Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 50 of 318
Found at i:18355709 original size:26 final size:26
Alignment explanation
Indices: 18355680--18355739 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
18355670 TCCCTTTGAA
* * *
18355680 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
18355706 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
18355734 TCATTC
1 TCATTC
18355740 TCAATATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 5 0.17
27 2 0.07
28 22 0.76
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.37
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:18355755 original size:28 final size:28
Alignment explanation
Indices: 18355687--18355765 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
18355677 GAATCATTCG
18355687 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTTGCACACTAAGTGTCATTCTCA
* *
18355715 ATATCTCGCACACTAAGTGTCATTCTCA
1 ATATTTTGCACACTAAGTGTCATTCTCA
* * *
18355743 ATATTTTGTACACTGAGTATCAT
1 ATATTTTGCACACTAAGTGTCAT
18355766 ATTTGATTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (28 bp):
ATATTTTGCACACTAAGTGTCATTCTCA
Found at i:18359233 original size:7 final size:7
Alignment explanation
Indices: 18359221--18359249 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
18359211 TTACATATTA
18359221 TAAATTT
1 TAAATTT
18359228 TAAATTT
1 TAAATTT
18359235 TAAATTT
1 TAAATTT
18359242 TAAATTT
1 TAAATTT
18359249 T
1 T
18359250 CGTATATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TAAATTT
Found at i:18363182 original size:64 final size:64
Alignment explanation
Indices: 18363109--18363233 Score: 196
Period size: 64 Copynumber: 2.0 Consensus size: 64
18363099 TCATTCATAA
* * * *
18363109 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATACCATCCTAATTATTTGACATAAGTAT
1 CACATCTAGTTAAGAACATTTGATTCATGTCGATCATACAATCCTAATTATTTGACATAAGTAT
* *
18363173 CACATCTAGTTAAGAACATTTTATTCATGTCGATCATAGAATCCTAATTATTTGACATAAG
1 CACATCTAGTTAAGAACATTTGATTCATGTCGATCATACAATCCTAATTATTTGACATAAG
18363234 CATAGGCCTA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAAGAACATTTGATTCATGTCGATCATACAATCCTAATTATTTGACATAAGTAT
Found at i:18363488 original size:133 final size:133
Alignment explanation
Indices: 18363250--18363679 Score: 682
Period size: 133 Copynumber: 3.2 Consensus size: 133
18363240 CCTATGAAAC
* * * *
18363250 AGATTGTAAATCTTGTCTCCCTGAAGTTGCAATGGACCAAAGCAAAGATGACGAATCTTGGCTTC
1 AGATTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCAAAGATGACGAATCTTGGCTTC
*
18363315 CTGAAGTTGCAGTGAAATAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGC
66 CTGAAGTTGCAGTGAAACAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGC
18363380 TAA
131 TAA
* * * * *
18363383 AGATTGTAGATCTTGTCTCCCTAAAATTGCAGTGGGGCAAATCAAAGATAACGAATCTTTGCTTC
1 AGATTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCAAAGATGACGAATCTTGGCTTC
* * *
18363448 CTGAAGTTGCAGTGAAACAGATTTAAGCCACCATCCTAGCTCTCTAGACTTGTAGTGGAGTAGGC
66 CTGAAGTTGCAGTGAAACAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGC
18363513 TAA
131 TAA
*
18363516 AGATTGTAGATCTTGTCTCCCTGAAGTTGTAGTGGAGCAAAT-AGAAGATGACGAATCTTGGCTT
1 AGATTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCA-AAGATGACGAATCTTGGCTT
* *
18363580 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGAAGG
65 CCTGAAGTTGCAGTGAAACAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
*
18363645 CTGA
130 CTAA
*
18363649 AGATTATAGATCTTGTCTCCCTGAAGTTGCA
1 AGATTGTAGATCTTGTCTCCCTGAAGTTGCA
18363680 ACAGAGCAAA
Statistics
Matches: 269, Mismatches: 27, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
132 1 0.00
133 268 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (133 bp):
AGATTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCAAAGATGACGAATCTTGGCTTC
CTGAAGTTGCAGTGAAACAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGC
TAA
Found at i:18363749 original size:89 final size:88
Alignment explanation
Indices: 18363620--18363854 Score: 274
Period size: 88 Copynumber: 2.6 Consensus size: 88
18363610 ACCATCCTAG
* * *
18363620 CTCCCTAAAGTTGTAGTGGAGA-AGGCTGAAGATTATAGATCTTGTCTCCCTGAAGTTGCAACAG
1 CTCCCT-AAGTCGTAG-GGTGACAGGCTGAAGATTATAGATCTTGTCTCTCTGAAGTTGCAACAG
* * **
18363684 AGCAAATCGAAGACGGCAAGCCTTAA
64 AGCAAAT-AAAAAAAGCAAGCCTTAA
* * * * * *
18363710 CTCCCTAAGTCGTAGGGTGACAGGCTGAAGATTGTAGATCTTGTCTTTCTGAACTCGCAGCGGAG
1 CTCCCTAAGTCGTAGGGTGACAGGCTGAAGATTATAGATCTTGTCTCTCTGAAGTTGCAACAGAG
18363775 CAAATAAAAAAAGCAAGCCTTAA
66 CAAATAAAAAAAGCAAGCCTTAA
* * * * *
18363798 CACCCTAAGTCGTAGGGTAACAGGCTGAAGTTTACAGATCTCGTCTCTCTGAAGTTG
1 CTCCCTAAGTCGTAGGGTGACAGGCTGAAGATTATAGATCTTGTCTCTCTGAAGTTG
18363855 TAGTGGAACA
Statistics
Matches: 122, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
88 66 0.54
89 50 0.41
90 6 0.05
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (88 bp):
CTCCCTAAGTCGTAGGGTGACAGGCTGAAGATTATAGATCTTGTCTCTCTGAAGTTGCAACAGAG
CAAATAAAAAAAGCAAGCCTTAA
Found at i:18363867 original size:88 final size:87
Alignment explanation
Indices: 18363699--18363925 Score: 228
Period size: 88 Copynumber: 2.6 Consensus size: 87
18363689 ATCGAAGACG
* ** * *
18363699 GCAAGCCTTAACTCCCTAAGTCGTAGGGTGACAGGCTGAAGATTGTAGATCTTGTCTTTCTGAAC
1 GCAAGCCTTAAC-CCCTAAGTCGTAGGGTAACAGGCTGAAG-TTACAGATCTCGTCTCTCTGAAC
*
18363764 TCGCAGCGGAGCAAAT-AAAAAAA
64 TCGCAGCGGAACAAATCAAAAAAA
*
18363787 GCAAGCCTTAACACCCTAAGTCGTAGGGTAACAGGCTGAAGTTTACAGATCTCGTCTCTCTGAAG
1 GCAAGCCTTAAC-CCCTAAGTCGTAGGGTAACAGGCTGAAG-TTACAGATCTCGTCTCTCTGAAC
* * * * *
18363852 TTGTAGTGGAACAAATCAAAGAAG
64 TCGCAGCGGAACAAATCAAAAAAA
* * *
18363876 GTGAA-CCTTAACCCACTAAG-CAATAGGGTAACAGACTGAA-TTACAGATCT
1 G-CAAGCCTTAACCC-CTAAGTC-GTAGGGTAACAGGCTGAAGTTACAGATCT
18363926 TATCTCCTTG
Statistics
Matches: 118, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
87 10 0.08
88 72 0.61
89 34 0.29
90 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.23
Consensus pattern (87 bp):
GCAAGCCTTAACCCCTAAGTCGTAGGGTAACAGGCTGAAGTTACAGATCTCGTCTCTCTGAACTC
GCAGCGGAACAAATCAAAAAAA
Found at i:18365322 original size:46 final size:46
Alignment explanation
Indices: 18365211--18365485 Score: 336
Period size: 46 Copynumber: 6.0 Consensus size: 46
18365201 TTATCTTTGA
* * * * * **
18365211 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTTGT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGT
**
18365258 CATG-TCGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGCT-GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
*** **
18365304 CATGCTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* * *
18365350 CATGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* *
18365396 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* *
18365442 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
18365486 ATCAGAGAGC
Statistics
Matches: 205, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
46 172 0.84
47 33 0.16
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
Found at i:18365490 original size:92 final size:92
Alignment explanation
Indices: 18365216--18365490 Score: 379
Period size: 92 Copynumber: 3.0 Consensus size: 92
18365206 TTTGACATGA
* * * ** *
18365216 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTTGTCATGTCGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCATGTTGCCATGGTATCTTTCAA
** * *
18365281 CCATGGTCTTATTCATTTCATGTCATGC
65 CCATGGTCTTACACATTTCATATCAGGC
* * ** *
18365309 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGTCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTTTCAAC
18365374 CATGGTCTTACACATTTCATATCAGGC
66 CATGGTCTTACACATTTCATATCAGGC
* * *
18365401 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTTTCAAC
18365466 CATGGTCTTACACATTTCATATCAG
66 CATGGTCTTACACATTTCATATCAG
18365491 AGAGCACACT
Statistics
Matches: 160, Mismatches: 22, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
92 132 0.82
93 28 0.17
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGGC
Found at i:18367663 original size:18 final size:20
Alignment explanation
Indices: 18367648--18367684 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18367638 TAATAATAAA
*
18367648 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
18367668 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
18367685 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:18370139 original size:3 final size:3
Alignment explanation
Indices: 18370125--18370171 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
18370115 AATTTGTTTT
* *
18370125 TTA TTA TT- TTA TTA TTA TTA TTA TTT TTA -TA TTA TTT TTA TTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
18370169 TTA
1 TTA
18370172 ATAGAGTTCG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
2 4 0.11
3 30 0.81
4 3 0.08
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:18370147 original size:17 final size:17
Alignment explanation
Indices: 18370125--18370166 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
18370115 AATTTGTTTT
18370125 TTATTA-TTTTATTATTA
1 TTATTATTTTTA-TATTA
18370142 TTATTATTTTTATATTA
1 TTATTATTTTTATATTA
*
18370159 TTTTTATT
1 TTATTATT
18370167 CATTAATAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATTATTTTTATATTA
Found at i:18370679 original size:131 final size:131
Alignment explanation
Indices: 18370333--18370689 Score: 464
Period size: 130 Copynumber: 2.7 Consensus size: 131
18370323 AACAAAAGCG
* * * * * *
18370333 ATGTTTGACGTTTAGAAATTCGAGGAATTGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGT
1 ATGTTCGACGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGT
* * *
18370398 TCAAAACGATCGAATATTTCTTTAGAATTTCGCACATGTCTTTAAAAATTCTTCTAAACGAAGGC
66 TCAAAACAATCGAATATTCCTTTAGAATTTCGCACATGTCTTTAAAAATTCTTCAAAACGAAGGC
18370463 A
131 A
** * * * *
18370464 ATACTCGATGCTTGTCAATTC-GGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCCCGTTTGT
1 ATGTTCGACGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGT
* ** * *
18370528 TCAAAACAATCGAATATTCCTTTGGAATTTCGTTCATGTCTTTAAAAATTCTTCAAAACGAATGT
66 TCAAAACAATCGAATATTCCTTTAGAATTTCGCACATGTCTTTAAAAATTCTTCAAAACGAAGGC
18370593 A
131 A
* * * * *
18370594 ATGTTCGACGTTTGGCAATTCGGGGAATCGTGCCCTATCATGCTAGGTTGTGATCTCTTGTTTGT
1 ATGTTCGACGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGT
* *
18370659 TCCAAATAATCGAATATTCCTTTAGAATTTC
66 TCAAAACAATCGAATATTCCTTTAGAATTTC
18370690 ACTCATTCTA
Statistics
Matches: 191, Mismatches: 34, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
130 113 0.59
131 78 0.41
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.37
Consensus pattern (131 bp):
ATGTTCGACGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGT
TCAAAACAATCGAATATTCCTTTAGAATTTCGCACATGTCTTTAAAAATTCTTCAAAACGAAGGC
A
Found at i:18371641 original size:24 final size:24
Alignment explanation
Indices: 18371613--18371659 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
18371603 CATAAAAAAA
18371613 ATTAATGATTAATAACCAATCACC
1 ATTAATGATTAATAACCAATCACC
* * *
18371637 ATTAATTATTAATTATCAATCAC
1 ATTAATGATTAATAACCAATCAC
18371660 GTTTTAATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (24 bp):
ATTAATGATTAATAACCAATCACC
Found at i:18396875 original size:21 final size:23
Alignment explanation
Indices: 18396851--18396893 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
18396841 TTGATAGTAT
18396851 AATTATATTATT-TAA-TATTTG
1 AATTATATTATTATAATTATTTG
*
18396872 AATTATTTTATTATAATTATTT
1 AATTATATTATTATAATTATTT
18396894 TTAAAAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 3 0.16
23 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
AATTATATTATTATAATTATTTG
Found at i:18419430 original size:15 final size:15
Alignment explanation
Indices: 18419407--18419456 Score: 84
Period size: 15 Copynumber: 3.4 Consensus size: 15
18419397 TTTATTTAAT
18419407 TTATATTGATTGAAA
1 TTATATTGATTGAAA
*
18419422 TTATTTTGATTGAAA
1 TTATATTGATTGAAA
18419437 TTATATTGATTG-AA
1 TTATATTGATTGAAA
18419451 TTATAT
1 TTATAT
18419457 AATATATATG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
14 8 0.24
15 25 0.76
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:18420095 original size:19 final size:20
Alignment explanation
Indices: 18420071--18420112 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
18420061 ATGAAACGAG
18420071 AAATTGA-AT-TGAGAATTGA
1 AAATTGAGATATGAG-ATTGA
18420090 AAATTGAGATATGAGATTGA
1 AAATTGAGATATGAGATTGA
18420110 AAA
1 AAA
18420113 CATGAATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 10 0.48
21 4 0.19
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (20 bp):
AAATTGAGATATGAGATTGA
Found at i:18438788 original size:17 final size:16
Alignment explanation
Indices: 18438762--18438797 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
18438752 TAAAAATTGA
18438762 TAATTTTAATTATAAT
1 TAATTTTAATTATAAT
*
18438778 TAATATTTAATTATATT
1 TAAT-TTTAATTATAAT
18438795 TAA
1 TAA
18438798 CAAAGGGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATTTTAATTATAAT
Found at i:18455063 original size:21 final size:20
Alignment explanation
Indices: 18455041--18455094 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
18455031 AGTTATTTAT
18455041 TTTATATATTGTTAAATTAA
1 TTTATATATTGTTAAATTAA
* * *
18455061 TTTATCCTAATGTCAAATTAA
1 TTTAT-ATATTGTTAAATTAA
*
18455082 TTTATACATTGTT
1 TTTATATATTGTT
18455095 GTTGGAGTAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.35, C:0.07, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTATATATTGTTAAATTAA
Found at i:18456411 original size:27 final size:28
Alignment explanation
Indices: 18456351--18456412 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 28
18456341 ACCTCGAACC
18456351 TCGAGG-TTTAGGGTTTGGATTTAGGAT
1 TCGAGGTTTTAGGGTTTGGATTTAGGAT
** *
18456378 TTAAGGTTTTA-GGTTTGGGTTT-GAGAT
1 TCGAGGTTTTAGGGTTTGGATTTAG-GAT
18456405 TCGAGGTT
1 TCGAGGTT
18456413 CGAGGTTCGA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
26 1 0.04
27 23 0.82
28 4 0.14
ACGTcount: A:0.18, C:0.03, G:0.35, T:0.44
Consensus pattern (28 bp):
TCGAGGTTTTAGGGTTTGGATTTAGGAT
Found at i:18456416 original size:7 final size:7
Alignment explanation
Indices: 18456404--18456434 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
18456394 GGGTTTGAGA
18456404 TTCGAGG
1 TTCGAGG
18456411 TTCGAGG
1 TTCGAGG
18456418 TTCGAGG
1 TTCGAGG
18456425 TTCGAGG
1 TTCGAGG
18456432 TTC
1 TTC
18456435 AAGATTTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.39, T:0.32
Consensus pattern (7 bp):
TTCGAGG
Found at i:18456428 original size:21 final size:21
Alignment explanation
Indices: 18456395--18456434 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18456385 TTTAGGTTTG
*
18456395 GGTTTGAGATTCGAGGTTCGA
1 GGTTCGAGATTCGAGGTTCGA
*
18456416 GGTTCGAGGTTCGAGGTTC
1 GGTTCGAGATTCGAGGTTC
18456435 AAGATTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.40, T:0.33
Consensus pattern (21 bp):
GGTTCGAGATTCGAGGTTCGA
Found at i:18459561 original size:46 final size:44
Alignment explanation
Indices: 18459502--18459616 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
18459492 ACAGGACAGA
* *
18459502 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
18459548 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
18459592 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
18459617 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:18459597 original size:44 final size:45
Alignment explanation
Indices: 18459502--18459635 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
18459492 ACAGGACAGA
* *
18459502 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
18459548 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
18459592 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
18459636 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:18461020 original size:7 final size:7
Alignment explanation
Indices: 18461008--18461035 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
18460998 AAGCCATTAC
18461008 ATGTTCA
1 ATGTTCA
18461015 ATGTTCA
1 ATGTTCA
18461022 ATGTTCA
1 ATGTTCA
18461029 ATGTTCA
1 ATGTTCA
18461036 CTATTCACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (7 bp):
ATGTTCA
Found at i:18464282 original size:23 final size:23
Alignment explanation
Indices: 18464256--18464304 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
18464246 GCTCCAATAT
*
18464256 TAACAACAATGAC-AATAATAGAA
1 TAACAACAATAACAAATAA-AGAA
18464279 TAACAACAATAACAAATAAAGAA
1 TAACAACAATAACAAATAAAGAA
18464302 TAA
1 TAA
18464305 TAATGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.65, C:0.12, G:0.06, T:0.16
Consensus pattern (23 bp):
TAACAACAATAACAAATAAAGAA
Found at i:18466049 original size:45 final size:45
Alignment explanation
Indices: 18466000--18466146 Score: 111
Period size: 45 Copynumber: 3.1 Consensus size: 45
18465990 GATCTATTCT
18466000 ACTGTCAAATGCAGGGAGATAGAGTTATCAGCTTCAATGTACTCC
1 ACTGTCAAATGCAGGGAGATAGAGTTATCAGCTTCAATGTACTCC
* * * * * * *
18466045 ACTGT--AGTCACAGGGAGGTAAAATCTGCCAT-ATTTGATCTTCAATCTATTCC
1 ACTGTCAAAT-GCAGGGAGATAGAGT-T---ATCA---G--CTTCAATGTACTCC
*
18466097 ACTGTCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCC
1 ACTGTCAAATGCAGGGAGATAGAGTTATCAGCTTCAATGTACTCC
18466142 ACTGT
1 ACTGT
18466147 AGTCAGGGAG
Statistics
Matches: 74, Mismatches: 15, Indels: 26
0.64 0.13 0.23
Matches are distributed among these distances:
43 2 0.03
44 11 0.15
45 23 0.31
47 2 0.03
48 2 0.03
49 2 0.03
50 1 0.01
52 18 0.24
53 11 0.15
54 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (45 bp):
ACTGTCAAATGCAGGGAGATAGAGTTATCAGCTTCAATGTACTCC
Found at i:18466253 original size:44 final size:44
Alignment explanation
Indices: 18466204--18467234 Score: 967
Period size: 44 Copynumber: 23.4 Consensus size: 44
18466194 TACAGAAAGG
* * * * *
18466204 CAAGATCTACAATCTTCGATCTACTTCACGCCAATACACGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGA
* * * * * * *
18466248 TAAGATCTGTTTTTTTTTCGATTTACTTCACCACCAGTATGGGAAGA
1 CAAGATCTG--CTATCTTCGATCTACTTCA-CACCAATATAGGAAGA
* * * * *
18466295 CAAGATTTGC-ATCTTCGATCCACTTCACGCCAATACATGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGA
* *
18466338 CAAGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTCA-CACCAATATAGGAAGA
* * * ****
18466383 CAAGATCGGC-ATCTTCGATCTACTTCACGCTAATGCCTGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGA
* * *
18466426 CAAGATCTGCTTTCTT-GATCTACTTCGCCACCAATATGGGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGA
* * * *
18466470 CAAGATCTGCTTTCTTGGATCTACTTCGCCACCAATATGGGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGA
18466515 CAAGATCTGC-ATCTTCGATCTACTTC-CTACCAATATAGGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGA
* * * * * *
18466558 TAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGA
* * * *
18466602 CAAGATCTGCTTTCTTCGATCTTCTTCACCACCAGTATGGGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTCA-CACCAATATAGGAAGA
* * * *
18466647 TAAGATCTGC-ATCTTCGATCCACTTC-CTACCAGTATGGGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGA
* * * *
18466690 CAAAATCTGC-ATCGTCGGTCCACTTC-CTACCAATATAGGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGA
* * * * * *
18466733 TAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGA
* *
18466777 CAAGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTCA-CACCAATATAGGAAGA
* *
18466822 CAAGATCGGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGA
* * * * * *
18466865 TAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGA
* * *
18466909 CAAGATCTGCTTTCCTCGATCTACTTCACCACCAATATGGGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTCA-CACCAATATAGGAAGA
* *
18466954 CAAGATCGGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGA
* * * * * *
18466997 TAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGA
* * *
18467041 CAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGA
* * *
18467086 CAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGA
* *
18467131 CAAGATCTGC-ATCTTCGATCCACCTC-CTACCAATATAGGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGA
* * * * * *
18467174 TAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGA
1 CAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGA
*
18467218 CAAGATCTGCTTTCTTC
1 CAAGATCTGCTATCTTC
18467235 TTCAATCTAT
Statistics
Matches: 806, Mismatches: 154, Indels: 54
0.79 0.15 0.05
Matches are distributed among these distances:
42 5 0.01
43 189 0.23
44 387 0.48
45 193 0.24
46 14 0.02
47 18 0.02
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (44 bp):
CAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGA
Found at i:18466783 original size:307 final size:309
Alignment explanation
Indices: 18466290--18467234 Score: 1301
Period size: 307 Copynumber: 3.1 Consensus size: 309
18466280 ACCAGTATGG
* * * * *** * *
18466290 GAAGACAAGATTTGC-ATCTTCGATCCACTTCA-CGCCAATACATGAAGACAAGATCTGCTTTCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCGGC-ATCT
* * * * * * * * *
18466353 TCGATCTACTTCACCACCAATATGGGAAGACAAGATC-GGCATCTTCGATCTACTTCACGCTAAT
65 TCGATCCACTTC-CTACCAATATAGGAAGACAAAATCTGACATCGTCGATCCACTTCACACCAAT
* ** * * * **
18466417 GCCTGAAGACAAGATCTGCTTTCTT-GATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCT
129 ACAGGAAGACAAGATCTGATATCTTCGATCTACTTCGACACCAATACAGGAAGACAAGATCTGCT
* *
18466481 TTCTTGGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTACTTCCTACC
194 TTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACC
18466546 AATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACAT
259 AATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACAT
* * * *
18466597 GAAGACAAGATCTGCTTTCTTCGATCTTCTTCACCACCAGTATGGGAAGATAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCGGCATCTT
* * *
18466662 CGATCCACTTCCTACCAGTATGGGAAGACAAAATCTG-CATCGTCGGTCCACTTC-CTACCAATA
66 CGATCCACTTCCTACCAATATAGGAAGACAAAATCTGACATCGTCGATCCACTTCAC-ACCAATA
* * * * *
18466725 TAGGAAGATAGGATCTGATATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTT
130 CAGGAAGACAAGATCTGATATCTTCGATCTACTTCGACACCAATACAGGAAGACAAGATCTGCTT
* *
18466789 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCGGCATCTTCGATCCACTTCCTACCA
195 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
18466854 ATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACAT
260 ATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACAT
*
18466904 GAAGACAAGATCTGCTTTCCTCGATCTACTTCACCACCAATATGGGAAGACAAGATCGGCATCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCGGCATCTT
* ** * * * *
18466969 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGACAAAATCTGACATCGTCGATCCACTTCACACCAATAC
* * * * **
18467034 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTTT
131 AGGAAGACAAGATCTGATATCTTCGATCTACTTCGACACCAATACAGGAAGACAAGATCTGCTTT
*
18467099 CTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACCTCCTACCAA
196 CTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAA
18467164 TATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACAT
261 TATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACAT
18467213 GAAGACAAGATCTGCTTTCTTC
1 GAAGACAAGATCTGCTTTCTTC
18467235 TTCAATCTAT
Statistics
Matches: 563, Mismatches: 67, Indels: 14
0.87 0.10 0.02
Matches are distributed among these distances:
306 1 0.00
307 297 0.53
308 87 0.15
309 178 0.32
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (309 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCGGCATCTT
CGATCCACTTCCTACCAATATAGGAAGACAAAATCTGACATCGTCGATCCACTTCACACCAATAC
AGGAAGACAAGATCTGATATCTTCGATCTACTTCGACACCAATACAGGAAGACAAGATCTGCTTT
CTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAA
TATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACAT
Found at i:18478983 original size:23 final size:23
Alignment explanation
Indices: 18478957--18479005 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
18478947 GCTCCAATAT
*
18478957 TAACAACAATGAC-AATAATAGAA
1 TAACAACAATAACAAATAA-AGAA
18478980 TAACAACAATAACAAATAAAGAA
1 TAACAACAATAACAAATAAAGAA
18479003 TAA
1 TAA
18479006 TAATGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.65, C:0.12, G:0.06, T:0.16
Consensus pattern (23 bp):
TAACAACAATAACAAATAAAGAA
Found at i:18488787 original size:19 final size:19
Alignment explanation
Indices: 18488765--18488802 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
18488755 AGTTTTCAAT
18488765 TATTGTAAATT-TTTTTTAA
1 TATT-TAAATTATTTTTTAA
*
18488784 TATTTACATTATTTTTTAA
1 TATTTAAATTATTTTTTAA
18488803 AATACTGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (19 bp):
TATTTAAATTATTTTTTAA
Found at i:18492553 original size:18 final size:18
Alignment explanation
Indices: 18492530--18492572 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
18492520 GAATAGGTTT
*
18492530 TTAATTAAACTATTTT-AA
1 TTAATTAAA-AATTTTAAA
18492548 TTAATTAAAAATTTTAAA
1 TTAATTAAAAATTTTAAA
18492566 TTAATTA
1 TTAATTA
18492573 CACGTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAATTAAAAATTTTAAA
Found at i:18496557 original size:15 final size:15
Alignment explanation
Indices: 18496537--18496566 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18496527 CATGAAAATT
18496537 ATTTTTTTATAATAA
1 ATTTTTTTATAATAA
*
18496552 ATTTTTTTATTATAA
1 ATTTTTTTATAATAA
18496567 CTTTAGAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTTTTTTATAATAA
Found at i:18496559 original size:18 final size:18
Alignment explanation
Indices: 18496532--18496566 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18496522 TATAACATGA
*
18496532 AAATTATTTTTTTATAAT
1 AAATTATTTTATTATAAT
*
18496550 AAATTTTTTTATTATAA
1 AAATTATTTTATTATAA
18496567 CTTTAGAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
AAATTATTTTATTATAAT
Found at i:18508148 original size:126 final size:127
Alignment explanation
Indices: 18507900--18508256 Score: 500
Period size: 126 Copynumber: 2.8 Consensus size: 127
18507890 GAGAGGTCTG
* * *
18507900 TTTTAGGTCAGACGCACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATTAATGAAGAGGAAG
1 TTTTATGTCAGATGTACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATT-A-GAAGAGGAAG
* * * * *
18507965 TTGGCTGGCATGCCTCAAACTTAAAGTCGGCTGTATCGTAGGTAATCCGATTCTCTTCACCCTC
64 TTGGCTGGCATGCCTCGAACTTAAAGTCAGCTGCATCGTAGATAATCAGATTCTCTTCACCCTC
* * *
18508029 TTTTATGTCAGATTTACTGTTGTCAATCTGAGGTTTCTCCAAATCATCCATTA-AAGAGGATGTT
1 TTTTATGTCAGATGTACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATTAGAAGAGGAAGTT
* * *
18508093 GGCTGGCAAGCCTCGAACTTAAAGTCAGTTGCATTGTAGATAATCAGATTCTCTTCACCCTC
66 GGCTGGCATGCCTCGAACTTAAAGTCAGCTGCATCGTAGATAATCAGATTCTCTTCACCCTC
*
18508155 TTTTATGTCAGATGTACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATTACTGTAGAGGAAG
1 TTTTATGTCAGATGTACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATTA--GAAGAGGAAG
* * **
18508220 TTGTCTGGCATGCCTCGAACTTAGAGTTGGCTGCATC
64 TTGGCTGGCATGCCTCGAACTTAAAGTCAGCTGCATC
18508257 ATGGGCGATC
Statistics
Matches: 200, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
126 115 0.57
128 1 0.00
129 84 0.42
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (127 bp):
TTTTATGTCAGATGTACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATTAGAAGAGGAAGTT
GGCTGGCATGCCTCGAACTTAAAGTCAGCTGCATCGTAGATAATCAGATTCTCTTCACCCTC
Found at i:18508601 original size:28 final size:28
Alignment explanation
Indices: 18508569--18508624 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
18508559 GTATACATAG
18508569 TTTGACAGATGCCAACATATAGTTAAAA
1 TTTGACAGATGCCAACATATAGTTAAAA
*
18508597 TTTGATAGATGCCAACATATAGTTAAAA
1 TTTGACAGATGCCAACATATAGTTAAAA
18508625 GAAAGAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.30
Consensus pattern (28 bp):
TTTGACAGATGCCAACATATAGTTAAAA
Found at i:18512133 original size:25 final size:25
Alignment explanation
Indices: 18512115--18512162 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
18512105 AATTTAGTAT
*
18512115 TTTTA-TTGTTTTAAGAATTTAATCA
1 TTTTACTTGATTTAA-AATTTAATCA
18512140 TTTTACTTGATTTAAAATTTAAT
1 TTTTACTTGATTTAAAATTTAAT
18512163 TGATAACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.56
Consensus pattern (25 bp):
TTTTACTTGATTTAAAATTTAATCA
Found at i:18520307 original size:5 final size:5
Alignment explanation
Indices: 18520297--18520368 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
18520287 GTGTTAAAAA
* *
18520297 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATTATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT A-TATT
18520343 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
18520369 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 32 0.57
6 11 0.20
7 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:18520350 original size:19 final size:19
Alignment explanation
Indices: 18520326--18520368 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
18520316 ATTATGTTTT
18520326 TATATTATATTATTATTA-A
1 TATATTATATTA-TATTATA
18520345 TATATTATATTATATTATA
1 TATATTATATTATATTATA
18520364 TATAT
1 TATAT
18520369 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:18520400 original size:19 final size:19
Alignment explanation
Indices: 18520373--18520413 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
18520363 ATATATACAT
* *
18520373 AAAACAAAAGAAAGAATAG
1 AAAAAAAAAGAAAGAAAAG
18520392 AAAAAAAAAGAAAGAAAAG
1 AAAAAAAAAGAAAGAAAAG
18520411 AAA
1 AAA
18520414 CAGAATAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.02
Consensus pattern (19 bp):
AAAAAAAAAGAAAGAAAAG
Found at i:18520401 original size:15 final size:15
Alignment explanation
Indices: 18520378--18520423 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
18520368 TACATAAAAC
*
18520378 AAAAGAAAGAATAGA
1 AAAAAAAAGAATAGA
18520393 AAAAAAAAGAA-AGA
1 AAAAAAAAGAATAGA
*
18520407 AAAGAAACAGAATAGA
1 AAA-AAAAAGAATAGA
18520423 A
1 A
18520424 GAGACGAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 6 0.22
15 17 0.63
16 4 0.15
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.04
Consensus pattern (15 bp):
AAAAAAAAGAATAGA
Found at i:18520480 original size:4 final size:4
Alignment explanation
Indices: 18520473--18520500 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
18520463 GAGAAGGAAG
18520473 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
18520501 AAGAAAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:18521382 original size:44 final size:45
Alignment explanation
Indices: 18521287--18521420 Score: 162
Period size: 44 Copynumber: 3.0 Consensus size: 45
18521277 ACAGGACAGA
* *
18521287 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
18521333 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * *
18521377 ACAGGAATAATTCATGTAAGTCCATGTTAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
18521421 CAGGATATTG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
44 37 0.49
45 1 0.01
46 37 0.49
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:18532207 original size:18 final size:18
Alignment explanation
Indices: 18532184--18532276 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
18532174 CCCAACTACT
*
18532184 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
18532202 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
18532220 GTATACGTAAATAGTACC
1 GTATACGTGAATAGTACC
* *
18532238 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
*
18532256 GTATACGTGAATAGTATC
1 GTATACGTGAATAGTACC
18532274 GTA
1 GTA
18532277 AACGGTCGTA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:18532236 original size:36 final size:36
Alignment explanation
Indices: 18532184--18532276 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
18532174 CCCAACTACT
* *
18532184 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
*
18532220 GTATACGTAAATAGTACCGTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
*
18532256 GTATACGTGAATAGTATCGTA
1 GTATACGTGAATAGTACCGTA
18532277 AACGGTCGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
Found at i:18537292 original size:27 final size:27
Alignment explanation
Indices: 18537254--18537308 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
18537244 AATGGAAAAT
18537254 AAGAAAAATTCATTTTTCTTCTTCAAC
1 AAGAAAAATTCATTTTTCTTCTTCAAC
18537281 AAGAAAAATTCATTTTTCTTCTTCAAC
1 AAGAAAAATTCATTTTTCTTCTTCAAC
18537308 A
1 A
18537309 TTTTGTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.18, G:0.04, T:0.40
Consensus pattern (27 bp):
AAGAAAAATTCATTTTTCTTCTTCAAC
Found at i:18560228 original size:25 final size:26
Alignment explanation
Indices: 18560198--18560257 Score: 86
Period size: 25 Copynumber: 2.3 Consensus size: 26
18560188 TTTTTTTCAA
*
18560198 TAAAAAAAACCAAAATCAATT-TTTT
1 TAAAAAAAACCAAAATCAATTGCTTT
**
18560223 TAAAAAACCCCAAAATCAATTGCTTT
1 TAAAAAAAACCAAAATCAATTGCTTT
18560249 TAAAAAAAA
1 TAAAAAAAA
18560258 ATAAAGTTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 19 0.66
26 10 0.34
ACGTcount: A:0.57, C:0.15, G:0.02, T:0.27
Consensus pattern (26 bp):
TAAAAAAAACCAAAATCAATTGCTTT
Found at i:18566011 original size:13 final size:13
Alignment explanation
Indices: 18565993--18566017 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18565983 AAATCGAGCC
18565993 ATAAATATTTATT
1 ATAAATATTTATT
18566006 ATAAATATTTAT
1 ATAAATATTTAT
18566018 GGAGTGTTAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATAAATATTTATT
Found at i:18569449 original size:21 final size:22
Alignment explanation
Indices: 18569425--18569479 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
18569415 ATTAAATATT
18569425 TATTTTAATTTTTTTAATAA-A
1 TATTTTAATTTTTTTAATAATA
* **
18569446 TATTTTCA-TAATTTAATAATA
1 TATTTTAATTTTTTTAATAATA
*
18569467 TATTTTTATTTTT
1 TATTTTAATTTTT
18569480 GTTACAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
20 9 0.35
21 15 0.58
22 2 0.08
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTTTAATTTTTTTAATAATA
Found at i:18570023 original size:2 final size:2
Alignment explanation
Indices: 18570018--18570056 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
18570008 CCCCTCACAA
18570018 TC TC TC TC 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 TC TC TC TC T
18570057 GCGTCGGTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:18575105 original size:33 final size:31
Alignment explanation
Indices: 18575067--18575129 Score: 108
Period size: 33 Copynumber: 2.0 Consensus size: 31
18575057 CCATGTTTTG
18575067 GAGTTAGGACAAGCACTAGATGGCTGGTGGTTA
1 GAGTTAGGACAAGCACTAGATGG--GGTGGTTA
18575100 GAGTTAGGACAAGCACTAGATGGGGTGGTT
1 GAGTTAGGACAAGCACTAGATGGGGTGGTT
18575130 TGAGCCTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 7 0.23
33 23 0.77
ACGTcount: A:0.27, C:0.11, G:0.38, T:0.24
Consensus pattern (31 bp):
GAGTTAGGACAAGCACTAGATGGGGTGGTTA
Found at i:18576578 original size:6 final size:6
Alignment explanation
Indices: 18576537--18576615 Score: 52
Period size: 6 Copynumber: 13.2 Consensus size: 6
18576527 GGGTACGGAT
* * * * * *
18576537 GGGGAT GGGGTG GAGGAG GTGGTG GGGGAG GAGGAG GGGGAG GGGGAG
1 GGGGAG GGGGAG GGGGAG GGGGAG GGGGAG GGGGAG GGGGAG GGGGAG
* * * *
18576585 GAGGCG GGGG-G TGGGGAT GGGGAG GAGGAG G
1 GGGGAG GGGGAG -GGGGAG GGGGAG GGGGAG G
18576616 TGGTGGTTGG
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
5 1 0.02
6 54 0.98
ACGTcount: A:0.16, C:0.01, G:0.75, T:0.08
Consensus pattern (6 bp):
GGGGAG
Found at i:18576586 original size:18 final size:18
Alignment explanation
Indices: 18576537--18576615 Score: 72
Period size: 18 Copynumber: 4.4 Consensus size: 18
18576527 GGGTACGGAT
* *
18576537 GGGGATGGGGTGGAGGAG
1 GGGGAGGGGGAGGAGGAG
* *
18576555 GTGGTGGGGGAGGAGGAG
1 GGGGAGGGGGAGGAGGAG
*
18576573 GGGGAGGGGGAGGAGGCG
1 GGGGAGGGGGAGGAGGAG
18576591 GGGG-GTGGGGATGG-GGAG
1 GGGGAG-GGGGA-GGAGGAG
*
18576609 GAGGAGG
1 GGGGAGG
18576616 TGGTGGTTGG
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
17 1 0.02
18 45 0.92
19 3 0.06
ACGTcount: A:0.16, C:0.01, G:0.75, T:0.08
Consensus pattern (18 bp):
GGGGAGGGGGAGGAGGAG
Found at i:18578421 original size:21 final size:21
Alignment explanation
Indices: 18578397--18578511 Score: 69
Period size: 24 Copynumber: 5.3 Consensus size: 21
18578387 AGATTCATTC
18578397 ATATTATTTT-TTTAAATATTT
1 ATATTATTTTATTT-AATATTT
18578418 ATATTATTTTAATTTAATATTT
1 ATATTATTTT-ATTTAATATTT
**
18578440 ACTAGTT-TTATATATTTTTTATTT
1 A-TA-TTATT-T-TATTTAATATTT
*
18578464 ATTAATT-TTTTATATAATTATTT
1 A-T-ATTATTTTATTTAA-TATTT
* *
18578487 -TACTATTAT-TTTAATATTT
1 ATATTATTTTATTTAATATTT
18578506 ATATTA
1 ATATTA
18578512 AAATAATATT
Statistics
Matches: 74, Mismatches: 10, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
19 5 0.07
20 10 0.14
21 14 0.19
22 12 0.16
23 13 0.18
24 18 0.24
25 2 0.03
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (21 bp):
ATATTATTTTATTTAATATTT
Found at i:18578439 original size:22 final size:21
Alignment explanation
Indices: 18578397--18578440 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
18578387 AGATTCATTC
18578397 ATATTATTTTTTTAAATATTT
1 ATATTATTTTTTTAAATATTT
18578418 ATATTATTTTAATTT-AATATTT
1 ATATTATTTT--TTTAAATATTT
18578440 A
1 A
18578441 CTAGTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.48
22 8 0.38
23 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
ATATTATTTTTTTAAATATTT
Found at i:18582632 original size:26 final size:24
Alignment explanation
Indices: 18582592--18582651 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
18582582 TTATTTCATT
* * *
18582592 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
18582616 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
18582642 AAATAAATAT
1 AAATAAATAT
18582652 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:18582663 original size:22 final size:22
Alignment explanation
Indices: 18582622--18582680 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
18582612 ATAATAAATC
* *
18582622 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
18582642 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
18582664 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
18582681 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:18582757 original size:15 final size:16
Alignment explanation
Indices: 18582727--18582759 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
18582717 AAATAGTTAT
18582727 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
18582744 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
18582759 A
1 A
18582760 AAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:18585681 original size:20 final size:22
Alignment explanation
Indices: 18585656--18585702 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
18585646 TTTGGTCTTG
*
18585656 ATTTAATT-TTTTATATTT-TA
1 ATTTAATTCTTGTATATTTATA
*
18585676 ATTTAATTCTTGTATTTTTATA
1 ATTTAATTCTTGTATATTTATA
18585698 ATTTA
1 ATTTA
18585703 TTAATTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 8 0.35
21 8 0.35
22 7 0.30
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (22 bp):
ATTTAATTCTTGTATATTTATA
Found at i:18586406 original size:24 final size:24
Alignment explanation
Indices: 18586379--18586427 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
18586369 ATTTGAATGT
18586379 ACTAAATCATATTAGAATTATTTA
1 ACTAAATCATATTAGAATTATTTA
*
18586403 ACTAAATCGTATTAGAATTATTTA
1 ACTAAATCATATTAGAATTATTTA
18586427 A
1 A
18586428 TTATTACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (24 bp):
ACTAAATCATATTAGAATTATTTA
Found at i:18586755 original size:18 final size:18
Alignment explanation
Indices: 18586721--18586755 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
18586711 TAAAAAATGA
*
18586721 TTAATTATAATTATTTTT
1 TTAATTATAATCATTTTT
18586739 TTAATTAT-ATCATTTTT
1 TTAATTATAATCATTTTT
18586756 ATAACATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (18 bp):
TTAATTATAATCATTTTT
Found at i:18589894 original size:40 final size:39
Alignment explanation
Indices: 18589751--18589894 Score: 184
Period size: 39 Copynumber: 3.6 Consensus size: 39
18589741 GCTACTCGTT
* * *
18589751 CAAATGCCTTCGGGATATAGCCCGGTTATAATAACTCGCA
1 CAAATGCCTTCGGGCT-TAGCCCGGATATAGTAACTCGCA
*
18589791 TAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCA
* *
18589830 CAAATGCCTTCGGGCTTAGCCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATAGTAAC-TCGCA
18589870 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
18589895 CATCATTCGA
Statistics
Matches: 93, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
38 1 0.01
39 58 0.62
40 34 0.37
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCA
Found at i:18597422 original size:39 final size:40
Alignment explanation
Indices: 18597332--18597494 Score: 183
Period size: 39 Copynumber: 4.1 Consensus size: 40
18597322 CGGAATTTAA
** *
18597332 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
18597372 CCGGTTATAGTAACTCGCATAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
18597411 CCGGA-ATTAGTAACTCGCACAAATGCCTTCGGG-CTTATC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
18597450 CCGGATATAGTCACTTAGCACAAA-ACCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
18597490 CCGGA
1 CCGGA
18597495 CATCATTCGA
Statistics
Matches: 106, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
38 1 0.01
39 59 0.56
40 46 0.43
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:18599629 original size:20 final size:20
Alignment explanation
Indices: 18599591--18599630 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
18599581 CCAGATATTT
* *
18599591 CATAAAATTTAGAATTTTTC
1 CATAAAATTTACAACTTTTC
*
18599611 CATAAATTTTACAACTTTTC
1 CATAAAATTTACAACTTTTC
18599631 AATTTAGTCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.45
Consensus pattern (20 bp):
CATAAAATTTACAACTTTTC
Found at i:18611949 original size:18 final size:17
Alignment explanation
Indices: 18611892--18611951 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
18611882 AATGAGTGAG
18611892 AAGTAAAAATTTAGGGGA
1 AAGTAAAAATTTA-GGGA
* *
18611910 AAATAAAAAGTTT-TGGA
1 AAGTAAAAA-TTTAGGGA
*
18611927 GAGTAAAAATTTAAGGGA
1 AAGTAAAAATTT-AGGGA
18611945 AAGTAAA
1 AAGTAAA
18611952 TAGGGGGAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
16 3 0.09
17 10 0.30
18 17 0.52
19 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.23
Consensus pattern (17 bp):
AAGTAAAAATTTAGGGA
Found at i:18612072 original size:30 final size:30
Alignment explanation
Indices: 18612027--18612085 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
18612017 GGGGCTGGGA
* *
18612027 TGGGAAGGAAGTAAAAGTTTTAGGGGGAAAG
1 TGGGAAGGAAGTAAAA-ATTGAGGGGGAAAG
18612058 TGGGAAGG-AGTAAAAATTGAGGGGGAAA
1 TGGGAAGGAAGTAAAAATTGAGGGGGAAA
18612086 ATAAAAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 11 0.42
30 7 0.27
31 8 0.31
ACGTcount: A:0.41, C:0.00, G:0.42, T:0.17
Consensus pattern (30 bp):
TGGGAAGGAAGTAAAAATTGAGGGGGAAAG
Found at i:18612366 original size:18 final size:18
Alignment explanation
Indices: 18612345--18612392 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
18612335 AATTTGAAAA
*
18612345 AAAAATTTAATTAACTCG
1 AAAAACTTAATTAACTCG
*
18612363 AAAAACTTGATTAACTC-
1 AAAAACTTAATTAACTCG
*
18612380 AAATAACTCAATT
1 AAA-AACTTAATT
18612393 CGTTTAACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 3 0.12
18 22 0.88
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.31
Consensus pattern (18 bp):
AAAAACTTAATTAACTCG
Found at i:18619101 original size:12 final size:12
Alignment explanation
Indices: 18619067--18619101 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
18619057 ACATATTTCT
18619067 TTTTTTTTTTTG
1 TTTTTTTTTTTG
*
18619079 TTTTTATTTTTG
1 TTTTTTTTTTTG
18619091 TTTTTTTTTTT
1 TTTTTTTTTTT
18619102 CTTGACCACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.03, C:0.00, G:0.06, T:0.91
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:18631554 original size:5 final size:6
Alignment explanation
Indices: 18631526--18631551 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
18631516 TATGCTCATG
18631526 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
18631552 TAAGATAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:18640781 original size:18 final size:17
Alignment explanation
Indices: 18640724--18640783 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
18640714 AATGAGTGAG
18640724 AAGTAAAAATTTAGGGGA
1 AAGTAAAAATTTA-GGGA
* *
18640742 AAATAAAAAGTTT-TGGA
1 AAGTAAAAA-TTTAGGGA
*
18640759 GAGTAAAAATTTAAGGGA
1 AAGTAAAAATTT-AGGGA
18640777 AAGTAAA
1 AAGTAAA
18640784 TAGGGGGAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
16 3 0.09
17 10 0.30
18 17 0.52
19 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.23
Consensus pattern (17 bp):
AAGTAAAAATTTAGGGA
Found at i:18640905 original size:30 final size:30
Alignment explanation
Indices: 18640860--18640918 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
18640850 GGGGCTGGGA
* *
18640860 TGGGAAGGAAGTAAAAGTTTTAGGGGGAAAG
1 TGGGAAGGAAGTAAAA-ATTGAGGGGGAAAG
18640891 TGGGAAGG-AGTAAAAATTGAGGGGGAAA
1 TGGGAAGGAAGTAAAAATTGAGGGGGAAA
18640919 ATAAAAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 11 0.42
30 7 0.27
31 8 0.31
ACGTcount: A:0.41, C:0.00, G:0.42, T:0.17
Consensus pattern (30 bp):
TGGGAAGGAAGTAAAAATTGAGGGGGAAAG
Found at i:18641079 original size:30 final size:30
Alignment explanation
Indices: 18641018--18641079 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
18641008 AGATAGGAGG
* **
18641018 GGAGTAAAAGTTTTGGGGAGAAAGTGGAAA
1 GGAGTAAAAGTTTTGGGGAGAAAATAAAAA
18641048 GGAGTAAAAGTTTTGAGGGA-AAAATAAAAA
1 GGAGTAAAAGTTTTG-GGGAGAAAATAAAAA
18641078 GG
1 GG
18641080 TTTGGAAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.45, C:0.00, G:0.35, T:0.19
Consensus pattern (30 bp):
GGAGTAAAAGTTTTGGGGAGAAAATAAAAA
Found at i:18641199 original size:18 final size:18
Alignment explanation
Indices: 18641178--18641225 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
18641168 AATTTGAAAA
*
18641178 AAAAATTTAATTAACTCG
1 AAAAACTTAATTAACTCG
*
18641196 AAAAACTTGATTAACTC-
1 AAAAACTTAATTAACTCG
*
18641213 AAATAACTCAATT
1 AAA-AACTTAATT
18641226 CGTTTAACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 3 0.12
18 22 0.88
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.31
Consensus pattern (18 bp):
AAAAACTTAATTAACTCG
Found at i:18648115 original size:5 final size:5
Alignment explanation
Indices: 18648105--18648129 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18648095 CAACCAGGAG
18648105 AAAGC AAAGC AAAGC AAAGC AAAGC
1 AAAGC AAAGC AAAGC AAAGC AAAGC
18648130 GCAGGGCTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAGC
Found at i:18660865 original size:20 final size:20
Alignment explanation
Indices: 18660836--18660878 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
18660826 TTTTTTGTTA
*
18660836 AATATTTTTTCTCATTTTTC
1 AATATATTTTCTCATTTTTC
*
18660856 AATATATTTTTTCATTTTTC
1 AATATATTTTCTCATTTTTC
18660876 AAT
1 AAT
18660879 TAGCCGTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.63
Consensus pattern (20 bp):
AATATATTTTCTCATTTTTC
Found at i:18668887 original size:22 final size:19
Alignment explanation
Indices: 18668848--18668888 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 19
18668838 TATTACTACA
18668848 ATAATTATATATATATATT
1 ATAATTATATATATATATT
18668867 ATAATTATGATAACTATATATT
1 ATAATTAT-AT-A-TATATATT
18668889 TTTACATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
20 2 0.11
21 1 0.05
22 8 0.42
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
ATAATTATATATATATATT
Found at i:18685908 original size:5 final size:5
Alignment explanation
Indices: 18685898--18685922 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18685888 AAAACGTAAA
18685898 AAAAC AAAAC AAAAC AAAAC AAAAC
1 AAAAC AAAAC AAAAC AAAAC AAAAC
18685923 CCTTAAGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:18691275 original size:20 final size:20
Alignment explanation
Indices: 18691233--18691276 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
18691223 GGTTGCAGAG
* * * *
18691233 GTTTTTTTTTTTGTTTTTTT
1 GTTTTTTTTTGTGTGTGTGT
18691253 GTTTTTTTTTGTGTGTGTGT
1 GTTTTTTTTTGTGTGTGTGT
18691273 GTTT
1 GTTT
18691277 GATTATTCCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (20 bp):
GTTTTTTTTTGTGTGTGTGT
Found at i:18696271 original size:30 final size:30
Alignment explanation
Indices: 18696235--18696299 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
18696225 ACATATTTTA
* *
18696235 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAAACAT
18696265 TTGTTAATTTTATTATTATTTTAAAAACAT
1 TTGTTAATTTTATTATTATTTTAAAAACAT
18696295 TTGTT
1 TTGTT
18696300 TGTTAAGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAAACAT
Found at i:18697675 original size:11 final size:11
Alignment explanation
Indices: 18697659--18697700 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
18697649 TAGCTATTTA
18697659 TAATAAAATAT
1 TAATAAAATAT
18697670 TAATAAAATATCT
1 TAATAAAATA--T
*
18697683 TATTAAAATAT
1 TAATAAAATAT
18697694 TAATAAA
1 TAATAAA
18697701 GTAATATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 17 0.63
13 10 0.37
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:18727664 original size:17 final size:18
Alignment explanation
Indices: 18727642--18727675 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18727632 TTTCTTCTTC
18727642 TTTTTTG-TTTTACTTTA
1 TTTTTTGTTTTTACTTTA
18727659 TTTTTTGTTTTTACTTT
1 TTTTTTGTTTTTACTTT
18727676 TAAAAGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.79
Consensus pattern (18 bp):
TTTTTTGTTTTTACTTTA
Found at i:18728915 original size:6 final size:6
Alignment explanation
Indices: 18728897--18728929 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
18728887 AATGAATGAA
*
18728897 ATGAGC ATAAGC ATGAGC ATGAGC ATGAGC ATG
1 ATGAGC ATGAGC ATGAGC ATGAGC ATGAGC ATG
18728930 TAAAGGGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.30, T:0.18
Consensus pattern (6 bp):
ATGAGC
Found at i:18737889 original size:11 final size:12
Alignment explanation
Indices: 18737855--18737889 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
18737845 GTAAAAAACA
18737855 AAAAAGAAAAAT
1 AAAAAGAAAAAT
18737867 AAAAAGAAAAAT
1 AAAAAGAAAAAT
18737879 -AAAAGAAAAAT
1 AAAAAGAAAAAT
18737890 CAAGTAGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 11 0.48
12 12 0.52
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (12 bp):
AAAAAGAAAAAT
Found at i:18741457 original size:17 final size:17
Alignment explanation
Indices: 18741420--18741453 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18741410 AATTGATCTA
18741420 ATTTAAATTATATTATT
1 ATTTAAATTATATTATT
18741437 ATTTAAA-TATATT-TT
1 ATTTAAATTATATTATT
18741452 AT
1 AT
18741454 ATTTTGCAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 6 0.35
17 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTAAATTATATTATT
Found at i:18745853 original size:9 final size:9
Alignment explanation
Indices: 18745839--18745925 Score: 52
Period size: 9 Copynumber: 9.7 Consensus size: 9
18745829 TTTATACAAA
18745839 TAATTCGGT
1 TAATTCGGT
**
18745848 TAATTCAAT
1 TAATTCGGT
18745857 TAATTCGGT
1 TAATTCGGT
***
18745866 TAATTTAAT
1 TAATTCGGT
* *
18745875 TAA-TCTAGA
1 TAATTC-GGT
*
18745884 TAATTTGAG-
1 TAATTCG-GT
18745893 TAATTCGGT
1 TAATTCGGT
* *
18745902 TAATTTGAT
1 TAATTCGGT
18745911 TAATTCGGT
1 TAATTCGGT
18745920 TAATTC
1 TAATTC
18745926 ATTTAATTTT
Statistics
Matches: 57, Mismatches: 17, Indels: 8
0.70 0.21 0.10
Matches are distributed among these distances:
8 2 0.04
9 53 0.93
10 2 0.04
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:18745862 original size:18 final size:18
Alignment explanation
Indices: 18745839--18745924 Score: 102
Period size: 18 Copynumber: 4.8 Consensus size: 18
18745829 TTTATACAAA
*
18745839 TAATTCGGTTAATTCAAT
1 TAATTCGGTTAATTTAAT
18745857 TAATTCGGTTAATTTAAT
1 TAATTCGGTTAATTTAAT
* * * *
18745875 TAA-TCTAGATAATTTGAG
1 TAATTC-GGTTAATTTAAT
*
18745893 TAATTCGGTTAATTTGAT
1 TAATTCGGTTAATTTAAT
18745911 TAATTCGGTTAATT
1 TAATTCGGTTAATT
18745925 CATTTAATTT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
17 2 0.03
18 54 0.93
19 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.47
Consensus pattern (18 bp):
TAATTCGGTTAATTTAAT
Found at i:18762164 original size:23 final size:23
Alignment explanation
Indices: 18762134--18762220 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
18762124 GCTTTATCGA
* *
18762134 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
18762157 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
18762178 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
18762200 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
18762221 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:18767054 original size:20 final size:21
Alignment explanation
Indices: 18767016--18767055 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
18767006 CCCATTTTTC
*
18767016 ATTCTTTTTTACGTTTAAATTT
1 ATTCTTTTATACG-TTAAATTT
18767038 ATTCTTTTATACG-TAAAT
1 ATTCTTTTATACGTTAAAT
18767056 CTAGAGACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
22 12 0.71
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.57
Consensus pattern (21 bp):
ATTCTTTTATACGTTAAATTT
Found at i:18775747 original size:50 final size:53
Alignment explanation
Indices: 18775693--18775790 Score: 121
Period size: 50 Copynumber: 1.9 Consensus size: 53
18775683 TTCTATTATA
* ** *
18775693 TATTTATCTAATCTA-TTAT-ATATATTCTAATA-TATATTAGTATTAGAATT
1 TATTTATATAATCTATTTATAATATATTAAAATATTATATTAATATTAGAATT
* *
18775743 TATTTATATATTTTATTTATAATATATTAAAATATTATATTAATATTA
1 TATTTATATAATCTATTTATAATATATTAAAATATTATATTAATATTA
18775791 TTTTTATATT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
50 12 0.31
51 4 0.10
52 11 0.28
53 12 0.31
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (53 bp):
TATTTATATAATCTATTTATAATATATTAAAATATTATATTAATATTAGAATT
Found at i:18775770 original size:24 final size:24
Alignment explanation
Indices: 18775690--18775804 Score: 63
Period size: 24 Copynumber: 4.7 Consensus size: 24
18775680 TAATTCTATT
* * *
18775690 ATATATTTATCTAATCTA-TTAT-
1 ATATATTTATATATTTTATTTATA
* *
18775712 ATATATTCTAATATATATTAGTATTAGA
1 ATATATT-T-ATATATTTTA-T-TTATA
*
18775740 ATTTATTTATATATTTTATTTATA
1 ATATATTTATATATTTTATTTATA
* * * *
18775764 ATATATTAAAATATTATATTAATA
1 ATATATTTATATATTTTATTTATA
* *
18775788 TTATTTTTATATTATTT
1 ATATATTTATA-TATTT
18775805 ATCTATTTCT
Statistics
Matches: 68, Mismatches: 18, Indels: 11
0.70 0.19 0.11
Matches are distributed among these distances:
22 7 0.10
23 1 0.01
24 36 0.53
25 5 0.07
26 9 0.13
27 4 0.06
28 6 0.09
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.57
Consensus pattern (24 bp):
ATATATTTATATATTTTATTTATA
Found at i:18775811 original size:11 final size:11
Alignment explanation
Indices: 18775742--18775811 Score: 54
Period size: 11 Copynumber: 6.2 Consensus size: 11
18775732 GTATTAGAAT
18775742 TTATTTATATA
1 TTATTTATATA
18775753 TTTTATTTATA-A
1 --TTATTTATATA
* *
18775765 TATATTAAAATA
1 T-TATTTATATA
18775777 TTATATTA-ATA
1 TTAT-TTATATA
*
18775788 TTATTTTTATA
1 TTATTTATATA
*
18775799 TTATTTATCTA
1 TTATTTATATA
18775810 TT
1 TT
18775812 TCTATTTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
10 3 0.06
11 30 0.64
12 5 0.11
13 9 0.19
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (11 bp):
TTATTTATATA
Found at i:18775821 original size:19 final size:19
Alignment explanation
Indices: 18775789--18775825 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18775779 ATATTAATAT
*
18775789 TATTTTTATATTATTTATC
1 TATTTCTATATTATTTATC
*
18775808 TATTTCTATTTTATTTAT
1 TATTTCTATATTATTTAT
18775826 TTCATTGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (19 bp):
TATTTCTATATTATTTATC
Found at i:18776236 original size:45 final size:45
Alignment explanation
Indices: 18776097--18776235 Score: 224
Period size: 45 Copynumber: 3.1 Consensus size: 45
18776087 AGTTTTTATT
* *
18776097 TCAAACAAAAGATTACTAGCTTTAGATGGTAATAAAAATTGAAGC
1 TCAAACAAAAGATTACTAGCTTTAGATGCTAATAAAAATTAAAGC
* *
18776142 TCAAACAAAAGTTTACTAGGTTTAGATGCTAATAAAAATTAAAGC
1 TCAAACAAAAGATTACTAGCTTTAGATGCTAATAAAAATTAAAGC
* *
18776187 TCAATCAAAAGATTACTAGCTTTAGATTCTAATAAAAATTAAAGC
1 TCAAACAAAAGATTACTAGCTTTAGATGCTAATAAAAATTAAAGC
18776232 TCAA
1 TCAA
18776236 TAACCTATTT
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 86 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (45 bp):
TCAAACAAAAGATTACTAGCTTTAGATGCTAATAAAAATTAAAGC
Found at i:18779521 original size:100 final size:100
Alignment explanation
Indices: 18779348--18779547 Score: 391
Period size: 100 Copynumber: 2.0 Consensus size: 100
18779338 TCTGCACCAA
18779348 CAACATAAAACAATGTCAAACACAACACAAACATAATTACAAGATAGAGGGAACAGACTAGTAGC
1 CAACATAAAACAATGTCAAACACAACACAAACATAATTACAAGATAGAGGGAACAGACTAGTAGC
18779413 TATATTACTCAAAACAGTATTGGGAAAAAAAGGAT
66 TATATTACTCAAAACAGTATTGGGAAAAAAAGGAT
18779448 CAACATAAAACAATGTCAAACACAACACAAACATAATTACAAGATAGAGGGAACAGACTAGTAGC
1 CAACATAAAACAATGTCAAACACAACACAAACATAATTACAAGATAGAGGGAACAGACTAGTAGC
*
18779513 TATATTACTCAAAACAGTATTGGGAAAAAACGGAT
66 TATATTACTCAAAACAGTATTGGGAAAAAAAGGAT
18779548 AGAAGTAGAC
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.51, C:0.17, G:0.15, T:0.18
Consensus pattern (100 bp):
CAACATAAAACAATGTCAAACACAACACAAACATAATTACAAGATAGAGGGAACAGACTAGTAGC
TATATTACTCAAAACAGTATTGGGAAAAAAAGGAT
Found at i:18785236 original size:20 final size:20
Alignment explanation
Indices: 18785211--18785250 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
18785201 TGGATTCAAA
*
18785211 CATTAATGTAAATAAATGGT
1 CATTAATGCAAATAAATGGT
18785231 CATTAATGCAAATAAATGGT
1 CATTAATGCAAATAAATGGT
18785251 TTCTCAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (20 bp):
CATTAATGCAAATAAATGGT
Found at i:18788073 original size:22 final size:22
Alignment explanation
Indices: 18788047--18788089 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
18788037 GAGAATGTTC
18788047 ATTCTTGATTATAGACTTGTAT
1 ATTCTTGATTATAGACTTGTAT
18788069 ATTCTTGATTATAGACTTGTA
1 ATTCTTGATTATAGACTTGTA
18788090 CACCTAGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (22 bp):
ATTCTTGATTATAGACTTGTAT
Found at i:18790416 original size:47 final size:47
Alignment explanation
Indices: 18790310--18790499 Score: 202
Period size: 47 Copynumber: 3.9 Consensus size: 47
18790300 ATGTGATTTT
* * * *
18790310 CGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGCTTC
1 CGTATAAGACCATATCTGGGATATGGCATC-G-G---TGTGATATGTGCTAC
*
18790362 CGTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTAC
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTAC
* * *
18790409 TGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGAT-C
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTAC
* * * *
18790455 CGTGTAAGACCATAGCTGGGCTATGGCCTCGGTATGTGATATGTG
1 CGTATAAGACCATATCTGGGATATGGCATCGG--TGTGATATGTG
18790500 ACTATGTGCA
Statistics
Matches: 121, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
46 27 0.22
47 55 0.45
48 11 0.09
50 1 0.01
51 1 0.01
52 26 0.21
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (47 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTAC
Found at i:18790487 original size:93 final size:97
Alignment explanation
Indices: 18790293--18790518 Score: 237
Period size: 93 Copynumber: 2.3 Consensus size: 97
18790283 CCATGGCAGC
* * * * *
18790293 ATGTGAAATGTGATTTTCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTG
1 ATGTGATATGTGACTAT-GTATAAGACCATAGCTGGGATATGGCATC-GAG--ATGTGATATGTG
* *
18790358 CTTCCGTATAAGACCATATCCGGGATATGGCATCGG
62 CATCCGTATAAGACCATAGCCGGGATATGGCATCGG
*
18790394 -TGTGATATGTG-CTACTGTATAAGACCATATCTGGGATATGGCATC-AG-TGTGATATGTG-AT
1 ATGTGATATGTGACTA-TGTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCAT
* * * *
18790454 CCGTGTAAGACCATAGCTGGGCTATGGCCTCGG
65 CCGTATAAGACCATAGCCGGGATATGGCATCGG
**
18790487 TATGTGATATGTGACTATGTGCAAGACCATAG
1 -ATGTGATATGTGACTATGTATAAGACCATAG
18790519 TTTTACTATG
Statistics
Matches: 106, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
93 29 0.27
94 11 0.10
95 23 0.22
96 3 0.03
97 2 0.02
99 27 0.25
100 11 0.10
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (97 bp):
ATGTGATATGTGACTATGTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCATC
CGTATAAGACCATAGCCGGGATATGGCATCGG
Found at i:18792405 original size:15 final size:16
Alignment explanation
Indices: 18792378--18792407 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18792368 GGGGGCGTTA
18792378 CACATATTATGTTAAC
1 CACATATTATGTTAAC
18792394 CACATA-TATGTTAA
1 CACATATTATGTTAA
18792408 GTAGTGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.37
Consensus pattern (16 bp):
CACATATTATGTTAAC
Found at i:18794876 original size:37 final size:40
Alignment explanation
Indices: 18794802--18794877 Score: 97
Period size: 37 Copynumber: 2.0 Consensus size: 40
18794792 AAATATTTTG
*
18794802 TATAAACACTTTATATAGCCATTTCATATATCTATTTCCA
1 TATAAACACTTTATATAGCCATTTCATATATCCATTTCCA
*
18794842 TATAAACA-TTT-TGTA-CCATTTCATAT-TACCATTTCC
1 TATAAACACTTTATATAGCCATTTCATATAT-CCATTTCC
18794878 GTTTACTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
36 1 0.03
37 18 0.55
38 3 0.09
39 3 0.09
40 8 0.24
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.43
Consensus pattern (40 bp):
TATAAACACTTTATATAGCCATTTCATATATCCATTTCCA
Found at i:18802194 original size:5 final size:5
Alignment explanation
Indices: 18802184--18802213 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
18802174 TGTTTCTTTT
18802184 ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA
18802214 CTTAATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:18802804 original size:46 final size:46
Alignment explanation
Indices: 18802737--18802912 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
18802727 TATTTGGGCA
18802737 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
18802783 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
18802830 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
18802876 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18802913 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.60
47 32 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:18802892 original size:93 final size:93
Alignment explanation
Indices: 18802733--18802905 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
18802723 GGGATATTTG
* * *
18802733 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
18802798 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
18802826 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
18802891 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
18802906 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:18804920 original size:3 final size:3
Alignment explanation
Indices: 18804912--18804944 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
18804902 AGATATTTAC
18804912 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
18804945 CAACTAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:18806433 original size:20 final size:21
Alignment explanation
Indices: 18806399--18806452 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
18806389 TGTTGATATT
*
18806399 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
18806420 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
18806440 TTTTATTATTTTA
1 TTATATTATTTTA
18806453 TTATTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:18806458 original size:11 final size:11
Alignment explanation
Indices: 18806442--18806469 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
18806432 ATGAGATATT
18806442 TTATTATTTTA
1 TTATTATTTTA
18806453 TTATTATTTTA
1 TTATTATTTTA
18806464 TTATTA
1 TTATTA
18806470 ATTATTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:18811272 original size:54 final size:54
Alignment explanation
Indices: 18811200--18811337 Score: 222
Period size: 54 Copynumber: 2.6 Consensus size: 54
18811190 ATTGTCGTTG
* * *
18811200 CAGGGAATTTAGCATGGACTGGTAATCCTGACAATACTCTATAAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATAAGTTTATATTA
* *
18811254 TAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATAAGTTTATATTA
*
18811308 CAGGGGATTTAGCCTGGACTAGTAATCCCG
1 CAGGGGATTTAGCCTGGACTGGTAATCCCG
18811338 CTGTAAGGAT
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 77 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (54 bp):
CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATAAGTTTATATTA
Found at i:18811400 original size:21 final size:21
Alignment explanation
Indices: 18811376--18811447 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
18811366 CTCTCTAAAA
18811376 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
** * *
18811397 TGAAA-GATACAATGGCAACATGAT
1 TGAAATG-TGTAA--G-ACCATGGT
18811421 TAGAAATGTGTAAGACCATGGT
1 T-GAAATGTGTAAGACCATGGT
18811443 TGAAA
1 TGAAA
18811448 GATACCATGG
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 1 0.03
21 12 0.32
22 7 0.19
23 2 0.05
24 7 0.19
25 7 0.19
26 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:18811426 original size:25 final size:25
Alignment explanation
Indices: 18811398--18811472 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
18811388 GACCATGGTT
18811398 GAAAGATACAATGGCAACATGATTA
1 GAAAGATACAATGGCAACATGATTA
** * *
18811423 GAAATG-TGTAA--G-ACCATGGTT-
1 GAAA-GATACAATGGCAACATGATTA
*
18811444 GAAAGATACCATGGCAACATGATTA
1 GAAAGATACAATGGCAACATGATTA
18811469 GAAA
1 GAAA
18811473 TGTGTAAGAC
Statistics
Matches: 35, Mismatches: 9, Indels: 12
0.62 0.16 0.21
Matches are distributed among these distances:
20 1 0.03
21 6 0.17
22 7 0.20
23 2 0.06
24 7 0.20
25 11 0.31
26 1 0.03
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (25 bp):
GAAAGATACAATGGCAACATGATTA
Found at i:18811429 original size:46 final size:46
Alignment explanation
Indices: 18811375--18811693 Score: 430
Period size: 46 Copynumber: 7.0 Consensus size: 46
18811365 GCTCTCTAAA
*
18811375 ATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
18811421 -TAGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 AT-GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
18811467 -TAGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 AT-GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** **
18811513 ATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAATTTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
18811558 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** *
18811604 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
18811650 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
18811694 TCAAAGATAA
Statistics
Matches: 246, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
45 42 0.17
46 203 0.83
47 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:18811709 original size:183 final size:183
Alignment explanation
Indices: 18811375--18811711 Score: 491
Period size: 183 Copynumber: 1.8 Consensus size: 183
18811365 GCTCTCTAAA
***
18811375 ATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAACATGATTAGAAATGTGTAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAACATGATTAGAAATGAACAAGACCAT
* * * *
18811440 GGTTGAAAGATACCATGGCAACATGATTAGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
66 GGTTGAAAGATACCATGGCAACATGATCAGAAATGAGTAAGACCATAGTTGAAAGACACCATGGC
* *
18811505 AACGTGACATGAAAGAATAAGACCATGGTTGAAAGATACCATGGCAATTTGAT
131 AACATGACAAGAAAGAATAAGACCATGGTTGAAAGATACCATGGCAATTTGAT
* *
18811558 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGA-TATGAAATGAACAAGACCA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAACATGATTA-GAAATGAACAAGACCA
*
18811622 TGGTTGAAAGATACCATGGCAACATGA-CAGAAAATGAGTAAGACCATAGTTGAAAGACACTATG
65 TGGTTGAAAGATACCATGGCAACATGATCAG-AAATGAGTAAGACCATAGTTGAAAGACACCATG
* * *
18811686 GCATCATGTCAAAGATA-AATAAGACC
129 GCAACATGAC-AAGAAAGAATAAGACC
18811712 GTGGATGGGA
Statistics
Matches: 136, Mismatches: 15, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
182 4 0.03
183 128 0.94
184 4 0.03
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (183 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAACATGATTAGAAATGAACAAGACCAT
GGTTGAAAGATACCATGGCAACATGATCAGAAATGAGTAAGACCATAGTTGAAAGACACCATGGC
AACATGACAAGAAAGAATAAGACCATGGTTGAAAGATACCATGGCAATTTGAT
Found at i:18811711 original size:137 final size:137
Alignment explanation
Indices: 18811375--18811693 Score: 448
Period size: 137 Copynumber: 2.3 Consensus size: 137
18811365 GCTCTCTAAA
* *
18811375 ATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAACATGATTAGAAATGTGTAAGACCAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACAATGGCATCATGA-TAGAAATGTGTAAGACCAT
***
18811440 GGTTGAAAGATACCATGGCAACATGATTAGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
65 GGTTGAAAGATACCATGGCAACATGATTAGAAATGAACAAGACCATGGTTGAAAGATACCATGGC
*
18811505 AACGTGAC
130 AACATGAC
* * *
18811513 ATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAAT-TTGATATGAAATGTGTAAGACCA
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACAATGGC-ATCATGATA-GAAATGTGTAAGACCA
*
18811576 TGGTTGAAAGATACCATGGCAACGTGA-TATGAAATGAACAAGACCATGGTTGAAAGATACCATG
64 TGGTTGAAAGATACCATGGCAACATGATTA-GAAATGAACAAGACCATGGTTGAAAGATACCATG
18811640 GCAACATGAC
128 GCAACATGAC
* * *
18811650 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACAATGGCATCATG
18811694 TCAAAGATAA
Statistics
Matches: 160, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
136 5 0.03
137 119 0.74
138 36 0.22
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.22
Consensus pattern (137 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACAATGGCATCATGATAGAAATGTGTAAGACCATG
GTTGAAAGATACCATGGCAACATGATTAGAAATGAACAAGACCATGGTTGAAAGATACCATGGCA
ACATGAC
Found at i:18820110 original size:30 final size:31
Alignment explanation
Indices: 18820068--18820129 Score: 117
Period size: 30 Copynumber: 2.0 Consensus size: 31
18820058 GGAAGAATAA
18820068 TATCAGCAAAAAAAAAACCAAGATATTTCTT
1 TATCAGCAAAAAAAAAACCAAGATATTTCTT
18820099 TATCAGC-AAAAAAAAACCAAGATATTTCTT
1 TATCAGCAAAAAAAAAACCAAGATATTTCTT
18820129 T
1 T
18820130 CTCTTCTTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 24 0.77
31 7 0.23
ACGTcount: A:0.50, C:0.16, G:0.06, T:0.27
Consensus pattern (31 bp):
TATCAGCAAAAAAAAAACCAAGATATTTCTT
Found at i:18825988 original size:20 final size:20
Alignment explanation
Indices: 18825941--18825988 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
18825931 GTTTTTTGGG
18825941 TTTCCAAGCTTTTAGCATAA
1 TTTCCAAGCTTTTAGCATAA
* *
18825961 TCTGCCAAG-TTTTTGCATTAA
1 T-TTCCAAGCTTTTAGCA-TAA
18825982 TTTCCAA
1 TTTCCAA
18825989 AGAAGAGTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (20 bp):
TTTCCAAGCTTTTAGCATAA
Found at i:18828711 original size:52 final size:51
Alignment explanation
Indices: 18828640--18829044 Score: 534
Period size: 52 Copynumber: 8.1 Consensus size: 51
18828630 ATCAAGTGAT
* **
18828640 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
18828692 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTG---A-T-
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* *
18828738 AAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
*
18828784 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
18828836 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
18828888 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* *
18828939 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
** *
18828986 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-AAGTG
18829038 ATAAGTG
1 A-AAGTG
18829045 GCTACACTTA
Statistics
Matches: 322, Mismatches: 15, Indels: 31
0.88 0.04 0.08
Matches are distributed among these distances:
46 129 0.40
48 1 0.00
49 1 0.00
51 1 0.00
52 185 0.57
53 5 0.02
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:18828934 original size:104 final size:98
Alignment explanation
Indices: 18828632--18829044 Score: 523
Period size: 98 Copynumber: 4.1 Consensus size: 98
18828622 TACTTCTGAT
* ** *
18828632 CAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGT
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC------AAAGT
* * *
18828697 GATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTG-
59 GATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
*
18828736 --A-T--AAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
18828796 GATAGCTTCAGCTACACTTATCTGATCAAGTGA
66 GATAGCTTCAGCTACACTTATCTGATCAAGTGA
* *
18828829 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTG
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC------AAAGTG
*
18828894 ATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
60 ATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
*
18828933 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
* *
18828998 GATAGCTTTAGCTACACTTATCTGATCAAGAGA
66 GATAGCTTCAGCTACACTTATCTGATCAAGTGA
*
18829031 CAAAGTGATAAGTG
1 C-AAGTGAAAAGTG
18829045 GCTACACTTA
Statistics
Matches: 278, Mismatches: 18, Indels: 31
0.85 0.06 0.09
Matches are distributed among these distances:
92 41 0.15
95 1 0.00
96 1 0.00
98 128 0.46
99 11 0.04
101 1 0.00
102 1 0.00
104 94 0.34
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (98 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
GATAGCTTCAGCTACACTTATCTGATCAAGTGA
Found at i:18829034 original size:46 final size:44
Alignment explanation
Indices: 18828940--18829119 Score: 192
Period size: 37 Copynumber: 4.3 Consensus size: 44
18828930 TGACAAGTGA
*
18828940 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTT--GCTACACTTATCTGATCAAGAGAC
18828986 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGC-TT-GCTACACTTATCTGATCAAGAGAC
*
18829032 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
18829069 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGGGAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
18829106 -AAGTGATAAGTGAT
1 AAAGTGATAAGTGAT
18829120 CATACGTAAG
Statistics
Matches: 125, Mismatches: 5, Indels: 15
0.86 0.03 0.10
Matches are distributed among these distances:
36 9 0.07
37 58 0.46
38 1 0.01
39 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 51 0.41
47 2 0.02
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (44 bp):
AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
Found at i:18829052 original size:37 final size:37
Alignment explanation
Indices: 18829008--18829117 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
18828998 GATAGCTTTA
18829008 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
18829045 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
18829082 GCTACACTTATCTGATCAAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
18829118 ATCATACGTA
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 12 0.17
37 58 0.83
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:18830434 original size:49 final size:49
Alignment explanation
Indices: 18830373--18830615 Score: 387
Period size: 49 Copynumber: 4.9 Consensus size: 49
18830363 ATGTGAACAT
18830373 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
***
18830423 GTGATATGTGATTCCGTGTAAGACCATAGCCCAGCTATGGTCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGG-CATCGGTAA
18830473 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
18830522 GTGATATGTGACTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
18830571 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
18830616 AGAAAACGAA
Statistics
Matches: 179, Mismatches: 13, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
49 129 0.72
50 50 0.28
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:18830549 original size:99 final size:98
Alignment explanation
Indices: 18830373--18830615 Score: 387
Period size: 99 Copynumber: 2.5 Consensus size: 98
18830363 ATGTGAACAT
*
18830373 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATGTGATTCC
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATGTGACTCC
18830438 GTGTAAGACCATAGCCCAGCTATGGTCATCGGTAA
65 GTGTAAGACCATAGCCCAGCTATGG-CATCGGTAA
18830473 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATGTGACTCCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATGTGACTCCG
*** *
18830538 TGTAAGACCATAGCTGGGCTATGGCATCGGTAT
66 TGTAAGACCATAGCCCAGCTATGGCATCGGTAA
* * * *
18830571 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
18830616 AGAAAACGAA
Statistics
Matches: 134, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
98 49 0.37
99 81 0.60
100 4 0.03
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (98 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATGTGACTCCG
TGTAAGACCATAGCCCAGCTATGGCATCGGTAA
Done.