Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold332
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: 2744988
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 17
Found at i:136095 original size:16 final size:16
Alignment explanation
Indices: 136048--136096 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
136038 CATAGTAATG
136048 AAAAATCAAAAAATTCAA
1 AAAAAT-AAAAAA-TCAA
*
136066 AAAAA-AAATGAATCAA
1 AAAAATAAA-AAATCAA
136082 AAAAATAAAAAATCA
1 AAAAATAAAAAATCA
136097 TCAAATCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 17 0.63
17 5 0.19
18 5 0.19
ACGTcount: A:0.76, C:0.08, G:0.02, T:0.14
Consensus pattern (16 bp):
AAAAATAAAAAATCAA
Found at i:136107 original size:21 final size:21
Alignment explanation
Indices: 136048--136117 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 21
136038 CATAGTAATG
**
136048 AAAAATCAAAAAATTCAAAA-A
1 AAAAATCATCAAA-TCAAAATA
*
136069 AAAAATGAATCAAA--AAAATA
1 AAAAAT-CATCAAATCAAAATA
*
136089 AAAAATCATCAAATCAAAATC
1 AAAAATCATCAAATCAAAATA
*
136110 TAAAATCA
1 AAAAATCA
136118 AAATAAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
19 10 0.26
20 7 0.18
21 18 0.46
22 4 0.10
ACGTcount: A:0.70, C:0.11, G:0.01, T:0.17
Consensus pattern (21 bp):
AAAAATCATCAAATCAAAATA
Found at i:138623 original size:98 final size:98
Alignment explanation
Indices: 138489--138701 Score: 317
Period size: 98 Copynumber: 2.2 Consensus size: 98
138479 AAAATTTTGT
* * *
138489 TCATCGGGGATACACC-AACACCATTCCTCCGAGGGGATACTCCAA-CTTCGCTTTTAAACTTAT
1 TCATCGGGGACACTCCAAACACCATTCCTCCGAGGGGATACTCCAACCCT-GCTTTTAAACTTAT
*
138552 -CAAAATTTAAATCTTATTTTCGGTTAAATTGTCA
65 CCAAAA-TTAAATCTTATTTTCGGTTAAATTATCA
138586 TCATCGGGGACACTCCAAAC-CCTATTCCTCCGAGGGGATACTCCAACCCTGCTTTTAAACTTAT
1 TCATCGGGGACACTCCAAACACC-ATTCCTCCGAGGGGATACTCCAACCCTGCTTTTAAACTTAT
*
138650 CCAAAATTAAATCTTATTTTCTGTTAAATTATCA
65 CCAAAATTAAATCTTATTTTCGGTTAAATTATCA
*
138684 TAATCGGGGACACTCCAA
1 TCATCGGGGACACTCCAA
138702 CCCCGCTTTT
Statistics
Matches: 106, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
97 16 0.15
98 83 0.78
99 7 0.07
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.31
Consensus pattern (98 bp):
TCATCGGGGACACTCCAAACACCATTCCTCCGAGGGGATACTCCAACCCTGCTTTTAAACTTATC
CAAAATTAAATCTTATTTTCGGTTAAATTATCA
Found at i:138732 original size:70 final size:70
Alignment explanation
Indices: 138619--138774 Score: 235
Period size: 70 Copynumber: 2.2 Consensus size: 70
138609 ATTCCTCCGA
* *
138619 GGGGATACTCCAACCCTGCTTTTAAACTTATCCAAAATTAAATCTTATTTTCT-GTTAAATTATC
1 GGGGACACTCCAACCCCGCTTTTAAACTTATCCAAAATTAAATCTTATTTT-TGGTTAAATTATC
138683 ATAATC
65 ATAATC
*
138689 GGGGACACTCCAACCCCGCTTTTAAACTTAT-CAAAATTTAAATCTTATTTTTGGTTAAATTGTC
1 GGGGACACTCCAACCCCGCTTTTAAACTTATCCAAAA-TTAAATCTTATTTTTGGTTAAATTATC
*
138753 ATCATC
65 ATAATC
*
138759 GGGGACACTTCAACCC
1 GGGGACACTCCAACCC
138775 TATTCCTCTG
Statistics
Matches: 79, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
69 6 0.08
70 73 0.92
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (70 bp):
GGGGACACTCCAACCCCGCTTTTAAACTTATCCAAAATTAAATCTTATTTTTGGTTAAATTATCA
TAATC
Found at i:138797 original size:97 final size:97
Alignment explanation
Indices: 138690--138968 Score: 427
Period size: 97 Copynumber: 2.9 Consensus size: 97
138680 ATCATAATCG
*
138690 GGGACACTCCAACCCCGCTTTTAAACTTATCAAAATTTAAATCTTATTTTTGGTTAAATTGTCAT
1 GGGACACTCCAACCCCGTTTTTAAACTTATCAAAATTTAAATCTTATTTTTGGTTAAATTGTCAT
138755 CATCGGGGACACTTCAACCCTATTCCTCTGAA
66 CATCGGGGACACTTCAACCCTATTCCTCTGAA
138787 GGGACACTCCAACCCCGTTTTTAAACTTATCAAAATTTAAATCTTATTTTTGGTTAAATTGTCAT
1 GGGACACTCCAACCCCGTTTTTAAACTTATCAAAATTTAAATCTTATTTTTGGTTAAATTGTCAT
* * *
138852 CATCAGGGACACTTCAACCCCATTCCTCTGAG
66 CATCGGGGACACTTCAACCCTATTCCTCTGAA
* * * *
138884 GGGATACTCCAACCTCGTTTTTAAACTCATCAAAATTTAAATCTTA-TTTT-GTCCAAATTGTCA
1 GGGACACTCCAACCCCGTTTTTAAACTTATCAAAATTTAAATCTTATTTTTGGT-TAAATTGTCA
** * *
138947 TTGTCGGGGATACTCCAACCCT
65 TCATCGGGGACACTTCAACCCT
138969 GTTTTTAAAC
Statistics
Matches: 167, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
95 2 0.01
96 29 0.17
97 136 0.81
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (97 bp):
GGGACACTCCAACCCCGTTTTTAAACTTATCAAAATTTAAATCTTATTTTTGGTTAAATTGTCAT
CATCGGGGACACTTCAACCCTATTCCTCTGAA
Found at i:138872 original size:167 final size:168
Alignment explanation
Indices: 138522--138872 Score: 537
Period size: 167 Copynumber: 2.1 Consensus size: 168
138512 TTCCTCCGAG
* **
138522 GGGATACTCCAACTTCGCTTTTAAACTTATCAAAATTTAAATCTTATTTTCGGTTAAATTGTCAT
1 GGGACACTCCAACCCCGCTTTTAAACTTATCAAAATTTAAATCTTATTTTCGGTTAAATTGTCAT
* * *
138587 CATCGGGGACACTCCAAACCCTATTCCTCCGAGGGGATACTCCAACCCTGCTTTTAAACTTATCC
66 CATCGGGGACACTCCAAACCCTATTCCTCCGAAGGGACACTCCAACCCCGCTTTTAAACTTATCC
*
138652 AAAATTAAATCTTATTTTCTGTTAAATTATCATAATCG
131 AAAATTAAATCTTATTTTCTGTTAAATTATCATAATCA
*
138690 GGGACACTCCAACCCCGCTTTTAAACTTATCAAAATTTAAATCTTATTTTTGGTTAAATTGTCAT
1 GGGACACTCCAACCCCGCTTTTAAACTTATCAAAATTTAAATCTTATTTTCGGTTAAATTGTCAT
* * *
138755 CATCGGGGACACTTC-AACCCTATTCCTCTGAAGGGACACTCCAACCCCGTTTTTAAACTTAT-C
66 CATCGGGGACACTCCAAACCCTATTCCTCCGAAGGGACACTCCAACCCCGCTTTTAAACTTATCC
* *
138818 AAAATTTAAATCTTATTTT-TGGTTAAATTGTCATCATCA
131 AAAA-TTAAATCTTATTTTCT-GTTAAATTATCATAATCA
*
138857 GGGACACTTCAACCCC
1 GGGACACTCCAACCCC
138873 ATTCCTCTGA
Statistics
Matches: 167, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
166 6 0.04
167 86 0.51
168 75 0.45
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.35
Consensus pattern (168 bp):
GGGACACTCCAACCCCGCTTTTAAACTTATCAAAATTTAAATCTTATTTTCGGTTAAATTGTCAT
CATCGGGGACACTCCAAACCCTATTCCTCCGAAGGGACACTCCAACCCCGCTTTTAAACTTATCC
AAAATTAAATCTTATTTTCTGTTAAATTATCATAATCA
Found at i:138965 original size:69 final size:70
Alignment explanation
Indices: 138883--139036 Score: 258
Period size: 69 Copynumber: 2.2 Consensus size: 70
138873 ATTCCTCTGA
*
138883 GGGGATACTCCAACCTC-GTTTTTAAACTCATCAAAATTTAAATCTTATTTTGTCCAAATTGTCA
1 GGGGATACTCCAACCTCTGTTTTTAAACTCATCAAAATTTAAATCTTATTTTGTCCAAATTATCA
138947 TTGTC
66 TTGTC
* *
138952 GGGGATACTCCAACC-CTGTTTTTAAACTCATCGAAATTTAAGTCTTATTTTGTCCAAATTATCA
1 GGGGATACTCCAACCTCTGTTTTTAAACTCATCAAAATTTAAATCTTATTTTGTCCAAATTATCA
139016 TTGTC
66 TTGTC
*
139021 AGGGATACTCCAACCT
1 GGGGATACTCCAACCT
139037 TATTCCTTTA
Statistics
Matches: 79, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
68 1 0.01
69 78 0.99
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (70 bp):
GGGGATACTCCAACCTCTGTTTTTAAACTCATCAAAATTTAAATCTTATTTTGTCCAAATTATCA
TTGTC
Found at i:141715 original size:8 final size:8
Alignment explanation
Indices: 141702--141726 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
141692 TGGTTCATCT
141702 TCACATTC
1 TCACATTC
141710 TCACATTC
1 TCACATTC
141718 TCACATTC
1 TCACATTC
141726 T
1 T
141727 TCCAAGTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.36, G:0.00, T:0.40
Consensus pattern (8 bp):
TCACATTC
Found at i:142205 original size:22 final size:23
Alignment explanation
Indices: 142174--142244 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 23
142164 AAACGATGAC
* ** *
142174 AAAGTCAAAAGAAAAGGAACAAA
1 AAAGTGAAAAGAAAAACAAAAAA
142197 AAA-TGAAAAGAAAAACAAAAAA
1 AAAGTGAAAAGAAAAACAAAAAA
* *
142219 AAAGTGAAAAAGCAAAATAAAAAA
1 AAAGTG-AAAAGAAAAACAAAAAA
142243 AA
1 AA
142245 GAACAACAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
22 18 0.45
23 5 0.12
24 17 0.43
ACGTcount: A:0.76, C:0.06, G:0.13, T:0.06
Consensus pattern (23 bp):
AAAGTGAAAAGAAAAACAAAAAA
Found at i:142216 original size:17 final size:17
Alignment explanation
Indices: 142179--142240 Score: 56
Period size: 16 Copynumber: 3.6 Consensus size: 17
142169 ATGACAAAGT
142179 CAAAAGAAAAGGAACAAA
1 CAAAAGAAAAGGAA-AAA
*
142197 -AAATGAAAA-GAAAAA
1 CAAAAGAAAAGGAAAAA
*
142212 CAAAAAAAAAGTGAAAAA
1 CAAAAGAAAAG-GAAAAA
*
142230 GCAAAATAAAA
1 -CAAAAGAAAA
142241 AAAAGAACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
15 3 0.08
16 10 0.28
17 8 0.22
18 6 0.17
19 9 0.25
ACGTcount: A:0.76, C:0.06, G:0.13, T:0.05
Consensus pattern (17 bp):
CAAAAGAAAAGGAAAAA
Found at i:142220 original size:23 final size:24
Alignment explanation
Indices: 142194--142244 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
142184 GAAAAGGAAC
142194 AAAAAATG-AAAAGAAAAACAAAA
1 AAAAAATGAAAAAGAAAAACAAAA
* * *
142217 AAAAAGTGAAAAAGCAAAATAAAA
1 AAAAAATGAAAAAGAAAAACAAAA
142241 AAAA
1 AAAA
142245 GAACAACAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.80, C:0.04, G:0.10, T:0.06
Consensus pattern (24 bp):
AAAAAATGAAAAAGAAAAACAAAA
Found at i:143474 original size:28 final size:28
Alignment explanation
Indices: 143442--143524 Score: 116
Period size: 28 Copynumber: 3.0 Consensus size: 28
143432 TTTCAAAAGG
143442 CCACAAGTCAGTGGCATCCTTTTAAACC
1 CCACAAGTCAGTGGCATCCTTTTAAACC
* *
143470 CCACAAGTCAGTGGCA-CCATTTCAAAGC
1 CCACAAGTCAGTGGCATCC-TTTTAAACC
*
143498 CCACAAGTCAGTGGCAT-CTTTTCAACC
1 CCACAAGTCAGTGGCATCCTTTTAAACC
143525 TTTTCAAAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
27 8 0.17
28 40 0.83
ACGTcount: A:0.29, C:0.33, G:0.16, T:0.23
Consensus pattern (28 bp):
CCACAAGTCAGTGGCATCCTTTTAAACC
Found at i:143584 original size:29 final size:29
Alignment explanation
Indices: 143531--147582 Score: 1445
Period size: 28 Copynumber: 137.3 Consensus size: 29
143521 AACCTTTTCA
*
143531 AAAGCCCACAAGTCAGTGACA-CCTTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* **
143559 AAAGCCCATAAGTCAGTGGCACCCTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* *
143588 AAAGTCCATAAGTC-GATGGCACCC-TTTT
1 AAAGCCCACAAGTCAG-TGGCACCCTTTTT
* * * ** *
143616 GAAGGCAATGAGTCAGTGGCA-CCTTATT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* *
143644 AAAGCCCACAAAAG-CTGGTGGCAACCTTTCTT
1 AAAGCCCAC--AAGTC-AGTGGCACCCTTT-TT
* * * *
143676 AAAGCCCACACAAG-CTGGTGGCAACCCCTCTC
1 AAAG-CC-CACAAGTC-AGTGGC-ACCCTTTTT
** * * *
143708 AAAGCCCACACAAGTTGGTGGTAACCTTCTT
1 AAAG-CC-CACAAGTCAGTGGCACCCTTTTT
* * *
143739 AAAGCCCACACAAGTCAATGGCAACCCCTCTT
1 AAAG-CC-CACAAGTCAGTGGC-ACCCTTTTT
* * ** *
143771 AAAGCTCATACAAGTCGGTGGCA-AGTTTTCA
1 AAAGC-C-CACAAGTCAGTGGCACCCTTTT-T
* * *
143802 AAAGCCCACAAGTAAGTGGCA-CCATTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * *
143830 AAAGCCTACAAGTTAGTGGCATCCTTTCAATCCTTTCA
1 AAAGCCCACAAGTCAGTGGCA-CC---C--T--TTT-T
* *
143868 AAAGCCCATAAGTCAATGGCA-CC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * *
143895 AAAACCCACAAGTTAGTGGC-GCCTTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * *
143923 AAAGCCCATAAATCAATGGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
*
143952 AAAGCCCACAAGTTAGTGGCACCC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
*
143980 AAAGCCCACAAG-CTAGTGGCACCCTTTTC
1 AAAGCCCACAAGTC-AGTGGCACCCTTTTT
* * *
144009 AAAGCCCACGATTTAGTGGCACCC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
** * *
144037 AAAGCCCATGAGTTAGTGGCATCC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* ** * **
144065 ATAGCCTGCAAGGCAGTGGCACCCTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* *
144094 AAAGCCCACAAGTTAGTGGCACTC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * *
144122 AAAGGCCACGAGTCAGTGGTA-CCTTTTA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* *
144150 AAAGCCCACAAGTCAATGGCATCC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * * **
144178 AGA-CCTTTCAAAAGCCGCACAAGCCAGTG-ACACCCGTTT
1 AAAGCC---CACAA---G-TC-AG--TG-GCAC-CCTTTTT
*
144217 AAAACCCACAAGTCAGTGGCACCC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * **
144245 AAGGCCCACAAGACAGTGGCACCCTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * *
144274 AAAGTCCACAAGTCAGTGGCACCCGTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * *
144303 AAAGTCCACGAGTTAGTGGCACCC-TTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* *
144331 AAAGCCCACACAAGTCGGTGGCAACCC-TCTT
1 AAAG-CC-CACAAGTCAGTGGC-ACCCTTTTT
* * * *
144362 AAAGCCCACATAAGTCGGTGGAAACCCATCTT
1 AAAGCCCAC--AAGTCAGTGG-CACCCTTTTT
* * * **
144394 AAAGCCCACACAAGT-TGATGGCAACCTCTCA
1 AAAG-CC-CACAAGTCAG-TGGCACCCTTTTT
* *
144425 AAAGCCCACAAATCAGTGGCACCC-TTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
*
144453 AAAGCCCACAAGTCAGTGGCATCCTTTCAATCCTCT
1 AAAGCCCACAAGTCAGTGGCA-CCCTT---T--T-T
* *
144489 CAAAAGCCCACAAATTAGTGGCACCC-TTTT
1 --AAAGCCCACAAGTCAGTGGCACCCTTTTT
*
144519 AAAGCCCACAACTCAGTGGCA-CCTTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * * * *
144547 CAAAGTCCATAAGCCAGTGCCACTCTTTTC
1 -AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * *
144577 AAAGTCCACGAGTTAATGGCACCC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * *
144605 AAAGGCCACGAGTCAGTGGCACCC-TTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * * **
144633 AAAGCCGACACAAGCCGGTGGCAACGTCTCTCA
1 AAAGCC--CACAAGTCAGTGGC-AC-CCTTTTT
* ** *
144666 AAACCCACACAAGTTGGTGGCAACCC-TCTT
1 AAAGCC-CACAAGTCAGTGGC-ACCCTTTTT
* * *
144696 AAAGCCTACACAAGTCGGTGGCAACCCGTCTT
1 AAAGCC--CACAAGTCAGTGGC-ACCCTTTTT
* * * * *
144728 AAAGCCTACACAAGTCGGCGGCAACC-TCTC
1 AAAGCC--CACAAGTCAGTGGCACCCTTTTT
*
144758 AAAGGCCCACAAGTTAGTGGCACCC-TTTT
1 AAA-GCCCACAAGTCAGTGGCACCCTTTTT
*
144787 AAAGCCCACAAGTCAGTGGCATCCTTTCAATCCTTTCA
1 AAAGCCCACAAGTCAGTGGCA-CC---C--T--TTT-T
** *
144825 AAAGCCTGCAAGTTAGTGGCACCC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * *
144853 AAAGCCCATAACTTAGTGGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* **
144882 AAAGCCTACAAG-CTAGTGGCACCCTTTCA
1 AAAGCCCACAAGTC-AGTGGCACCCTTTTT
**
144911 AAAGCCCACAAGTCAGTGGCACCCTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * *
144940 AAAGCCCATAAGTTAGTGACACCC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* *
144968 AAAGCCCGCAAG-CTAGTGGCACCCTTTTC
1 AAAGCCCACAAGTC-AGTGGCACCCTTTTT
* * ** *
144997 AAA-CTCCACGAGTTAGAAGCACGC-TTTT
1 AAAGC-CCACAAGTCAGTGGCACCCTTTTT
** * *
145025 AAAGCCCATGAGTTAGTGGCA-TCTTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * **
145053 AAAGCCTACAAGTCAGTGGTACCCTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
*
145082 AAAGCCCACAAGTTAGTGGCACCC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * *
145110 AAAGGCCACGAGCCAGTGGCA-CCTTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* ** *
145138 CAAAGTCCATGAGTTAGTGGCACCC-TTTT
1 -AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * *
145167 AAAGCCCACGAGTTAGTGGCATCC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * ** *
145195 ATAGCCCGCAAGTCAACGGCACCC-TTGT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
*
145223 AAAGCCCACAAGTTAGTGGCACCC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* ** *
145251 AAAGGCCATGAGTCAGTGGCACCC-TTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * *
145279 AAAGCCTAAAAGTCAATGGCATCCTTTCAATCCTTTCA
1 AAAGCCCACAAGTCAGTGGCA-CC---C--T--TTT-T
* * * *
145317 AAATCCCACAAGTCAATAGCATCC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * *
145345 AAAGTCCACAAGTCAATGGCATCCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * *
145374 AAAGCCCACAAGCCAGTAGTA-CCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTT-T
* * **
145403 AAAGCCCACAAGTTATTGGCACCCTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * **
145432 AAAGCCCAAAAGTTAGTGGCACCC-TTAC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* *
145460 AAAGCCCATAAG-CAGTGGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * *
145488 AAAGTCCACGAGTCAGTGACACCC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* *
145516 AAAGCCCACGAGTCAGTGGCA-TCTTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * ** **
145544 AAAGCCCGCAAGTAAGTGGCTTCCTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * *
145573 AAAACCCACAAGGT-AGTTGTACCC-TTTT
1 AAAGCCCACAA-GTCAGTGGCACCCTTTTT
* * * ** ** *
145601 AAAGGCCACGAGTCAATTACTGCC-TTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * *
145629 AAAGTCCACAAGTTAGTGGCATCCTTTAAATCCTTT
1 AAAGCCCACAAGTCAGTGGCA-CC-CT---T--TTT
* *
145665 CAAAAGCCCATAAGTTAGTGGCA-CCTTTTT
1 --AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * **
145695 GAAGCACATAAGTCAGTGGCACCCTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* **
145724 AAAGCTCACAAGTCAGTGGCACCCTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * *
145753 AAAGCCCATAAATTAGTGGCACCC-TTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
145781 AAAGCCCACAAG-CTAGTGGCA-CCTTTTT
1 AAAGCCCACAAGTC-AGTGGCACCCTTTTT
* ** * * ** *
145809 CAAAGTCCATGAGTTAATGGTGCTC-TTTT
1 -AAAGCCCACAAGTCAGTGGCACCCTTTTT
* *
145838 AAAGCTCACGAGTCAGTGGCATCCC--TTT
1 AAAGCCCACAAGTCAGTGGCA-CCCTTTTT
* ** **
145866 AAAGCCCATAAGTCAGTTACACCCTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * *
145895 AAAGCCCGCAAGTTAGTAGCACCC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* ** * * *
145923 AAAGGCCATGAG-CTAATGGTA-CCGTTTT
1 AAAGCCCACAAGTC-AGTGGCACCCTTTTT
* * * * *
145951 AAAGCCCACACAAG-CCGATAGCATCCTCTCTC
1 AAAG-CC-CACAAGTCAG-TGGCACCCT-TTTT
* * ** * * * *
145983 AAGGCCCACATTAATTGGGGGCAACCTCTCTC
1 AAAGCCCACA--AGTCAGTGGCACCCT-TTTT
* * * *
146015 AAAGCCCACACAAAT-AGGTGGCAAACC-TCTG
1 AAAG-CC-CACAAGTCA-GTGGC-ACCCTTTTT
* **
146046 AAAGCCCAGACAAGT-AGTGGCAACCCCTCCT
1 AAAGCCC--ACAAGTCAGTGGC-ACCCTTTTT
* * * * *
146077 AAAGCCCACATATGTCGGCGACACCCTCTTA
1 AAAGCCCACA-A-GTCAGTGGCACCCTTTTT
* *
146108 AAAGCCCACAAGTTAGTGGCACCC-TTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
** * *
146136 AAAGCCCGTAAGTTAGTGGCA-TC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * *
146163 CAATCCTTTCAAAAGCTCACAAGTTAGTG-GCACCTTTTT
1 AAAGCC---CACAAG-T--C-AG-T-G-GCAC-CCTTTTT
146202 AAAGCCCACAAGTCAGTGGCACCC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* *
146230 AAAGCCAATAAGTCAGTGGCACCC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* *
146258 AAAGCCCACAAGTCAATGGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* **
146287 AATGCCCACAAG-CTAGTGGCACCCTTTCA
1 AAAGCCCACAAGTC-AGTGGCACCCTTTTT
* * * * **
146316 AAAGCTCATAAGTTATTGGCACCCTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * *
146345 AAAGCCCAGAAGTTAGTGGCACCC-TTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * * * * * *
146373 AAATCCCATAAGTAAATCGCATCC-TATA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* *
146401 AAAGCCCACAAGTTAGTGGCATCC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * *
146429 AAAGCCCACATGTTAGTGGCATCCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* *
146458 AAAGCCCAAAAGTCAGTGGCACCCTTTTA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * * *
146487 AAAGCCCATAAGCCACT-GCACTCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* ** *
146515 AATGCCCATGAGTCAGTGGTA-CCTTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * *
146543 CAAGCCCACGAGTAAGTGG---CC-TTTA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * *
146568 AAAGCCCATAAGTTAGTGGCATCC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * **
146596 AAAGCCCGCATGTCAGTGGCACCCTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * * *
146625 AAAGCCCATAAGTTAATAGCACCC-TTCT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * *
146653 AAAGGCCACGAGTTAGTGGCACCC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * *
146681 AAGGCCCACTCAAG-CCGATGGCAACCTTTCTC
1 AAAGCCCA--CAAGTCAG-TGGCACCCTTT-TT
* *
146713 AAAGCCCACACTAG-CTAGTGGAAACCTTTTT
1 AAAGCCCACA--AGTC-AGTGGCACCCTTTTT
*
146744 CAAAGCCCACATAAGTCAGTGGCAACCC-TCTT
1 -AAAGCCCAC--AAGTCAGTGGC-ACCCTTTTT
* * *
146776 AAAGCCCACACAAGTCGGTGGCAACCC--CTC
1 AAAG-CC-CACAAGTCAGTGGC-ACCCTTTTT
* * *
146806 AAACGTCCACAAGTCAGTCGCATCC-TTTT
1 AAA-GCCCACAAGTCAGTGGCACCCTTTTT
* *
146835 AATGCCCACAAGCCAGTGGCACCCTTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * **
146864 AAAGTCCACGAGTTAGTGGCATTC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * *
146892 AAAGCCCACGATTCAATGGCATCC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* **
146920 AAAGCCCGCAAGTCAGTGAG-ACCCTTTCA
1 AAAGCCCACAAGTCAGTG-GCACCCTTTTT
* *
146949 AAAGCCCACAAGTTAGTGGCA-TCTTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * *
146977 AAAGCCCACACAAGTC-GATGGCAACCTCTCTC
1 AAAG-CC-CACAAGTCAG-TGGCACCCT-TTTT
* * * *
147009 AAAGCCCACACTAG-CTGGTGGCAACCTCTCTC
1 AAAGCCCACA--AGTC-AGTGGCACCCT-TTTT
* *
147041 AAAGCCCACACAAGTCAATGGCAACCC-TCTT
1 AAAG-CC-CACAAGTCAGTGGC-ACCCTTTTT
** * *
147072 GGAGTCCACACAAGTCAGTGGCAACCTCTCTT
1 AAAG-CC-CACAAGTCAGTGGCACCCT-TTTT
* * **
147104 AAAGCCAACACAAGTC-GATGGCAACCTCTCA
1 AAAGCC--CACAAGTCAG-TGGCACCCTTTTT
* * *
147135 AAAGCCCACAAGTCAGTGGTAACC-TTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
*
147163 AAAGCCCACAAGTCAGTGGCATCCTTTCAATCCTTTCA
1 AAAGCCCACAAGTCAGTGGCA-CC---C--T--TTT-T
*
147201 AAAGCCCATAAGTCAGTGGCACCC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * *
147229 AAAACCCACAAGTCAATGGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* *
147258 AAAGCCCACAAGCCAGTGGCA-CCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTT-T
* **
147287 AAAGCCCACAAGTTAGTGGCACCCTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* **
147316 AAAGCCCACAAGTTAGTGGCATTC-TTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * * *
147344 AAAGCCCATAAGTTAGTAGCATCCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * ** *
147373 AAAG-CCATAAGTCAGTAGCGTCC-TTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * *
147400 ATAAGCCCTCAAG-CAAATGGCACTCTTTTC
1 A-AAGCCCACAAGTC-AGTGGCACCCTTTTT
* * * **
147430 AAAGCCTACGAGTTAGTGGCA-CGATTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * *
147458 CAAGCCCACGAGTCAGTGGCATCC-TTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* * * *
147486 AAAGCCCACGAGTCGGTGGCATCC-TTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
*** ** *
147514 AAAGCCCGTGAGTTGGTGGCACCC-TTTA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTT
* **
147542 AGAAGCCCACAAGTCGGTGGCAACCCTTTCA
1 A-AAGCCCACAAGTCAGTGGC-ACCCTTTTT
147573 AAAGCCCACA
1 AAAGCCCACA
147583 CAAGTTGGTG
Statistics
Matches: 3074, Mismatches: 701, Indels: 496
0.72 0.16 0.12
Matches are distributed among these distances:
25 18 0.01
26 2 0.00
27 61 0.02
28 1231 0.40
29 899 0.29
30 170 0.06
31 202 0.07
32 254 0.08
33 43 0.01
34 23 0.01
35 5 0.00
36 11 0.00
37 26 0.01
38 114 0.04
39 13 0.00
40 2 0.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTTT
Found at i:143761 original size:63 final size:64
Alignment explanation
Indices: 143644--143811 Score: 198
Period size: 63 Copynumber: 2.7 Consensus size: 64
143634 GCACCTTATT
* * **
143644 AAAGCCCACAAAAGCTGGTGGCAACCTTTCTTAAAGCCCACACAAGCTGGTGGCAACCCCTCTC
1 AAAGCCCACACAAGTTGGTGGCAACCTTTCTTAAAGCCCACACAAGCTAATGGCAACCCCTCTC
* *
143708 AAAGCCCACACAAGTTGGTGGTAACC-TTCTTAAAGCCCACACAAG-TCAATGGCAACCCCTCTT
1 AAAGCCCACACAAGTTGGTGGCAACCTTTCTTAAAGCCCACACAAGCT-AATGGCAACCCCTCTC
* * * ** *
143771 AAAGCTCATACAAGTCGGTGGCAAGTTTTC-AAAAGCCCACA
1 AAAGCCCACACAAGTTGGTGGCAACCTTTCTTAAAGCCCACA
143812 AGTAAGTGGC
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
62 1 0.01
63 62 0.70
64 26 0.29
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.19
Consensus pattern (64 bp):
AAAGCCCACACAAGTTGGTGGCAACCTTTCTTAAAGCCCACACAAGCTAATGGCAACCCCTCTC
Found at i:143793 original size:32 final size:32
Alignment explanation
Indices: 143642--143794 Score: 168
Period size: 32 Copynumber: 4.8 Consensus size: 32
143632 TGGCACCTTA
* **
143642 TTAAAGCCCACAAAAG-CTGGTGGCAACCTTTC
1 TTAAAGCCCACACAAGTC-GGTGGCAACCCCTC
143674 TTAAAGCCCACACAAG-CTGGTGGCAACCCCTC
1 TTAAAGCCCACACAAGTC-GGTGGCAACCCCTC
* * * *
143706 TCAAAGCCCACACAAGTTGGTGGTAA-CCTTC
1 TTAAAGCCCACACAAGTCGGTGGCAACCCCTC
**
143737 TTAAAGCCCACACAAGTCAATGGCAACCCCTC
1 TTAAAGCCCACACAAGTCGGTGGCAACCCCTC
* *
143769 TTAAAGCTCATACAAGTCGGTGGCAA
1 TTAAAGCCCACACAAGTCGGTGGCAA
143795 GTTTTCAAAA
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
31 25 0.25
32 77 0.75
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (32 bp):
TTAAAGCCCACACAAGTCGGTGGCAACCCCTC
Found at i:143849 original size:57 final size:56
Alignment explanation
Indices: 143526--147582 Score: 1218
Period size: 57 Copynumber: 68.8 Consensus size: 56
143516 TTTTCAACCT
* * * * *
143526 TTTCAAAAGCCCACAAGTCAGTGACACCTTTTTAAAGCCCATAAGTCAGTGGCACCC
1 TTTC-AAAGCCCACAAGTTAGTGGCACCTTTTAAAAGCCCACAAGTAAGTGGCACCC
* * * * * * ** *
143583 TTTCAAAAGTCCATAAG-TCGATGGCACCCTTTT-GAAGGCAATGAGTCAGTGGCA-CC
1 TTTC-AAAGCCCACAAGTTAG-TGGCA-CCTTTTAAAAGCCCACAAGTAAGTGGCACCC
* * * * *
143639 TTATTAAAGCCCACAAAAGCTGGTGGCAACCTTTCTTAAAGCCCACACAAGCT-GGTGGCAACCC
1 TT-TCAAAGCCCAC--AAGTTAGTGGC-ACCTTT-TAAAAG-CC-CACAAG-TAAGTGGC-A-CC
143703 C
56 C
* * *
143704 TCTCAAAGCCCACACAAGTTGGTGGTAACCTTCTT-AAAGCCCACACAAGTCAA-TGGCAACCCC
1 TTTCAAAG-CC-CACAAGTTAGTGG-CACCTT-TTAAAAG-CC-CACAAGT-AAGTGGC-A-CCC
* ** ** *
143767 TCTT-AAAGCTCATACAAGTCGGTGGCAAGTTTTCAAAAGCCCACAAGTAAGTGGCACCA
1 T-TTCAAAGC-C-CACAAGTTAGTGGCACCTTTT-AAAAGCCCACAAGTAAGTGGCACCC
* *
143826 TTTCAAAGCCTACAAGTTAGTGGCATCCTTTCAATCCTTTCAAAAGCCCATAAGTCAA-TGGCA-
1 TTTCAAAGCCCACAAGTTAGTGGCA--C---C--T--TTT-AAAAGCCCACAAGT-AAGTGGCAC
143889 CC
55 CC
* * * * * *
143891 TTTTAAAACCCACAAGTTAGTGGCGCCTTTTTAAAGCCCATAAATCAA-TGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCACCTTTTAAAAGCCCACAAGT-AAGTGGCACCC
143947 TTTTCAAAGCCCACAAGTTAGTGGCACCCTTTT-AAAGCCCACAAGCT-AGTGGCACCC
1 -TTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAG-TAAGTGGCACCC
* * ** * *
144004 TTTTCAAAGCCCACGATTTAGTGGCACCCTTTT-AAAGCCCATGAGTTAGTGGCATCC
1 -TTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAGTAAGTGGCACCC
* * ** ** * * *
144061 TTTTATAGCCTGCAAGGCAGTGGCACCCTTTCAAAAGCCCACAAGTTAGTGGCACTC
1 TTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAGTAAGTGGCACCC
* * * * *
144118 TTTTAAAGGCCACGAGTCAGTGGTACCTTTTAAAAGCCCACAAGTCAA-TGGCATCCTTTTAGAC
1 TTTCAAAGCCCACAAGTTAGTGGCACCTTTTAAAAGCCCACAAGT-AAGTGGCA--C-------C
144182 C
56 C
** * * *
144183 TTTCAAAAGCCGCACAAGCCAGTGACACCCGTTTAAAA-CCCACAAGTCAGTGGCACCC
1 TTTC-AAAGCC-CACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAGTAAGTGGCACCC
* * ** * * *
144241 TTTTAAGGCCCACAAGACAGTGGCACCCTTTCAAAAGTCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAGTAAGTGGCACCC
* * * * **
144298 GTTTCAAAGTCCACGAGTTAGTGGCACCCTTTCAAAGCCCACACAAGTCGGTGGCAACCC
1 -TTTCAAAGCCCACAAGTTAGTGGCACCTTTTAAAAG-CC-CACAAGTAAGTGGC-ACCC
** * * * *
144358 TCTT-AAAGCCCACATAAGTCGGTGGAAACCCATCTT-AAAGCCCACACAAGT-TGATGGCAACC
1 T-TTCAAAGCCCAC--AAGTTAGTGG-CA-CC-TTTTAAAAG-CC-CACAAGTAAG-TGGCACCC
* * * * * *
144420 TCTCAAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC
1 TTTC-AAAGCCCACAAGTTAGTGGCACCTTTTAAAAGCCCACAAGTAAGTGGCA-CC---C
* * * *
144481 AATCCTCTCAAAAGCCCACAAATTAGTGGCACCCTTTT-AAAGCCCACAACTCAGTGGCACCTT
1 --T--T-TC-AAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAGTAAGTGGCACC-C
* * ** * * * *
144544 TTTCAAAGTCCATAAGCCAGTGCCACTCTTTTCAAAGTCCACGAGTTAA-TGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCAC-CTTTTAAAAGCCCACAAG-TAAGTGGCACCC
* * * * * * *** *
144601 TTTTAAAGGCCACGAGTCAGTGGCACCCTTTCAAAGCCGACACAAGCCGGTGGCAACGTC
1 TTTCAAAGCCCACAAGTTAGTGGCACCTTTTAAAAGCC--CACAAGTAAGTGGC-AC-CC
* * * * **
144661 TCTCAAAACCCACACAAGTTGGTGGCAACCCTCTT-AAAGCCTACACAAGTCGGTGGCAACCC
1 TTTC-AAAGCC-CACAAGTTAGTGGC-A-CCTTTTAAAAGCC--CACAAGTAAGTGGC-ACCC
** * * * * *
144723 GTCTT-AAAGCCTACACAAGTCGGCGGCAACCTCTCAAAGGCCCACAAGTTAGTGGCACCC
1 -T-TTCAAAGCC--CACAAGTTAGTGGC-ACCTTTTAAAAGCCCACAAGTAAGTGGCACCC
* * ** *
144783 TTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAATCCTTTCAAAAGCCTGCAAGTTAGTGGCACC
1 TTTCAAAGCCCACAAGTTAGTGGCA--C---C--T--TTT-AAAAGCCCACAAGTAAGTGGCACC
144848 C
56 C
* * * * *
144849 TTTTAAAGCCCATAACTTAGTGGCACCCTTTTCAAAGCCTACAAGCT-AGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAG-TAAGTGGCACCC
* * * * *
144906 TTTCAAAAGCCCACAAGTCAGTGGCACCCTTTCAAAAGCCCATAAGTTAGTGACACCC
1 TTTC-AAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAGTAAGTGGCACCC
* * * * * * ** *
144964 TTTTAAAGCCCGCAAGCTAGTGGCACCCTTTTCAAA-CTCCACGAGTTAGAAGCACGC
1 TTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGC-CCACAAGTAAGTGGCACCC
* ** * * * * *
145021 TTTTAAAGCCCATGAGTTAGTGGCATCTTTTTAAAGCCTACAAGTCAGTGGTACCC
1 TTTCAAAGCCCACAAGTTAGTGGCACCTTTTAAAAGCCCACAAGTAAGTGGCACCC
* * ** *
145077 TTTCAAAAGCCCACAAGTTAGTGGCACCCTTTT-AAAGGCCACGAGCCAGTGGCACCTT
1 TTTC-AAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAGTAAGTGGCACC-C
* ** * * *
145135 TTTCAAAGTCCATGAGTTAGTGGCACCCTTTT-AAAGCCCACGAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAGTAAGTGGCACCC
* * * * ** * *
145191 TTTTATAGCCCGCAAGTCAACGGCACCCTTGT-AAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAGTAAGTGGCACCC
* * ** * * * * *
145247 TTTTAAAGGCCATGAGTCAGTGGCACCCTTTCAAAGCCTAAAAGTCAA-TGGCATCCTTTCAATC
1 TTTCAAAGCCCACAAGTTAGTGGCACCTTTTAAAAGCCCACAAGT-AAGTGGCA------C---C
145311 C
56 C
* * * * * *
145312 TTTCAAAATCCCACAAGTCAATAGCATCCTTTT-AAAGTCCACAAGTCAA-TGGCATCCT
1 TTTC-AAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAGT-AAGTGGCA-CCC
** * * * *
145370 TTTCAAAGCCCACAAGCCAGTAGTACCTTTTCAAAAGCCCACAAGTTATTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCACCTTTT-AAAAGCCCACAAGTAAGTGGCACCC
* * * *
145427 TTTCAAAAGCCCAAAAGTTAGTGGCACC-CTTACAAAGCCCATAAG-CAGTGGCACCC
1 TTTC-AAAGCCCACAAGTTAGTGGCACCTTTTA-AAAGCCCACAAGTAAGTGGCACCC
* * * * * * * *
145483 TTTTCAAAGTCCACGAGTCAGTGACACCCTTTT-AAAGCCCACGAGTCAGTGGCATCT
1 -TTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAGTAAGTGGCACCC
* * * * * * * *
145540 TTTTAAAGCCCGCAAGTAAGTGGCTTCCTTTCAAAAACCCACAAGGT-AGTTGTACCC
1 TTTCAAAGCCCACAAGTTAGTGGC-ACCTTTTAAAAGCCCACAA-GTAAGTGGCACCC
* * * * * ** * * * *
145597 TTTTAAAGGCCACGAGTCAATTACTGCC-TTTCAAAGTCCACAAGTTAGTGGCATCCTTTAAATC
1 TTTCAAAGCCCACAAGTTAGTGGC-ACCTTTTAAAAGCCCACAAGTAAGTGGCA--C-------C
145661 C
56 C
* ** * * *
145662 TTTCAAAAGCCCATAAGTTAGTGGCACCTTTTTGAAGCACATAAGTCAGTGGCACCC
1 TTTC-AAAGCCCACAAGTTAGTGGCACCTTTTAAAAGCCCACAAGTAAGTGGCACCC
* * * * * *
145719 TTTCAAAAGCTCACAAGTCAGTGGCACCCTTTCAAAAGCCCATAAATTAGTGGCACCC
1 TTTC-AAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAGTAAGTGGCACCC
* * * ** ** *
145777 TTTCAAAGCCCACAAGCTAGTGGCACCTTTTTCAAAGTCCATGAGTTAA-TGGTGCTC
1 TTTCAAAGCCCACAAGTTAGTGGCACC-TTTTAAAAGCCCACAAG-TAAGTGGCACCC
* * * * * * * **
145834 TTTTAAAGCTCACGAGTCAGTGGCATCCCTTT-AAAGCCCATAAGTCAGTTACACCC
1 TTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAGTAAGTGGCACCC
* * * ** * *
145890 TTTCAAAAGCCCGCAAGTTAGTAGCACCCTTTT-AAAGGCCATGAGCTAA-TGGTACCG
1 TTTC-AAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAG-TAAGTGGCACCC
* ** * * * * * *
145947 TTTTAAAGCCCACACAAG-CCGATAGCATCCTCTCTCAAGGCCCAC-ATTAATTGGGGGCAACCT
1 TTTCAAAG-CC-CACAAGTTAG-TGGCA-CCT-TTTAAAAGCCCACAAGTAA---GTGGC-ACC-
146010 C
56 C
* ** * *
146011 TCTCAAAGCCCACACAAATAGGTGGCAAACC-TCTGAAAGCCCAGACAAGT-AGTGGCAACCC
1 TTTCAAAGCCCACA-AGTTA-GTGGC--ACCTTTTAAAAGCCC--ACAAGTAAGTGGC-ACCC
* * ** * * * *
146072 CTCCTAAAGCCCACATATGTCGGCGACACCCTCTTAAAAGCCCACAAGTTAGTGGCACCC
1 TTTC-AAAGCCCACA-A-GTTAGTGGCA-CCTTTTAAAAGCCCACAAGTAAGTGGCACCC
** * *
146132 TTTCAAAGCCCGTAAGTTAGTGGCATCTTTTCAATCCTTTCAAAAGCTCACAAGTTAGTGGCACC
1 TTTCAAAGCCCACAAGTTAGTGGCA-C----C--T--TTT-AAAAGCCCACAAGTAAGTGGCACC
*
146197 T
56 C
* * * * *
146198 TTTTAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCAATAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAGTAAGTGGCACCC
* * * * *
146254 TTTTAAAGCCCACAAGTCAATGGCACCCTTTTCAATGCCCACAAGCT-AGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAG-TAAGTGGCACCC
* * * * * *
146311 TTTCAAAAGCTCATAAGTTATTGGCACCCTTTCAAAAGCCCAGAAGTTAGTGGCACCC
1 TTTC-AAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAGTAAGTGGCACCC
* * * * * * * *
146369 TTTCAAATCCCATAAGTAAATCGCATCC-TATAAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAGTAAGTGGCACCC
* * * * *
146425 TTTTAAAGCCCACATGTTAGTGGCATCCTTTTCAAAGCCCAAAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAGTAAGTGGCACCC
* * ** * * * ** * * *
146482 TTTTAAAAGCCCATAAGCCACT-GCACTCTTTTCAATGCCCATGAGTCAGTGGTACCTT
1 -TTTCAAAGCCCACAAGTTAGTGGCAC-CTTTTAAAAGCCCACAAGTAAGTGGCACC-C
* * * * *
146540 TTTC-AAGCCCACGAGTAAGTGG--CC-TTTAAAAGCCCATAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCACCTTTTAAAAGCCCACAAGTAAGTGGCACCC
* * * * * * *
146592 TTTTAAAGCCCGCATGTCAGTGGCACCCTTTCAAAAGCCCATAAGTTAA-TAGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAG-TAAGTGGCACCC
* * * ** *
146649 -TTCTAAAGGCCACGAGTTAGTGGCACCCTTTT-AAGGCCCACTCAAG-CCGATGGCAACCT
1 TTTC-AAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCA--CAAGTAAG-TGGC-ACCC
* * * *
146708 TTCTCAAAGCCCACACTAGCTAGTGGAAACCTTTTTCAAAGCCCACATAAGTCAGTGGCAACCC
1 TT-TCAAAGCCCACA--AGTTAGTGG-CACC-TTTTAAAAGCCCAC--AAGTAAGTGGC-ACCC
** ** * * * * * *
146772 TCTT-AAAGCCCACACAAGTCGGTGGCAACCCCTCAAACGTCCACAAGTCAGTCGCATCC
1 T-TTCAAAG-CC-CACAAGTTAGTGGC-ACCTTTTAAAAGCCCACAAGTAAGTGGCACCC
* * ** * * * * **
146831 TTTTAATGCCCACAAGCCAGTGGCACCCTTTTTAAAGTCCACGAGTTAGTGGCATTC
1 TTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAGTAAGTGGCACCC
* * * * *
146888 TTTTAAAGCCCACGA-TTCAATGGCATCCTTTT-AAAGCCCGCAAGTCAGTGAG-ACCC
1 TTTCAAAGCCCACAAGTT-AGTGGCA-CCTTTTAAAAGCCCACAAGTAAGTG-GCACCC
* * *
146944 TTTCAAAAGCCCACAAGTTAGTGGCATCTTTTTAAAGCCCACACAAGT-CGATGGCAACCTC
1 TTTC-AAAGCCCACAAGTTAGTGGCACCTTTTAAAAG-CC-CACAAGTAAG-TGGC-ACC-C
* * * * *
147005 TCTCAAAGCCCACACTAGCTGGTGGCAACCTCTCTCAAAGCCCACACAAGTCAA-TGGCAACCC
1 TTTCAAAGCCCACA--AGTTAGTGGC-ACCT-TTTAAAAG-CC-CACAAGT-AAGTGGC-ACCC
** * * *
147068 TCTT-GGAGTCCACACAAGTCAGTGGCAACCTCTCTT-AAAGCCAACACAAGT-CGATGGCAACC
1 T-TTCAAAG-CC-CACAAGTTAGTGGC-ACCT-T-TTAAAAGCC--CACAAGTAAG-TGGCACCC
* * * * *
147130 TCTCAAAAGCCCACAAGTCAGTGGTAACC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAT
1 TTTC-AAAGCCCACAAGTTAGTGG-CACCTTTTAAAAGCCCACAAGTAAGTGGCA------C---
147194 CC
55 CC
* *
147196 TTTCAAAAGCCCATAAGTCAGTGGCACCCTTTTAAAA-CCCACAAGTCAA-TGGCACCC
1 TTTC-AAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAGT-AAGTGGCACCC
** *
147253 TTTTCAAAGCCCACAAGCCAGTGGCACCTTTTCAAAAGCCCACAAGTTAGTGGCACCC
1 -TTTCAAAGCCCACAAGTTAGTGGCACCTTTT-AAAAGCCCACAAGTAAGTGGCACCC
* * * * *
147311 TTTCAAAAGCCCACAAGTTAGTGGCATTCTTTT-AAAGCCCATAAGTTAGTAGCATCCT
1 TTTC-AAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAGTAAGTGGCA-CCC
* * * * * * * * * *
147369 TTTCAAAG-CCATAAGTCAGTAGCGTCCTTTCATAAGCCCTCAAGCAAATGGCACTCT
1 TTTCAAAGCCCACAAGTTAGTGGC-ACCTTTTAAAAGCCCACAAGTAAGTGGCAC-CC
* * * * * * *
147426 TTTCAAAGCCTACGAGTTAGTGGCACGATTTT-CAAGCCCACGAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCAC-CTTTTAAAAGCCCACAAGTAAGTGGCACCC
* ** * *** **
147482 TTTCAAAGCCCACGAGTCGGTGGCATCC-TTTCAAAGCCCGTGAGTTGGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTAAAAGCCCACAAGTAAGTGGCACCC
* ** *
147538 TTTAAGAAGCCCACAAGTCGGTGGCAACCCTTTCAAAAGCCCACA
1 TTTCA-AAGCCCACAAGTTAGTGGC-A-CCTTTTAAAAGCCCACA
147583 CAAGTTGGTG
Statistics
Matches: 3051, Mismatches: 658, Indels: 580
0.71 0.15 0.14
Matches are distributed among these distances:
52 3 0.00
53 35 0.01
54 1 0.00
55 32 0.01
56 516 0.17
57 1005 0.33
58 396 0.13
59 102 0.03
60 75 0.02
61 85 0.03
62 117 0.04
63 200 0.07
64 90 0.03
65 70 0.02
66 271 0.09
67 44 0.01
68 9 0.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (56 bp):
TTTCAAAGCCCACAAGTTAGTGGCACCTTTTAAAAGCCCACAAGTAAGTGGCACCC
Found at i:144252 original size:95 final size:94
Alignment explanation
Indices: 144087--144271 Score: 228
Period size: 95 Copynumber: 2.0 Consensus size: 94
144077 GCAGTGGCAC
** * * * ** * *
144087 CCTTTCAAAAGCCCACAAGTTAGTGGCACTCTTTTAAAGGCCACGAGTCAGTGGTACCTTTTAAA
1 CCTTTCAAAAGCCCACAAGCCAGTGACACCCGTTTAAAACCCACAAGTCAGTGGCACCTTTTAAA
* *
144152 AGCCCACAAGTCAATGGCATCCTTTTAGA
66 AGCCCACAAGACAATGGCACCCTTTTAGA
144181 CCTTTCAAAAGCCGCACAAGCCAGTGACACCCGTTTAAAACCCACAAGTCAGTGGCACCCTTTT-
1 CCTTTCAAAAGCC-CACAAGCCAGTGACACCCGTTTAAAACCCACAAGTCAGTGGCA-CCTTTTA
* *
144245 AAGGCCCACAAGACAGTGGCACCCTTT
64 AAAGCCCACAAGACAATGGCACCCTTT
144272 CAAAAGTCCA
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
94 13 0.17
95 57 0.75
96 6 0.08
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (94 bp):
CCTTTCAAAAGCCCACAAGCCAGTGACACCCGTTTAAAACCCACAAGTCAGTGGCACCTTTTAAA
AGCCCACAAGACAATGGCACCCTTTTAGA
Found at i:144399 original size:32 final size:31
Alignment explanation
Indices: 144323--144462 Score: 130
Period size: 31 Copynumber: 4.6 Consensus size: 31
144313 AGTTAGTGGC
*
144323 ACCCT-TTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTCTT-AAAGCCCACACAAGTCGGTGGAA
*
144354 ACCCTCTTAAAGCCCACATAAGTCGGTGGAA
1 ACCCTCTTAAAGCCCACACAAGTCGGTGGAA
* * *
144385 ACCCATCTTAAAGCCCACACAAGTTGATGGCA
1 ACCC-TCTTAAAGCCCACACAAGTCGGTGGAA
* * *
144417 A-CCTCTCAAAAGCCCACA-AA-TCAGTGG-C
1 ACCCTCT-TAAAGCCCACACAAGTCGGTGGAA
144445 ACCCT-TTCAAAGCCCACA
1 ACCCTCTT-AAAGCCCACA
144463 AGTCAGTGGC
Statistics
Matches: 92, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
28 12 0.13
29 7 0.08
30 5 0.05
31 42 0.46
32 26 0.28
ACGTcount: A:0.33, C:0.34, G:0.16, T:0.17
Consensus pattern (31 bp):
ACCCTCTTAAAGCCCACACAAGTCGGTGGAA
Found at i:144495 original size:66 final size:65
Alignment explanation
Indices: 144418--144544 Score: 218
Period size: 66 Copynumber: 1.9 Consensus size: 65
144408 TTGATGGCAA
*
144418 CCTCTCAAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAA
1 CCTCTCAAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCA-CCTTTCAA
144483 T
65 T
* *
144484 CCTCTCAAAAGCCCACAAATTAGTGGCACCCTTTTAAAGCCCACAACTCAGTGGCACCTTT
1 CCTCTCAAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCACCTTT
144545 TTCAAAGTCC
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
65 5 0.09
66 53 0.91
ACGTcount: A:0.30, C:0.35, G:0.13, T:0.22
Consensus pattern (65 bp):
CCTCTCAAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCACCTTTCAAT
Found at i:144676 original size:32 final size:31
Alignment explanation
Indices: 144615--144796 Score: 165
Period size: 32 Copynumber: 5.9 Consensus size: 31
144605 AAAGGCCACG
* * *
144615 AGTCAGTGGC-ACCCTTTCAAAGCCGACACA
1 AGTCGGTGGCAACCCTCTCAAAGCCCACACA
* * *
144645 AGCCGGTGGCAACGTCTCTCAAAACCCACACA
1 AGTCGGTGGCAAC-CCTCTCAAAGCCCACACA
* * *
144677 AGTTGGTGGCAACCCTCTTAAAGCCTACACA
1 AGTCGGTGGCAACCCTCTCAAAGCCCACACA
* *
144708 AGTCGGTGGCAACCCGTCTTAAAGCCTACACA
1 AGTCGGTGGCAACCC-TCTCAAAGCCCACACA
* *
144740 AGTCGGCGGCAA-CCTCTCAAAGGCC-CACA
1 AGTCGGTGGCAACCCTCTCAAAGCCCACACA
** * *
144769 AGTTAGTGGC-ACCCTTTTAAAGCCCACA
1 AGTCGGTGGCAACCCTCTCAAAGCCCACA
144797 AGTCAGTGGC
Statistics
Matches: 124, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
28 1 0.01
29 21 0.17
30 18 0.15
31 32 0.26
32 52 0.42
ACGTcount: A:0.29, C:0.33, G:0.20, T:0.18
Consensus pattern (31 bp):
AGTCGGTGGCAACCCTCTCAAAGCCCACACA
Found at i:144739 original size:63 final size:63
Alignment explanation
Indices: 144615--144761 Score: 160
Period size: 63 Copynumber: 2.4 Consensus size: 63
144605 AAAGGCCACG
*
144615 AGTCAGTGGC-ACCCT-TTCAAAGCCGACACAAGCCGGTGGCAACGTCTCTCAAAACCCACACA
1 AGTCGGTGGCAACCCTCTT-AAAGCCGACACAAGCCGGTGGCAACGTCTCTCAAAACCCACACA
* * * * *
144677 AGTTGGTGGCAACCCTCTTAAAGCCTACACAAGTCGGTGGCAACCCGTCT-T-AAAGCCTACACA
1 AGTCGGTGGCAACCCTCTTAAAGCCGACACAAGCCGGTGGCAA--CGTCTCTCAAAACCCACACA
* *
144740 AGTCGGCGGCAA-CCTCTCAAAG
1 AGTCGGTGGCAACCCTCTTAAAG
144762 GCCCACAAGT
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
62 17 0.24
63 47 0.65
64 3 0.04
65 5 0.07
ACGTcount: A:0.29, C:0.33, G:0.21, T:0.17
Consensus pattern (63 bp):
AGTCGGTGGCAACCCTCTTAAAGCCGACACAAGCCGGTGGCAACGTCTCTCAAAACCCACACA
Found at i:145480 original size:27 final size:29
Alignment explanation
Indices: 145374--145536 Score: 100
Period size: 29 Copynumber: 5.7 Consensus size: 29
145364 CATCCTTTTC
* * * * * *
145374 AAAGCCCACAAGCCAGTAGTACCTTTTCA
1 AAAGCCCAAAAGTCAGTGGCACCCTTACA
* * * *
145403 AAAGCCCACAAGTTATTGGCACCCTTTCA
1 AAAGCCCAAAAGTCAGTGGCACCCTTACA
*
145432 AAAGCCCAAAAGTTAGTGGCACCCTTAC-
1 AAAGCCCAAAAGTCAGTGGCACCCTTACA
* *
145460 AAAGCCCATAAG-CAGTGGCACCCTTTTC-
1 AAAGCCCAAAAGTCAGTGGCACCC-TTACA
* ** * **
145488 AAAGTCCACGAGTCAGTGACACCCTT-TT
1 AAAGCCCAAAAGTCAGTGGCACCCTTACA
**
145516 AAAGCCCACGAGTCAGTGGCA
1 AAAGCCCAAAAGTCAGTGGCA
145537 TCTTTTTAAA
Statistics
Matches: 112, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
27 10 0.09
28 44 0.39
29 58 0.52
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (29 bp):
AAAGCCCAAAAGTCAGTGGCACCCTTACA
Found at i:146038 original size:32 final size:32
Alignment explanation
Indices: 145975--146086 Score: 104
Period size: 31 Copynumber: 3.6 Consensus size: 32
145965 CCGATAGCAT
* ** * *
145975 CCTCTCTCAAGGCCCACATTAATTGGGGGCAA
1 CCTCTCTCAAAGCCCACACAAATAGGTGGCAA
146007 CCTCTCTCAAAGCCCACACAAATAGGTGGCAA
1 CCTCTCTCAAAGCCCACACAAATAGGTGGCAA
* * * *
146039 AC-CTCTGAAAGCCCAGACAAGTA-GTGGCAA
1 CCTCTCTCAAAGCCCACACAAATAGGTGGCAA
*
146069 CCCCTC-CTAAAGCCCACA
1 CCTCTCTC-AAAGCCCACA
146087 TATGTCGGCG
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
30 8 0.12
31 30 0.45
32 28 0.42
ACGTcount: A:0.31, C:0.35, G:0.18, T:0.16
Consensus pattern (32 bp):
CCTCTCTCAAAGCCCACACAAATAGGTGGCAA
Found at i:147115 original size:63 final size:64
Alignment explanation
Indices: 146975--147144 Score: 220
Period size: 63 Copynumber: 2.7 Consensus size: 64
146965 TGGCATCTTT
* *
146975 TTAAAGCCCACACAAGTCGATGGCAACCTCTCTCAAAGCCCACACTAGCTGGTGGCAACCTCTC
1 TTAAAGCCCACACAAGTCGATGGCAACCTCTCTCAAAGCCCACACAAGCTAGTGGCAACCTCTC
* * *** *
147039 TCAAAGCCCACACAAGTCAATGGCAACC-CTCTTGGAGTCCACACAAG-TCAGTGGCAACCTCTC
1 TTAAAGCCCACACAAGTCGATGGCAACCTCTCTCAAAGCCCACACAAGCT-AGTGGCAACCTCTC
* *
147102 TTAAAGCCAACACAAGTCGATGGCAACCTCTC-AAAAGCCCACA
1 TTAAAGCCCACACAAGTCGATGGCAACCTCTCTCAAAGCCCACA
147145 AGTCAGTGGT
Statistics
Matches: 89, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
62 1 0.01
63 59 0.66
64 29 0.33
ACGTcount: A:0.32, C:0.35, G:0.16, T:0.17
Consensus pattern (64 bp):
TTAAAGCCCACACAAGTCGATGGCAACCTCTCTCAAAGCCCACACAAGCTAGTGGCAACCTCTC
Found at i:147215 original size:66 final size:66
Alignment explanation
Indices: 147132--147316 Score: 192
Period size: 66 Copynumber: 2.9 Consensus size: 66
147122 TGGCAACCTC
* * * *
147132 TCAAAAGCCCACAAGTCAGTGGTAACCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAATCCT
1 TCAAAAGCCCACAAGTCAGTGGCAACCTTTCAAAACCCACAAGTCAATGGCACCCTTTCAATCCT
147197 T
66 T
* * *
147198 TCAAAAGCCCATAAGTCAGTGGCACCCTTTTAAAACCCACAAGTCAATGGCA-CC---C--T--T
1 TCAAAAGCCCACAAGTCAGTGGCAACCTTTCAAAACCCACAAGTCAATGGCACCCTTTCAATCCT
147255 T
66 T
* * *
147256 TC-AAAGCCCACAAGCCAGTGGC-ACCTTTTCAAAAGCCCACAAGTTAGTGGCACCCTTTCAA
1 TCAAAAGCCCACAAGTCAGTGGCAACC-TTTCAAAA-CCCACAAGTCAATGGCACCCTTTCAA
147317 AAGCCCACAA
Statistics
Matches: 99, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
56 2 0.02
57 25 0.25
58 19 0.19
59 2 0.02
60 1 0.01
62 2 0.02
65 2 0.02
66 46 0.46
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.22
Consensus pattern (66 bp):
TCAAAAGCCCACAAGTCAGTGGCAACCTTTCAAAACCCACAAGTCAATGGCACCCTTTCAATCCT
T
Found at i:147593 original size:32 final size:32
Alignment explanation
Indices: 147524--147705 Score: 171
Period size: 32 Copynumber: 5.9 Consensus size: 32
147514 AAAGCCCGTG
*
147524 AGTTGGTGGC-ACCCTTT-AAGAAG-CC-CACA
1 AGTTGGTGGCAACCCTTTCTA-AAGCCCACACA
* *
147553 AGTCGGTGGCAACCCTTTCAAAAGCCCACACA
1 AGTTGGTGGCAACCCTTTCTAAAGCCCACACA
* * * *
147585 AGTTGGTGGCATCTCTTTCTAAAGCCGACATA
1 AGTTGGTGGCAACCCTTTCTAAAGCCCACACA
** *
147617 AACTGGTGGCAACCC-TTCTAAGGCCCACACA
1 AGTTGGTGGCAACCCTTTCTAAAGCCCACACA
* * *
147648 AGTTGGTGGCAATCTTTTCTGAAGCCCACACA
1 AGTTGGTGGCAACCCTTTCTAAAGCCCACACA
**
147680 AGTCAGTGGCAACCCTTT-T-AAGCCCA
1 AGTTGGTGGCAACCCTTTCTAAAGCCCA
147706 ATGTCATTAT
Statistics
Matches: 124, Mismatches: 24, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
29 9 0.07
30 17 0.14
31 29 0.23
32 69 0.56
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (32 bp):
AGTTGGTGGCAACCCTTTCTAAAGCCCACACA
Found at i:147689 original size:63 final size:62
Alignment explanation
Indices: 147549--147705 Score: 192
Period size: 63 Copynumber: 2.5 Consensus size: 62
147539 TTAAGAAGCC
* *
147549 CACAAGTCGGTGGCAACCCTTTCAAAAGCCCACACAAGTTGGTGGCATCTCTTTCTAAAGCCGA
1 CACAAGTCGGTGGCAACCC-TTC-TAAGCCCACACAAGTTGGTGGCATCTCTTTCTAAAGCCCA
* * *
147613 CATAA-ACTGGTGGCAACCCTTCTAAGGCCCACACAAGTTGGTGGCAATCT-TTTCTGAAGCCCA
1 CACAAGTC-GGTGGCAACCCTTCTAA-GCCCACACAAGTTGGTGGC-ATCTCTTTCTAAAGCCCA
* *
147676 CACAAGTCAGTGGCAACCCTTTTAAGCCCA
1 CACAAGTCGGTGGCAACCCTTCTAAGCCCA
147706 ATGTCATTAT
Statistics
Matches: 80, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
62 7 0.09
63 53 0.66
64 20 0.25
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (62 bp):
CACAAGTCGGTGGCAACCCTTCTAAGCCCACACAAGTTGGTGGCATCTCTTTCTAAAGCCCA
Found at i:148164 original size:50 final size:50
Alignment explanation
Indices: 148096--148251 Score: 172
Period size: 50 Copynumber: 3.1 Consensus size: 50
148086 GTCTCAACGG
* **
148096 TCGA-AAATTTTAAATTTTTA-CTATTTGTATCGATACATTATTCATTGTA
1 TCGATAAATTTT-AGTTTTTACCTAGATGTATCGATACATTATTCATTGTA
* * *
148145 TCGATAAATTTTGAGTTTTTACCCAGATGTCTCGATACATTCTTCATTGTA
1 TCGATAAATTTT-AGTTTTTACCTAGATGTATCGATACATTATTCATTGTA
* * * * *
148196 TTGATACATTCTAGATTTTACCTAGATGTATCGATACATTATTCAATGTA
1 TCGATAAATTTTAGTTTTTACCTAGATGTATCGATACATTATTCATTGTA
*
148246 TTGATA
1 TCGATA
148252 CATGCAGGCA
Statistics
Matches: 90, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
49 4 0.04
50 53 0.59
51 33 0.37
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (50 bp):
TCGATAAATTTTAGTTTTTACCTAGATGTATCGATACATTATTCATTGTA
Found at i:148252 original size:50 final size:51
Alignment explanation
Indices: 148121--148254 Score: 189
Period size: 50 Copynumber: 2.6 Consensus size: 51
148111 TTTTACTATT
* * * *
148121 TGTATCGATACATTATTCATTGTATCGATAAATTTTGAGTTTTTACCCAGA
1 TGTATCGATACATTATTCATTGTATTGATACATTCTGAGATTTTACCCAGA
* * *
148172 TGTCTCGATACATTCTTCATTGTATTGATACATTCT-AGATTTTACCTAGA
1 TGTATCGATACATTATTCATTGTATTGATACATTCTGAGATTTTACCCAGA
*
148222 TGTATCGATACATTATTCAATGTATTGATACAT
1 TGTATCGATACATTATTCATTGTATTGATACAT
148255 GCAGGCAAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 42 0.58
51 31 0.42
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (51 bp):
TGTATCGATACATTATTCATTGTATTGATACATTCTGAGATTTTACCCAGA
Found at i:162127 original size:21 final size:21
Alignment explanation
Indices: 162101--162186 Score: 104
Period size: 21 Copynumber: 4.1 Consensus size: 21
162091 CGTCCTTCGT
162101 AAAGAAAAAAAAACAAACAAA
1 AAAGAAAAAAAAACAAACAAA
* *
162122 AAAGAAAAAAACACAAAAAAA
1 AAAGAAAAAAAAACAAACAAA
* *
162143 AAACAAAAAAGAAACCAA-AAA
1 AAAGAAAAAA-AAACAAACAAA
162164 AAAGAAAACAAAAA-AAACAAA
1 AAAGAAAA-AAAAACAAACAAA
162185 AA
1 AA
162187 CAAACAAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
20 2 0.04
21 46 0.84
22 7 0.13
ACGTcount: A:0.85, C:0.10, G:0.05, T:0.00
Consensus pattern (21 bp):
AAAGAAAAAAAAACAAACAAA
Found at i:162163 original size:39 final size:41
Alignment explanation
Indices: 162108--162190 Score: 109
Period size: 39 Copynumber: 2.1 Consensus size: 41
162098 CGTAAAGAAA
*
162108 AAAAAACAAACAAAAAAGAAA-AAAAC-ACAAAAA-AAAAAC
1 AAAAAACAAACAAAAAA-AAAGAAAACAAAAAAAACAAAAAC
* *
162147 AAAAAAGAAACCAAAAAAAAGAAAACAAAAAAAACAAAAAC
1 AAAAAACAAACAAAAAAAAAGAAAACAAAAAAAACAAAAAC
162188 AAA
1 AAA
162191 CAAAAAAGGG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 3 0.08
39 20 0.53
40 6 0.16
41 9 0.24
ACGTcount: A:0.84, C:0.12, G:0.04, T:0.00
Consensus pattern (41 bp):
AAAAAACAAACAAAAAAAAAGAAAACAAAAAAAACAAAAAC
Found at i:162205 original size:19 final size:19
Alignment explanation
Indices: 162105--162197 Score: 95
Period size: 19 Copynumber: 5.1 Consensus size: 19
162095 CTTCGTAAAG
162105 AAAAAAAAACAAACAAAAA
1 AAAAAAAAACAAACAAAAA
*
162124 AGAAAAAAAC--ACAAAAA
1 AAAAAAAAACAAACAAAAA
* * *
162141 AAAAACAAA-AAAGAAACCA
1 AAAAAAAAACAAACAAA-AA
*
162160 AAAAAAAGA-AAACAAAAA
1 AAAAAAAAACAAACAAAAA
*
162178 AAACAAAAACAAACAAAAA
1 AAAAAAAAACAAACAAAAA
162197 A
1 A
162198 GGGAAAAAGG
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
17 14 0.24
18 12 0.20
19 33 0.56
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (19 bp):
AAAAAAAAACAAACAAAAA
Found at i:162213 original size:1 final size:1
Alignment explanation
Indices: 162105--162197 Score: 60
Period size: 1 Copynumber: 93.0 Consensus size: 1
162095 CTTCGTAAAG
* * * * * * * ** *
162105 AAAAAAAAACAAACAAAAAAGAAAAAAACACAAAAAAAAAACAAAAAAGAAACCAAAAAAAAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
162170 AACAAAAAAAACAAAAACAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
162198 GGGAAAAAGG
Statistics
Matches: 66, Mismatches: 26, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:163585 original size:28 final size:28
Alignment explanation
Indices: 163543--163613 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
163533 TTCTCAAAGC
* *
163543 CCACTAGTTAATGGCACCTC-TTCGAAG
1 CCACAAGTTAGTGGCACCTCTTTCGAAG
*
163570 TCCACAAGTTAGTGGCA-TTCTTTCGAAG
1 -CCACAAGTTAGTGGCACCTCTTTCGAAG
163598 CCACAA-TTAGTGGCAC
1 CCACAAGTTAGTGGCAC
163614 TTGCTATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
26 9 0.24
27 8 0.21
28 21 0.55
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (28 bp):
CCACAAGTTAGTGGCACCTCTTTCGAAG
Found at i:163830 original size:32 final size:32
Alignment explanation
Indices: 163785--164072 Score: 295
Period size: 32 Copynumber: 9.0 Consensus size: 32
163775 CCAGTGGAGA
*
163785 AACCTTCTT-CAAAGCCTACACAAGTCGGTGGC
1 AACCTT-TTCCAAAGCCCACACAAGTCGGTGGC
* *
163817 AATCTTTTCCAAAGCCCACACAAGTTGGTGGC
1 AACCTTTTCCAAAGCCCACACAAGTCGGTGGC
* *
163849 GACCTTTTCTAAAGCCCACACAAGTCGGTGGC
1 AACCTTTTCCAAAGCCCACACAAGTCGGTGGC
*
163881 AACACTTTAT--AAAGCCCACACAAGTTGGTGGC
1 AAC-CTTT-TCCAAAGCCCACACAAGTCGGTGGC
* * * *
163913 AACCCTTTCTAAAGCCCGCACAAGTCGTTGGC
1 AACCTTTTCCAAAGCCCACACAAGTCGGTGGC
* *
163945 AATAC-TTTCTAAAGCCCACACAAGTCGGTGGC
1 AA-CCTTTTCCAAAGCCCACACAAGTCGGTGGC
* *
163977 AACCCTTT-CAAAGCCCACACAAG-CTGGTGGTG
1 AACCTTTTCCAAAGCCCACACAAGTC-GGTGG-C
*
164009 ACCCTTCTT--AAAGCCCACACAAGTCGGTGGC
1 AACCTT-TTCCAAAGCCCACACAAGTCGGTGGC
* * *
164040 AACCCTTTCAAAAGCCCACACAAGTTGGTGGC
1 AACCTTTTCCAAAGCCCACACAAGTCGGTGGC
164072 A
1 A
164073 TCTTTTTCTA
Statistics
Matches: 218, Mismatches: 25, Indels: 26
0.81 0.09 0.10
Matches are distributed among these distances:
30 4 0.02
31 29 0.13
32 176 0.81
33 8 0.04
34 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (32 bp):
AACCTTTTCCAAAGCCCACACAAGTCGGTGGC
Found at i:163895 original size:64 final size:62
Alignment explanation
Indices: 163792--164072 Score: 350
Period size: 64 Copynumber: 4.4 Consensus size: 62
163782 AGAAACCTTC
* * * * *
163792 TTCAAAGCCTACACAAGTCGGTGGCAA-TCTTTTCCAAAGCCCACACAAGTTGGTGGCGACCTT
1 TTCAAAGCCCACACAAGTCGGTGGCAACACTTTT--AAAGCCCACACAAGTCGGTGGCAACCCT
*
163855 TTCTAAAGCCCACACAAGTCGGTGGCAACACTTTATAAAGCCCACACAAGTTGGTGGCAACCCT
1 TTC-AAAGCCCACACAAGTCGGTGGCAACACTTT-TAAAGCCCACACAAGTCGGTGGCAACCCT
* * *
163919 TTCTAAAGCCCGCACAAGTCGTTGGCAATACTTTCTAAAGCCCACACAAGTCGGTGGCAACCCT
1 TTC-AAAGCCCACACAAGTCGGTGGCAACACTTT-TAAAGCCCACACAAGTCGGTGGCAACCCT
** *
163983 TTCAAAGCCCACACAAG-CTGGTGGTGACCCTTCTTAAAGCCCACACAAGTCGGTGGCAACCCT
1 TTCAAAGCCCACACAAGTC-GGTGGCAACACTT-TTAAAGCCCACACAAGTCGGTGGCAACCCT
*
164046 TTCAAAAGCCCACACAAGTTGGTGGCA
1 TTC-AAAGCCCACACAAGTCGGTGGCA
164073 TCTTTTTCTA
Statistics
Matches: 193, Mismatches: 18, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
62 1 0.01
63 56 0.29
64 131 0.68
65 4 0.02
66 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (62 bp):
TTCAAAGCCCACACAAGTCGGTGGCAACACTTTTAAAGCCCACACAAGTCGGTGGCAACCCT
Found at i:164129 original size:159 final size:159
Alignment explanation
Indices: 163795--164086 Score: 419
Period size: 159 Copynumber: 1.8 Consensus size: 159
163785 AACCTTCTTC
* * * * *
163795 AAAGCCTACACAAGTCGGTGGCAATCTTTTCCAAAGCCCACACAAGTTGGTGGCGACCTTTTCTA
1 AAAGCCCACACAAGTCGGTGGCAACCCTTTCCAAAGCCCACACAAGCTGGTGGCGACCTTCTCTA
163860 AAGCCCACACAAGTCGGTGGCAACACTTTATAAAGCCCACACAAGTTGGTGGCAACCCTTTCTAA
66 AAGCCCACACAAGTCGGTGGCAACACTTTATAAAGCCCACACAAGTTGGTGGCAACCCTTTCTAA
* **
163925 AGCCCGCACAAGTCGTTGGCAATACTTTCT
131 A-CCCGCACAAGTCGTTGGCAATAATAGCT
*
163955 AAAGCCCACACAAGTCGGTGGCAACCCTTT-CAAAGCCCACACAAGCTGGTGGTGACCCTTCT-T
1 AAAGCCCACACAAGTCGGTGGCAACCCTTTCCAAAGCCCACACAAGCTGGTGGCGA-CCTTCTCT
* * **
164018 AAAGCCCACACAAGTCGGTGGCAACCCTTTCA-AAAGCCCACACAAGTTGGTGGCATCTTTTTCT
65 AAAGCCCACACAAGTCGGTGGCAACACTTT-ATAAAGCCCACACAAGTTGGTGGCAACCCTTTCT
164082 AAACC
129 AAACC
164087 TAAAGTCGTT
Statistics
Matches: 120, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
158 2 0.02
159 85 0.71
160 33 0.28
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (159 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTTTCCAAAGCCCACACAAGCTGGTGGCGACCTTCTCTA
AAGCCCACACAAGTCGGTGGCAACACTTTATAAAGCCCACACAAGTTGGTGGCAACCCTTTCTAA
ACCCGCACAAGTCGTTGGCAATAATAGCT
Found at i:164310 original size:52 final size:50
Alignment explanation
Indices: 164248--164425 Score: 158
Period size: 52 Copynumber: 3.4 Consensus size: 50
164238 TCTGATATCG
* *
164248 CTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCA
1 CTGGCCTTGAATCAGCACATTGGCATCTTT-ACA-TCTTAAGCCCAATGTCA
* * * * *
164300 CTGGCCTTGAATCAACACATTGGCATTCTTTTCATCTTCAAGTCTAATGTCG
1 CTGGCCTTGAATCAGCACATTGGCA-TCTTTACATCTT-AAGCCCAATGTCA
* * * * * *
164352 CTGGTCGTGAATCAGCACATTGACATTTTTCGCATCTTTAAGCCCAATATCA
1 CTGGCCTTGAATCAGCACATTGGCATCTTT-ACATC-TTAAGCCCAATGTCA
* * *
164404 CTAGCCTTGAATTAGCATATTG
1 CTGGCCTTGAATCAGCACATTG
164426 ACACTTTTCT
Statistics
Matches: 100, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
51 7 0.07
52 86 0.86
53 7 0.07
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.34
Consensus pattern (50 bp):
CTGGCCTTGAATCAGCACATTGGCATCTTTACATCTTAAGCCCAATGTCA
Found at i:164367 original size:104 final size:101
Alignment explanation
Indices: 164199--164415 Score: 238
Period size: 104 Copynumber: 2.1 Consensus size: 101
164189 TCCAATGCTG
* * * *
164199 CTGGCCTTGAATCATCACACTGGCACCATTATCTTTAAGTCTGATATCGCTGGCCTTGAATCAGC
1 CTGGCCTTGAATCAACACACTGGCACCATTATCTTCAAGTCTAATATCGCTGGCCGTGAATCAGC
* * *
164264 ATATTGGCATCTTTAACAT-TCCTAAGCCCAATGTCA
66 ACATTGACATCTTTAACATCT-CTAAGCCCAATATCA
* ** * *
164300 CTGGCCTTGAATCAACACATTGGCATTCTTTTCATCTTCAAGTCTAATGTCGCTGGTCGTGAATC
1 CTGGCCTTGAATCAACACACTGGCA--CCATT-ATCTTCAAGTCTAATATCGCTGGCCGTGAATC
* ** *
164365 AGCACATTGACATTTTTCGCATCTTTAAGCCCAATATCA
63 AGCACATTGACATCTTTAACATCTCTAAGCCCAATATCA
*
164404 CTAGCCTTGAAT
1 CTGGCCTTGAAT
164416 TAGCATATTG
Statistics
Matches: 95, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
101 23 0.24
103 3 0.03
104 68 0.72
105 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (101 bp):
CTGGCCTTGAATCAACACACTGGCACCATTATCTTCAAGTCTAATATCGCTGGCCGTGAATCAGC
ACATTGACATCTTTAACATCTCTAAGCCCAATATCA
Found at i:165217 original size:51 final size:50
Alignment explanation
Indices: 165156--165269 Score: 147
Period size: 51 Copynumber: 2.3 Consensus size: 50
165146 TTTTACTGTT
* * * * *
165156 TGTATCGATACATTTTTCATTGCATCGATACATTTTGAGTTTTTAACCAGA
1 TGTATCGATACATTCTTCATTGCATCGATACAGTCT-AGATTTTAACCAAA
* * *
165207 TGTATTGATACATTCTTCATTGTATCGATACAGTCTAGATTTTACCCAAA
1 TGTATCGATACATTCTTCATTGCATCGATACAGTCTAGATTTTAACCAAA
165257 TGTATCGATACAT
1 TGTATCGATACAT
165270 GCAGGTAAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
50 23 0.43
51 31 0.57
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (50 bp):
TGTATCGATACATTCTTCATTGCATCGATACAGTCTAGATTTTAACCAAA
Found at i:168604 original size:174 final size:174
Alignment explanation
Indices: 168398--168716 Score: 489
Period size: 174 Copynumber: 1.8 Consensus size: 174
168388 GTTCTTCTCA
* * * *
168398 TCTTTCACACCCGATATCGCTAGCCTTGAATCAGTATATCGACACCTTTATTATTCTTCTCATCT
1 TCTTTCACACCCAATATCGCTAGCCTTGAATCAGCATATCGACACCTTTATCATTCTTCGCATCT
* * *
168463 TTAAGT-TCATTGTCACTGACCTTGAATTAGTACATTGGCACTCTTCTCATCTTTATCATCTTTA
66 TTAAGTCT-AATGTCACTGACCTTGAATCAGCACATTGGCACTCTTCTCATCTTTATCATCTTTA
168527 AGTCTAGACCTTGAATCAACACATTAGCACTTATCAAATCTTTTT
130 AGTCTAGACCTTGAATCAACACATTAGCACTTATCAAATCTTTTT
* *
168572 TCTTTCA-AGCCCAATATCGTTGGCCTTGAATCAGCATATCGACACCTTTATCATTCTTCGCATC
1 TCTTTCACA-CCCAATATCGCTAGCCTTGAATCAGCATATCGACACCTTTATCATTCTTCGCATC
* * *
168636 TTTAAGTCTAATGTCACTGACCTTGAATCAGCACATTGGCATTTTTCTCATCTTTATCATTTTTA
65 TTTAAGTCTAATGTCACTGACCTTGAATCAGCACATTGGCACTCTTCTCATCTTTATCATCTTTA
*
168701 AGTCTAGGCCTTGAAT
130 AGTCTAGACCTTGAAT
168717 TTGCAGAGAT
Statistics
Matches: 130, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
173 1 0.01
174 128 0.98
175 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.39
Consensus pattern (174 bp):
TCTTTCACACCCAATATCGCTAGCCTTGAATCAGCATATCGACACCTTTATCATTCTTCGCATCT
TTAAGTCTAATGTCACTGACCTTGAATCAGCACATTGGCACTCTTCTCATCTTTATCATCTTTAA
GTCTAGACCTTGAATCAACACATTAGCACTTATCAAATCTTTTT
Found at i:169430 original size:22 final size:20
Alignment explanation
Indices: 169405--169491 Score: 63
Period size: 22 Copynumber: 4.1 Consensus size: 20
169395 AATAATGAAA
*
169405 AATCAAAAAATTCAAAAAAACT
1 AATCAAAAAAAT-AAAAAAA-T
169427 AATCAAAAAAATAAAAAAAT
1 AATCAAAAAAATAAAAAAAT
*
169447 CATCAAATCAAAAATATAAAATCAA-
1 AATC-AA--AAAAATA-AAAA--AAT
169472 AAT--AAAAAATAAAAAAAT
1 AATCAAAAAAATAAAAAAAT
169490 AA
1 AA
169492 AAAAATGATG
Statistics
Matches: 55, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
17 2 0.04
18 2 0.04
19 4 0.07
20 11 0.20
21 9 0.16
22 12 0.22
23 7 0.13
24 4 0.07
25 2 0.04
26 2 0.04
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (20 bp):
AATCAAAAAAATAAAAAAAT
Found at i:169468 original size:14 final size:14
Alignment explanation
Indices: 169441--169493 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 14
169431 AAAAAAATAA
*
169441 AAAAATCATCAAATC
1 AAAAAT-ATAAAATC
169456 AAAAATATAAAATC
1 AAAAATATAAAATC
*
169470 -AAAATAAAAAAT-
1 AAAAATATAAAATC
*
169482 AAAAAAATAAAA
1 AAAAATATAAAA
169494 AAATGATGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 20 0.61
14 7 0.21
15 6 0.18
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAAATATAAAATC
Found at i:169472 original size:19 final size:18
Alignment explanation
Indices: 169427--169485 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 18
169417 CAAAAAAACT
169427 AATCAAAA-AAATAAA-AA
1 AATCAAAATAAA-AAATAA
169444 AATCATCAAATCAAAAATATAA
1 AATCA--AAAT-AAAAA-ATAA
169466 AATCAAAATAAAAAATAA
1 AATCAAAATAAAAAATAA
169484 AA
1 AA
169486 AAATAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
17 5 0.14
18 6 0.17
19 8 0.22
20 6 0.17
21 4 0.11
22 7 0.19
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (18 bp):
AATCAAAATAAAAAATAA
Found at i:170041 original size:18 final size:18
Alignment explanation
Indices: 170018--170086 Score: 84
Period size: 18 Copynumber: 3.6 Consensus size: 18
170008 AGGTAATACG
*
170018 AGCAAGCAAGAGGTGATC
1 AGCAAGCAAGAGGCGATC
*
170036 AGCAAGCAAGAGAAGCAATAC
1 AGCAAGCAAGAG--GCGAT-C
170057 GAGCAAGCAAGAGGCGATC
1 -AGCAAGCAAGAGGCGATC
170076 AGCAAGCAAGA
1 AGCAAGCAAGA
170087 AAAGCAATAC
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
18 23 0.52
19 1 0.02
20 7 0.16
21 1 0.02
22 12 0.27
ACGTcount: A:0.45, C:0.19, G:0.30, T:0.06
Consensus pattern (18 bp):
AGCAAGCAAGAGGCGATC
Found at i:170044 original size:22 final size:22
Alignment explanation
Indices: 170018--170085 Score: 72
Period size: 20 Copynumber: 3.3 Consensus size: 22
170008 AGGTAATACG
*
170018 AGCAAGCAAGAGGTGATCAGCA
1 AGCAAGCAAGAGGCGATCAGCA
* * *
170040 AGCAAG--AGAAGCAAT-A-CG
1 AGCAAGCAAGAGGCGATCAGCA
170058 AGCAAGCAAGAGGCGATCAGCA
1 AGCAAGCAAGAGGCGATCAGCA
170080 AGCAAG
1 AGCAAG
170086 AAAAGCAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
18 7 0.20
19 1 0.03
20 13 0.37
21 1 0.03
22 13 0.37
ACGTcount: A:0.44, C:0.19, G:0.31, T:0.06
Consensus pattern (22 bp):
AGCAAGCAAGAGGCGATCAGCA
Found at i:170056 original size:40 final size:40
Alignment explanation
Indices: 170012--170105 Score: 170
Period size: 40 Copynumber: 2.4 Consensus size: 40
170002 AAAAGGAGGT
* *
170012 AATACGAGCAAGCAAGAGGTGATCAGCAAGCAAGAGAAGC
1 AATACGAGCAAGCAAGAGGCGATCAGCAAGCAAGAAAAGC
170052 AATACGAGCAAGCAAGAGGCGATCAGCAAGCAAGAAAAGC
1 AATACGAGCAAGCAAGAGGCGATCAGCAAGCAAGAAAAGC
170092 AATACGAGCAAGCA
1 AATACGAGCAAGCA
170106 TGATGAAGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.47, C:0.19, G:0.28, T:0.06
Consensus pattern (40 bp):
AATACGAGCAAGCAAGAGGCGATCAGCAAGCAAGAAAAGC
Found at i:170101 original size:18 final size:18
Alignment explanation
Indices: 170040--170103 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
170030 GTGATCAGCA
*
170040 AGCAAGAGAAGCAATACG
1 AGCAAGAAAAGCAATACG
* * *
170058 AGCAAGCAAGAGGCGATCAGCA
1 AGCAAG-AA-AAGCAAT-A-CG
170080 AGCAAGAAAAGCAATACG
1 AGCAAGAAAAGCAATACG
170098 AGCAAG
1 AGCAAG
170104 CATGATGAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
18 13 0.37
19 2 0.06
20 10 0.29
21 3 0.09
22 7 0.20
ACGTcount: A:0.48, C:0.19, G:0.28, T:0.05
Consensus pattern (18 bp):
AGCAAGAAAAGCAATACG
Found at i:170275 original size:34 final size:34
Alignment explanation
Indices: 170232--170305 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 34
170222 AAGGAGGGAG
* ** *
170232 GAGGCAGCACCGAATAGTAGCAGGGAGTTGCAAA
1 GAGGCAGCACCGAATAGCAGCAGGGAACTACAAA
*
170266 GAGGCAGCACCGAATAGCAGTAGGGAACTACAAA
1 GAGGCAGCACCGAATAGCAGCAGGGAACTACAAA
170300 GAGGCA
1 GAGGCA
170306 TCATCGAACA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.34, T:0.09
Consensus pattern (34 bp):
GAGGCAGCACCGAATAGCAGCAGGGAACTACAAA
Found at i:170334 original size:34 final size:34
Alignment explanation
Indices: 170232--170335 Score: 100
Period size: 34 Copynumber: 3.1 Consensus size: 34
170222 AAGGAGGGAG
* ** *
170232 GAGGCAGCACCGAATAGTAGCAGGGAGTTGCAAA
1 GAGGCAGCACCGAACAACAGCAGGGAGCTGCAAA
* * * * *
170266 GAGGCAGCACCGAATAGCAGTAGGGAACTACAAA
1 GAGGCAGCACCGAACAACAGCAGGGAGCTGCAAA
* * *
170300 GAGGCATCATCGAACAACAGCATGGAGCTGCAAA
1 GAGGCAGCACCGAACAACAGCAGGGAGCTGCAAA
170334 GA
1 GA
170336 AATAGGAAAA
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.38, C:0.20, G:0.31, T:0.11
Consensus pattern (34 bp):
GAGGCAGCACCGAACAACAGCAGGGAGCTGCAAA
Found at i:175985 original size:20 final size:20
Alignment explanation
Indices: 175962--176035 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
175952 ACAATTCAAA
175962 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
175982 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
176003 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
176023 GTATCGATACATG
1 GTATCGATACATG
176036 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:176006 original size:21 final size:21
Alignment explanation
Indices: 175980--176055 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
175970 ACATGTTGCA
175980 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
176001 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
176021 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
176042 ATGTATCGATACAT
1 ATGTATCGATACAT
176056 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:176013 original size:41 final size:41
Alignment explanation
Indices: 175962--176055 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
175952 ACAATTCAAA
175962 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
176003 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
176044 GTATCGATACAT
1 GTATCGATACAT
176056 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:176112 original size:13 final size:13
Alignment explanation
Indices: 176094--176119 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
176084 TACAGCAAGT
176094 ATGTATCGATACA
1 ATGTATCGATACA
176107 ATGTATCGATACA
1 ATGTATCGATACA
176120 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:176640 original size:34 final size:35
Alignment explanation
Indices: 176577--176643 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
176567 CTAAGTGATT
176577 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
176613 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
176644 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:179772 original size:13 final size:13
Alignment explanation
Indices: 179754--179778 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
179744 TTTTCCAAAT
179754 TGTATCGATACAA
1 TGTATCGATACAA
179767 TGTATCGATACA
1 TGTATCGATACA
179779 TTGCTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:181535 original size:20 final size:20
Alignment explanation
Indices: 181512--181585 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
181502 ACAATTCAAA
181512 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
181532 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
181553 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
181573 GTATCGATACATG
1 GTATCGATACATG
181586 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:181556 original size:21 final size:21
Alignment explanation
Indices: 181530--181605 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
181520 ACATGTTGCA
181530 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
181551 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
181571 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
181592 ATGTATCGATACAT
1 ATGTATCGATACAT
181606 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:181563 original size:41 final size:41
Alignment explanation
Indices: 181512--181605 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
181502 ACAATTCAAA
181512 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
181553 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
181594 GTATCGATACAT
1 GTATCGATACAT
181606 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:181662 original size:13 final size:13
Alignment explanation
Indices: 181644--181669 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
181634 TACAGCAAGT
181644 ATGTATCGATACA
1 ATGTATCGATACA
181657 ATGTATCGATACA
1 ATGTATCGATACA
181670 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:182190 original size:34 final size:35
Alignment explanation
Indices: 182127--182193 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
182117 CTAAGTGATT
182127 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
182163 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
182194 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:183178 original size:20 final size:21
Alignment explanation
Indices: 183153--183206 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
183143 CATTTTAAGC
*
183153 ATGTATCGATATATTCACT-T
1 ATGTATCGATACATTCACTAT
*
183173 ATGTATCGATACATTTACTAT
1 ATGTATCGATACATTCACTAT
*
183194 TTGTATCGATACA
1 ATGTATCGATACA
183207 AATTTTAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTCACTAT
Found at i:188313 original size:61 final size:61
Alignment explanation
Indices: 188216--188969 Score: 664
Period size: 61 Copynumber: 12.0 Consensus size: 61
188206 AACCTTTTAT
* * * * *
188216 CCTTTTAGTCCTCAAAGAGGAGGATGCCTTTTCCTTTCAAAGCCCACACAAGTTAGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
188277 CATTTTAGTCCTCAAAGCGCAAGACGCCTTTTCCTTTTAAAACCCACACAAGTTGATGGAA
1 CCTTTTAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
188338 CCTTTTAGTCCTCAAAAAGTAAGACG-TTTTTCCCTTTTAAAGCCCACACAACTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGACGCCTTTT-CCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
188399 CTTTTTTAGTCTTCAAAGAGCAAGACACCTTTTCCTTTCAAATCTCACAAAAGTTGGTGGCA
1 C-CTTTTAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
188461 CCTTTTAGTCTTCAAAGAGCAGGATGCCTTTCCCTTTTAAAGCCCACATAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
188522 TCTTTTTTTAGTCCTCAAAGAG-AAGGATGCCTTTTTCTTTTCAAATG-CCACACAAGTTGGTGG
1 -C--CTTTTAGTCCTCAAAGAGCAA-GACGCCTTTTCCTTTT-AAA-GCCCACACAAGTTGGTGG
188585 CA
60 CA
* * * * *
188587 -CTTTTCAATCCTCCAAA-AGCATGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGTA
1 CCTTTT-AGTCCT-CAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** * * *
188648 CCTTCTAGTCCTCAAAGAGTGAGACAG--TTTT-CTTTAAAAGCCCACACAAGCTAGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGAC-GCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
188707 CCTTTTAGTCCTCAAAGAGTC-GGACGCCTTTTCTTTTTAAAACCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAG-CAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
188768 CCTTTTAGTCCTCAAAGAGCAGGAAACTCCCCTTTTTCTTTTAAAGCCCACACAAGCTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCA--AGA--CGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
188833 CCTTTTACTCCTCAAAGAGTAGGATGCCTCTTTCTTTTTCTTTTTAAAAGCCCACAAAAGTTGGT
1 CCTTTTAGTCCTCAAAGAGCAAGACGCCT-TTTC-----C-TTTT-AAAGCCCACACAAGTTGGT
188898 GGCA
58 GGCA
* * * * *
188902 CTTTTTTTTAGTCCTCAAAGAGTAAGAC-TCTTTTTCTATCTCAAAGCCCACACAAGTTGGTGGC
1 C---CTTTTAGTCCTCAAAGAGCAAGACGCCTTTTCCT-T-TTAAAGCCCACACAAGTTGGTGGC
188966 A
61 A
188967 CCT
1 CCT
188970 ATCTACTTTA
Statistics
Matches: 560, Mismatches: 95, Indels: 75
0.77 0.13 0.10
Matches are distributed among these distances:
58 1 0.00
59 45 0.08
60 17 0.03
61 228 0.41
62 76 0.14
63 12 0.02
64 31 0.06
65 96 0.17
66 2 0.00
67 1 0.00
68 4 0.01
69 22 0.04
70 3 0.01
71 2 0.00
72 20 0.04
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (61 bp):
CCTTTTAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:188613 original size:126 final size:121
Alignment explanation
Indices: 188216--188969 Score: 687
Period size: 123 Copynumber: 6.0 Consensus size: 121
188206 AACCTTTTAT
* * * * *
188216 CCTTTTAGTCCTCAAAGAGGAGGATGCCTTTTCCTTTCAAAGCCCACACAAGTTAGTGGCACATT
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
* * * * *
188281 TTAGTCCTCAAAGCGCAAGACGCCTTTTCCTTTTAAAACCCACACAAGTTGATGGAA
66 TTAGTCCTCAAAGAGCAAGA-GCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * ** *
188338 CCTTTTAGTCCTCAAAAAGTAAGACGTTTTTCCCTTTTAAAGCCCACACAACTTGGTGGCACTTT
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTCCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TT
* * * * * * *
188403 TTTAGTCTTCAAAGAGCAAGACACCTTTTCCTTTCAAATCTCACAAAAGTTGGTGGCA
65 TTTAGTCCTCAAAGAGCAAGA-GCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
188461 CCTTTTAGTCTTCAAAGAGCAGGATGCCTTTCCCTTTTAAAGCCCACATAAGTTGGTGGCATCTT
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTCCCTTTTAAAGCCCACACAAGTTGGTGGCA-C--
188526 TTTTTAGTCCTCAAAGAG-AAGGATGCCTTTTTCTTTTCAAATG-CCACACAAGTTGGTGGCA
63 TTTTTAGTCCTCAAAGAGCAA-GA-GCCTTTTTCTTTT-AAA-GCCCACACAAGTTGGTGGCA
* * *
188587 -CTTTTCAATCCTCCAAA-AGCATGATGCC-TTCTCCTTTTAAAGCCCACACAAGTTGGTGGTAC
1 CCTTTT-AGTCCT-CAAAGAGCAGGATGCCTTTC-CCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * ** ** * * *
188649 CTTCTAGTCCTCAAAGAGTGAGA-CAGTTTTCTTTAAAAGCCCACACAAGCTAGTGGCA
63 TTTTTAGTCCTCAAAGAGCAAGAGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
188707 CCTTTTAGTCCTCAAAGAGTC-GGACGCCTTTTCTTTTTAAAACCCACACAAGTTGGTGGCACCT
1 CCTTTTAGTCCTCAAAGAG-CAGGATGCCTTTCCCTTTTAAAGCCCACACAAGTTGGTGGCACTT
* * *
188771 TTTAGTCCTCAAAGAGCAGGAAACTCCCCTTTTTCTTTTAAAGCCCACACAAGCTGGTGGCA
65 TTTAGTCCTCAAAGAGCA--AGA---GCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
188833 CCTTTTACTCCTCAAAGAGTAGGATGCCTCTTTCTTTTTCTTTTTAAAAGCCCACAAAAGTTGGT
1 CCTTTTAGTCCTCAAAGAGCAGGATG-C-CTTTC-----CCTTTT-AAAGCCCACACAAGTTGGT
* *
188898 GGCACTTTTTTTTAGTCCTCAAAGAGTAAGA-CTCTTTTTCTATCTCAAAGCCCACACAAGTTGG
58 GGCAC---TTTTTAGTCCTCAAAGAGCAAGAGC-CTTTTTCT-T-TTAAAGCCCACACAAGTTGG
188962 TGGCA
117 TGGCA
188967 CCT
1 CCT
188970 ATCTACTTTA
Statistics
Matches: 520, Mismatches: 76, Indels: 60
0.79 0.12 0.09
Matches are distributed among these distances:
119 5 0.01
120 75 0.14
121 17 0.03
122 54 0.10
123 120 0.23
124 4 0.01
125 39 0.08
126 113 0.22
127 5 0.01
128 4 0.01
131 1 0.00
132 8 0.02
133 7 0.01
134 48 0.09
135 2 0.00
137 18 0.03
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (121 bp):
CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
TTAGTCCTCAAAGAGCAAGAGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:189501 original size:20 final size:21
Alignment explanation
Indices: 189457--189510 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
189447 TTCTATAATT
*
189457 TGTATCGATACAAATAGTAAA
1 TGTATCGATACATATAGTAAA
*
189478 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATATAGTAAA
189498 TGTATCGATACAT
1 TGTATCGATACAT
189511 GCCTAAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (21 bp):
TGTATCGATACATATAGTAAA
Found at i:191544 original size:9 final size:9
Alignment explanation
Indices: 191530--191560 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
191520 AAAAATTTCA
191530 TTTGCAATT
1 TTTGCAATT
191539 TTTGCAATTT
1 TTTGCAA-TT
191549 TTTGCAATT
1 TTTGCAATT
191558 TTT
1 TTT
191561 CACCTATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.61
Consensus pattern (9 bp):
TTTGCAATT
Found at i:191552 original size:10 final size:10
Alignment explanation
Indices: 191530--191560 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
191520 AAAAATTTCA
191530 TTTGCAA-TT
1 TTTGCAATTT
191539 TTTGCAATTT
1 TTTGCAATTT
191549 TTTGCAATTT
1 TTTGCAATTT
191559 TT
1 TT
191561 CACCTATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.33
10 14 0.67
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.61
Consensus pattern (10 bp):
TTTGCAATTT
Found at i:192220 original size:79 final size:79
Alignment explanation
Indices: 192069--192815 Score: 741
Period size: 79 Copynumber: 9.5 Consensus size: 79
192059 TTTTACCATC
* * ** * * * *
192069 GGGGATACTCCAACCACGTTTTTATTTCCAAAATATTAACTTTTCACTATTGGGGATACTCTAAC
1 GGGGATACTCCAACCCCATTTTTATTTCCAAAATATCGATTTTTCACCATCGGGGATACTCCAAC
*
192134 CCTGTTATTTCTGA
66 CCCGTTATTTCTGA
* * *
192148 GGGGATACTCCAACCCCATTTTTATTTCCAAAATATCGATTTTTCACCATCGAGGACACTCCAAT
1 GGGGATACTCCAACCCCATTTTTATTTCCAAAATATCGATTTTTCACCATCGGGGATACTCCAAC
*
192213 CTCGTTATTT-TCGA
66 CCCGTTATTTCT-GA
* * * *
192227 GGAGATACTCCAA-CCCATTTTTATTTCCAAAATATCGACTTTTCACCATCGAGGATAGTCCAAC
1 GGGGATACTCCAACCCCATTTTTATTTCCAAAATATCGATTTTTCACCATCGGGGATACTCCAAC
*
192291 CTCGTTATTTCTGA
66 CCCGTTATTTCTGA
* * * * * *
192305 GGGGACACTCTAACCCCGTTTTTATTTCCAAAATATTGACTTTTCACCAACGGGGATACTCCAAC
1 GGGGATACTCCAACCCCATTTTTATTTCCAAAATATCGATTTTTCACCATCGGGGATACTCCAAC
*** ** **
192370 CCTACTGCTTCCAA
66 CCCGTTATTTCTGA
* * * * * * * * *
192384 AGGGACACTACAACCCCGTTTTTATTTCCTAAATGTCAATTTTTTACCATTGGGGATACTCCAAC
1 GGGGATACTCCAACCCCATTTTTATTTCCAAAATATCGATTTTTCACCATCGGGGATACTCCAAC
* * *
192449 CTCGTTATTTTTAA
66 CCCGTTATTTCTGA
* ** *
192463 GGAGATACTCCAACCCCATTTTTATTTCCAAAATATCGATTTTTCCATTATCGGGGATACACCAA
1 GGGGATACTCCAACCCCATTTTTATTTCCAAAATATCGATTTTT-CACCATCGGGGATACTCCAA
** *
192528 CCCCACTATTTTTGA
65 CCCCGTTATTTCTGA
** * * *
192543 GACGATACTCCAAACCCATTTTTATTTCCAAAATATCAATTTTTCTACCATCAGGGATACTCCAA
1 GGGGATACTCCAACCCCATTTTTATTTCCAAAATATCGATTTTTC-ACCATCGGGGATACTCCAA
* *
192608 CCCCTTTATTTTTGA
65 CCCCGTTATTTCTGA
* *
192623 GGGGATACTCCAACCCCATTTTTATTTCCAAAATATTGATTTTTCACCATCGGGGATACTCCAAT
1 GGGGATACTCCAACCCCATTTTTATTTCCAAAATATCGATTTTTCACCATCGGGGATACTCCAAC
* *
192688 CCCATTATTT-TCAA
66 CCCGTTATTTCT-GA
** * ** * * *
192702 GAAGATACTCCAACCACAACTTTATTTCCAAAATATCAATTTTTCACCATCAGGGATATTCCAAC
1 GGGGATACTCCAACCCCATTTTTATTTCCAAAATATCGATTTTTCACCATCGGGGATACTCCAAC
192767 CCTC-TTATTTC-GA
66 CC-CGTTATTTCTGA
** * *
192780 GGGGATA-TGCCAATGCTATTTTTATCTCCAAAATAT
1 GGGGATACT-CCAACCCCATTTTTATTTCCAAAATAT
192816 TAAATTTTTC
Statistics
Matches: 550, Mismatches: 109, Indels: 19
0.81 0.16 0.03
Matches are distributed among these distances:
77 1 0.00
78 97 0.18
79 317 0.58
80 135 0.25
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (79 bp):
GGGGATACTCCAACCCCATTTTTATTTCCAAAATATCGATTTTTCACCATCGGGGATACTCCAAC
CCCGTTATTTCTGA
Found at i:193561 original size:45 final size:45
Alignment explanation
Indices: 193510--193603 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
193500 ACGTAGACTG
*
193510 TAGGATCGATGTTCCGAGTTTCATGACTTGAGACATAGGTTTTAA
1 TAGGATCGATGTTCCGAGTTTCATGACTTAAGACATAGGTTTTAA
* *
193555 TAGGATCGATGTTTCGAGTTTCGTGACTTAAGACATAGGTTTTAA
1 TAGGATCGATGTTCCGAGTTTCATGACTTAAGACATAGGTTTTAA
193600 TAGG
1 TAGG
193604 TATCCGATCA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.36
Consensus pattern (45 bp):
TAGGATCGATGTTCCGAGTTTCATGACTTAAGACATAGGTTTTAA
Found at i:194882 original size:20 final size:21
Alignment explanation
Indices: 194851--194889 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
194841 AGGTTAAAAC
194851 CCTAGAATGTATCGATACACA
1 CCTAGAATGTATCGATACACA
194872 CCTAG-ATGTATCGATACA
1 CCTAGAATGTATCGATACA
194890 TATTGCTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (21 bp):
CCTAGAATGTATCGATACACA
Found at i:195516 original size:36 final size:33
Alignment explanation
Indices: 195464--195556 Score: 100
Period size: 36 Copynumber: 2.8 Consensus size: 33
195454 CTAAGTGATT
* *
195464 GAGAAGTTCTACCTTAGCCTTTGAAAAAGATAGGG
1 GAGAGGTTCTATCTTAGCC-TTGAAAAAGATA-GG
*
195499 AGAGAGGTTCTATCTTAGCCCGTG-AAAAGATAGG
1 -GAGAGGTTCTATCTTAG-CCTTGAAAAAGATAGG
*
195533 GAG-GTTTCTATCTTAGCCTTGAAA
1 GAGAGGTTCTATCTTAGCCTTGAAA
195557 GATAGTGTTG
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
31 4 0.08
32 14 0.28
33 3 0.06
34 2 0.04
35 8 0.16
36 17 0.34
37 2 0.04
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (33 bp):
GAGAGGTTCTATCTTAGCCTTGAAAAAGATAGG
Found at i:197119 original size:21 final size:21
Alignment explanation
Indices: 197095--197153 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
197085 TAATATTCTT
* *
197095 GAAAAGAAATTAAGTGAATTA
1 GAAAAGAAAATAAATGAATTA
197116 GAAAAGAAAATAAATGAATTA
1 GAAAAGAAAATAAATGAATTA
** *
197137 GAGGAGAAAAGAAATGA
1 GAAAAGAAAATAAATGA
197154 GTTGCAAGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.17
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAATTA
Found at i:200300 original size:20 final size:21
Alignment explanation
Indices: 200261--200304 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
200251 TTAAGTATAG
200261 ATGTTTTTCAACCATAAAAATA
1 ATGTTTTTCAA-CATAAAAATA
*
200283 ATGTTTTTCAA-GTAAAAATA
1 ATGTTTTTCAACATAAAAATA
200303 AT
1 AT
200305 TCAAAGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
22 11 0.52
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (21 bp):
ATGTTTTTCAACATAAAAATA
Found at i:200384 original size:20 final size:21
Alignment explanation
Indices: 200353--200391 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
200343 AGGTCAAAAC
200353 CCTAGAATGTATCGATACACA
1 CCTAGAATGTATCGATACACA
200374 CCTAG-ATGTATCGATACA
1 CCTAGAATGTATCGATACA
200392 TATTGCTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (21 bp):
CCTAGAATGTATCGATACACA
Found at i:200419 original size:13 final size:13
Alignment explanation
Indices: 200401--200425 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
200391 ATATTGCTAA
200401 GTATCGATACATT
1 GTATCGATACATT
200414 GTATCGATACAT
1 GTATCGATACAT
200426 GTTGTTGGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:200422 original size:33 final size:32
Alignment explanation
Indices: 200380--200443 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
200370 CACACCTAGA
200380 TGTATCGATACATATTGCTAAGTATCGATACAT
1 TGTATCGATACATATTG-TAAGTATCGATACAT
* **
200413 TGTATCGATACATGTTGTTGGTATCGATACA
1 TGTATCGATACATATTGTAAGTATCGATACA
200444 CACTGAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATATTGTAAGTATCGATACAT
Found at i:203178 original size:67 final size:68
Alignment explanation
Indices: 203089--203285 Score: 183
Period size: 67 Copynumber: 2.9 Consensus size: 68
203079 TCTCTTATGT
* * * *
203089 CACTTCCATCACTTTTCC-ATATACAAGTACATTTAATAAAGAAGTCAAACTTTGTGGTCCTATA
1 CACTTTCATCACTCTTCCTATATACAAGTACATTTAATAGAGAAGTCAAACTTTGTGGTCCCAT-
203153 GC-C
65 GCAC
* * * * * *
203156 CAC-TTCTATCACTC-TCGTATATACATGTTC-TTCTAATTGAGAAGTC-AATTGTTATGGTCCC
1 CACTTTC-ATCACTCTTCCTATATACAAGTACATT-TAATAGAGAAGTCAAACT-TTGTGGTCCC
203217 ATGCAC
63 ATGCAC
* * * *
203223 CACTTTCATCACTCTTCCTA-ATACAAGTACACTTAATGGAGAAGTCAAGCATTGTGGTCCCAT
1 CACTTTCATCACTCTTCCTATATACAAGTACATTTAATAGAGAAGTCAAACTTTGTGGTCCCAT
203286 ATGCCACTTT
Statistics
Matches: 102, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
66 11 0.11
67 82 0.80
68 9 0.09
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (68 bp):
CACTTTCATCACTCTTCCTATATACAAGTACATTTAATAGAGAAGTCAAACTTTGTGGTCCCATG
CAC
Found at i:208159 original size:19 final size:18
Alignment explanation
Indices: 208116--208163 Score: 71
Period size: 17 Copynumber: 2.7 Consensus size: 18
208106 TTTACAACTC
*
208116 TTAGATAATTA-TATTTA
1 TTAGATAAATATTATTTA
208133 TTAGATAAATATTATTTA
1 TTAGATAAATATTATTTA
208151 TTGAGATAAATAT
1 TT-AGATAAATAT
208164 GGAGTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 10 0.36
18 8 0.29
19 10 0.36
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (18 bp):
TTAGATAAATATTATTTA
Found at i:209965 original size:20 final size:20
Alignment explanation
Indices: 209921--209978 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
209911 ATTTCAACGA
***
209921 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATATTTT
*
209941 GTTGTATCGATACATATTTT
1 TTTGTATCGATACATATTTT
209961 TTTGTATCGATACA-ATTT
1 TTTGTATCGATACATATTT
209979 AAGCTACTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (20 bp):
TTTGTATCGATACATATTTT
Found at i:210035 original size:13 final size:13
Alignment explanation
Indices: 210017--210041 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
210007 ATCACTTAAA
210017 TGTATCGATACAT
1 TGTATCGATACAT
210030 TGTATCGATACA
1 TGTATCGATACA
210042 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:213632 original size:1 final size:1
Alignment explanation
Indices: 213626--213750 Score: 61
Period size: 1 Copynumber: 125.0 Consensus size: 1
213616 GGCGTCCTCC
** ** ** ** ** **
213626 AAAAAAAAAAAAAAAACCAAAAAAATGAAAAACCAAAAAAAAAAAAACGAAAAAATGAAAAACCA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * ** * * * * *
213691 AAAAAAAAAAACAACAAAAGGAAAAAAAACAAAAAACAATAAAAAAACAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
213751 GGGGGTCCGG
Statistics
Matches: 93, Mismatches: 31, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 93 1.00
ACGTcount: A:0.83, C:0.10, G:0.04, T:0.02
Consensus pattern (1 bp):
A
Found at i:213649 original size:15 final size:15
Alignment explanation
Indices: 213629--213750 Score: 118
Period size: 15 Copynumber: 7.7 Consensus size: 15
213619 GTCCTCCAAA
213629 AAAAAAAAAAAAACC
1 AAAAAAAAAAAAACC
*
213644 AAAAAAATGAAAAACC
1 AAAAAAA-AAAAAACC
*
213660 AAAAAAAAAAAAACG
1 AAAAAAAAAAAAACC
**
213675 AAAAAATGAAAAACC
1 AAAAAAAAAAAAACC
*
213690 AAAAAAAAAAAACAAC
1 AAAAAAAAAAAA-ACC
* *
213706 AAAAGGAAAAAAAACA
1 AAAA-AAAAAAAAACC
*
213722 AAAAACAATAAAAAAAC
1 AAAAA-AA-AAAAAACC
213739 AAACAAAAAAAA
1 AAA-AAAAAAAA
213751 GGGGGTCCGG
Statistics
Matches: 86, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
15 35 0.41
16 31 0.36
17 18 0.21
18 2 0.02
ACGTcount: A:0.83, C:0.11, G:0.04, T:0.02
Consensus pattern (15 bp):
AAAAAAAAAAAAACC
Found at i:213667 original size:31 final size:30
Alignment explanation
Indices: 213629--213737 Score: 134
Period size: 29 Copynumber: 3.7 Consensus size: 30
213619 GTCCTCCAAA
213629 AAAAAAAAAAAAACCAAAAAAATGAAAAACC
1 AAAAAAAAAAAAA-CAAAAAAATGAAAAACC
*
213660 AAAAAAAAAAAAACGAAAAAATGAAAAACC
1 AAAAAAAAAAAAACAAAAAAATGAAAAACC
* *
213690 -AAAAAAAAAAAACAACAAAAGGAAAAA--
1 AAAAAAAAAAAAACAAAAAAATGAAAAACC
* * *
213717 AAACAAAAAACAATAAAAAAA
1 AAAAAAAAAAAAACAAAAAAA
213738 CAAACAAAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
28 16 0.23
29 24 0.35
30 16 0.23
31 13 0.19
ACGTcount: A:0.83, C:0.10, G:0.05, T:0.03
Consensus pattern (30 bp):
AAAAAAAAAAAAACAAAAAAATGAAAAACC
Found at i:213687 original size:46 final size:45
Alignment explanation
Indices: 213626--213726 Score: 122
Period size: 46 Copynumber: 2.3 Consensus size: 45
213616 GGCGTCCTCC
213626 AAAAA-AAAAAA--AAAAACCAAAAAAATGAAAAAC-CAAAA-AAAA
1 AAAAACAAAAAATGAAAAACCAAAAAAA--AAAAACACAAAAGAAAA
*
213668 AAAAACGAAAAAATGAAAAACCAAAAAAAAAAAACAACAAAAGGAAA
1 AAAAAC-AAAAAATGAAAAACCAAAAAAAAAAAAC-ACAAAAGAAAA
213715 AAAAACAAAAAA
1 AAAAACAAAAAA
213727 CAATAAAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
42 5 0.10
44 12 0.24
46 25 0.49
47 9 0.18
ACGTcount: A:0.83, C:0.10, G:0.05, T:0.02
Consensus pattern (45 bp):
AAAAACAAAAAATGAAAAACCAAAAAAAAAAAACACAAAAGAAAA
Found at i:213737 original size:22 final size:22
Alignment explanation
Indices: 213690--213748 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
213680 ATGAAAAACC
*
213690 AAAAAAAAA-AAACAACAAAAG
1 AAAAAAAAACAAAAAACAAAAG
*
213711 GAAAAAAAACAAAAAACAATAA-
1 AAAAAAAAACAAAAAACAA-AAG
*
213733 AAAAACAAACAAAAAA
1 AAAAAAAAACAAAAAA
213749 AAGGGGGTCC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 8 0.25
22 22 0.69
23 2 0.06
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.02
Consensus pattern (22 bp):
AAAAAAAAACAAAAAACAAAAG
Found at i:215294 original size:27 final size:27
Alignment explanation
Indices: 215219--215304 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
215209 TGGCATTTTT
* ***
215219 TTCAAAGCCCACAAGTCAGTGGCATTTTT
1 TTCAAAGCCCACAAATCAGTGGCA--ACC
*
215248 TTCGAAAGCCCACAAGTCAGTGGCAACC
1 TTC-AAAGCCCACAAATCAGTGGCAACC
* *
215276 TTCAAAGTCCACAAATCAGTGGCACCC
1 TTCAAAGCCCACAAATCAGTGGCAACC
215303 TT
1 TT
215305 TTCCGAAGCC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
27 23 0.46
28 3 0.06
29 3 0.06
30 21 0.42
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (27 bp):
TTCAAAGCCCACAAATCAGTGGCAACC
Found at i:215505 original size:58 final size:59
Alignment explanation
Indices: 215189--215657 Score: 342
Period size: 58 Copynumber: 8.0 Consensus size: 59
215179 TTCATCACCC
* *** ***
215189 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTC-AAAGCCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACACTTTTCAAAAGCCCACAAGTCAGTGGCA-ACCT
* * * * *
215248 TTCGAAAGCCCACAAGTCAGTGGCA-AC-CTTC-AAAGTCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACACTTTTCAAAAGCCCACAAGTCAGTGGCAACC-T
** * * * * * *
215305 TTCCGAAGCCCACAAGTCGGTGGCA-TCTTTTCCAAAGTCCACAACTCCGTGGC-ACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACACTTTTCAAAAGCCCACAAGTCAGTGGCAAC-C--T
** * * * * *
215365 TTCTTTTGTAAGCTCACAACTCTA-TAGCACTCTTTTC---AGCCCACAAGTTAGTGGC-ACCTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCACACTTTTCAAAAGCCCACAAGTCAGTGGCAACC-T
* *
215425 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
1 TTCAAAAGCCCACAAGTCAGTGGCACACTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
* * * **
215484 TT-AAAAGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCACACTTTTCAAAAGCCCACAAGTCAGTGGCA-ACCT
*
215543 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTTT-AAAAGCCCACAAGTCAGTGGCAACC-
1 TTCAAAAGCCCACAAGTCAGTGGCACACTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
* * ** * *
215599 TTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCCACAAATCGGTGGC-ACCT
1 TTCAAAAGCCCACAAGTCAGTGGCACACTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
215656 TT
1 TT
215658 TCCATCTTTA
Statistics
Matches: 332, Mismatches: 57, Indels: 44
0.77 0.13 0.10
Matches are distributed among these distances:
55 21 0.06
56 30 0.09
57 66 0.20
58 73 0.22
59 69 0.21
60 34 0.10
61 1 0.00
62 16 0.05
64 15 0.05
65 7 0.02
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (59 bp):
TTCAAAAGCCCACAAGTCAGTGGCACACTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
Found at i:215550 original size:88 final size:86
Alignment explanation
Indices: 215402--215657 Score: 374
Period size: 88 Copynumber: 3.0 Consensus size: 86
215392 CACTCTTTTC
215402 AGCCCACAAGTTAGTGGCACCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCA
1 AGCCCACAAGTTAGTGGCACC-TTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCA
215467 CAAGTCAGTGGCAACCTTTAAA
65 CAAGTCAGTGGCAACCTTTAAA
215489 AGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
1 AGCCCACAAGTTAGTGGCA-CCT-TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
215554 ACAAGTCAGTGGCAACCTTTAAA
64 ACAAGTCAGTGGCAACCTTTAAA
* * *** **
215577 AGCCCACAAGTCAGTGGCAACC-TTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCCA
1 AGCCCACAAGTTAGTGGC-ACCTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCA
* *
215640 CAAATCGGTGGC-ACCTTT
65 CAAGTCAGTGGCAACCTTT
215658 TCCATCTTTA
Statistics
Matches: 157, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
84 6 0.04
85 42 0.27
86 3 0.02
87 20 0.13
88 85 0.54
89 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (86 bp):
AGCCCACAAGTTAGTGGCACCTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCAC
AAGTCAGTGGCAACCTTTAAA
Found at i:215639 original size:30 final size:30
Alignment explanation
Indices: 215193--215661 Score: 344
Period size: 30 Copynumber: 16.0 Consensus size: 30
215183 TCACCCTTCA
* ** *
215193 AAAGTCCACAAGTCAGTGGCA-TTTTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
*** *
215222 AAAGCCCACAAGTCAGTGGCATTTTTTTCG
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
*
215252 AAAGCCCACAAGTCAGTGGCAACC--TT-C
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* *
215279 AAAGTCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* * *
215309 GAAGCCCACAAGTCGGTGGCA-TCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* * * * *
215338 AAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTG
1 AAAGCCCACAAGTCAGTGGCAC-CCTTTTC----C
* * * * *
215373 TAAGCTCACAACTCTA-TAGCACTCTTTT-C
1 AAAGCCCACAAGTC-AGTGGCACCCTTTTCC
* *
215402 --AGCCCACAAGTTAGTGGCA-CCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
*** *
215429 AAAGCCCACAAGTCAGTGGCATATTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* *
215459 AAAGCCCACAAGTCAGTGGCAACC-TTT-A
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* * *
215487 AAAGCCCACAAGTTAGTGGCACCCTGTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
*** *
215517 AAAGCCCACAAGTCAGTGGCATATTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* *
215547 AAAGCCCACAAGTCAGTGGCAACC-TTT-A
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
*
215575 AAAGCCCACAAGTCAGTGGCAACC--TT-C
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
*
215602 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* * *
215632 GAAGCCCACAAATCGGTGGCA-CCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
215661 A
1 A
215662 TCTTTAAGTC
Statistics
Matches: 360, Mismatches: 59, Indels: 42
0.78 0.13 0.09
Matches are distributed among these distances:
26 6 0.02
27 58 0.16
28 50 0.14
29 82 0.23
30 139 0.39
31 5 0.01
34 4 0.01
35 16 0.04
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (30 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTTCC
Found at i:215705 original size:52 final size:52
Alignment explanation
Indices: 215648--215859 Score: 199
Period size: 52 Copynumber: 4.2 Consensus size: 52
215638 CACAAATCGG
* *
215648 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCCGACCTTGAATCAGCACAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* *
215700 TGGCA-------C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
*
215743 TGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* * * * * * * * *
215795 TGACATCCTTTTTCTCAGCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATAT
1 TGGCA-CC-TTTTC-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
*
215850 TGGCATCTTT
1 TGGCACCTTT
215860 ATCACTTTTC
Statistics
Matches: 129, Mismatches: 19, Indels: 23
0.75 0.11 0.13
Matches are distributed among these distances:
43 38 0.29
45 1 0.01
50 1 0.01
52 43 0.33
53 5 0.04
54 6 0.05
55 35 0.27
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (52 bp):
TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
Found at i:215731 original size:43 final size:43
Alignment explanation
Indices: 215663--215752 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
215653 CCTTTTCCAT
*
215663 CTTTAAGTCCAATGTAGCCGACCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
* * *
215706 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
215749 CTTT
1 CTTT
215753 TCCATCTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
Found at i:216666 original size:13 final size:13
Alignment explanation
Indices: 216648--216672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
216638 CATAAAGTGT
216648 TGTATCGATACAA
1 TGTATCGATACAA
216661 TGTATCGATACA
1 TGTATCGATACA
216673 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:216670 original size:33 final size:33
Alignment explanation
Indices: 216628--216694 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
216618 TTCAACGATT
216628 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
216661 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
216694 T
1 T
216695 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:216753 original size:13 final size:13
Alignment explanation
Indices: 216735--216759 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
216725 ATCACTTAAA
216735 TGTATCGATACAT
1 TGTATCGATACAT
216748 TGTATCGATACA
1 TGTATCGATACA
216760 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:222207 original size:96 final size:94
Alignment explanation
Indices: 221934--222236 Score: 385
Period size: 96 Copynumber: 3.1 Consensus size: 94
221924 AGAGGAATAA
* * * *
221934 GGTTAGAGTATCCCCGATGATGATAATTTAGGCAAAAAAAAGATTTAAATCTTAACAAGTTTAAA
1 GGTTAGAGTATCCCCAATGATGACAATTTAAGCAAAAAAAAGATTTAAATCTGAA-AAGTTTAAA
* *
221999 AACGAGGTTGGAGTATCCCCTCAAAAGAATAG
65 AATG-GGTTGGAGTATCCCCTCGAAAGAAT-G
* * *
222031 GGTTAGAATATCTCCAATGATGACAATTTAAGCAAAAAAAAAGATTTAAATCTTGATAAGTTTAA
1 GGTTAGAGTATCCCCAATGATGACAATTTAAGC-AAAAAAAAGATTTAAATC-TGAAAAGTTTAA
*
222096 AAATGGGGTT-GAGTATCTCCTCGAAAGAATG
64 AAAT-GGGTTGGAGTATCCCCTCGAAAGAATG
* * *
222127 GATTGGAGTATCCCCAATGATGACAATTTAAG-AAAAAATAAGATTTAAATCATGAAAAATTTAA
1 GGTTAGAGTATCCCCAATGATGACAATTTAAGCAAAAAA-AAGATTTAAATC-TGAAAAGTTTAA
*
222191 AAATGGGATTGGAGTATCCCCTCGAAAAAATG
64 AAATGGG-TTGGAGTATCCCCTCGAAAGAATG
222223 GGTTAGAGTATCCC
1 GGTTAGAGTATCCC
222237 TAATAAATAA
Statistics
Matches: 179, Mismatches: 21, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
94 9 0.05
95 28 0.16
96 60 0.34
97 46 0.26
98 33 0.18
99 3 0.02
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (94 bp):
GGTTAGAGTATCCCCAATGATGACAATTTAAGCAAAAAAAAGATTTAAATCTGAAAAGTTTAAAA
ATGGGTTGGAGTATCCCCTCGAAAGAATG
Found at i:224161 original size:13 final size:12
Alignment explanation
Indices: 224135--224168 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
224125 TTTGGCTAAG
224135 ATGTGGCTGGAA
1 ATGTGGCTGGAA
224147 ATGTGGCTAGGAA
1 ATGTGGCT-GGAA
*
224160 ATATGGCTG
1 ATGTGGCTG
224169 AAAGAAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.26, C:0.09, G:0.38, T:0.26
Consensus pattern (12 bp):
ATGTGGCTGGAA
Found at i:224617 original size:51 final size:52
Alignment explanation
Indices: 224503--224623 Score: 163
Period size: 52 Copynumber: 2.3 Consensus size: 52
224493 TTTAATTGGA
* * * * *
224503 GTATCGATACATTGAAGAATGTATCGATACATTTGGGTCAAAAACCCAGAAT
1 GTATCGATACAATAAAAAATGCATCGATACATTTGGATCAAAAACCCAGAAT
* * *
224555 GTATCGATACAATAAAAAATGCATCGATACATTTGGAT-TAAAACCTAGAGT
1 GTATCGATACAATAAAAAATGCATCGATACATTTGGATCAAAAACCCAGAAT
224606 GTATCGATACAATAAAAA
1 GTATCGATACAATAAAAA
224624 TGTATTAATA
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
51 28 0.46
52 33 0.54
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (52 bp):
GTATCGATACAATAAAAAATGCATCGATACATTTGGATCAAAAACCCAGAAT
Found at i:224701 original size:20 final size:21
Alignment explanation
Indices: 224676--224726 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
224666 ATAAGGTCCA
224676 TATCGATACATTCACTT-ATG
1 TATCGATACATTCACTTGATG
* *
224696 TATCGATACATTCACTTGTTT
1 TATCGATACATTCACTTGATG
224717 TATCGATACA
1 TATCGATACA
224727 AATTGTAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (21 bp):
TATCGATACATTCACTTGATG
Found at i:227445 original size:19 final size:19
Alignment explanation
Indices: 227430--227467 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
227420 AATACATGTT
227430 AATTGTATCGATACATGGAC
1 AATTGTATCGATACAT-GAC
227450 AATTGTATCGATACATGA
1 AATTGTATCGATACATGA
227468 GATTGGCAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (19 bp):
AATTGTATCGATACATGAC
Found at i:227521 original size:20 final size:20
Alignment explanation
Indices: 227496--227548 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
227486 TGCCACTGTT
227496 TGTATCGATACATGG-CACAA
1 TGTATCGATACATGGTCA-AA
* *
227516 TGTATCGATACATGGTGAAT
1 TGTATCGATACATGGTCAAA
227536 TGTATCGATACAT
1 TGTATCGATACAT
227549 AGCTTGTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATGGTCAAA
Found at i:232817 original size:19 final size:19
Alignment explanation
Indices: 232789--232830 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
232779 TTTGATGTTT
232789 ATTATGTTGTATGAT-TGA
1 ATTATGTTGTATGATATGA
*
232807 ATTATGCTTGTTTGATATGA
1 ATTATG-TTGTATGATATGA
232827 ATTA
1 ATTA
232831 GGGCCTATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 8 0.38
20 7 0.33
ACGTcount: A:0.29, C:0.02, G:0.19, T:0.50
Consensus pattern (19 bp):
ATTATGTTGTATGATATGA
Found at i:235503 original size:13 final size:13
Alignment explanation
Indices: 235485--235511 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
235475 ACATTATGCT
235485 TTGTATCGATACA
1 TTGTATCGATACA
235498 TTGTATCGATACA
1 TTGTATCGATACA
235511 T
1 T
235512 GTTAATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:235521 original size:19 final size:19
Alignment explanation
Indices: 235497--235552 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
235487 GTATCGATAC
**
235497 ATTGTATCGATACATGTTA
1 ATTGTATCGATACATGACA
235516 ATTGTATCGATACATGGACA
1 ATTGTATCGATACAT-GACA
235536 ATTGTATCGATACATGA
1 ATTGTATCGATACATGA
235553 GATTGGCAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
ATTGTATCGATACATGACA
Found at i:235540 original size:20 final size:20
Alignment explanation
Indices: 235497--235551 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
235487 GTATCGATAC
**
235497 ATTGTATCGATACAT-GTTA
1 ATTGTATCGATACATGGACA
235516 ATTGTATCGATACATGGACA
1 ATTGTATCGATACATGGACA
235536 ATTGTATCGATACATG
1 ATTGTATCGATACATG
235552 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:235619 original size:13 final size:13
Alignment explanation
Indices: 235601--235626 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
235591 CATGGCACAA
235601 TGTATCGATACAT
1 TGTATCGATACAT
235614 TGTATCGATACAT
1 TGTATCGATACAT
235627 GATAAATTGT
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:235630 original size:20 final size:20
Alignment explanation
Indices: 235607--235646 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
235597 ACAATGTATC
*
235607 GATACATTGTATCGATACAT
1 GATAAATTGTATCGATACAT
*
235627 GATAAATTGTATTGATACAT
1 GATAAATTGTATCGATACAT
235647 AGCTTGTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (20 bp):
GATAAATTGTATCGATACAT
Found at i:238818 original size:17 final size:17
Alignment explanation
Indices: 238798--238834 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
238788 TCATGATTGT
238798 AAAATTATAATTTTAAA
1 AAAATTATAATTTTAAA
*
238815 AAAATTATATTTTTAAA
1 AAAATTATAATTTTAAA
238832 AAA
1 AAA
238835 GTTAAATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATTATAATTTTAAA
Found at i:238846 original size:17 final size:17
Alignment explanation
Indices: 238798--238846 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
238788 TCATGATTGT
238798 AAAATTATAAT-TTTAAA
1 AAAATTA-AATCTTTAAA
* *
238815 AAAATTATATTTTTAAA
1 AAAATTAAATCTTTAAA
*
238832 AAAGTTAAATCTTTA
1 AAAATTAAATCTTTA
238847 TGACATACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 2 0.07
17 25 0.93
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
AAAATTAAATCTTTAAA
Found at i:239732 original size:2 final size:2
Alignment explanation
Indices: 239725--239755 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
239715 CGCACAATTA
239725 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
239756 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:239760 original size:2 final size:2
Alignment explanation
Indices: 239755--239783 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
239745 TCTCTCTCTC
239755 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
239784 TGGGTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:246125 original size:20 final size:20
Alignment explanation
Indices: 246082--246135 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
246072 TTCTACAATT
* *
246082 TGTATTGATACAATTAGTGTA
1 TGTATTGATAC-ATAAGTGAA
*
246103 TGTATCGATACATAAGTGAA
1 TGTATTGATACATAAGTGAA
246123 TGTATTGATACAT
1 TGTATTGATACAT
246136 GTCTCAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.39
Consensus pattern (20 bp):
TGTATTGATACATAAGTGAA
Found at i:246224 original size:20 final size:20
Alignment explanation
Indices: 246201--246257 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
246191 ATACATAAGT
246201 AAATGTATCGATACATTTCC
1 AAATGTATCGATACATTTCC
* *
246221 AAATGCATCGATACAATTTTC
1 AAATGTATCGATAC-ATTTCC
246242 --ATCGTATCGATACATT
1 AAAT-GTATCGATACATT
246258 CTAGGTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 5 0.16
20 22 0.69
21 5 0.16
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (20 bp):
AAATGTATCGATACATTTCC
Found at i:251193 original size:78 final size:79
Alignment explanation
Indices: 251096--251386 Score: 288
Period size: 78 Copynumber: 3.7 Consensus size: 79
251086 ACAAAAATAC
* ** * *
251096 ATAAAAAAGGGTTGGAGTATCCCTTTAGAAATGATGGGGTTAAAGTAT-CCTGATGGTGAAAAAT
1 ATAAAAATGGGTTGGAGTATCCCTTCGGAAATAATGGGGTTAAAGTATCCCTAATGGTGAAAAAT
*
251160 CGATA-TTTTGAAA
66 TGATATTTTTGAAA
* * * *
251173 ATAAAAATGCGGTTGGAGTATCCGC-TCGGAAATGATGGGGTTGAAGTATCCCCAATAGTGAAAA
1 ATAAAAATG-GGTTGGAGTATCC-CTTCGGAAATAATGGGGTTAAAGTATCCCTAATGGTGAAAA
*
251237 ATTTGATATTTTTGGAA
64 A-TTGATATTTTTGAAA
* ** *
251254 ATAAAAATGGGGTTGGAGTA-CCCTTTTGGAAATAACAGGGTTAGAGTATCCCTAATGGT--AAA
1 ATAAAAAT-GGGTTGGAGTATCCC-TTCGGAAATAATGGGGTTAAAGTATCCCTAATGGTGAAAA
* *
251316 TTTAATATTTTTGAAA
64 ATTGATATTTTTGAAA
* * * *
251332 ATAAAAACGAAGTTGGAGTATCCCCTCGGAAATAATGGGGTTAGAGTATTCCCTA
1 ATAAAAATG-GGTTGGAGTATCCCTTCGGAAATAATGGGGTTAAAGTA-TCCCTA
251387 GGAATTGATG
Statistics
Matches: 177, Mismatches: 26, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
77 9 0.05
78 83 0.47
79 26 0.15
80 7 0.04
81 51 0.29
82 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (79 bp):
ATAAAAATGGGTTGGAGTATCCCTTCGGAAATAATGGGGTTAAAGTATCCCTAATGGTGAAAAAT
TGATATTTTTGAAA
Found at i:251380 original size:28 final size:28
Alignment explanation
Indices: 251347--251410 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
251337 AACGAAGTTG
*
251347 GAGTATCCCCTCGGAAATAATGGGGTTA
1 GAGTATCCCCTAGGAAATAATGGGGTTA
* * * *
251375 GAGTATTCCCTAGGAATTGATGGGGTTG
1 GAGTATCCCCTAGGAAATAATGGGGTTA
251403 GAGTATCC
1 GAGTATCC
251411 TCAAGATGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (28 bp):
GAGTATCCCCTAGGAAATAATGGGGTTA
Found at i:251449 original size:79 final size:79
Alignment explanation
Indices: 251365--251684 Score: 331
Period size: 79 Copynumber: 4.0 Consensus size: 79
251355 CCTCGGAAAT
* * * * *
251365 AATGGGGTTAGAGTATTCCCTAGGAATTGATGGGGTTGGAGTATCCTCAAGATGAAAAATTTAAC
1 AATGGGGTTAGAGTATCCCCTAGGAAATAACGGGGTTAGAGTATCCTCAAGATGAAAAATTTAAC
251430 ATTTTGGAAATAAA
66 ATTTTGGAAATAAA
* * * * * * * * *
251444 AATGGGGTTGGAGTATCCCCTTGGAAATAACAGAGTTGGAGTATCCCCGAGATGAAAAGTTTAAT
1 AATGGGGTTAGAGTATCCCCTAGGAAATAACGGGGTTAGAGTATCCTCAAGATGAAAAATTTAAC
251509 ATTTTTGGAAATAAA
66 A-TTTTGGAAATAAA
* * * * * * * *
251524 AACGGGATTTA-AGTATCCCCTCGGAATTGATGGGTTTAGAGTATCC-CTAAGATGAAAATTTTA
1 AATGGG-GTTAGAGTATCCCCTAGGAAATAACGGGGTTAGAGTATCCTC-AAGATGAAAAATTTA
*
251587 ACATTTTGAAAATAAA
64 ACATTTTGGAAATAAA
* * * *
251603 AATGGGGTTAGAGTATCTCTTCA-GAAATAACGGGGTTAGAGTATCCTCGAGATGAAAAATTTAG
1 AATGGGGTTAGAGTATCCCCT-AGGAAATAACGGGGTTAGAGTATCCTCAAGATGAAAAATTTAA
*
251667 TATTTTGGAAATAAA
65 CATTTTGGAAATAAA
251682 AAT
1 AAT
251685 TTAGAATTTT
Statistics
Matches: 194, Mismatches: 41, Indels: 12
0.79 0.17 0.05
Matches are distributed among these distances:
78 3 0.02
79 128 0.66
80 61 0.31
81 2 0.01
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.30
Consensus pattern (79 bp):
AATGGGGTTAGAGTATCCCCTAGGAAATAACGGGGTTAGAGTATCCTCAAGATGAAAAATTTAAC
ATTTTGGAAATAAA
Found at i:251542 original size:187 final size:186
Alignment explanation
Indices: 251178--251572 Score: 503
Period size: 187 Copynumber: 2.1 Consensus size: 186
251168 TGAAAATAAA
* * * * *
251178 AATGCGGTTGGAGTATCCGCTCGGAAATGATGGGGTTGAAGTATCCCCAATAGTGAAAAATTTGA
1 AATGGGGTTAGAGTATCC-CTAGGAAATGATGGGGTTGAAGTATCCCCAAGAGTGAAAAATTTAA
* * * *
251243 TATTTTTGGAAATAAAAATGGGGTTGGAGTACCCTTTTGGAAATAACAGGGTTAGAGTATCCCTA
65 CATTTTTGGAAATAAAAATGGGGTTGGAGTACCCTCTTGGAAATAACAGAGTTAGAGTATCCCGA
* *
251308 ATGGTAAATTTAATATTTTTGAAAATAAAAACGAAGTTGGAGTATCCCCTCGGAAAT
130 ATGGAAAATTTAATATTTTTGAAAATAAAAACGAAGTTGAAGTATCCCCTCGGAAAT
* * *
251365 AATGGGGTTAGAGTATTCCCTAGGAATTGATGGGGTTGGAGTATCCTCAAGA-TGAAAAATTTAA
1 AATGGGGTTAGAGTA-TCCCTAGGAAATGATGGGGTTGAAGTATCCCCAAGAGTGAAAAATTTAA
*
251429 CA-TTTTGGAAATAAAAATGGGGTTGGAGTATCCC-CTTGGAAATAACAGAGTTGGAGTATCCCC
65 CATTTTTGGAAATAAAAATGGGGTTGGAGTA-CCCTCTTGGAAATAACAGAGTTAGAGTAT-CCC
* * * *
251492 GAGAT-GAAAAGTTTAATATTTTTGGAAATAAAAACG-GGATTTAAGTATCCCCTCGGAATT
128 GA-ATGGAAAA-TTTAATATTTTTGAAAATAAAAACGAAG-TTGAAGTATCCCCTCGGAAAT
* *
251552 GATGGGTTTAGAGTATCCCTA
1 AATGGGGTTAGAGTATCCCTA
251573 AGATGAAAAT
Statistics
Matches: 181, Mismatches: 21, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
185 50 0.28
186 30 0.17
187 98 0.54
188 3 0.02
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.30
Consensus pattern (186 bp):
AATGGGGTTAGAGTATCCCTAGGAAATGATGGGGTTGAAGTATCCCCAAGAGTGAAAAATTTAAC
ATTTTTGGAAATAAAAATGGGGTTGGAGTACCCTCTTGGAAATAACAGAGTTAGAGTATCCCGAA
TGGAAAATTTAATATTTTTGAAAATAAAAACGAAGTTGAAGTATCCCCTCGGAAAT
Found at i:251671 original size:159 final size:158
Alignment explanation
Indices: 251376--251683 Score: 440
Period size: 159 Copynumber: 1.9 Consensus size: 158
251366 ATGGGGTTAG
* * *
251376 AGTATTCCCTAGGAATTGATGGGGTTGGAGTATCCTCAAGATGAAAAATTTAACATTTTGGAAAT
1 AGTATCCCCTAGGAATTGATGGGGTTAGAGTATCCTCAAGATGAAAAATTTAACATTTTGAAAAT
* * * *
251441 AAAAATGGGGTTGGAGTATCCCCTTGGAAATAACAGAGTTGGAGTATCCCCGAGATGAAAAGTTT
66 AAAAATGGGGTTAGAGTATCCCCTTAGAAATAACAGAGTTAGAGTATCCCCGAGATGAAAAATTT
251506 AATATTTTTGGAAATAAAAACGGGATTTA
131 AATA-TTTTGGAAATAAAAACGGGATTTA
* * *
251535 AGTATCCCCTCGGAATTGATGGGTTTAGAGTATCC-CTAAGATGAAAATTTTAACATTTTGAAAA
1 AGTATCCCCTAGGAATTGATGGGGTTAGAGTATCCTC-AAGATGAAAAATTTAACATTTTGAAAA
* * * *
251599 TAAAAATGGGGTTAGAGTAT-CTCTTCAGAAATAACGGGGTTAGAGTATCCTCGAGATGAAAAAT
65 TAAAAATGGGGTTAGAGTATCCCCTT-AGAAATAACAGAGTTAGAGTATCCCCGAGATGAAAAAT
*
251663 TTAGTATTTTGGAAATAAAAA
129 TTAATATTTTGGAAATAAAAA
251684 TTTAGAATTT
Statistics
Matches: 132, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
158 20 0.15
159 112 0.85
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (158 bp):
AGTATCCCCTAGGAATTGATGGGGTTAGAGTATCCTCAAGATGAAAAATTTAACATTTTGAAAAT
AAAAATGGGGTTAGAGTATCCCCTTAGAAATAACAGAGTTAGAGTATCCCCGAGATGAAAAATTT
AATATTTTGGAAATAAAAACGGGATTTA
Found at i:252421 original size:126 final size:122
Alignment explanation
Indices: 252156--253831 Score: 1272
Period size: 122 Copynumber: 13.3 Consensus size: 122
252146 TGAAGTAGAT
** *
252156 AGGTGCCACCAATTTGTGTGGGCTTTGAGATA-GAAAAGGAC-TCCTGCTCTTTGAGGACTAAAA
1 AGGTGCCACCAGCTTGTGTGGGCTTT-A-AAAGGAAAAGG-CGTCCTGCTCTTTGAGGACTAAAA
* * * * *
252219 GGAGTGCCACAAACTTGTGTAGACTTTTAAAAGAAGAAGAAAAAAAGTGTCCTACTCTTTGAGGA
63 -G-GTGCCACCAACTTGTGTGGGC-TTT--AA-AAG--G--AAAAAGCGTCCTGCTCTTTGAGGA
252284 CTAGAA
118 CTA-AA
** * * * *
252290 A-GTGCCACCAGCTCATGTGGGCTTTTAAAAAGGAAAAGGTGTCCTGCTCTTTAAGTACTGAAAG
1 AGGTGCCACCAGCTTGTGTGGGC-TTT-AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAG
* * * * * *
252354 GTGCTACCAACTTGTGTAGGCTTTAAAAGAAAAAAAAGCATCTTGCTCTTCGAGGACTAAA
64 GTGCCACCAACTTGTGTGGGCTTTAAAAG--GAAAAAGCGTCCTGCTCTTTGAGGACTAAA
* * * * * * *
252415 AGGTGCCATCAACTTATGTGGGCTTTAAAA-AAAGAAGGCATCCTACTCTTTGAGGATTGAAAA-
1 AGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAA-AAGGCGTCCTGCTCTTTGAGGACT-AAAAG
* * * ** * * *
252478 GTACCACCAACTTGTAT-AGCTTTTAAAAGGAAAAAGTTTCTTGCTCTTTGAAGACCAAA
64 GTGCCACCAACTTGTGTGGGC-TTTAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTAAA
* * **
252537 ATGTGCCACTAGCTTGTGTGGGCTTTAAAAATAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGT
1 AGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGT
* * * *
252602 GCCACCAGCTTGTGTGAGCTTTAAAAGGAAAAGGCGTCCTACTCTTTGAGGA-TAAAA
66 GCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACT-AAA
* * ** * *
252659 AGGTGCCACCAACTTGTGTGGCCTTTAAAAATAAAAGGC-ACCTTACTCTTTGAGGACTAAAAGG
1 AGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC-TGCTCTTTGAGGACTAAAAGG
* * *
252723 TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGAAAGTGTCCTGCTCTTTGAGGATTGAA
65 TGCCACCAACTTGTGTGGGCTTTAAAAGG--AA--AAAGCGTCCTGCTCTTTGAGGACTAAA
* * * * * *
252785 AGGTGCCACTAGTTTGTGTGGGCTTTAAAAGGAAAAGACATCCTGTTCTTTGAGGACTGAAAGGT
1 AGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGT
** * ** **
252850 GCCACCGGCTTGTGTGGGCTTTAAAAGGAAAAGGCGTTTTGCTCTTCAAGGACTAAAA
66 GCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACT-AAA
* * * * ** *
252908 AGGGGTGCCACCAACTTGTATGGGCTTTTAAAAAGAAAAAAAGTGCGTCATATTTTTTGAGGACT
1 A--GGTGCCACCAGCTTGTGTGGGC-TTT-AAAAG--GAAAAG-GCGTCCTGCTCTTTGAGGACT
* * * * * * * * * *
252973 AGAAGGTTCCACTAGCTCGTGCGGGCTTTGAAAAAGGAAAATGTGTCCTACTCTTTGAGGTCTAA
59 AAAAGGTGCCACCAACTTGTGTGGGCTTT--AAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTAA
253038 A
122 A
* * * * *
253039 AAGTGCCACTAGCTTGTGTGGGCTTTAAAAGGAAAAGGCATCATGCTCTTTAAGGACTAAAAGGT
1 AGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGT
* * * *
253104 GCCACCAGCTTGTATGGGCTTTAAAAGAAAAACAAAAGTGTCCTGCTCTTTGAGGACTAAA
66 GCCACCAACTTGTGTGGGCTTTAAAAG---GA-AAAAGCGTCCTGCTCTTTGAGGACTAAA
* * * *
253165 AGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGAAAGTGTCCTGCTCCTTGAGGACTAAA
1 AGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAA-G---GCGTCCTGCTCTTTGAGGACTAAA
* ** * * * * * *
253230 AGATGCCATTAGCTTGTGTAGGCTTTAAAAGGAAAGA-CATCCTGCTCTTTGAGGATTGAA
62 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTAAA
* * * * * *
253290 AGGTGCCACTAGCTTATGTGGGCTTTAAAAGGAAAAGGCATCTTGCTCTTTAAGAACTAAAAATG
1 AGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-AAAA-G
* *
253355 AGTGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAACGAAAAAAGGTGTCCTACTCTTTGAGGAC
64 -GTGCCACCAACTTGTGTGGGC-TTT-AAAAG-----G-AAAAA-GCGTCCTGCTCTTTGAGGAC
*
253420 TAGA
119 TAAA
* * * ** * * * *
253424 AGTTGCCAACAACTCATGTGGGCTTTTAAGAAGGAAAAGGTGTCTTGCTTTTTAAGGACTAAAAG
1 AGGTGCCACCAGCTTGTGTGGGC-TTTAA-AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAG
* * * * * *
253489 GTGCCATCAGCTTATGTGGGCTTTAAAAGGAAAAAGCATCCTCCTCTTTAAGGACTAAA
64 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTAAA
* * * * * * *
253548 AAGTACCACCAGCTTGTATGGGCTTTAAAAGAAAAAGGAAAGT-AT-CTCTTTGAGGACTAAAAT
1 AGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGG--CGTCCTGCTCTTTGAGGACTAAAAG
* * * * * *
253611 GTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCGTCTTACTTTTTAAGGACTAAA
64 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTAAA
* * * *
253670 AGGTGCCACCAG-TT-CGTGGGCTTTAAAAGAAAAAGGAAAGTGTCATGCTCTTTGAGGACTAAA
1 AGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAA-G---GCGTCCTGCTCTTTGAGGACTAAA
* * * * * *
253733 AGGTGACACCAACTTGTGTGGCCTTTAAAAGGAAAATGCATCTTGCTCATTGAGGACTAAA
62 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTAAA
* * * * *
253794 AAGTGCCACCAACATGCGTGGGCTTTAAAAGAAAAAGG
1 AGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGG
253832 AAAGTGTCCT
Statistics
Matches: 1244, Mismatches: 237, Indels: 134
0.77 0.15 0.08
Matches are distributed among these distances:
120 18 0.01
121 24 0.02
122 309 0.25
123 21 0.02
124 218 0.18
125 94 0.08
126 227 0.18
127 15 0.01
128 8 0.01
129 25 0.02
130 83 0.07
131 13 0.01
132 49 0.04
133 38 0.03
134 67 0.05
135 9 0.01
136 26 0.02
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (122 bp):
AGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGT
GCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTAAA
Found at i:252489 original size:61 final size:60
Alignment explanation
Indices: 252268--253831 Score: 999
Period size: 61 Copynumber: 25.0 Consensus size: 60
252258 AAAAAAAGTG
* * ** **
252268 TCCTACTCTTTGAGGACTAGAAA-GTGCCACCAGCTCATGTGGGCTTTTAAAAAGGAAAAGGTG
1 TCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGC-TTTAAAAA--AAAAGGCA
* * * * * *
252331 TCCTGCTCTTTAAGTACTGAAAGGTGCTACCAACTTGTGTAGGCTTTAAAAGAAAAAAAAGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT--AA-AAAAAAAGGCA
* * * *
252394 TCTTGCTCTTCGAGGACTAAAAGGTGCCATCAACTTATGTGGGCTTTAAAAAAAGAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAA-AAGGCA
* * * * * **
252455 TCCTACTCTTTGAGGATTGAAAA-GTACCACCAACTTGTAT-AGCTTTTAAAAGGAAAAA-GTT
1 TCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGC-TTTAAAA--AAAAAGGCA
* * * * * * *
252516 TCTTGCTCTTTGAAGACCAAAATGTGCCACTAGCTTGTGTGGGCTTTAAAAATAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAA-AAAAGGCA
* * * *
252577 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGAGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-AAAAAGGCA
* *
252638 TCCTACTCTTTGAGGA-TAAAAAGGTGCCACCAACTTGTGTGGCCTTTAAAAATAAAAGGCA
1 TCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAA-AAAAGGCA
* * *
252699 -CCTTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGAAA
1 TCC-TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-AAAAAGG-CA
* * * ** * *
252761 GTGTCCTGCTCTTTGAGGATTGAAAGGTGCCACTAGTTTGTGTGGGCTTTAAAAGGAAAAGACA
1 ---TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-AAAAAGGCA
* * ** * *
252825 TCCTGTTCTTTGAGGACTGAAAGGTGCCACCGGCTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-AAAAAGGCA
** ** *
252886 TTTTGCTCTTCAAGGACTAAAAAGGGGTGCCACCAACTTGTATGGGCTTTTAAAAAGAAAAAAAG
1 TCCTGCTCTTTGAGGACT-AAAA--GGTGCCACCAACTTGTGTGGGC-TTT---AA-AAAAAAAG
*
252951 TGCG
58 -GCA
* ** * * * * * * * * **
252955 TCATATTTTTTGAGGACTAGAAGGTTCCACTAGCTCGTGCGGGCTTTGAAAAAGGAAAATGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAA--AAAAGGCA
* * * * * *
253018 TCCTACTCTTTGAGGTCTAAAAAGTGCCACTAGCTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-AAAAAGGCA
* * * * * **
253079 TCATGCTCTTTAAGGACTAAAAGGTGCCACCAGCTTGTATGGGCTTTAAAAGAAAAACAAAAGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT---A-AAAAA-AAAGGCA
* * *
253144 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGAAA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-AAAAAGG-CA
* * ** * * ** *
253206 GTGTCCTGCTCCTTGAGGACTAAAAGATGCCATTAGCTTGTGTAGGCTTTAAAAGGAAAGACA
1 ---TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGGCA
* * * * * *
253269 TCCTGCTCTTTGAGGATTGAAAGGTGCCACTAGCTTATGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-AAAAAGGCA
* * *
253330 TCTTGCTCTTTAAGAACTAAAAATGAGTGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAACGAA
1 TCCTGCTCTTTGAGGACT-AAAA-G-GTGCCACCAACTTGTGTGGGC-TTT-------AAA--AA
**
253395 AAAAGGTG
53 AAAAGGCA
* * * * ** * **
253403 TCCTACTCTTTGAGGACTAGAAGTTGCCAACAACTCATGTGGGCTTTTAAGAAGGAAAAGGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGC-TTTAA-AA-AAAAAGGCA
* * * * * *
253466 TCTTGCTTTTTAAGGACTAAAAGGTGCCATCAGCTTATGTGGGCTTTAAAAGGAAAAA-GCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA--AAAAAGGCA
* * * * * * *
253527 TCCTCCTCTTTAAGGACTAAAAAGTACCACCAGCTTGTATGGGCTTTAAAAGAAAAAGGAAA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-AAAAAGG-CA
* * * * *
253589 GT-AT-CTCTTTGAGGACTAAAATGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCG
1 -TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-AAAAAGGCA
* * * * * * *
253649 TCTTACTTTTTAAGGACTAAAAGGTGCCACC-AGTT-CGTGGGCTTTAAAAGAAAAAGGAAA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-AAAAAGG-CA
* * * * *
253709 GTGTCATGCTCTTTGAGGACTAAAAGGTGACACCAACTTGTGTGGCCTTTAAAAGGAAAATGCA
1 ---TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-AAAAAGGCA
* * * * *
253773 TCTTGCTCATTGAGGACTAAAAAGTGCCACCAACATGCGTGGGCTTTAAAAGAAAAAGG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-AAAAAGG
253832 AAAGTGTCCT
Statistics
Matches: 1192, Mismatches: 235, Indels: 150
0.76 0.15 0.10
Matches are distributed among these distances:
59 21 0.02
60 72 0.06
61 539 0.45
62 44 0.04
63 193 0.16
64 56 0.05
65 174 0.15
66 18 0.02
68 10 0.01
69 16 0.01
70 21 0.02
71 1 0.00
72 6 0.01
73 20 0.02
74 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGGCA
Found at i:255478 original size:19 final size:20
Alignment explanation
Indices: 255433--255480 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
255423 CTGCCAGTTT
* *
255433 CATGTATTGATACAATTGGG
1 CATGTATCGATACAATTGAG
*
255453 TATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAG
255472 CATGTATCG
1 CATGTATCG
255481 TATCGATACA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Done.