
42 24 0.17
43 73 0.51
44 5 0.03
45 1 0.01
ACGTcount: A:0.17, C:0.25, G:0.15, T:0.43
Consensus pattern (41 bp):
TTTCTTTATCTTTTTTGCCCATCGGCTTAGACCCGAGAGAC
Found at i:2558437 original size:42 final size:43
Alignment explanation
Indices: 2558352--2558508 Score: 153
Period size: 42 Copynumber: 3.7 Consensus size: 43
2558342 ACCATCTTAG
* * * *
2558352 ACCCGAGAGACTTTCTTTAT-TTTT-TTTGCCCGTCGGCTTAA
1 ACCCGAGAGACTTTCTTTATCTTTTGTCTACCCATCGGCTCAA
2558393 ACCCGAGAGA-TTTCTTTATCTTTTGTCTACCCATCGGCTCAA
1 ACCCGAGAGACTTTCTTTATCTTTTGTCTACCCATCGGCTCAA
* * * * *
2558435 ACCCG-GTAGATTTTCTTTATCTTTTATCTACCTATTGGCTCAG
1 ACCCGAG-AGACTTTCTTTATCTTTTGTCTACCCATCGGCTCAA
* * * *
2558478 ACCCGGGATAC-TTCTTTATCCTTCGTCTACC
1 ACCCGAGAGACTTTCTTTATCTTTTGTCTACC
2558509 TATCAGCTTA
Statistics
Matches: 98, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
40 9 0.09
41 15 0.15
42 38 0.39
43 35 0.36
44 1 0.01
ACGTcount: A:0.18, C:0.27, G:0.15, T:0.39
Consensus pattern (43 bp):
ACCCGAGAGACTTTCTTTATCTTTTGTCTACCCATCGGCTCAA
Found at i:2558439 original size:83 final size:84
Alignment explanation
Indices: 2558234--2558461 Score: 210
Period size: 83 Copynumber: 2.7 Consensus size: 84
2558224 CTCGGGAAAA
* * * **
2558234 TTTCTTTATCCCTTT-TTTGCCCATCGGCTCAGACCCGAGAGATTTTCTTCATCTTTTATATGTT
1 TTTCTTTAT-CCTTTGTCTACCCATCGGCTCAGACCCGAGAGATTTTCTTTAT-TTTT-TATGCC
* * *
2558298 CGTCGGATTAGACCTGTGAGAC
63 CGTCGGATTAAACCCGAGAGAC
* * * * ** * * *
2558320 TTTCTTTATCCTTTGTTTGCCTACCATCTTAGACCCGAGAGACTTTCTTTATTTTTTTTGCCCGT
1 TTTCTTTATCCTTTGTCTACCCATCGGCTCAGACCCGAGAGATTTTCTTTATTTTTTATGCCCGT
*
2558385 CGGCTTAAACCCGAGAGA-
66 CGGATTAAACCCGAGAGAC
* * *
2558403 TTTCTTTATCTTTTGTCTACCCATCGGCTCAAACCCG-GTAGATTTTCTTTATCTTTTAT
1 TTTCTTTATCCTTTGTCTACCCATCGGCTCAGACCCGAG-AGATTTTCTTTATTTTTTAT
2558462 CTACCTATTG
Statistics
Matches: 114, Mismatches: 26, Indels: 7
0.78 0.18 0.05
Matches are distributed among these distances:
82 1 0.01
83 45 0.39
84 20 0.18
85 9 0.08
86 39 0.34
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.43
Consensus pattern (84 bp):
TTTCTTTATCCTTTGTCTACCCATCGGCTCAGACCCGAGAGATTTTCTTTATTTTTTATGCCCGT
CGGATTAAACCCGAGAGAC
Found at i:2559814 original size:167 final size:164
Alignment explanation
Indices: 2559570--2560035 Score: 537
Period size: 167 Copynumber: 2.8 Consensus size: 164
2559560 TTTATTCACT
* * * * * *
2559570 GTAAATTTTTTCG-AGAGGATTTTTTTTGTTTTTAAATTTTAAAATTCACCAACTATTATTATTT
1 GTAATTTTTTTCGAAG-GGATTTTTCTTGTTTTTTATTTTTAAAATTCATCAAATATTATTATTT
* *
2559634 AAATCAAATTAAATCAGTTTTCAAAAATTCCA-TCATTTTCATTAGTTTTTAAATTTTTTCCTTG
65 -ATTCATATTAAATCAGTTTTCAAAAATT-CATTCATTTTCATTAG-TTTTAAATTTTTTCCTTG
* * *
2559698 AAATTTTTTTATTTCCAAAATATAG-AGTTTTCTTCTTC
127 AAATTTTTCTATTTCCAAAATA-AGAAGTTTTCTACTCC
*
2559736 GTAATTTTTTTCGAAGGGATTTTTCTTGATTTTTTATTTTTAAAATTCATCAAGTATTATTATTT
1 GTAATTTTTTTCGAAGGGATTTTTCTTG-TTTTTTATTTTTAAAATTCATCAAATATTATTATTT
* * *
2559801 ATTCTATATTAAATCAGTTTTCAAAAAATCATTCATTTTCAATAGCTTTTGAATTTTTTCCTTGA
65 ATTC-ATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATTAG-TTTTAAATTTTTTCCTTGA
* *
2559866 AATTTTTCTATTTTCAAAATACGAAGTTTTCTACTCC
128 AATTTTTCTATTTCCAAAATAAGAAGTTTTCTACTCC
* * * *
2559903 GTAAATTTTTTT-GAGGGGATTTTTCTTGTTTTTTAAATATTT-AAAGTCATCAAATAGTATTAT
1 GT-AATTTTTTTCGAAGGGATTTTTCTTGTTTTTT--ATTTTTAAAATTCATCAAATATTATTAT
* * * * * *
2559966 TTATTCCATATTAAATTATTTTTCAAAAATTCATTTATTTTCATGAGTTTTAGATTTTTTTCTTT
63 TTATT-CATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATTAGTTTTA-AATTTTTTCCTT
2560031 GAAAT
126 GAAAT
2560036 CTCTATTTTT
Statistics
Matches: 259, Mismatches: 31, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
166 39 0.15
167 205 0.79
168 15 0.06
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (164 bp):
GTAATTTTTTTCGAAGGGATTTTTCTTGTTTTTTATTTTTAAAATTCATCAAATATTATTATTTA
TTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATTAGTTTTAAATTTTTTCCTTGAAAT
TTTTCTATTTCCAAAATAAGAAGTTTTCTACTCC
Found at i:2560279 original size:2 final size:2
Alignment explanation
Indices: 2560272--2560305 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2560262 ACCAGATATT
2560272 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2560306 AGTAACTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:2560728 original size:16 final size:15
Alignment explanation
Indices: 2560696--2560738 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
2560686 AAGAAGAGGG
2560696 AAAAG-AAA-AAAAA
1 AAAAGAAAAGAAAAA
2560709 AAAAGAAAAGAAAGAA
1 AAAAGAAAAGAAA-AA
*
2560725 AAAAGAAGAGAAAA
1 AAAAGAAAAGAAAA
2560739 TAGAGTGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 5 0.19
14 3 0.12
15 4 0.15
16 14 0.54
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAGAAAAA
Found at i:2561640 original size:97 final size:97
Alignment explanation
Indices: 2561474--2561667 Score: 370
Period size: 97 Copynumber: 2.0 Consensus size: 97
2561464 TTAAGACCAC
*
2561474 TTAGCAAATCATGTCCAAATTGTGACTATGAATTTATTTTGTTTAGTCTAATATTTTATGCAATA
1 TTAGCAAATCATGTCCAAATTGTGACTATGAATATATTTTGTTTAGTCTAATATTTTATGCAATA
2561539 TGTGTGGAGTATTTATATGTAATTTTTAATAT
66 TGTGTGGAGTATTTATATGTAATTTTTAATAT
2561571 TTAGCAAATCATGTCCAAATTGTGACTATGAATATATTTTGTTTAGTCTAATATTTTATGCAATA
1 TTAGCAAATCATGTCCAAATTGTGACTATGAATATATTTTGTTTAGTCTAATATTTTATGCAATA
*
2561636 TGTGTGGAGTATTTTTATGTAATTTTTAATAT
66 TGTGTGGAGTATTTATATGTAATTTTTAATAT
2561668 GTGATTTGAT
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 95 1.00
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.47
Consensus pattern (97 bp):
TTAGCAAATCATGTCCAAATTGTGACTATGAATATATTTTGTTTAGTCTAATATTTTATGCAATA
TGTGTGGAGTATTTATATGTAATTTTTAATAT
Found at i:2563820 original size:20 final size:20
Alignment explanation
Indices: 2563779--2563830 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
2563769 TCACAATTTA
*
2563779 TATTGATACATTGCTCATTG
1 TATTGATACATTGCTCAATG
*
2563799 TATTGATACATT-TTACAATG
1 TATTGATACATTGCT-CAATG
*
2563819 TATCGATACATT
1 TATTGATACATT
2563831 CAGGCATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (20 bp):
TATTGATACATTGCTCAATG
Found at i:2566323 original size:50 final size:51
Alignment explanation
Indices: 2566250--2566376 Score: 136
Period size: 50 Copynumber: 2.6 Consensus size: 51
2566240 TATTTACGAG
* * * * * * *
2566250 GGATACTCCAACCTCGGTTTTATTTCTAAAATATCAATTTTTCGCAATCGA
1 GGATACTCTAACCCCAGTTTTATTTCCAAAACATCAATTTTCCACAATCGA
* * *
2566301 GGATACT-TAACCCCAGTTTTATTTCCAAAACATCGATTTTCCACCATCGG
1 GGATACTCTAACCCCAGTTTTATTTCCAAAACATCAATTTTCCACAATCGA
2566351 GGATACTCTAACCCC-G--TTATTTCCAA
1 GGATACTCTAACCCCAGTTTTATTTCCAA
2566377 GGGGATACTC
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
48 10 0.15
50 41 0.63
51 14 0.22
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (51 bp):
GGATACTCTAACCCCAGTTTTATTTCCAAAACATCAATTTTCCACAATCGA
Found at i:2566437 original size:51 final size:51
Alignment explanation
Indices: 2566377--2566496 Score: 172
Period size: 51 Copynumber: 2.4 Consensus size: 51
2566367 TTATTTCCAA
* * *
2566377 GGGGATACTCCAACCCCGATTTTA-TTTCTAAAACATCAATTTTTCATAATC
1 GGGGATACTCCAACCCCAATTTTATTTTC-AAAACATCAATTTTGCACAATC
2566428 GGGGATACTCC-ACCTCCAATTTTATTTTCAAAACATCAATTTTGCACAATC
1 GGGGATACTCCAACC-CCAATTTTATTTTCAAAACATCAATTTTGCACAATC
*
2566479 GGGGACACTCCAACCCCA
1 GGGGATACTCCAACCCCA
2566497 TTATTTCTGA
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
50 3 0.05
51 52 0.84
52 7 0.11
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAATTTTATTTTCAAAACATCAATTTTGCACAATC
Found at i:2566515 original size:130 final size:128
Alignment explanation
Indices: 2566189--2566574 Score: 477
Period size: 130 Copynumber: 3.0 Consensus size: 128
2566179 TCATTCATGT
* ** * *
2566189 TTTTATTTCCAAAACACCAATTTTTTACAATTGGGGATACTCCAGCCCCGTTATTTACG-AGGGA
1 TTTTATTTCCAAAACATCAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTT-CGAAGGGA
* * * ** *
2566253 TACTCCAACCTCGGTTTTATTTCTAAAATATCAATTTTTCGCAATCGAGGATACTTAACCCCAG
65 TACTCCAACCCCGGTTTTATTTCTAAAATATCAATTTTTCACAATCGGGGATACTCCACCCCAA
* * * *
2566317 TTTTATTTCCAAAACATCGATTTTCCACCATCGGGGATACTCTAACCCCGTTATTTCCAAGGGGA
1 TTTTATTTCCAAAACATCAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTCGAA-GGGA
* * *
2566382 TACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCACCTCCAA
65 TACTCCAACCCCGGTTTTATTTCTAAAATATCAATTTTTCACAATCGGGGATACTCCACC-CCAA
* * * *
2566447 TTTTATTTTCAAAACATCAATTTTGCACAATCGGGGACACTCCAACCCCATTATTTCTGAAGGGA
1 TTTTATTTCCAAAACATCAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTC-GAAGGGA
* * ** *
2566512 TACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCC
65 TACTCCAACCCCGGTTTTATTTCTAAAATATCAATTTTTCACAATCGGGGATACTCC-ACCCC
2566575 GACCTTATTT
Statistics
Matches: 219, Mismatches: 34, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
127 1 0.00
128 49 0.22
129 56 0.26
130 108 0.49
131 5 0.02
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (128 bp):
TTTTATTTCCAAAACATCAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTCGAAGGGAT
ACTCCAACCCCGGTTTTATTTCTAAAATATCAATTTTTCACAATCGGGGATACTCCACCCCAA
Found at i:2566569 original size:51 final size:51
Alignment explanation
Indices: 2566508--2566611 Score: 145
Period size: 51 Copynumber: 2.0 Consensus size: 51
2566498 TATTTCTGAA
* * *
2566508 GGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCACAATCG
1 GGGATACTCCAACCCCGACCTTATTTCCAAAACATTGATTTCTCACAATCG
** * *
2566559 GGGATACTCCAACCCCGACCTTATTTTTAAAGCATTGATTTTTCACAATCG
1 GGGATACTCCAACCCCGACCTTATTTCCAAAACATTGATTTCTCACAATCG
2566610 GG
1 GG
2566612 AGAAGTATCT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (51 bp):
GGGATACTCCAACCCCGACCTTATTTCCAAAACATTGATTTCTCACAATCG
Found at i:2568949 original size:13 final size:13
Alignment explanation
Indices: 2568931--2568987 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
2568921 TTCAACAATT
2568931 TGTATCGATACAA
1 TGTATCGATACAA
*
2568944 TGTATCGATGCATAA
1 TGTATCGAT--ACAA
2568959 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
2568976 TGTATCGATACA
1 TGTATCGATACA
2568988 TAAGTTTTGC
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 21 0.58
15 3 0.08
17 3 0.08
19 9 0.25
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2568971 original size:32 final size:32
Alignment explanation
Indices: 2568930--2569013 Score: 134
Period size: 32 Copynumber: 2.7 Consensus size: 32
2568920 TTTCAACAAT
*
2568930 TTGTATCGATACAATGTATCGATGCATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
2568962 TTGTATCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
2568994 TTGCATCGATAC-ATGTATCG
1 TTGTATCGATACAATGTATCG
2569014 CTACGAAGCT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
31 8 0.16
32 41 0.84
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:2569060 original size:20 final size:20
Alignment explanation
Indices: 2569035--2569086 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
2569025 CTGCCAAGGA
2569035 AATGTATCGATACATTACTC
1 AATGTATCGATACATTACTC
2569055 AATGTATCGATACATTACTC
1 AATGTATCGATACATTACTC
2569075 AATGTATCGATA
1 AATGTATCGATA
2569087 TATGCAGGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTACTC
Found at i:2578883 original size:90 final size:90
Alignment explanation
Indices: 2578730--2578914 Score: 343
Period size: 90 Copynumber: 2.1 Consensus size: 90
2578720 ACAATTGATA
2578730 ATTTATGCTATTTAACATAATCATTCTACTAGTGTTAATCTTTATAATTATTCAAGACTAGCTTT
1 ATTTATGCTATTTAACATAATCATTCTACTAGTGTTAATCTTTATAATTATTCAAGACTAGCTTT
2578795 AATATCAATGTGTGAAGGAAATCCT
66 AATATCAATGTGTGAAGGAAATCCT
*
2578820 ATTTATGCTATTTAACATAATCATTCTACTAGTGTTAATCTTTATAATTATTCAAGATTAGCTTT
1 ATTTATGCTATTTAACATAATCATTCTACTAGTGTTAATCTTTATAATTATTCAAGACTAGCTTT
* *
2578885 AATATCAATGTGTGAAGGGAATCGT
66 AATATCAATGTGTGAAGGAAATCCT
2578910 ATTTA
1 ATTTA
2578915 AGTAAAATTT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 92 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (90 bp):
ATTTATGCTATTTAACATAATCATTCTACTAGTGTTAATCTTTATAATTATTCAAGACTAGCTTT
AATATCAATGTGTGAAGGAAATCCT
Found at i:2579848 original size:11 final size:11
Alignment explanation
Indices: 2579824--2579857 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
2579814 CTGATTTATC
2579824 TTATAAATATAA
1 TTATAAA-ATAA
*
2579836 TTATCAAATAA
1 TTATAAAATAA
2579847 TTATAAAATAA
1 TTATAAAATAA
2579858 GATATATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (11 bp):
TTATAAAATAA
Found at i:2582489 original size:15 final size:15
Alignment explanation
Indices: 2582469--2582498 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2582459 AGTTAGGTAA
2582469 CTTGGGCAATTCTGG
1 CTTGGGCAATTCTGG
*
2582484 CTTGGGCAGTTCTGG
1 CTTGGGCAATTCTGG
2582499 AACTCTAGGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.20, G:0.37, T:0.33
Consensus pattern (15 bp):
CTTGGGCAATTCTGG
Found at i:2582619 original size:33 final size:33
Alignment explanation
Indices: 2582546--2582660 Score: 90
Period size: 33 Copynumber: 3.5 Consensus size: 33
2582536 TTAGGTTTTC
* *
2582546 CAAGTTTTGGTGAGTCAGGTAACTTTGGTAATT
1 CAAGTTTTGGTAACTCAGGTAACTTTGGTAATT
* **
2582579 CAGGTTTTGGTAACTCAGG-AACTTTGGGTTCTT
1 CAAGTTTTGGTAACTCAGGTAACTTT-GGTAATT
* * * *
2582612 TAAGTTTTGG-CACGTCAGGTAACTTAGGCAATT
1 CAAGTTTTGGTAAC-TCAGGTAACTTTGGTAATT
** *
2582645 CGGGTTTAGGTAACTC
1 CAAGTTTTGGTAACTC
2582661 GGGAGCTTTT
Statistics
Matches: 61, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
32 8 0.13
33 46 0.75
34 7 0.11
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.37
Consensus pattern (33 bp):
CAAGTTTTGGTAACTCAGGTAACTTTGGTAATT
Found at i:2582651 original size:66 final size:66
Alignment explanation
Indices: 2582499--2582669 Score: 177
Period size: 66 Copynumber: 2.6 Consensus size: 66
2582489 GCAGTTCTGG
* * * *
2582499 AACTCTAGGCAATTCAGGCTCTGGCAACTCTA-GAACTTTAGGTTTTCCAAGTTTTGGTGAGTCA
1 AACT-TAGGCAATTCAGGTTTTGGTAACTC-AGGAACTTTAGGTTTTCCAAGTTTTGGTCAGTCA
2582563 GGT
64 GGT
* * * *
2582566 AACTTTGGTAATTCAGGTTTTGGTAACTCAGGAACTTTGGGTTCTT-TAAGTTTTGG-CACGTCA
1 AACTTAGGCAATTCAGGTTTTGGTAACTCAGGAACTTTAGGTT-TTCCAAGTTTTGGTCA-GTCA
2582629 GGT
64 GGT
* * * *
2582632 AACTTAGGCAATTCGGGTTTAGGTAACTCGGGAGCTTT
1 AACTTAGGCAATTCAGGTTTTGGTAACTCAGGAACTTT
2582670 TGGCAATTCA
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
65 2 0.02
66 79 0.91
67 6 0.07
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (66 bp):
AACTTAGGCAATTCAGGTTTTGGTAACTCAGGAACTTTAGGTTTTCCAAGTTTTGGTCAGTCAGG
T
Found at i:2582693 original size:33 final size:33
Alignment explanation
Indices: 2582638--2582924 Score: 125
Period size: 33 Copynumber: 8.7 Consensus size: 33
2582628 AGGTAACTTA
* * *
2582638 GGCAATTC-GGGTTTAGGTAACTCGGGAGCTTTT
1 GGCAATTCAGGCTTT-GGCAACTCGGGAACTTTT
* *
2582671 GGCAATTCAGGCTTTGGCAACTCGGGAGCTTTA
1 GGCAATTCAGGCTTTGGCAACTCGGGAACTTTT
* * * * * *
2582704 GGCAGTTCTGACTTAGTCAACTCTGGAACTTTAT
1 GGCAATTCAGGCTTTGGCAACTCGGGAACTTT-T
* * *
2582738 GG-AATTCAGGCTTTGACAACTCTGGAACTTTG
1 GGCAATTCAGGCTTTGGCAACTCGGGAACTTTT
*** * * *
2582770 GGGTCTTCAGGTTTTGGCAAGTTGGGTAAC-TTT
1 GGCAATTCAGGCTTTGGCAACTCGGG-AACTTTT
* * * ** * * *
2582803 GGTAAGTCAAGCTTTGATAATTCAGGAACTTTG
1 GGCAATTCAGGCTTTGGCAACTCGGGAACTTTT
*** * ** * * * *
2582836 GGTTCTTCAGGTTTTGGCAGGTCAGGCACCTTA
1 GGCAATTCAGGCTTTGGCAACTCGGGAACTTTT
* * *
2582869 GACAATTCAGG-TTTAGGAAACTCAGGAACTTTT
1 GGCAATTCAGGCTTT-GGCAACTCGGGAACTTTT
2582902 GGCAATTCAGGCTTCT-GCAACTC
1 GGCAATTCAGGCTT-TGGCAACTC
2582925 AGGTGCTTCA
Statistics
Matches: 185, Mismatches: 61, Indels: 16
0.71 0.23 0.06
Matches are distributed among these distances:
32 8 0.04
33 164 0.89
34 12 0.06
35 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (33 bp):
GGCAATTCAGGCTTTGGCAACTCGGGAACTTTT
Found at i:2582705 original size:66 final size:66
Alignment explanation
Indices: 2582635--2582768 Score: 155
Period size: 66 Copynumber: 2.0 Consensus size: 66
2582625 GTCAGGTAAC
** * *
2582635 TTAGGCAATTCGGGTTTAGGT-AACTCGGGAGCTTT-TGGCAATTCAGGCTTTGGCAACTCGGGA
1 TTAGGCAATTCGGACTTA-GTCAACTCGGGAACTTTATGG-AATTCAGGCTTTGACAACTCGGGA
*
2582698 GCT
64 ACT
* * * *
2582701 TTAGGCAGTTCTGACTTAGTCAACTCTGGAACTTTATGGAATTCAGGCTTTGACAACTCTGGAAC
1 TTAGGCAATTCGGACTTAGTCAACTCGGGAACTTTATGGAATTCAGGCTTTGACAACTCGGGAAC
2582766 T
66 T
2582767 TT
1 TT
2582769 GGGGTCTTCA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
65 2 0.04
66 52 0.91
67 3 0.05
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (66 bp):
TTAGGCAATTCGGACTTAGTCAACTCGGGAACTTTATGGAATTCAGGCTTTGACAACTCGGGAAC
T
Found at i:2582884 original size:231 final size:230
Alignment explanation
Indices: 2582494--2583035 Score: 647
Period size: 231 Copynumber: 2.3 Consensus size: 230
2582484 CTTGGGCAGT
* * * * * * *
2582494 TCTGGAACTCTAGGCAATTCAGGCTCTGGCAACTCTAGAACTTT-AGGTTTTCCAAGTTTTGGTG
1 TCTGGAACTTTAGG-AATTCAGGCTTTGGCAACTCTGGAACTTTGGGGTCTT-CAGGTTTTGGTA
* * * * * *
2582558 AGTCAGGTAACTTTGGTAATTCAGGTTTTGGTAACTCAGGAACTTTGGGTTCTTTAAGTTTTGGC
64 AGTCGGGTAACTTTGGTAAGTCAAGCTTTGATAACTCAGGAACTTTGGGTTCTTCAAGTTTTGGC
* * * * * *
2582623 ACGTCAGGTAACTTAGGCAATTCGGGTTTAGGTAACTCGGGAGCTTTTGGCAATTCAGGCTT-TG
129 ACGTCAGGCAACTTAGACAATTCAGGTTTAGGAAACTCAGGAACTTTTGGCAATTCAGGCTTCT-
* * ***
2582687 GCAACTCGGGAGCTTTAGGCAGTTCTGACTTAGTCAAC
193 GCAACTCAGGAGCTTCAGGCAAACCTGACTTAGTCAAC
* *
2582725 TCTGGAACTTTATGGAATTCAGGCTTTGACAACTCTGGAACTTTGGGGTCTTCAGGTTTTGGCAA
1 TCTGGAACTTTA-GGAATTCAGGCTTTGGCAACTCTGGAACTTTGGGGTCTTCAGGTTTTGGTAA
* * *
2582790 GTTGGGTAACTTTGGTAAGTCAAGCTTTGATAATTCAGGAACTTTGGGTTCTTCAGGTTTTGGCA
65 GTCGGGTAACTTTGGTAAGTCAAGCTTTGATAACTCAGGAACTTTGGGTTCTTCAAGTTTTGGCA
* *
2582855 GGTCAGGCACCTTAGACAATTCAGGTTTAGGAAACTCAGGAACTTTTGGCAATTCAGGCTTCTGC
130 CGTCAGGCAACTTAGACAATTCAGGTTTAGGAAACTCAGGAACTTTTGGCAATTCAGGCTTCTGC
* * * *
2582920 AACTCAGGTGCTTCAGGCAAACCTGTCTTGGTTAAC
195 AACTCAGGAGCTTCAGGCAAACCTGACTTAGTCAAC
* * * * **
2582956 TTTGGAACTTTAGAAAATTCAGGTTTTGGCAACTTTGGAACTTTGGCTTCTTCAGGTTTTGGTAA
1 TCTGGAACTTTAG-GAATTCAGGCTTTGGCAACTCTGGAACTTTGGGGTCTTCAGGTTTTGGTAA
*
2583021 GTCGGGCAACTTTGG
65 GTCGGGTAACTTTGG
2583036 GAACTCTGAA
Statistics
Matches: 262, Mismatches: 45, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
230 1 0.00
231 253 0.97
232 8 0.03
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (230 bp):
TCTGGAACTTTAGGAATTCAGGCTTTGGCAACTCTGGAACTTTGGGGTCTTCAGGTTTTGGTAAG
TCGGGTAACTTTGGTAAGTCAAGCTTTGATAACTCAGGAACTTTGGGTTCTTCAAGTTTTGGCAC
GTCAGGCAACTTAGACAATTCAGGTTTAGGAAACTCAGGAACTTTTGGCAATTCAGGCTTCTGCA
ACTCAGGAGCTTCAGGCAAACCTGACTTAGTCAAC
Found at i:2583170 original size:33 final size:34
Alignment explanation
Indices: 2583123--2583215 Score: 82
Period size: 33 Copynumber: 2.8 Consensus size: 34
2583113 CTTTGGCTTC
* * *
2583123 TTCAGGTTTAGGTAAGTTAGGCAACCTT-TGTGA
1 TTCAAGTTTTGGTAAGTTAGGCAACCTTGGGTGA
* * **
2583156 TTCAAGTTTTGGTAACTCAGG-AACCTTGGGTTT
1 TTCAAGTTTTGGTAAGTTAGGCAACCTTGGGTGA
* * *
2583189 TTCATGTTTTGGCATGTTAGGCAACCT
1 TTCAAGTTTTGGTAAGTTAGGCAACCT
2583216 AGGCAACTCA
Statistics
Matches: 46, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
32 6 0.13
33 35 0.76
34 5 0.11
ACGTcount: A:0.22, C:0.15, G:0.25, T:0.39
Consensus pattern (34 bp):
TTCAAGTTTTGGTAAGTTAGGCAACCTTGGGTGA
Found at i:2583179 original size:66 final size:66
Alignment explanation
Indices: 2583109--2583252 Score: 153
Period size: 66 Copynumber: 2.2 Consensus size: 66
2583099 TGGCAACCCT
* ** ** *
2583109 GGAACTTTGGCTTCTTCAGGTTTAGGTAAGTTAGGCAACCTTTGTGATTCAAGTTTTGGTAACTC
1 GGAACTTTGGCTTCTTCAGGTTTAGGCAAGTTAGGCAACCTAGGCAACTCAAGTTTTGGTAACTC
2583174 A
66 A
* * * * * * *
2583175 GGAACCTTGGGTTTTTCATGTTTTGGCATGTTAGGCAACCTAGGCAACTCAGGTTTTGGTAACTC
1 GGAACTTTGGCTTCTTCAGGTTTAGGCAAGTTAGGCAACCTAGGCAACTCAAGTTTTGGTAACTC
*
2583240 G
66 A
2583241 GGAACTCTTGGC
1 GGAACT-TTGGC
2583253 GATTTAGGCT
Statistics
Matches: 61, Mismatches: 16, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
66 57 0.93
67 4 0.07
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.35
Consensus pattern (66 bp):
GGAACTTTGGCTTCTTCAGGTTTAGGCAAGTTAGGCAACCTAGGCAACTCAAGTTTTGGTAACTC
A
Found at i:2583288 original size:18 final size:18
Alignment explanation
Indices: 2583260--2583323 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 18
2583250 GGCGATTTAG
2583260 GCTTT-GGCAACTCAAGA
1 GCTTTAGGCAACTCAAGA
* **
2583277 TCTTTAGGCAACTCTGGA
1 GCTTTAGGCAACTCAAGA
*
2583295 GCTTTAGGCAATTC-AG-
1 GCTTTAGGCAACTCAAGA
2583311 GCTTT-GGCAACTC
1 GCTTTAGGCAACTC
2583324 TGGAACATTG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
15 7 0.18
16 5 0.13
17 5 0.13
18 22 0.56
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (18 bp):
GCTTTAGGCAACTCAAGA
Found at i:2583413 original size:33 final size:33
Alignment explanation
Indices: 2583376--2583458 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
2583366 GGGCAACTCT
* *
2583376 GGCTTTGGCAAGTT-ATGAACATTGGGAAATTTA
1 GGCTTTGGCAA-TTCAGGAACATTGGGAAATTCA
* * *
2583409 GGCTTTAGCAATTCAGGAACTTTGGGCAATTCA
1 GGCTTTGGCAATTCAGGAACATTGGGAAATTCA
* *
2583442 GGTTTTGGCAACTCAGG
1 GGCTTTGGCAATTCAGG
2583459 CATTTTGGGT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
32 2 0.05
33 39 0.95
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (33 bp):
GGCTTTGGCAATTCAGGAACATTGGGAAATTCA
Found at i:2583466 original size:33 final size:33
Alignment explanation
Indices: 2583392--2583479 Score: 86
Period size: 33 Copynumber: 2.7 Consensus size: 33
2583382 GGCAAGTTAT
* * *
2583392 GAACATTGGGAAATTTAGGCTTTAGCAATTCAG
1 GAACTTTGGGAAATTCAGGCTTTAGCAACTCAG
* * *
2583425 GAACTTTGGGCAATTCAGGTTTTGGCAACTCAG
1 GAACTTTGGGAAATTCAGGCTTTAGCAACTCAG
* * * *
2583458 GCATTTTGGGTAATTCTGGCTT
1 GAACTTTGGGAAATTCAGGCTT
2583480 CAGAATTTCT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (33 bp):
GAACTTTGGGAAATTCAGGCTTTAGCAACTCAG
Found at i:2584270 original size:50 final size:50
Alignment explanation
Indices: 2584189--2584376 Score: 304
Period size: 50 Copynumber: 3.8 Consensus size: 50
2584179 GGTGGAAAGT
* * *
2584189 ACCTTTGACAATAGAGAGAGGTGGTCGTAATTGTTGAAGATTCTTCACCA
1 ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTCTTCACCA
* *
2584239 ACCTTTGACAATAGAGAGAGGTGGCTATAATTGTTGACGATCCTTCACCA
1 ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTCTTCACCA
*
2584289 ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTTACGATTCTTCACCA
1 ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTCTTCACCA
* *
2584339 ACCTTTGACAATAGAGAAATGTGGCCATAATTGTTGAC
1 ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGAC
2584377 TCTAAGTATA
Statistics
Matches: 127, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 127 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (50 bp):
ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTCTTCACCA
Found at i:2588787 original size:50 final size:50
Alignment explanation
Indices: 2588730--2588916 Score: 270
Period size: 50 Copynumber: 3.7 Consensus size: 50
2588720 GGTGGAAAGT
* *
2588730 ACCTTTGACAATAGAGAGAGGTGGCCGTAATTATTGATGATTCTTCACCA
1 ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGATGATTCTTCACCA
*
2588780 ACCTTTGACAATAGAGAG-GGTTGGCCATAATTGTTGACGA-TCATTCACCA
1 ACCTTTGACAATAGAGAGAGG-TGGCCATAATTGTTGATGATTC-TTCACCA
*
2588830 ACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGATGATTCTTCACCA
1 ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGATGATTCTTCACCA
* * * *
2588880 ACATTTGATAATAGAGAAAGGTGGTCATAATTGTTGA
1 ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGA
2588917 CTCTAAGTAT
Statistics
Matches: 123, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
49 4 0.03
50 115 0.93
51 4 0.03
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (50 bp):
ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGATGATTCTTCACCA
Found at i:2600857 original size:13 final size:13
Alignment explanation
Indices: 2600839--2600864 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2600829 CAATTTTTTG
2600839 TGTATCGATACAT
1 TGTATCGATACAT
2600852 TGTATCGATACAT
1 TGTATCGATACAT
2600865 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:2601602 original size:21 final size:21
Alignment explanation
Indices: 2601561--2601604 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2601551 CTCCCCTTTA
* *
2601561 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
2601582 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
2601603 TC
1 TC
2601605 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:2602788 original size:13 final size:13
Alignment explanation
Indices: 2602770--2602795 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2602760 TACAGCAAGT
2602770 ATGTATCGATACA
1 ATGTATCGATACA
2602783 ATGTATCGATACA
1 ATGTATCGATACA
2602796 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:2605046 original size:21 final size:21
Alignment explanation
Indices: 2605013--2605057 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2605003 TTGCAAGTTG
*
2605013 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2605035 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2605055 AAA
1 AAA
2605058 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:2606881 original size:15 final size:15
Alignment explanation
Indices: 2606861--2606891 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2606851 TAAAAATGTC
*
2606861 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2606876 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2606891 C
1 C
2606892 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:2608988 original size:13 final size:13
Alignment explanation
Indices: 2608970--2608995 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2608960 ACATTTTTCT
2608970 TTGTATCGATACA
1 TTGTATCGATACA
2608983 TTGTATCGATACA
1 TTGTATCGATACA
2608996 GGGTGATTAT
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):
TTGTATCGATACA
Found at i:2611568 original size:13 final size:13
Alignment explanation
Indices: 2611550--2611575 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2611540 TACAGCAAGT
2611550 ATGTATCGATACA
1 ATGTATCGATACA
2611563 ATGTATCGATACA
1 ATGTATCGATACA
2611576 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:2613369 original size:13 final size:13
Alignment explanation
Indices: 2613351--2613389 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2613341 ATAATCACCC
2613351 TGTATCGATACAA
1 TGTATCGATACAA
2613364 TGTATCGATACAA
1 TGTATCGATACAA
*
2613377 TGTATCAATACAA
1 TGTATCGATACAA
2613390 AGAAAAATGT
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:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2615480 original size:15 final size:15
Alignment explanation
Indices: 2615460--2615490 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2615450 ATTTCGTTTG
*
2615460 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2615475 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2615490 G
1 G
2615491 GGCATTTTTA
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:2617323 original size:21 final size:21
Alignment explanation
Indices: 2617294--2617338 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2617284 AAGTTTTCAT
*
2617294 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2617314 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2617336 TTT
1 TTT
2617339 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2619575 original size:13 final size:13
Alignment explanation
Indices: 2619557--2619582 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2619547 CAATTTTTTG
2619557 TGTATCGATACAT
1 TGTATCGATACAT
2619570 TGTATCGATACAT
1 TGTATCGATACAT
2619583 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:2620815 original size:20 final size:20
Alignment explanation
Indices: 2620790--2620843 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
2620780 GTTACAAGCA
*
2620790 ATGTATCAATACAAT-TCATC
1 ATGTATCAATACAATGT-ACC
2620810 ATGTATCAATACAATGTACC
1 ATGTATCAATACAATGTACC
*
2620830 ATGTATCGATACAA
1 ATGTATCAATACAA
2620844 ACAATGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (20 bp):
ATGTATCAATACAATGTACC
Found at i:2620919 original size:19 final size:19
Alignment explanation
Indices: 2620875--2620928 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
2620865 CTAGTTTCAT
*
2620875 GTATCGATACAATTGTCCAT
1 GTATCGATACAA-TGTCCAC
2620895 GTATCGATACAATGAT-CAC
1 GTATCGATACAATG-TCCAC
*
2620914 GTATCGATAGAATGT
1 GTATCGATACAATGT
2620929 ATCGATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 1 0.03
19 17 0.55
20 13 0.42
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (19 bp):
GTATCGATACAATGTCCAC
Found at i:2621294 original size:14 final size:15
Alignment explanation
Indices: 2621268--2621296 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2621258 AATTTTAATT
2621268 TTTTTATATATATTA
1 TTTTTATATATATTA
2621283 TTTTTATA-ATATTA
1 TTTTTATATATATTA
2621297 ACCTATCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTTATATATATTA
Found at i:2622931 original size:22 final size:21
Alignment explanation
Indices: 2622904--2622963 Score: 54
Period size: 22 Copynumber: 2.9 Consensus size: 21
2622894 TCACAAATAC
2622904 AAATATAAAAATCAAATAAAA
1 AAATATAAAAATCAAATAAAA
* *
2622925 TAAATATCAACAT-AAA-AAAA
1 -AAATATAAAAATCAAATAAAA
*
2622945 AAAT-TAAAACTGCAAATAA
1 AAATATAAAAAT-CAAATAA
2622964 CGATTATCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
18 4 0.13
19 4 0.13
20 7 0.23
21 5 0.17
22 10 0.33
ACGTcount: A:0.70, C:0.08, G:0.02, T:0.20
Consensus pattern (21 bp):
AAATATAAAAATCAAATAAAA
Found at i:2622933 original size:16 final size:17
Alignment explanation
Indices: 2622908--2622948 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
2622898 AAATACAAAT
2622908 ATAAAAATCAA-ATAAA
1 ATAAAAATCAACATAAA
*
2622924 ATAAATATCAACATAAA
1 ATAAAAATCAACATAAA
*
2622941 AAAAAAAT
1 ATAAAAAT
2622949 TAAAACTGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (17 bp):
ATAAAAATCAACATAAA
Found at i:2623881 original size:33 final size:33
Alignment explanation
Indices: 2623775--2623867 Score: 98
Period size: 33 Copynumber: 2.8 Consensus size: 33
2623765 TGGCGATTTG
* * * * *
2623775 GGCTTTGGCAAGTCAGGCAA-TTTGGGCAATTCT
1 GGCTTTGGCAACTC-GGGAACTTTAGGTAATTCA
* * *
2623808 GGCTTAGGCAGCTCTGGAACTTTAGGTAATTCA
1 GGCTTTGGCAACTCGGGAACTTTAGGTAATTCA
2623841 GGCTTTGGCAACTCGGGAACTTTAGGT
1 GGCTTTGGCAACTCGGGAACTTTAGGT
2623868 TCTTCGGGTT
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
32 3 0.06
33 45 0.94
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (33 bp):
GGCTTTGGCAACTCGGGAACTTTAGGTAATTCA
Found at i:2623944 original size:75 final size:75
Alignment explanation
Indices: 2623865--2624076 Score: 345
Period size: 75 Copynumber: 2.8 Consensus size: 75
2623855 GGGAACTTTA
* * * * * * *
2623865 GGTTCTTCGGGTTTTGGTAAGTTAGGCAACTTTGG-AAGTTCAGGTTTTGGTAACTCAGGAACCT
1 GGTTCTTCAGGTTTTGGCATGTCAGGCAACTTAGGCAA-TTCCGGTTTTGGTAACTCGGGAACCT
2623929 TGGGTTCCTTG
65 TGGGTTCCTTG
2623940 GGTTCTTCAGGTTTTGGCATGTCAGGCAACTTAGGCAATTCCGGTTTTGGTAACTCGGGAACCTT
1 GGTTCTTCAGGTTTTGGCATGTCAGGCAACTTAGGCAATTCCGGTTTTGGTAACTCGGGAACCTT
2624005 GGGTTCCTTG
66 GGGTTCCTTG
2624015 GGTTCTTCAGGTTTTGGCATGTCAGGCAACTTAGGCAATTCCGGTTTTGGTAACTCGGGAAC
1 GGTTCTTCAGGTTTTGGCATGTCAGGCAACTTAGGCAATTCCGGTTTTGGTAACTCGGGAAC
2624077 TTTTGGAGAT
Statistics
Matches: 129, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
75 127 0.98
76 2 0.02
ACGTcount: A:0.17, C:0.18, G:0.30, T:0.35
Consensus pattern (75 bp):
GGTTCTTCAGGTTTTGGCATGTCAGGCAACTTAGGCAATTCCGGTTTTGGTAACTCGGGAACCTT
GGGTTCCTTG
Found at i:2623950 original size:42 final size:42
Alignment explanation
Indices: 2623903--2624031 Score: 116
Period size: 42 Copynumber: 3.3 Consensus size: 42
2623893 ACTTTGGAAG
2623903 TTCAGGTTTTGGTAACTCAGGAACCTTGGGTTCCTTGGGTTC
1 TTCAGGTTTTGGTAACTCAGGAACCTTGGGTTCCTTGGGTTC
* ** * **
2623945 TTCAGGTTTTGGCATGTCAGGCAA-CTTAGG---C---AATTC
1 TTCAGGTTTTGGTAACTCAGG-AACCTTGGGTTCCTTGGGTTC
*
2623981 --C-GGTTTTGGTAACTCGGGAACCTTGGGTTCCTTGGGTTC
1 TTCAGGTTTTGGTAACTCAGGAACCTTGGGTTCCTTGGGTTC
2624020 TTCAGGTTTTGG
1 TTCAGGTTTTGG
2624032 CATGTCAGGC
Statistics
Matches: 63, Mismatches: 13, Indels: 22
0.64 0.13 0.22
Matches are distributed among these distances:
32 2 0.03
33 18 0.29
34 1 0.02
36 4 0.06
39 4 0.06
41 1 0.02
42 31 0.49
43 2 0.03
ACGTcount: A:0.15, C:0.19, G:0.29, T:0.37
Consensus pattern (42 bp):
TTCAGGTTTTGGTAACTCAGGAACCTTGGGTTCCTTGGGTTC
Found at i:2624121 original size:51 final size:51
Alignment explanation
Indices: 2624066--2624165 Score: 119
Period size: 51 Copynumber: 2.0 Consensus size: 51
2624056 CGGTTTTGGT
* * * * * *
2624066 AACTCGGGAACTTTTGGAGATTCAAGCTTTGGCAACTCAGGAGCTTTGGGC
1 AACTCGGGAACATTAGGAAATTCAAGCTTCGACAACTCAGGAACTTTGGGC
* * *
2624117 AACTCTGGAACATTAGGAAATTCAGGCTTCGACAACTCTGGAACTTTGG
1 AACTCGGGAACATTAGGAAATTCAAGCTTCGACAACTCAGGAACTTTGG
2624166 CTTCTTCAGA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (51 bp):
AACTCGGGAACATTAGGAAATTCAAGCTTCGACAACTCAGGAACTTTGGGC
Found at i:2624463 original size:33 final size:33
Alignment explanation
Indices: 2624194--2624478 Score: 114
Period size: 33 Copynumber: 8.6 Consensus size: 33
2624184 AGTTAGGCAA
*
2624194 CTTTGGTAACTCGGGAACTTTTGGCAATTCAGT
1 CTTTGGTAACTCGGGAACTTTTGGCAATTCAGG
* * * * *
2624227 CCTTGGTAATTCGGGAGC-TTTGGACAACTCTGG
1 CTTTGGTAACTCGGGAACTTTTGG-CAATTCAGG
* * * **
2624260 C-TTGGTCAACTCTGAAACTTTAGGCAATTTTGG
1 CTTTGGT-AACTCGGGAACTTTTGGCAATTCAGG
* * ** *
2624293 CTTTGGCAACTCTGGAAC-TTTGGCTTCTTCGGG
1 CTTTGGTAACTCGGGAACTTTTGGC-AATTCAGG
* ** * *
2624326 TTTTGGTAGGTCGGGCAAC-TTTGGTAGTTCAGG
1 CTTTGGTAACTCGGG-AACTTTTGGCAATTCAGG
* * * * *** * *
2624359 TTTTGGTAACTCAGGAACCTTGGGTTCTGCAAG
1 CTTTGGTAACTCGGGAACTTTTGGCAATTCAGG
* ** * * *
2624392 -TTTCGGCATGTCAGGCAA-TTTAGGCAATTCATG
1 CTTT-GGTAACTC-GGGAACTTTTGGCAATTCAGG
* *
2624425 TTTTGGTAATTCGGGAACTTTTGGCAATTCAGG
1 CTTTGGTAACTCGGGAACTTTTGGCAATTCAGG
* *
2624458 CTTTGGCAACTCAGGAACTTT
1 CTTTGGTAACTCGGGAACTTT
2624479 GGGTAACTCT
Statistics
Matches: 182, Mismatches: 59, Indels: 22
0.69 0.22 0.08
Matches are distributed among these distances:
32 25 0.14
33 135 0.74
34 22 0.12
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (33 bp):
CTTTGGTAACTCGGGAACTTTTGGCAATTCAGG
Found at i:2624464 original size:15 final size:15
Alignment explanation
Indices: 2624444--2624585 Score: 86
Period size: 15 Copynumber: 8.7 Consensus size: 15
2624434 TTCGGGAACT
*
2624444 TTTGGCAATTCAGGC
1 TTTGGCAACTCAGGC
2624459 TTTGGCAACTCAGGAAC
1 TTTGGCAACTCAGG--C
* *
2624476 TTTGGGTAACTCTGGTAC
1 TTT-GGCAACTCAGG--C
* *
2624494 TGTAGGCAAGTCAGGC
1 T-TTGGCAACTCAGGC
*
2624510 TTTGGCAAGTCAGGC
1 TTTGGCAACTCAGGC
2624525 TTTGGCAACTCAGGAGC
1 TTTGGCAACTCA-G-GC
*
2624542 TTTGGGCAACTCCGGTAC
1 TTT-GGCAACTCAGG--C
* *
2624560 TTCAGGCAATTCAGGC
1 TT-TGGCAACTCAGGC
*
2624576 TTCGGCAACT
1 TTTGGCAACT
2624586 GTGGAACTTT
Statistics
Matches: 101, Mismatches: 16, Indels: 20
0.74 0.12 0.15
Matches are distributed among these distances:
15 43 0.43
16 7 0.07
17 10 0.10
18 40 0.40
19 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (15 bp):
TTTGGCAACTCAGGC
Found at i:2624527 original size:66 final size:66
Alignment explanation
Indices: 2624444--2624583 Score: 210
Period size: 66 Copynumber: 2.1 Consensus size: 66
2624434 TTCGGGAACT
* * *
2624444 TTTGGCAATTCAGGCTTTGGCAACTCAGGAACTTTGGGTAACTCTGGTACTGT-AGGCAAGTCAG
1 TTTGGCAAGTCAGGCTTTGGCAACTCAGGAACTTTGGGCAACTCCGGTACT-TCAGGCAAGTCAG
2624508 GC
65 GC
* *
2624510 TTTGGCAAGTCAGGCTTTGGCAACTCAGGAGCTTTGGGCAACTCCGGTACTTCAGGCAATTCAGG
1 TTTGGCAAGTCAGGCTTTGGCAACTCAGGAACTTTGGGCAACTCCGGTACTTCAGGCAAGTCAGG
2624575 C
66 C
*
2624576 TTCGGCAA
1 TTTGGCAA
2624584 CTGTGGAACT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
65 1 0.01
66 66 0.99
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (66 bp):
TTTGGCAAGTCAGGCTTTGGCAACTCAGGAACTTTGGGCAACTCCGGTACTTCAGGCAAGTCAGG
C
Found at i:2624690 original size:33 final size:33
Alignment explanation
Indices: 2624653--2624721 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
2624643 TTGGCAAGTT
2624653 AGGAACGTTAG-GAAATTCAGGCTTT-GCCAACTC
1 AGGAAC-TTAGTGAAATTCAGGCTTTAG-CAACTC
* * *
2624686 AGGAACTTTGTGCAATTCAGGTTTTAGCAACTC
1 AGGAACTTAGTGAAATTCAGGCTTTAGCAACTC
2624719 AGG
1 AGG
2624722 CATTTTTGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
32 3 0.10
33 27 0.87
34 1 0.03
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (33 bp):
AGGAACTTAGTGAAATTCAGGCTTTAGCAACTC
Found at i:2625677 original size:31 final size:35
Alignment explanation
Indices: 2625641--2625710 Score: 94
Period size: 32 Copynumber: 2.1 Consensus size: 35
2625631 GTTATATTTT
*
2625641 TATAAA-TTTGACACATTAATA-ATTAA-TAT-TA
1 TATAAATTTTAACACATTAATATATTAATTATATA
*
2625672 TATAAATTTTAACATATTAATATATTAATTATATA
1 TATAAATTTTAACACATTAATATATTAATTATATA
2625707 TATA
1 TATA
2625711 TATTATTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 6 0.18
32 13 0.39
33 5 0.15
34 3 0.09
35 6 0.18
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (35 bp):
TATAAATTTTAACACATTAATATATTAATTATATA
Found at i:2625711 original size:17 final size:19
Alignment explanation
Indices: 2625691--2625734 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
2625681 TAACATATTA
2625691 ATATATTA-ATTATAT-AT
1 ATATATTATATTATATGAT
*
2625708 ATATATTATTTTATATGAT
1 ATATATTATATTATATGAT
2625727 ATTATATT
1 A-TATATT
2625735 TTAATTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 8 0.35
18 6 0.26
19 3 0.13
20 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
ATATATTATATTATATGAT
Found at i:2625739 original size:39 final size:34
Alignment explanation
Indices: 2625685--2625779 Score: 91
Period size: 34 Copynumber: 2.6 Consensus size: 34
2625675 AAATTTTAAC
*
2625685 ATATTAATATATTAATTATATATATATATTATTTTATATG
1 ATATT-ATATTTTAATTAT-TAT-TATA-TA-TTTA-ATG
*
2625725 ATATTATATTTTAATTATTATTTTATATTTAATG
1 ATATTATATTTTAATTATTATTATATATTTAATG
* *
2625759 ATATAATATTTAAAATTATTA
1 ATATTATATTT-TAATTATTA
2625780 AATTTATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
34 13 0.26
35 12 0.24
36 2 0.04
37 3 0.06
38 3 0.06
39 12 0.24
40 5 0.10
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (34 bp):
ATATTATATTTTAATTATTATTATATATTTAATG
Found at i:2625788 original size:34 final size:35
Alignment explanation
Indices: 2625712--2625788 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 35
2625702 ATATATATAT
* * *
2625712 ATTAT-TTTATATGATATTATATTTTAATTATTAT
1 ATTATATTTATATGATATAATATTTAAATTATTAA
*
2625746 TTTATATTTA-ATGATATAATATTTAAAATTATTAA
1 ATTATATTTATATGATATAATATTT-AAATTATTAA
2625781 ATT-TATTT
1 ATTATATTT
2625789 TTACGTGACA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
34 22 0.61
35 14 0.39
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (35 bp):
ATTATATTTATATGATATAATATTTAAATTATTAA
Found at i:2626061 original size:14 final size:14
Alignment explanation
Indices: 2626027--2626070 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
2626017 TTACTTCATA
2626027 TATTCATAATCTTTT
1 TATT-ATAATCTTTT
2626042 TA-TATAATCTTTT
1 TATTATAATCTTTT
*
2626055 TATTATAATCATTT
1 TATTATAATCTTTT
2626069 TA
1 TA
2626071 ATGTATTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 12 0.44
14 13 0.48
15 2 0.07
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTATAATCTTTT
Found at i:2626157 original size:19 final size:19
Alignment explanation
Indices: 2626135--2626193 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
2626125 TAAATTTTAA
2626135 ATATTTATATATTTATATT
1 ATATTTATATATTTATATT
*
2626154 ATATTTATATTATTTTTA-T
1 ATATTTATA-TATTTATATT
2626173 ATAATCTTATAT-TTTA-ATT
1 AT-AT-TTATATATTTATATT
2626192 AT
1 AT
2626194 TTTTTTAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
18 1 0.03
19 18 0.53
20 10 0.29
21 5 0.15
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
ATATTTATATATTTATATT
Found at i:2626158 original size:11 final size:11
Alignment explanation
Indices: 2626142--2626174 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
2626132 TAAATATTTA
2626142 TATATTTATAT
1 TATATTTATAT
2626153 TATATTTATAT
1 TATATTTATAT
*
2626164 TATTTTTATAT
1 TATATTTATAT
2626175 AATCTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TATATTTATAT
Found at i:2626796 original size:30 final size:31
Alignment explanation
Indices: 2626757--2626817 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
2626747 AACATGACAC
*
2626757 GAATATATTAATGTA-AAAAATTTATATAAAT
1 GAATATATTAATATATAAAAA-TTATATAAAT
*
2626788 GAAT-TATTAATATATAAAAATTATGTAAAT
1 GAATATATTAATATATAAAAATTATATAAAT
2626818 TTATAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 18 0.67
31 9 0.33
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (31 bp):
GAATATATTAATATATAAAAATTATATAAAT
Found at i:2626822 original size:21 final size:21
Alignment explanation
Indices: 2626774--2626822 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 21
2626764 TTAATGTAAA
2626774 AAATTTATATAAATGAATTATT
1 AAATTTATATAAA-GAATTATT
2626796 -AA--TATATAAA-AATTATGT
1 AAATTTATATAAAGAATTAT-T
2626814 AAATTTATA
1 AAATTTATA
2626823 ATATTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 9
0.72 0.00 0.28
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 10 0.43
21 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (21 bp):
AAATTTATATAAAGAATTATT
Found at i:2626984 original size:39 final size:39
Alignment explanation
Indices: 2626925--2627042 Score: 200
Period size: 39 Copynumber: 3.0 Consensus size: 39
2626915 GACTTGAGGC
*
2626925 ACAATACAAACACGATACAAGCATATAAATTTTTTTAAA
1 ACAATACAAACACGACACAAGCATATAAATTTTTTTAAA
*
2626964 ACAATACAAACACAACACAAGCATATAAATTTTTTTAAA
1 ACAATACAAACACGACACAAGCATATAAATTTTTTTAAA
* *
2627003 ACAATACAAACATGACACAAGCATATAAATTTTTTAAAA
1 ACAATACAAACACGACACAAGCATATAAATTTTTTTAAA
2627042 A
1 A
2627043 TTGAATGATT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.26
Consensus pattern (39 bp):
ACAATACAAACACGACACAAGCATATAAATTTTTTTAAA
Found at i:2627144 original size:23 final size:22
Alignment explanation
Indices: 2627095--2627137 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
2627085 GATACACCAC
*
2627095 GAATATAATAAAAAAATAATTA
1 GAATATAACAAAAAAATAATTA
*
2627117 AAATATAACATAAAAAATAAT
1 GAATATAACA-AAAAAATAAT
2627138 ATGAATACGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (22 bp):
GAATATAACAAAAAAATAATTA
Found at i:2628830 original size:18 final size:18
Alignment explanation
Indices: 2628809--2628847 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2628799 AAAAGTTATG
*
2628809 AAAAAAAATAAGAAAATC
1 AAAAAAAATAAGAAAAAC
*
2628827 AAAAAAAATAATAAAAAC
1 AAAAAAAATAAGAAAAAC
2628845 AAA
1 AAA
2628848 GTAACTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.82, C:0.05, G:0.03, T:0.10
Consensus pattern (18 bp):
AAAAAAAATAAGAAAAAC
Found at i:2632011 original size:14 final size:13
Alignment explanation
Indices: 2631978--2632011 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
2631968 ACTTAATATA
2631978 ATTAAAATTAATT
1 ATTAAAATTAATT
*
2631991 TTTAAAATTAATT
1 ATTAAAATTAATT
2632004 CATTAAAA
1 -ATTAAAA
2632012 AGATTATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTAAAATTAATT
Found at i:2632624 original size:22 final size:21
Alignment explanation
Indices: 2632599--2632676 Score: 54
Period size: 22 Copynumber: 3.7 Consensus size: 21
2632589 TTATTTTATT
2632599 TTTAAATAATATATTAAATTAA
1 TTTAAATAATATATTAAATT-A
* *
2632621 TTTAAA-ATCTATATTTAATTTA
1 TTTAAATA-ATATA-TTAAATTA
** * *
2632643 TTT-AATTTTTTATTATATT-
1 TTTAAATAATATATTAAATTA
2632662 TTTAAATAATATATT
1 TTTAAATAATATATT
2632677 TAAAAAATTA
Statistics
Matches: 42, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
19 3 0.07
20 13 0.31
21 6 0.14
22 14 0.33
23 6 0.14
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTAAATAATATATTAAATTA
Done.