Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold62
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: 1452230
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.24
Warning! 388291 characters in sequence are not A, C, G, or T
File 5 of 7
Found at i:927536 original size:19 final size:19
Alignment explanation
Indices: 927489--927544 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
927479 TTGCTAGTTT
*
927489 CATGTATTGATACAATTGAG
1 CATGTATCGATACAA-TGAG
** *
927509 TGTGAATCGATACAATGAG
1 CATGTATCGATACAATGAG
*
927528 CATGTATCGATATAATG
1 CATGTATCGATACAATG
927545 TATCGATACA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:930209 original size:154 final size:154
Alignment explanation
Indices: 929611--930372 Score: 434
Period size: 156 Copynumber: 4.9 Consensus size: 154
929601 TGAAACGGCC
* * * * *
929611 TAAAATGATGAACCTATCCTTAAATACATACCTTTGACATAAATGTGACCTAGTGACTATCTAAG
1 TAAAAAGATAAACCTATCC-TAAATACATACCTTTGGCATAAACGTGACCTAGTGACTACCTAAG
* * * * * * **
929676 AC-TCGATTCTAGGAAAAATAATCAAAATGCCCTTAGGGTATATCTTCGATGTGAAAGTATCTCA
65 ACTTAGATTC-AAGAAAAATTACCAAAATGCCCTTAAGGTATACCTTC-ATGTGAAAGTATCTTG
*
929740 GTAACCCTAAAGGGC-TCGAAAATGATA
128 GTAACCCTAAAGGACAT-GAAAATGATA
* * * * * * *
929767 TAAAAAGACAAACCTATACCTAAA-AGCATGCCTTTGGCATAAAGGCGACCTAGAGATTACCTAT
1 TAAAAAGATAAACCTAT-CCTAAATA-CATACCTTTGGCATAAACGTGACCTAGTGACTACCTAA
* * * * * * ** *
929831 GAC-TCGGTTTAAGAAAAAATTACTAAAATGCTCC-TAAGGTACACCTTTAACATGAAAGTACCT
64 GACTTAGATTCAAG-AAAAATTACCAAAATGC-CCTTAAGGTATACC-TTCATGTGAAAGTATCT
** *
929894 TGGTAACTTTAAAGGACA-CAAATATGA-A
126 TGGTAACCCTAAAGGACATGAAA-ATGATA
* * * * * * * * *** * * *
929922 CCTAAGAGGGTGAACCTATCCTAAATGCATACTTTTGTCTTAAAAACGACTTGGTGACTACTTAA
1 --TAAAAAGATAAACCTATCCTAAATACATACCTTTGGCATAAACGTGACCTAGTGACTACCTAA
* * * * * * * *
929987 AACTCA-ATTTCAAGAAAAATTACTAAAAT-ACCTTTAGGTATATCTTTGATGTGAAAATATCCT
64 GACTTAGA-TTCAAGAAAAATTACCAAAATGCCCTTAAGGTATA-CCTTCATGTGAAAGTAT-CT
*
930050 T-GTAACCCTAAAGGACATGAAAATGATG
126 TGGTAACCCTAAAGGACATGAAAATGATA
* * * *
930078 TAAAAAGATAAACCTATCCTAAGT-CATACCTTTGGCATAAAACGTGACTTGGTGATTACCTAAG
1 TAAAAAGATAAACCTATCCTAAATACATACCTTTGGCAT-AAACGTGACCTAGTGACTACCTAAG
930142 ACTTAG-TT-AAGGAAAAAATTACCAAAATGCCCTTAAGGTATACCTTCATTGTG-AAGTATCTT
65 ACTTAGATTCAA-G-AAAAATTACCAAAATGCCCTTAAGGTATACCTTCA-TGTGAAAGTATCTT
* * **
930204 GGTAACCTTAAAAGACACAAAAATGA-A
127 GGTAACCCTAAAGGACATGAAAATGATA
* * ** * * **
930231 CCTAAAAA-AGTGAAA-ATATCCTAAACACCCACCATTAGCATATAA-AAGACCT-GATGACTA-
1 --TAAAAAGA-T-AAACCTATCCTAAATACATACCTTTGGCATA-AACGTGACCTAG-TGACTAC
** * * *
930291 CTTGGAAC-TAGATTCTA-AAAAATTACCAAAATGCCCATAATGTATACCTTCAATGTGAAAGTA
60 CTAAG-ACTTAGATTCAAGAAAAATTACCAAAATGCCCTTAAGGTATACCTTC-ATGTGAAAGTA
930354 TCTTGGTAACCCTAAAGGA
123 TCTTGGTAACCCTAAAGGA
930373 TACAAAAATG
Statistics
Matches: 460, Mismatches: 110, Indels: 74
0.71 0.17 0.11
Matches are distributed among these distances:
152 2 0.00
153 53 0.12
154 119 0.26
155 86 0.19
156 177 0.38
157 23 0.05
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (154 bp):
TAAAAAGATAAACCTATCCTAAATACATACCTTTGGCATAAACGTGACCTAGTGACTACCTAAGA
CTTAGATTCAAGAAAAATTACCAAAATGCCCTTAAGGTATACCTTCATGTGAAAGTATCTTGGTA
ACCCTAAAGGACATGAAAATGATA
Found at i:930292 original size:309 final size:310
Alignment explanation
Indices: 929712--930385 Score: 672
Period size: 309 Copynumber: 2.2 Consensus size: 310
929702 ATGCCCTTAG
* *
929712 GGTATATCTTCGATGTGAAAGTATCTCAGTAACCCTAAAGGGCTCGAAAATGATATAAAAAGACA
1 GGTATATCTTCGATGTGAAAATATCTCAGTAACCCTAAAGGACTCGAAAATGATATAAAAAGACA
* * * *
929777 AACCTATACCTAAAAGCATGCCTTTGGCATAAAGGCGACCTAGAGATTACCTATGACTCGGTTTA
66 AACCTATACCT-AAAGCATACCTTTGGCATAAACGCGACCTAGAGATTACCTAAGACTCAGTTTA
* * *
929842 AGAAAAAATTACTAAAATGCTCCTAAGGTACACCTTTAACATGAAAGTACCTTGGTAACTTTAAA
130 AGAAAAAATTACCAAAATGCTCCTAAGGTACACCTTCAACATGAAAGTACCTTGGTAACCTTAAA
* * * ** ** ** * * * *
929907 GGACACAAATATGAACCTAAGAGGGTGAACCTATCCTAAATGCATACTTTTGTCTTAAAAACGAC
195 AGACACAAAAATGAACCTAAAAAAGTGAAAATATCCTAAACACACACATTAGTCATAAAAACGAC
* *
929972 TTGGTGACTACTTAAAACTCAATTTCAAGAAAAATTACTAAAATACCTTTA
260 CTGATGACTACTTAAAACTCAATTTCAAGAAAAATTACTAAAATACCTTTA
* * *
930023 GGTATATCTTTGATGTGAAAATATC-CTTGTAACCCTAAAGGACAT-GAAAATGATGTAAAAAGA
1 GGTATATCTTCGATGTGAAAATATCTC-AGTAACCCTAAAGGAC-TCGAAAATGATATAAAAAGA
* * * * * *
930086 TAAACCTAT-CCT-AAGTCATACCTTTGGCATAAAACGTGACTTGGTGATTACCTAAGACTTAG-
64 CAAACCTATACCTAAAG-CATACCTTTGGCAT-AAACGCGACCTAGAGATTACCTAAGACTCAGT
* *** *
930148 TTAAGGAAAAAATTACCAAAATGC-CCTTAAGGTATACCTTCATTGTG-AAGTATCTTGGTAACC
127 TTAA-GAAAAAATTACCAAAATGCTCC-TAAGGTACACCTTCAACATGAAAGTACCTTGGTAACC
*
930211 TTAAAAGACACAAAAATGAACCTAAAAAAGTGAAAATATCCTAAACACCCACCATTAG-CATATA
190 TTAAAAGACACAAAAATGAACCTAAAAAAGTGAAAATATCCTAAACACACA-CATTAGTCATA-A
** * * * * *
930275 AAA-GACCTGATGACTACTTGGAACT-AGA-TTCTA-AAAAATTACCAAAATGCCCATAA
253 AAACGACCTGATGACTACTTAAAACTCA-ATTTCAAGAAAAATTACTAAAAT-ACCTTTA
* * * * ** *
930331 TGTATACCTTCAATGTGAAAGTATCTTGGTAACCCTAAAGGA-TACAAAAATGATA
1 GGTATATCTTCGATGTGAAAATATCTCAGTAACCCTAAAGGACT-CGAAAATGATA
930386 AGTAATAAAG
Statistics
Matches: 295, Mismatches: 55, Indels: 29
0.78 0.15 0.08
Matches are distributed among these distances:
306 1 0.00
307 14 0.05
308 54 0.18
309 95 0.32
310 68 0.23
311 62 0.21
312 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (310 bp):
GGTATATCTTCGATGTGAAAATATCTCAGTAACCCTAAAGGACTCGAAAATGATATAAAAAGACA
AACCTATACCTAAAGCATACCTTTGGCATAAACGCGACCTAGAGATTACCTAAGACTCAGTTTAA
GAAAAAATTACCAAAATGCTCCTAAGGTACACCTTCAACATGAAAGTACCTTGGTAACCTTAAAA
GACACAAAAATGAACCTAAAAAAGTGAAAATATCCTAAACACACACATTAGTCATAAAAACGACC
TGATGACTACTTAAAACTCAATTTCAAGAAAAATTACTAAAATACCTTTA
Found at i:931780 original size:16 final size:16
Alignment explanation
Indices: 931759--931789 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
931749 AACTTTCCAA
*
931759 ATTTTATAGAACATGT
1 ATTTTATACAACATGT
931775 ATTTTATACAACATG
1 ATTTTATACAACATG
931790 CCATATTTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.42
Consensus pattern (16 bp):
ATTTTATACAACATGT
Found at i:934341 original size:51 final size:52
Alignment explanation
Indices: 934273--934390 Score: 157
Period size: 51 Copynumber: 2.3 Consensus size: 52
934263 TGAATTCTAG
* * * *
934273 AATGAATCGATACATTTTTTATTATATCCATACATTCTGGG-TTTTGACCTA
1 AATGTATCGATACATTTTTCATTATATCCATACATTCTGGGTTTTTAACCAA
* * *
934324 AATGTATCGATATATTTTTCATTGTATCGATACATTCTGGGTTTTTAACCAA
1 AATGTATCGATACATTTTTCATTATATCCATACATTCTGGGTTTTTAACCAA
*
934376 AATTTATCGATACAT
1 AATGTATCGATACAT
934391 CTAGTTAAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
51 36 0.63
52 21 0.37
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (52 bp):
AATGTATCGATACATTTTTCATTATATCCATACATTCTGGGTTTTTAACCAA
Found at i:934880 original size:20 final size:20
Alignment explanation
Indices: 934855--934908 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
934845 GTATCGATAC
**
934855 AATGTATCGATACATGACTA
1 AATGTATCGATACATGAAAA
*
934875 AATGTATCGATACTTGAAAA
1 AATGTATCGATACATGAAAA
934895 AATGTATCGATACA
1 AATGTATCGATACA
934909 AGTCATTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACATGAAAA
Found at i:936573 original size:9 final size:9
Alignment explanation
Indices: 936559--936589 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
936549 CATCAAGGAC
936559 GATGAAGAT
1 GATGAAGAT
936568 GATGAAGAT
1 GATGAAGAT
*
936577 GATGATGAT
1 GATGAAGAT
936586 GATG
1 GATG
936590 GTGACTCAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.35, T:0.26
Consensus pattern (9 bp):
GATGAAGAT
Found at i:941326 original size:22 final size:21
Alignment explanation
Indices: 941283--941323 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
941273 CAAATTTCTT
941283 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAATACATC
941305 GTTTTTCA-TCAAAAT-CATC
1 GTTTTTCACTCAAAATACATC
941324 ATCAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (21 bp):
GTTTTTCACTCAAAATACATC
Found at i:943004 original size:21 final size:21
Alignment explanation
Indices: 942980--943032 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
942970 ATTATTTTAC
942980 TAAGGGGGAGAAATGTTTGAT
1 TAAGGGGGAGAAATGTTTGAT
943001 TAAGGGGGAGAAATGTTTGAT
1 TAAGGGGGAGAAATGTTTGAT
943022 TAAGGGGGAGA
1 TAAGGGGGAGA
943033 GAAAAGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.42, T:0.25
Consensus pattern (21 bp):
TAAGGGGGAGAAATGTTTGAT
Found at i:943623 original size:20 final size:20
Alignment explanation
Indices: 943598--943651 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
943588 GTATCGATAC
**
943598 AATGTATCGATACATGACTA
1 AATGTATCGATACATGAAAA
* *
943618 AATGTATCAATACTTGAAAA
1 AATGTATCGATACATGAAAA
943638 AATGTATCGATACA
1 AATGTATCGATACA
943652 AGTCATTGGC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACATGAAAA
Found at i:943721 original size:13 final size:13
Alignment explanation
Indices: 943703--943727 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
943693 ACACACAGTA
943703 TGTATCGATACAT
1 TGTATCGATACAT
943716 TGTATCGATACA
1 TGTATCGATACA
943728 CCATAAAATG
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:943747 original size:33 final size:32
Alignment explanation
Indices: 943683--943750 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
943673 GTAGCTAAAC
** *
943683 TTGTATCGATACACACAGTATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCAATACA
*
943715 TTGTATCGATACACCATAAAATGTATCAATACA
1 TTGTATCGATACA-CACAAAATGTATCAATACA
943748 TTG
1 TTG
943751 GCTTGTAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCAATACA
Found at i:947392 original size:28 final size:28
Alignment explanation
Indices: 947346--947411 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
947336 TTTATGTCGT
* ** *
947346 ATCCCTTGTGGAGTTTGGACAATCTACA
1 ATCCCTAGTGGAGCATGGACAACCTACA
* *
947374 TTCCCTAGTGGAGCATGGACAACCTATA
1 ATCCCTAGTGGAGCATGGACAACCTACA
947402 ATCCCTAGTG
1 ATCCCTAGTG
947412 AAATCAGGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (28 bp):
ATCCCTAGTGGAGCATGGACAACCTACA
Found at i:947789 original size:13 final size:12
Alignment explanation
Indices: 947773--947828 Score: 51
Period size: 13 Copynumber: 4.5 Consensus size: 12
947763 GAAACTATCA
947773 TCAAGAACTTTTG
1 TCAAGAAC-TTTG
947786 TCAAGAACGTTTG
1 TCAAGAAC-TTTG
*
947799 T-TAGAAACTTTG
1 TCAAG-AACTTTG
* *
947811 CCAAGAACTGTG
1 TCAAGAACTTTG
947823 TCAAGA
1 TCAAGA
947829 CCCATATCAT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
12 17 0.49
13 18 0.51
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (12 bp):
TCAAGAACTTTG
Found at i:949525 original size:32 final size:32
Alignment explanation
Indices: 949484--949552 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
949474 TTTCACTGTT
*
949484 CATCACTATTCATCACTGTTCATGTATCGATA
1 CATCACTATTCATCACGGTTCATGTATCGATA
949516 CATCACTATTCATCACGGTTCATGTATCGATA
1 CATCACTATTCATCACGGTTCATGTATCGATA
949548 CATCA
1 CATCA
949553 TTGTACATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.35
Consensus pattern (32 bp):
CATCACTATTCATCACGGTTCATGTATCGATA
Found at i:949667 original size:22 final size:22
Alignment explanation
Indices: 949639--949682 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
949629 ATTCATCACA
949639 GTATCGATACATCACTATTCAT
1 GTATCGATACATCACTATTCAT
*
949661 GTATCGATACATCACTGTTCAT
1 GTATCGATACATCACTATTCAT
949683 ACTATTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (22 bp):
GTATCGATACATCACTATTCAT
Found at i:950542 original size:170 final size:169
Alignment explanation
Indices: 950255--950592 Score: 613
Period size: 170 Copynumber: 2.0 Consensus size: 169
950245 ACCACTTGGC
*
950255 AAGGAAGTGCCAAAGAGAGAGGATGTAGGTGCCGTGTTTGGACCGAACCTCTATAAATCCGGTGT
1 AAGGAAGTGCCAAAGAGAGAGGACGTAGGTGCCGTGTTTGGACCGAACCTCTATAAATCCGGTGT
*
950320 TTGTTCTTTCTATCCCTTGTTCTCATTTATTTATCAATTGTCTTGAGAAAAAGTTTTAATCTTTC
66 TTGTTCTTTCTATCCCTTGCTCTCATTTATTTATCAATTGTCTTGAGAAAAAGTTTTAATCTTTC
950385 ATTAGAACCAATTCACCCCCCCTCTTGGTTCAATCCCTAA
131 ATTAGAACCAATTCA-CCCCCCTCTTGGTTCAATCCCTAA
* *
950425 AAGGAAGTGCTAAGGAGAGAGGACGTAGGTGCCGTGTTTGGACCGAACCTCTATAAATCCGGTGT
1 AAGGAAGTGCCAAAGAGAGAGGACGTAGGTGCCGTGTTTGGACCGAACCTCTATAAATCCGGTGT
* *
950490 TTGTTCTTTCTATCCCTTGCTCTCATTTATTTATCCATTGTCTTGCGAAAAAGTTTTAATCTTTC
66 TTGTTCTTTCTATCCCTTGCTCTCATTTATTTATCAATTGTCTTGAGAAAAAGTTTTAATCTTTC
950555 ATTAGAACCAATTCACCCCCCTCTTGGTTCAATCCCTA
131 ATTAGAACCAATTCACCCCCCTCTTGGTTCAATCCCTA
950593 TTTTTGAGCT
Statistics
Matches: 162, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
169 23 0.14
170 139 0.86
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (169 bp):
AAGGAAGTGCCAAAGAGAGAGGACGTAGGTGCCGTGTTTGGACCGAACCTCTATAAATCCGGTGT
TTGTTCTTTCTATCCCTTGCTCTCATTTATTTATCAATTGTCTTGAGAAAAAGTTTTAATCTTTC
ATTAGAACCAATTCACCCCCCTCTTGGTTCAATCCCTAA
Found at i:951474 original size:21 final size:21
Alignment explanation
Indices: 951448--951489 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
951438 AATCAACTGT
* *
951448 TCAAGATGATGATGAAGATGA
1 TCAAGAGGATGATGAAAATGA
*
951469 TCAAGAGGTTGATGAAAATGA
1 TCAAGAGGATGATGAAAATGA
951490 AGAAATGGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.29, T:0.24
Consensus pattern (21 bp):
TCAAGAGGATGATGAAAATGA
Found at i:951977 original size:21 final size:21
Alignment explanation
Indices: 951935--951994 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
951925 GAATTAGAGG
951935 AGAAAATGAATGAGTTAGAAA
1 AGAAAATGAATGAGTTAGAAA
951956 AGAAAA-GAAATGAGTT-GCAAA
1 AGAAAATG-AATGAGTTAG-AAA
951977 ATGAAAATG-ATGAGTTAG
1 A-GAAAATGAATGAGTTAG
951995 CTAATAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
20 2 0.06
21 25 0.74
22 6 0.18
23 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.25, T:0.20
Consensus pattern (21 bp):
AGAAAATGAATGAGTTAGAAA
Found at i:953432 original size:13 final size:13
Alignment explanation
Indices: 953414--953438 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
953404 TTTTTCAGAT
953414 TGTATCGATACAA
1 TGTATCGATACAA
953427 TGTATCGATACA
1 TGTATCGATACA
953439 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:955133 original size:10 final size:10
Alignment explanation
Indices: 955114--955170 Score: 60
Period size: 10 Copynumber: 5.5 Consensus size: 10
955104 ATCTCATTTT
*
955114 TCACTGTTCA
1 TCACTATTCA
955124 TCACTATTCA
1 TCACTATTCA
*
955134 TCACTGTTCA
1 TCACTATTCA
* *
955144 TGCATCGATACA
1 T-CA-CTATTCA
955156 TCACTATTCA
1 TCACTATTCA
955166 TCACT
1 TCACT
955171 GTACATTGAG
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
10 29 0.76
11 4 0.11
12 5 0.13
ACGTcount: A:0.26, C:0.30, G:0.07, T:0.37
Consensus pattern (10 bp):
TCACTATTCA
Found at i:955160 original size:22 final size:20
Alignment explanation
Indices: 955114--955169 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 20
955104 ATCTCATTTT
* *
955114 TCACTGTTCATCACTATTCA
1 TCACTGTTCATCACGATACA
955134 TCACTGTTCATGCATCGATACA
1 TCACTGTTCAT-CA-CGATACA
*
955156 TCACTATTCATCAC
1 TCACTGTTCATCAC
955170 TGTACATTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 12 0.39
21 4 0.13
22 15 0.48
ACGTcount: A:0.27, C:0.30, G:0.07, T:0.36
Consensus pattern (20 bp):
TCACTGTTCATCACGATACA
Found at i:955265 original size:22 final size:22
Alignment explanation
Indices: 955223--955266 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
955213 ATTCATCACA
* *
955223 GTATCGATACATCATTGTTCAT
1 GTATCGATACATCACTATTCAT
955245 GTATCGATACATCACTATTCAT
1 GTATCGATACATCACTATTCAT
955267 ACTATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (22 bp):
GTATCGATACATCACTATTCAT
Found at i:959071 original size:25 final size:25
Alignment explanation
Indices: 959034--959081 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
959024 TTATTATCGA
*
959034 GGATACTCTAACC-CATCTTTTAAGG
1 GGATACTCCAACCTCAT-TTTTAAGG
959059 GGATACTCCAACCTCATTTTTAA
1 GGATACTCCAACCTCATTTTTAA
959082 AGTTGTCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (25 bp):
GGATACTCCAACCTCATTTTTAAGG
Found at i:960977 original size:21 final size:21
Alignment explanation
Indices: 960953--961005 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
960943 CTTAGAAATA
* *
960953 TGTATCGATACTTTATGAACT
1 TGTATTGATACTTCATGAACT
* *
960974 TGTATTGACACTTCATGAGCT
1 TGTATTGATACTTCATGAACT
960995 TGTATTGATAC
1 TGTATTGATAC
961006 ACAAGCTTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (21 bp):
TGTATTGATACTTCATGAACT
Found at i:961411 original size:15 final size:14
Alignment explanation
Indices: 961377--961412 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
961367 AGACTTATTT
961377 AAAAAA-AAAGAAA
1 AAAAAAGAAAGAAA
961390 AAAAAAGAAGAGAAA
1 AAAAAAGAA-AGAAA
961405 AAAAAAGA
1 AAAAAAGA
961413 GGTGCAACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.29
14 2 0.10
15 13 0.62
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAGAAA
Found at i:962825 original size:20 final size:20
Alignment explanation
Indices: 962787--962827 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
962777 TAGCCTTTGA
*
962787 TCATGCATTTTCACTATGTT
1 TCATGCATTTTAACTATGTT
962807 TCATGCATTTTTAAC-ATGTT
1 TCATGCA-TTTTAACTATGTT
962827 T
1 T
962828 AGCATCTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.22, C:0.17, G:0.10, T:0.51
Consensus pattern (20 bp):
TCATGCATTTTAACTATGTT
Found at i:963754 original size:79 final size:78
Alignment explanation
Indices: 963634--963912 Score: 357
Period size: 79 Copynumber: 3.6 Consensus size: 78
963624 AAAATCAATA
* *
963634 TTTTGGAAATAAAATCAGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTGCAGTATCCCCGATT
1 TTTTGGAAATAAAACCAGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTG-AGTATCCCCGATT
963699 GTGAAAAATTGGTG
65 GTGAAAAATTGGTG
* * * * *
963713 TTTTGGAAATAAGACC-GAGGTTGGAGTGTCCCCTCGAAAATAATGCGGTTGAGTATCCCCGATT
1 TTTTGGAAATAAAACCAG-GGTTGGAGTATCCCTTCGAAAATAACGGGGTTGAGTATCCCCGATT
963777 GTGAAAAATTGGTG
65 GTGAAAAATTGGTG
* * **
963791 TTTTAGAAATAAAACCAGGGTTGAAGTATCTTTTC-AAAAGTAACGGGGTTGGAGTATCCCCGAT
1 TTTTGGAAATAAAACCAGGGTTGGAGTATCCCTTCGAAAA-TAACGGGGTT-GAGTATCCCCGAT
*
963855 TGTGAAAAATTGGTA
64 TGTGAAAAATTGGTG
* * *
963870 TTTTAGG-AATAAAATCGGGGTTGGAGTATCCCTTCGGAAATAA
1 TTTT-GGAAATAAAACCAGGGTTGGAGTATCCCTTCGAAAATAA
963913 AAACATGAAT
Statistics
Matches: 170, Mismatches: 24, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
77 4 0.02
78 62 0.36
79 100 0.59
80 4 0.02
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (78 bp):
TTTTGGAAATAAAACCAGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGAGTATCCCCGATTG
TGAAAAATTGGTG
Found at i:963944 original size:157 final size:154
Alignment explanation
Indices: 963634--963914 Score: 339
Period size: 157 Copynumber: 1.8 Consensus size: 154
963624 AAAATCAATA
* * *
963634 TTTTGGAAATAAAATCAGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTGCAGTATCCCCGATT
1 TTTTAGAAATAAAACCAGGGTTGAAGTATCCCTTCAAAAATAACGGGGTTGCAGTATCCCCGATT
* * * ** **
963699 GTGAAAAATTGGTGTTTTGGAAATAAGACCGAGGTTGGAGTGTCCCCTCGAAAATAATGCGGTTG
66 GTGAAAAATTGGTATTTTGGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAAAACGAATG
* *
963764 AGTATCCCCGATTGTGAAAAATTGGTG
131 AGAAT---CGATTATGAAAAATTGGTG
** * *
963791 TTTTAGAAATAAAACCAGGGTTGAAGTATCTTTTCAAAAGTAACGGGGTTGGAGTATCCCCGATT
1 TTTTAGAAATAAAACCAGGGTTGAAGTATCCCTTCAAAAATAACGGGGTTGCAGTATCCCCGATT
* * * *
963856 GTGAAAAATTGGTATTTTAGG-AATAAAATCGGGGTTGGAGTATCCCTTCGGAAATAAAA
66 GTGAAAAATTGGTATTTT-GGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAAAA
963915 ACATGAATGG
Statistics
Matches: 107, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
157 105 0.98
158 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (154 bp):
TTTTAGAAATAAAACCAGGGTTGAAGTATCCCTTCAAAAATAACGGGGTTGCAGTATCCCCGATT
GTGAAAAATTGGTATTTTGGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAAAACGAATG
AGAATCGATTATGAAAAATTGGTG
Found at i:966579 original size:61 final size:60
Alignment explanation
Indices: 966488--967241 Score: 848
Period size: 61 Copynumber: 12.4 Consensus size: 60
966478 AAAAGGAAAT
* * * * * **
966488 AAAATGCGTCCTACTCTTTAAGGACTAGAAGGTGCCACCAACTTCTATAGGCTTTGCAAGG
1 AAAA-GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* *
966549 AGAAAGCATCCTGCTCTTTGAGGACTAGAAGGTGCCATCAACTTGTGTGGGCTTTAAAAGG
1 A-AAAGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
** * *
966610 AACTGGCAG-CCTGCTCTTTGAGGACTAGGAA-GTGCCAGCAACTTATGTGGGCTTTAAAAGG
1 AA-AAGC-GTCCTGCTCTTTGAGGACTA-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
** **
966671 AAAAAATGTCCAACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 -AAAAGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * *
966732 AAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1 AAAA-GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * * *
966793 -AAAGTGTCTTGCACTTT-AGGGACT-GAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGG
1 AAAAGCGTCCTGCTCTTTGA-GGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * * * *
966852 AAAATGCGTCCTCCTTTTTGAGAACT-GAAAAGTGCCACCAACTTGCGTGGGCTTTAAAAGG
1 AAAA-GCGTCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* *
966913 AAAAGGCATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 AAAA-GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * **
966974 AAAAGACATCCTGCTCTTTGAGGACTAGAAGGTGGCACCAACTTGCATGGGCTTTAAAAGG
1 AAAAG-CGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
*
967035 -AAAGTGTCCTGCTCTTTG-GGAACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 AAAAGCGTCCTGCTCTTTGAGG-ACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* *
967094 AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACC-AGTTCATGTGGGCTTTAAAAAGG
1 AAAA-GCGTCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTT-GTGTGGGCTTT-AAAAGG
* *
967157 -AAAGTCGTCTTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 AAAAG-CGTCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* *
967217 AGAAAGCATTCTGCTCTTTGAGGAC
1 A-AAAGCGTCCTGCTCTTTGAGGAC
967242 AAAAGAGAAA
Statistics
Matches: 599, Mismatches: 67, Indels: 54
0.83 0.09 0.08
Matches are distributed among these distances:
58 4 0.01
59 93 0.16
60 29 0.05
61 404 0.67
62 63 0.11
63 6 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (60 bp):
AAAAGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
Found at i:966935 original size:242 final size:240
Alignment explanation
Indices: 966495--967246 Score: 921
Period size: 242 Copynumber: 3.1 Consensus size: 240
966485 AATAAAATGC
* * * * * * **
966495 GTCCTACTCTTTAAGGACTAGAAGGTGCCACCAACTTCTATAGGCTTTGCAAGGAGAAAGCATCC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTG-AAAG-GAAAGTGTCC
* *
966560 TGCTCTTTGAGGACT-AGAAGGTGCCATCAACTTGTGTGGGCTTTAAAAGG-AACTGGCAG-CCT
64 TGCTCTTTG-GGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAT-GC-GTCCT
* * * * * *
966622 GCTCTTTGAGGACT-AGGAAGTGCCAGCAACTTATGTGGGCTTTAAAAGGAAAAAATGTCCAACT
125 GCTCTTTGAGGACTGA-AAAGTGCCACCAACTT-CGTGGGCTTTAAAAGGAAAAGACGTCCTACT
*
966686 CTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGT
188 CTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAT
* *
966739 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGTGTCTTG
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTGAAAGGAAAGTGTCCTG
* * * *
966804 CACTTTAGGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAATGCGTCCTCCTTT
66 CTCTTT-GGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAATGCGTCCTGCTCT
* * * *
966869 TTGAGAACTGAAAAGTGCCACCAACTTGCGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
130 TTGAGGACTGAAAAGTGCCACCAACTT-CGTGGGCTTTAAAAGGAAAAGACGTCCTACTCTTTGA
* *
966934 GGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
194 GGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAT
* * * * *
966981 ATCCTGCTCTTTGAGGACTAGAAGGTGGCACCAACTTGCATGGGCTTTAAAAGGAAAGTGTCCTG
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTGAAAGGAAAGTGTCCTG
*
967046 CTCTTTGGGAACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCT
66 CTCTTTGGG-ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAATGCGTCCTGCTCT
* * * *
967111 TTGAGGACTAGAAAGGTGCCACC-AGTTCATGTGGGCTTTAAAAAGG-AAAGTCGTCTTACTCTT
130 TTGAGGACT-GAAAAGTGCCACCAACTTC--GTGGGCTTT-AAAAGGAAAAGACGTCCTACTCTT
967174 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCAT
191 TGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAG-AT
967226 -T-CTGCTCTTTGAGGAC-AAAAG
1 GTCCTGCTCTTTGAGGACTAAAAG
967247 AGAAAAAGAA
Statistics
Matches: 443, Mismatches: 52, Indels: 28
0.85 0.10 0.05
Matches are distributed among these distances:
241 5 0.01
242 284 0.64
243 99 0.22
244 54 0.12
245 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (240 bp):
GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTGAAAGGAAAGTGTCCTG
CTCTTTGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAATGCGTCCTGCTCTT
TGAGGACTGAAAAGTGCCACCAACTTCGTGGGCTTTAAAAGGAAAAGACGTCCTACTCTTTGAGG
ACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAT
Found at i:967332 original size:98 final size:99
Alignment explanation
Indices: 967150--967332 Score: 246
Period size: 98 Copynumber: 1.9 Consensus size: 99
967140 TGTGGGCTTT
* * * * *
967150 AAAAAGGAAAGTCGTCTTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
1 AAAAAGAAAAGGCGTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGCCTTTAAAA
* *
967215 GGAGAAAGCATTCTGCTCTTTGAGGACAAAAGAG
66 GGAAAAAGCATTCTACTCTTTGAGGACAAAAGAG
* *
967249 AAAAAGAAAAGGCGTCCTGCTCTTTGA-GACTGAAAAGTGCCACCAATTTGTGTGGCCTTTAAAA
1 AAAAAGAAAAGGCGTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGCCTTTAAAA
967313 -GAAAAAGGCA-TCATACTCTT
66 GGAAAAA-GCATTC-TACTCTT
967333 CGAAGACGAA
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
97 7 0.10
98 43 0.59
99 23 0.32
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (99 bp):
AAAAAGAAAAGGCGTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGCCTTTAAAA
GGAAAAAGCATTCTACTCTTTGAGGACAAAAGAG
Found at i:967350 original size:159 final size:160
Alignment explanation
Indices: 967088--967395 Score: 383
Period size: 159 Copynumber: 1.9 Consensus size: 160
967078 TGTGGGCTTT
* * * *
967088 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAGTTCATGTGGGCTTTAAA
1 AAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAATTCATGTGGCCTTTAAA
* * * * * * * ** *
967153 AAGGAAAGTCGTCTTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
66 AAGAAAAGGCATCATACTCTTCGAAGACTGAAAAGTGCCACCAAC-CATGTGGGCTTCAAAAGGA
*
967218 GAAAG-CATTCTGCTCTTTGAGGACAAAAGAG
130 -AAAGACATCCTGCTCTTTGAGGACAAAAGAG
**
967249 AAAAAGAAAAGGCGTCCTGCTCTTTGA-GACT-GAAAAGTGCCACCAATTTGTGTGGCCTTT-AA
1 AAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAATTCATGTGGCCTTTAAA
967311 AAGAAAAAGGCATCATACTCTTCGAAGAC-GAAAAAGTGCCACCAACCATGTGGGCTTCAAAAGG
66 AAG-AAAAGGCATCATACTCTTCGAAGACTG-AAAAGTGCCACCAACCATGTGGGCTTCAAAAGG
*
967375 AAAAGACGTCCTGCTCTTTGA
129 AAAAGACATCCTGCTCTTTGA
967396 AGACTGAAAG
Statistics
Matches: 126, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
157 4 0.03
158 35 0.28
159 57 0.45
160 4 0.03
161 26 0.21
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (160 bp):
AAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAATTCATGTGGCCTTTAAA
AAGAAAAGGCATCATACTCTTCGAAGACTGAAAAGTGCCACCAACCATGTGGGCTTCAAAAGGAA
AAGACATCCTGCTCTTTGAGGACAAAAGAG
Found at i:967525 original size:123 final size:120
Alignment explanation
Indices: 967249--967551 Score: 390
Period size: 123 Copynumber: 2.5 Consensus size: 120
967239 GACAAAAGAG
* * * *
967249 AAAAAGAAAAGGCGTCCTGCTCTTTGAGACTGAAAAGTGCCACCAATTTGTGTGGCCTTTAAAAG
1 AAAAGGAAAAGACGTCCTGCTCTTTGAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
967314 AAAAAGGCATCATACTCTTCGAAGACGAAAAAGTGCCACCAACCATGTGGGCTTC
66 AAAAAAGCATCATACTCTTCGAAGACGAAAAAGTGCCACCAACCATGTGGGCTTC
* *
967369 AAAAGGAAAAGACGTCCTGCTCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAATA
1 AAAAGGAAAAGACGTCCTGCTCTTTG-AGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
** * * * * * ** *
967434 GAAAAGAAGTGTCCTGCTCTTCGACGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
65 GAAAA-AAGCATCATACTCTTCGAAGACGAAAAAGTGCCACCAAC-CATGTGGGCTTC
* * *
967492 AAAAGGAAAAGATGTCCTACTCTTTGAGGACTGAAAAGTGCCACTAACTTGTGTGGGCTT
1 AAAAGGAAAAGACGTCCTGCTCTTTGA-GACTGAAAAGTGCCACCAACTTGTGTGGGCTT
967552 CATAAGGAAA
Statistics
Matches: 158, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
120 24 0.15
121 39 0.25
122 32 0.20
123 63 0.40
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (120 bp):
AAAAGGAAAAGACGTCCTGCTCTTTGAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
AAAAAAGCATCATACTCTTCGAAGACGAAAAAGTGCCACCAACCATGTGGGCTTC
Found at i:967541 original size:61 final size:61
Alignment explanation
Indices: 967249--967589 Score: 386
Period size: 61 Copynumber: 5.6 Consensus size: 61
967239 GACAAAAGAG
* * * *
967249 AAAAAGAAAAGGCGTCCTGCTCTTTG-AGACTGAAAAGTGCCACCAATTTGTGTGGCCTTT
1 AAAAGGAAAAGACGTCCTGCTCTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * * * ** *
967309 AAAAGAAAAAGGCATCATACTCTTCGAAGAC-GAAAAAGTGCCACCAAC-CATGTGGGCTTC
1 AAAAGGAAAAGACGTCCTGCTCTTTGAAGACTG-AAAAGTGCCACCAACTTGTGTGGGCTTT
*
967369 AAAAGGAAAAGACGTCCTGCTCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGAAAAGACGTCCTGCTCTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
967430 AATA-GAAAAGAAGTGTCCTGCTCTTCGACGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGAAAAG-A-CGTCCTGCTCTTTGAAGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTT
* * * * *
967492 AAAAGGAAAAGATGTCCTACTCTTTGAGGACTGAAAAGTGCCACTAACTTGTGTGGGCTTC
1 AAAAGGAAAAGACGTCCTGCTCTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
* *
967553 ATAAGGAAAAGACGTCCTGCTCTTTGAGGACTGAAAA
1 AAAAGGAAAAGACGTCCTGCTCTTTGAAGACTGAAAA
967590 TGCTAAAAGG
Statistics
Matches: 237, Mismatches: 35, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
60 74 0.31
61 108 0.46
62 49 0.21
63 6 0.03
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (61 bp):
AAAAGGAAAAGACGTCCTGCTCTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:967726 original size:15 final size:16
Alignment explanation
Indices: 967695--967733 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
967685 AGTAGGATTG
967695 GCATGATGATGACAAT
1 GCATGATGATGACAAT
**
967711 G-ATGATGATGTGAAT
1 GCATGATGATGACAAT
967726 GCATGATG
1 GCATGATG
967734 CAAACAACAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (16 bp):
GCATGATGATGACAAT
Found at i:969683 original size:19 final size:19
Alignment explanation
Indices: 969656--969711 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
969646 TTTATCGATA
*
969656 CATTCTATCGATACATGCT
1 CATTGTATCGATACATGCT
*
969675 CATTGTATCGATACATACT
1 CATTGTATCGATACATGCT
*
969694 CAATTGTATCGACACATG
1 C-ATTGTATCGATACATG
969712 AAACTGGTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.34
Consensus pattern (19 bp):
CATTGTATCGATACATGCT
Found at i:969782 original size:33 final size:33
Alignment explanation
Indices: 969740--969806 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
969730 CTAAGTGAAA
* *
969740 TGTATTGATACATG-GGACATTATATCGATACAT
1 TGTATTGATAAATGAAGA-ATTATATCGATACAT
*
969773 TGTATTGATAAATGAAGAATTGTATCGATACAT
1 TGTATTGATAAATGAAGAATTATATCGATACAT
969806 T
1 T
969807 ATGCCTAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (33 bp):
TGTATTGATAAATGAAGAATTATATCGATACAT
Found at i:975343 original size:52 final size:52
Alignment explanation
Indices: 975264--975392 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
975254 CGAAATATGA
* *
975264 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
* *
975316 AAATTTGCCTGCATGTATCGATGCATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
975368 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
975393 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:975405 original size:52 final size:51
Alignment explanation
Indices: 975264--975413 Score: 212
Period size: 52 Copynumber: 2.9 Consensus size: 51
975254 CGAAATATGA
*
975264 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* * *
975316 AAATTTGCCTGCATGTATCGATGCATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
975368 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACAT
975414 TTTTTTTGGC
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:975474 original size:13 final size:13
Alignment explanation
Indices: 975456--975480 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
975446 GAAAAAAATA
975456 TGTATCGATACAT
1 TGTATCGATACAT
975469 TGTATCGATACA
1 TGTATCGATACA
975481 ACACTTTATG
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:982624 original size:22 final size:22
Alignment explanation
Indices: 982596--982639 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
982586 TCTTTGGCCA
982596 TTTCTGAGTATCAGGAACAGGG
1 TTTCTGAGTATCAGGAACAGGG
*
982618 TTTCTGAGTATCAGGAATAGGG
1 TTTCTGAGTATCAGGAACAGGG
982640 CAAAGACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.11, G:0.32, T:0.30
Consensus pattern (22 bp):
TTTCTGAGTATCAGGAACAGGG
Found at i:983228 original size:49 final size:49
Alignment explanation
Indices: 983067--983909 Score: 646
Period size: 49 Copynumber: 17.8 Consensus size: 49
983057 CGAAAAATGA
* * * * * *
983067 CAATGTGTTGATTCATGGCCAGCGACAATAGACTTGAAGAAGAA--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
** * *
983114 CAATGTGCTGAGACAAGGCCAGCGACATTGGGCTT-AAGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG-ATG---AAGGTGC
* * * * *
983166 CAATATGCTGATTCAAGGCTAACGATATCGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
983215 CAATGCGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
983264 CAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
983313 CAATGTGCTGATCCAAGGCCAACGACATTGGTCATAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
983362 CAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGATAC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
983411 CAATGTGCTAATTCAAGGCCGGCGACATTGGACTTAAAAATGGTTAAAGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-G--AAGGTGC
* * * * * *
983463 TAATGTGTTGATTCAAGGCC-GATGACATCGGTCTTAAAGATGAAAGTGC
1 CAATGTGCTGATTCAAGGCCAG-CGACATTGGACTTAAAGATGAAGGTGC
* * * *
983512 TAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T----GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
983551 CAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
983599 CAATATGCTGATTCAAGGCTAGCGATATAGGGC-T-----T----GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
983638 CAATGTGCTGATTTAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
983686 CAATATGTTGATTCAAGGCTAGCGATATTGGAC-TCAA-A-G-A--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
983729 CAAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGC
1 C-AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
983779 CAATATGCTGATTCAAGGCTAGCGAAATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
983822 CAATGTGCTGATTCAAGGCTAGTGACATTGGTCTTAAAGATAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
983871 CAATATGCTGATTAAAGGCCAGCGATATTGGACTTAAAG
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
983910 GTGAGAAAAT
Statistics
Matches: 630, Mismatches: 122, Indels: 86
0.75 0.15 0.10
Matches are distributed among these distances:
39 63 0.10
40 2 0.00
43 43 0.07
44 28 0.04
45 5 0.01
46 5 0.01
47 35 0.06
48 64 0.10
49 303 0.48
50 8 0.01
51 2 0.00
52 69 0.11
53 3 0.00
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:983571 original size:39 final size:39
Alignment explanation
Indices: 983517--983668 Score: 144
Period size: 39 Copynumber: 3.7 Consensus size: 39
983507 AGTGCTAATA
*
983517 TGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAAAG
1 TGCTGATTCAAGGCCAGCGACATTGGGCTTGTGCCAAAG
*
983556 TGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACGAGGTGCCAATA-
1 TGCTGATTCAAGGCCAGCGACATTGGGCTT---------GTGCCAA-AG
* * * *
983604 TGCTGATTCAAGGCTAGCGATATAGGGCTTGTGCCAATG
1 TGCTGATTCAAGGCCAGCGACATTGGGCTTGTGCCAAAG
*
983643 TGCTGATTTAAGGCCAGCGACATTGG
1 TGCTGATTCAAGGCCAGCGACATTGG
983669 TCTTAAAGAC
Statistics
Matches: 91, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
39 57 0.63
48 33 0.36
49 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (39 bp):
TGCTGATTCAAGGCCAGCGACATTGGGCTTGTGCCAAAG
Found at i:983624 original size:87 final size:87
Alignment explanation
Indices: 983471--983905 Score: 523
Period size: 87 Copynumber: 4.9 Consensus size: 87
983461 GCTAATGTGT
* * * *
983471 TGATTCAAGGCC-GATGACATCGGTCTTAAAGATGAAA-GTGCTAATATGCTGATTCAAGGCCAG
1 TGATTCAAGGCCAG-CGACATTGGTCTTAAAGA--AAAGGTGCCAATATGCTGATTCAAGGCTAG
*
983534 CGATATTGGGCTTGTGCCAAAGTGC
63 CGATATTGGACTTGTGCCAAAGTGC
* **
983559 TGATTCAAGGCCAGCGACATTGGTCTTAGAGACGAGGTGCCAATATGCTGATTCAAGGCTAGCGA
1 TGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAGGTGCCAATATGCTGATTCAAGGCTAGCGA
* * *
983624 TATAGGGCTTGTGCCAATGTGC
66 TATTGGACTTGTGCCAAAGTGC
* * *
983646 TGATTTAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGTTGATTCAAGGCTAGCGA
1 TGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAGGTGCCAATATGCTGATTCAAGGCTAGCGA
* *
983711 TATTGGACTCAAAGATGCCAAATGTGT
66 TATTGGACT---TG-TGCCAAA-GTGC
983738 TGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCTAGCG
1 TGATTCAAGGCCAGCGACATTGGTCTTAAAGA-AAAGGTGCCAATATGCTGATTCAAGGCTAGCG
* *
983803 AAATTGGACTTAAAGGTGCCAATGTGC
65 ATATTGGACTT----GTGCCAAAGTGC
* * * * *
983830 TGATTCAAGGCTAGTGACATTGGTCTTAAAGATAAAGATGCCAATATGCTGATTAAAGGCCAGCG
1 TGATTCAAGGCCAGCGACATTGGTCTTAAAGA-AAAGGTGCCAATATGCTGATTCAAGGCTAGCG
983895 ATATTGGACTT
65 ATATTGGACTT
983906 AAAGGTGAGA
Statistics
Matches: 304, Mismatches: 31, Indels: 20
0.86 0.09 0.06
Matches are distributed among these distances:
86 1 0.00
87 115 0.38
88 27 0.09
89 1 0.00
90 1 0.00
91 6 0.02
92 107 0.35
93 45 0.15
94 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (87 bp):
TGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAGGTGCCAATATGCTGATTCAAGGCTAGCGA
TATTGGACTTGTGCCAAAGTGC
Found at i:983839 original size:21 final size:20
Alignment explanation
Indices: 983772--983839 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
983762 CTTAAAGATA
983772 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
* *
983793 AAGGCTAGCGAAATTG--GACTTA
1 AAGG-T-GC-CAATTGCTGA-TTC
983815 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
983836 AAGG
1 AAGG
983840 CTAGTGACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 3 0.08
20 4 0.11
21 13 0.36
22 9 0.25
23 4 0.11
24 3 0.08
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (20 bp):
AAGGTGCCAATTGCTGATTC
Found at i:983912 original size:92 final size:91
Alignment explanation
Indices: 983454--983909 Score: 581
Period size: 92 Copynumber: 5.1 Consensus size: 91
983444 TTAAAAATGG
* * * * *
983454 TTAAAGTGCTAATGTGTTGATTCAAGGCC-GATGACATCGGTCTTAAAGATGAAA-GTGCTAATA
1 TTAAAGTGCCAATGTGCTGATTCAAGGCCAG-CGACATTGGTCTTAAAGAT-AAAGGTGCCAATA
* *
983517 TGCTGATTCAAGGCCAGCGATATTGGGC
64 TGCTGATTCAAGGCTAGCGATATTGGAC
* * **
983545 TT---GTGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGA-CGAGGTGCCAATATG
1 TTAAAGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATG
* *
983606 CTGATTCAAGGCTAGCGATATAGGGC
66 CTGATTCAAGGCTAGCGATATTGGAC
* *
983632 TT---GTGCCAATGTGCTGATTTAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATG
1 TTAAAGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATG
*
983693 TTGATTCAAGGCTAGCGATATTGGAC
66 CTGATTCAAGGCTAGCGATATTGGAC
* *
983719 TCAAAGATGCCAAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATA
1 TTAAAG-TGCC-AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATA
*
983784 TGCTGATTCAAGGCTAGCGAAATTGGAC
64 TGCTGATTCAAGGCTAGCGATATTGGAC
* * *
983812 TTAAAGGTGCCAATGTGCTGATTCAAGGCTAGTGACATTGGTCTTAAAGATAAAGATGCCAATAT
1 TTAAA-GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATAT
* *
983877 GCTGATTAAAGGCCAGCGATATTGGAC
65 GCTGATTCAAGGCTAGCGATATTGGAC
983904 TTAAAG
1 TTAAAG
983910 GTGAGAAAAT
Statistics
Matches: 324, Mismatches: 32, Indels: 18
0.87 0.09 0.05
Matches are distributed among these distances:
86 1 0.00
87 115 0.35
88 36 0.11
89 1 0.00
90 1 0.00
91 7 0.02
92 116 0.36
93 46 0.14
94 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (91 bp):
TTAAAGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATG
CTGATTCAAGGCTAGCGATATTGGAC
Found at i:983970 original size:34 final size:33
Alignment explanation
Indices: 983915--984023 Score: 105
Period size: 32 Copynumber: 3.2 Consensus size: 33
983905 TAAAGGTGAG
*
983915 AAAATGGATAAAGGGATGCCACGGAGGTGTGGACTT
1 AAAAGGGA-AAAGGG-TGCCAC-GAGGTGTGGACTT
* *
983951 AAAAGGGAAAAGGGTGCCACGAAGTCATGGACTT
1 AAAAGGGAAAAGGGTGCCACGAGGT-GTGGACTT
* * *
983985 AAAA-AGAAAA-AGTGCCACAGAGTTGTGGACTT
1 AAAAGGGAAAAGGGTGCCAC-GAGGTGTGGACTT
984017 AAAAGGG
1 AAAAGGG
984024 TGCCACGGAG
Statistics
Matches: 61, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
32 18 0.30
33 13 0.21
34 17 0.28
35 6 0.10
36 7 0.11
ACGTcount: A:0.39, C:0.12, G:0.32, T:0.17
Consensus pattern (33 bp):
AAAAGGGAAAAGGGTGCCACGAGGTGTGGACTT
Found at i:984028 original size:27 final size:27
Alignment explanation
Indices: 983996--984222 Score: 184
Period size: 27 Copynumber: 7.8 Consensus size: 27
983986 AAAAGAAAAA
*
983996 GTGCCACAGAGTTGTGGACTTAAAAGG
1 GTGCCACGGAGTTGTGGACTTAAAAGG
984023 GTGCCACGGAGTTGTGGACTTAAAAGG
1 GTGCCACGGAGTTGTGGACTTAAAAGG
**
984050 GTGCCACGGAGTTGTGGACTTAAAAAAAAA
1 GTGCCACGGAGTTGTGGACTT---AAAAGG
* *
984080 GTGCCACGGAGTTATGGGCTTTAGAAAGAAAAAG
1 GTGCCACGGAGTTGTGGAC-TTA-AAAG-----G
*
984114 GTGCCACGGAGTTGTAGACTTAAAAGG
1 GTGCCACGGAGTTGTGGACTTAAAAGG
* * *
984141 GTGCGATGGAGTTTTGGACTTAAAAGCAAAAAG
1 GTGCCACGGAGTTGTGGACTTAAAAG------G
* *
984174 AGTGCCACGGAGTTATGGGCTTAAAAGG
1 -GTGCCACGGAGTTGTGGACTTAAAAGG
* *
984202 GTGCCACAGAGTTGGGGACTT
1 GTGCCACGGAGTTGTGGACTT
984223 TGAAAAGAAA
Statistics
Matches: 161, Mismatches: 22, Indels: 34
0.74 0.10 0.16
Matches are distributed among these distances:
27 87 0.54
28 2 0.01
29 3 0.02
30 21 0.13
31 2 0.01
32 4 0.02
33 4 0.02
34 38 0.24
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.22
Consensus pattern (27 bp):
GTGCCACGGAGTTGTGGACTTAAAAGG
Found at i:984118 original size:34 final size:31
Alignment explanation
Indices: 983931--984199 Score: 177
Period size: 27 Copynumber: 8.8 Consensus size: 31
983921 GATAAAGGGA
* * *
983931 TGCCACGGAGGTGTGGACTTAAAAGGGAAAAGGG
1 TGCCACGGAGTTATGGACTTAAAA---AAAAAGG
* * *
983965 TGCCACGAAGTCATGGACTTAAAAAGAAAAAG
1 TGCCACGGAGTTATGGACTTAAAAA-AAAAGG
* * *
983997 TGCCACAGAGTTGTGGACTT----AAAAGGG
1 TGCCACGGAGTTATGGACTTAAAAAAAAAGG
* *
984024 TGCCACGGAGTTGTGGACTT----AAAAGGG
1 TGCCACGGAGTTATGGACTTAAAAAAAAAGG
*
984051 TGCCACGGAGTTGTGGACTTAAAAAAAAA-G
1 TGCCACGGAGTTATGGACTTAAAAAAAAAGG
*
984081 TGCCACGGAGTTATGGGCTTTAGAAAGAAAAAGG
1 TGCCACGGAGTTATGGAC-TTA-AAA-AAAAAGG
* * *
984115 TGCCACGGAGTTGTAGACTT----AAAAGGG
1 TGCCACGGAGTTATGGACTTAAAAAAAAAGG
* * *
984142 TGCGATGGAGTTTTGGACTTAAAAGCAAAAAGAG
1 TGCCACGGAGTTATGGACTTAAAA--AAAAAG-G
*
984176 TGCCACGGAGTTATGGGCTTAAAA
1 TGCCACGGAGTTATGGACTTAAAA
984200 GGGTGCCACA
Statistics
Matches: 190, Mismatches: 29, Indels: 32
0.76 0.12 0.13
Matches are distributed among these distances:
27 72 0.38
28 1 0.01
30 17 0.09
31 8 0.04
32 23 0.12
33 12 0.06
34 57 0.30
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.20
Consensus pattern (31 bp):
TGCCACGGAGTTATGGACTTAAAAAAAAAGG
Found at i:984139 original size:91 final size:94
Alignment explanation
Indices: 984017--984195 Score: 283
Period size: 91 Copynumber: 1.9 Consensus size: 94
984007 TTGTGGACTT
* *
984017 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAA-AAAAA-
1 AAAAAGGTGCCACGGAGTTGTAGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAACAAAAAG
984079 AGTGCCACGGAGTTATGGGCTTTAGAAAG
66 AGTGCCACGGAGTTATGGGCTTTAGAAAG
* * *
984108 AAAAAGGTGCCACGGAGTTGTAGACTTAAAAGGGTGCGATGGAGTTTTGGACTTAAAAGCAAAAA
1 AAAAAGGTGCCACGGAGTTGTAGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA-CAAAAA
984173 GAGTGCCACGGAGTTATGGGCTT
65 GAGTGCCACGGAGTTATGGGCTT
984196 AAAAGGGTGC
Statistics
Matches: 79, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
91 49 0.62
92 3 0.04
94 5 0.06
95 22 0.28
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (94 bp):
AAAAAGGTGCCACGGAGTTGTAGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAACAAAAAG
AGTGCCACGGAGTTATGGGCTTTAGAAAG
Found at i:984141 original size:118 final size:119
Alignment explanation
Indices: 983924--984166 Score: 330
Period size: 118 Copynumber: 2.0 Consensus size: 119
983914 GAAAATGGAT
*
983924 AAAGGGATGCCACGGAGGTGTGGACTTAAAAGGGAAAAGGGTGCCACGAAGTCATGGACTTAAAA
1 AAAGGGATGCCACGGAGGTGTGGACTTAAAA--GAAAAGAGTGCCACGAAGTCATGGACTTAAAA
*
983989 AGAAAAAGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
64 AGAAAAAGTGCCACAGAGTTGTAGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* * * * *
984045 AAAGGG-TGCCACGGAGTTGTGGACTTAAAA-AAAA-AGTGCCACGGAGTTATGGGCTTTAGAAA
1 AAAGGGATGCCACGGAGGTGTGGACTTAAAAGAAAAGAGTGCCACGAAGTCATGGAC-TTAAAAA
* * * *
984107 GAAAAAGGTGCCACGGAGTTGTAGACTTAAAAGGGTGCGATGGAGTTTTGGACTTA
65 GAAAAA-GTGCCACAGAGTTGTAGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
984163 AAAG
1 AAAG
984167 CAAAAAGAGT
Statistics
Matches: 109, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
116 16 0.15
117 16 0.15
118 48 0.44
120 23 0.21
121 6 0.06
ACGTcount: A:0.35, C:0.13, G:0.33, T:0.20
Consensus pattern (119 bp):
AAAGGGATGCCACGGAGGTGTGGACTTAAAAGAAAAGAGTGCCACGAAGTCATGGACTTAAAAAG
AAAAAGTGCCACAGAGTTGTAGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
Found at i:984214 original size:61 final size:61
Alignment explanation
Indices: 984044--984255 Score: 205
Period size: 61 Copynumber: 3.4 Consensus size: 61
984034 TTGTGGACTT
* ** *
984044 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAAAAAAGTGCCACGGAGTTATGGGCTTTAGAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTT---AAAAGGGTGCCACGGAGTTATGGACTTTAGAAAG
* * * *
984108 AAAAAGGTGCCACGGAGTTGTAGACTTAAAAGGGTGCGATGGAGTTTTGGAC-TTA-AAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGACTTTAGAAAG
* * * **
984167 CAAAAAGAGTGCCACGGAGTTATGGGCTTAAAAGGGTGCCACAGAGTTGGGGACTTT-GAAAAG
1 -AAAAAG-GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGACTTTAG-AAAG
* * *
984230 AAAAAGGTGTCACAGAGTCGTGGACT
1 AAAAAGGTGCCACGGAGTTGTGGACT
984256 CTGGGAAGAG
Statistics
Matches: 122, Mismatches: 21, Indels: 13
0.78 0.13 0.08
Matches are distributed among these distances:
59 4 0.03
60 9 0.07
61 72 0.59
62 8 0.07
63 4 0.03
64 25 0.20
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (61 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGACTTTAGAAAG
Found at i:988710 original size:24 final size:25
Alignment explanation
Indices: 988683--988740 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
988673 TTTGCACTTT
*
988683 TTTTTGTGTGTGTGTTTTTT-TTTG
1 TTTTTGTGTGTGTGTTTTTTCTTTC
* *
988707 TTTTTGTTTGTTTGTTTTTTCTTTC
1 TTTTTGTGTGTGTGTTTTTTCTTTC
*
988732 ATTTTGTGT
1 TTTTTGTGT
988741 TTTTACTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 18 0.64
25 10 0.36
ACGTcount: A:0.02, C:0.03, G:0.19, T:0.76
Consensus pattern (25 bp):
TTTTTGTGTGTGTGTTTTTTCTTTC
Found at i:996854 original size:21 final size:20
Alignment explanation
Indices: 996830--996881 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
996820 AAATCCTTTT
* *
996830 TCAAAATTCATCTTTTTCATG
1 TCAAAA-TCATCTATTTCATA
*
996851 TCAAAA-CTATCTATTTCTTA
1 TCAAAATC-ATCTATTTCATA
996871 TCAAAATCATC
1 TCAAAATCATC
996882 AATAAAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 1 0.04
20 18 0.69
21 7 0.27
ACGTcount: A:0.35, C:0.21, G:0.02, T:0.42
Consensus pattern (20 bp):
TCAAAATCATCTATTTCATA
Found at i:999375 original size:20 final size:20
Alignment explanation
Indices: 999346--999398 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
999336 CTAAGTGAAA
* **
999346 TGTATTGATACATGGGACAT
1 TGTATCGATACATGAAACAT
999366 TGTATCGATACATGAAACAT
1 TGTATCGATACATGAAACAT
999386 TGTATCGATACAT
1 TGTATCGATACAT
999399 TATGGCCAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATGAAACAT
Found at i:1015730 original size:15 final size:15
Alignment explanation
Indices: 1015710--1015740 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1015700 TAAAAATTTC
*
1015710 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1015725 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1015740 C
1 C
1015741 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1017828 original size:13 final size:13
Alignment explanation
Indices: 1017810--1017848 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1017800 ACATTTTTCT
1017810 TTGTATCGATACA
1 TTGTATCGATACA
1017823 TTGTATCGATACA
1 TTGTATCGATACA
*
1017836 TTGTACCGATACA
1 TTGTATCGATACA
1017849 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1020403 original size:13 final size:13
Alignment explanation
Indices: 1020385--1020410 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1020375 TACAGCAAGT
1020385 ATGTATCGATACA
1 ATGTATCGATACA
1020398 ATGTATCGATACA
1 ATGTATCGATACA
1020411 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:1023850 original size:28 final size:29
Alignment explanation
Indices: 1023808--1024304 Score: 457
Period size: 28 Copynumber: 17.5 Consensus size: 29
1023798 AGACGGCTTT
* * *
1023808 TTTTCAAAACCCACAAGTTAGTGGCA-CA
1 TTTTCAAAGCCCACAAGTCAGTGGCATCC
* * * *
1023836 TTTTCAAAGCTCACAAGTCAATGACAACCC
1 TTTTCAAAGCCCACAAGTCAGTGGC-ATCC
* * * *
1023866 TTTTTAAAGCCTACAAGTCAATGGCAACCC
1 TTTTCAAAGCCCACAAGTCAGTGGC-ATCC
* * *
1023896 TTTTCAAAGTCCACAAGTTAGTGGCATTC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCC
* * * *
1023925 -TTTCAAAGCCCAAAAGTTAGTGGTAACCC
1 TTTTCAAAGCCCACAAGTCAGTGG-CATCC
* *
1023954 TTTTCAAAGCCAACAAGTCAGTGGTATCC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCC
* *
1023983 -TTTCAAAGCCCACAAGTAAGTGGCA-CA
1 TTTTCAAAGCCCACAAGTCAGTGGCATCC
* * *
1024010 TTTTTAAAGCTCACAAGTTAGTGGCATCC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCC
*
1024039 -TTTCAAAGCCCACAAGTTAGTGGCAT-C
1 TTTTCAAAGCCCACAAGTCAGTGGCATCC
* * * * **
1024066 TTTTTAGAGCCCACATG-CTAGTCGC-TTT
1 TTTTCAAAGCCCACAAGTC-AGTGGCATCC
*
1024094 TTTTCAAAGCCAACAAGTCAGTGGCA-CC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCC
* ** *
1024122 TTTCCAAAGCCTGCAAGTTAGTGGCA-CC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCC
*
1024150 TTCTCAAAGCCCACAAGTCAGTGGCA-CC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCC
* * *
1024178 TTTTCAAAGCCAACAAGTCAATGGCA-CT
1 TTTTCAAAGCCCACAAGTCAGTGGCATCC
*
1024206 TTTTCCAAGCCCACAAGTCAGTGGCATCC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCC
*
1024235 TTTT-AAAGCACACAAGTCAGTGGCAT-C
1 TTTTCAAAGCCCACAAGTCAGTGGCATCC
*
1024262 TTTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCC
1024291 -TTTCAAAGCCCACA
1 TTTTCAAAGCCCACA
1024305 TAAGTCGATG
Statistics
Matches: 384, Mismatches: 71, Indels: 28
0.80 0.15 0.06
Matches are distributed among these distances:
27 8 0.02
28 293 0.76
29 16 0.04
30 67 0.17
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (29 bp):
TTTTCAAAGCCCACAAGTCAGTGGCATCC
Found at i:1023882 original size:30 final size:30
Alignment explanation
Indices: 1023836--1023913 Score: 106
Period size: 30 Copynumber: 2.6 Consensus size: 30
1023826 TAGTGGCACA
1023836 TTTTCAAAG-CTCACAAGTCAATGACAACCC
1 TTTTCAAAGTC-CACAAGTCAATGACAACCC
* *
1023866 TTTTTAAAG-CCTACAAGTCAATGGCAACCC
1 TTTTCAAAGTCC-ACAAGTCAATGACAACCC
1023896 TTTTCAAAGTCCACAAGT
1 TTTTCAAAGTCCACAAGT
1023914 TAGTGGCATT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 1 0.02
30 40 0.93
31 2 0.05
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.27
Consensus pattern (30 bp):
TTTTCAAAGTCCACAAGTCAATGACAACCC
Found at i:1024335 original size:32 final size:30
Alignment explanation
Indices: 1024217--1024364 Score: 87
Period size: 28 Copynumber: 5.0 Consensus size: 30
1024207 TTTCCAAGCC
* *
1024217 CACAAGTC-AGTGGCATCCTTT-TAAA-GCA
1 CACAAGTCGA-TGGCAACCTTTCTAAACCCA
* * *
1024245 CACAAGTC-AGTGGCATCTTTTC-AAAGCC-
1 CACAAGTCGA-TGGCAACCTTTCTAAACCCA
* *
1024273 CACAAGT-TAGTGGCATCCTTTC-AAAGCCCA
1 CACAAGTCGA-TGGCAACCTTTCTAAA-CCCA
* *
1024303 CATAAGTCGATGGCAACTTTCTCTAAAACCCA
1 CACAAGTCGATGGCAACCTT-TCT-AAACCCA
* *
1024335 CACAAGTTGGTGGCAACCTTTCTAAACCCA
1 CACAAGTCGATGGCAACCTTTCTAAACCCA
1024365 ATGTCGCTAG
Statistics
Matches: 99, Mismatches: 12, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
28 46 0.46
29 3 0.03
30 21 0.21
31 6 0.06
32 20 0.20
33 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.24
Consensus pattern (30 bp):
CACAAGTCGATGGCAACCTTTCTAAACCCA
Found at i:1024348 original size:62 final size:58
Alignment explanation
Indices: 1023808--1024364 Score: 246
Period size: 56 Copynumber: 9.7 Consensus size: 58
1023798 AGACGGCTTT
* * * * *
1023808 TTTTCAAAACCCACAAGTTAGTGGCA-CATTTTCAAAG--CTCACAAGTCAATGACAACCC
1 TTTTCAAACCCCACAAGTTAGTGGCATC-CTTTCAAAGCCCACACAAGTCAGTGGCAA--C
* * * * * * * * *
1023866 TTTTTAAAGCCTACAAGTCAATGGCAACCCTTTTCAAAG-TC-CACAAGTTAGTGGC-AT
1 TTTTCAAACCCCACAAGTTAGTGGC-ATCC-TTTCAAAGCCCACACAAGTCAGTGGCAAC
* * * * * *
1023923 TCTTTCAAAGCCCAAAAGTTAGTGGTAACCCTTTTCAAAG-CCA-ACAAGTCAGTGGTATC
1 T-TTTCAAACCCCACAAGTTAGTGG-CATCC-TTTCAAAGCCCACACAAGTCAGTGGCAAC
* * * * * * * *
1023982 CTTTCAAAGCCCACAAGTAAGTGGCA-CATTTTTAAAG--CTCACAAGTTAGTGGCATC
1 TTTTCAAACCCCACAAGTTAGTGGCATC-CTTTCAAAGCCCACACAAGTCAGTGGCAAC
* * * * * * * ***
1024038 CTTTCAAAGCCCACAAGTTAGTGGCATCTTTTTAGAG-CC-CACATG-CTAGTCGCTTT
1 TTTTCAAACCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACACAAGTC-AGTGGCAAC
* * * ** * *
1024094 TTTTCAAAGCCAACAAGTCAGTGGCA-CCTTTCCAAAG-CC-TGCAAGTTAGTGGCACC
1 TTTTCAAACCCCACAAGTTAGTGGCATCCTTT-CAAAGCCCACACAAGTCAGTGGCAAC
* * * *
1024150 TTCTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAG-CCA-ACAAGTCAATGGC-AC
1 TTTTCAAACCCCACAAGTTAGTGGCATCC-TTTCAAAGCCCACACAAGTCAGTGGCAAC
* * * * *
1024205 TTTTTCCAAGCCCACAAGTCAGTGGCATCCTTTTAAAG--CACACAAGTCAGTGGCATC
1 -TTTTCAAACCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACACAAGTCAGTGGCAAC
* *
1024262 TTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACATAAGTC-GATGGCAAC
1 TTTTCAAACCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACACAAGTCAG-TGGCAAC
* *
1024320 TTTCTCTAAAACCCACACAAGTTGGTGGCAACCTTTCTAAA-CCCA
1 TTT-TC--AAACCC-CACAAGTTAGTGGCATCCTTTC-AAAGCCCA
1024365 ATGTCGCTAG
Statistics
Matches: 400, Mismatches: 70, Indels: 54
0.76 0.13 0.10
Matches are distributed among these distances:
55 8 0.02
56 222 0.56
57 11 0.03
58 102 0.25
59 4 0.01
60 20 0.05
61 6 0.01
62 24 0.06
63 3 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (58 bp):
TTTTCAAACCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACACAAGTCAGTGGCAAC
Found at i:1025425 original size:49 final size:50
Alignment explanation
Indices: 1025367--1025480 Score: 185
Period size: 51 Copynumber: 2.3 Consensus size: 50
1025357 TGAACAGTAC
1025367 ATGTATCGATACATTC-TATTTTTACCCAGATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCGTATTTTTACCCAGATGTATCGATACATTTTTCA
* * *
1025416 ATGTATCGATACATTCTGTTTTTTTACCCGGATGTATTGATACATTTTTCA
1 ATGTATCGATACATTC-GTATTTTTACCCAGATGTATCGATACATTTTTCA
1025467 ATGTATCGATACAT
1 ATGTATCGATACAT
1025481 CTAGTTAATT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
49 16 0.27
51 44 0.73
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (50 bp):
ATGTATCGATACATTCGTATTTTTACCCAGATGTATCGATACATTTTTCA
Found at i:1029040 original size:71 final size:71
Alignment explanation
Indices: 1028926--1029087 Score: 182
Period size: 71 Copynumber: 2.3 Consensus size: 71
1028916 TAGATAACTA
* * *
1028926 CCACTAACTTGTGTGGGCTTAGACTTAATAGGCATCTAGTTTTTTGTGGACTAAGGTAGATTAAC
1 CCACTAACTTGTGTGGGCTTAGACTTAATAGACATCCAGTTTTTTGTGGACTAAGGTAGATTAAA
*
1028991 ATGTTG
66 ATGGTG
* ** * * * * * *
1028997 CCACCAACTTGTGTGGGCTTAGACTTGGTAGATATCCATTTTTTTGTTGATTATGGTCGATTAAA
1 CCACTAACTTGTGTGGGCTTAGACTTAATAGACATCCAGTTTTTTGTGGACTAAGGTAGATTAAA
1029062 ATGGTG
66 ATGGTG
*
1029068 CCA-TAAGATTGTGTGGGCTT
1 CCACTAA-CTTGTGTGGGCTT
1029088 TTAGGTAGGT
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
70 2 0.03
71 73 0.97
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.38
Consensus pattern (71 bp):
CCACTAACTTGTGTGGGCTTAGACTTAATAGACATCCAGTTTTTTGTGGACTAAGGTAGATTAAA
ATGGTG
Found at i:1029404 original size:207 final size:208
Alignment explanation
Indices: 1029117--1029514 Score: 511
Period size: 207 Copynumber: 1.9 Consensus size: 208
1029107 AGTCCAACTC
* *
1029117 TTTATGGACTAAAGTAAATAGGTGCCACCAATTGGTATGGGCTTTGACTCGATAGATGCTCAGCT
1 TTTAAGGACTAAAGTAAATAGGTGCCACCAATTGGTA-GGGCTTT-A-TCGATAGACGCTCAGCT
* * * *
1029182 TTTCATAGGTTGTGGTAGATTAACGTAGTGCCATAAGCTTATGTGGG-TTTCAAGCTAGGTAAAA
63 TTTCATAGATTGTGGTAGATTAACGTAGTGCCACAAGCTTATATGGGCTTT-AAGCTAAGTAAAA
* * *
1029246 AAAGGACT-TCAACTCTTTATGGACTAAGGTTGATAGGTGCCACTAGCTTCTGTAGGCTTTGAAG
127 AAAGGAGTCT-AACTCTTTATGGACTAAGGTAGATAGGTGCCACTAACTTCTGTAGGCTTTGAAG
1029310 TAGCTAAGTGTCTTTCTT
191 TAGCTAAGTGTCTTTCTT
1029328 TTTAAGGACTAAAGTAAATAGGTGCCACCAACTTGTGTA-GGC-TT-TCGATAGACGC-CTAGCT
1 TTTAAGGACTAAAGTAAATAGGTGCCACCAA-TTG-GTAGGGCTTTATCGATAGACGCTC-AGCT
* * * * *
1029389 TTTCATAGATTGTGGTAGATTAATGTGGTGCCACAAGCTTGTATGGGCTTTGAGGTAAGTAAAAA
63 TTTCATAGATTGTGGTAGATTAACGTAGTGCCACAAGCTTATATGGGCTTTAAGCTAAGTAAAAA
* * * * *
1029454 AATGAGTCTAACTCTTTGTGGACTAAGGTAGATAGGTGCCATTAACTTGTGTGGGCTTTGA
128 AAGGAGTCTAACTCTTTATGGACTAAGGTAGATAGGTGCCACTAACTTCTGTAGGCTTTGA
1029515 GGTAAGTAAG
Statistics
Matches: 163, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
206 1 0.01
207 117 0.72
208 4 0.02
210 2 0.01
211 33 0.20
212 3 0.02
213 3 0.02
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (208 bp):
TTTAAGGACTAAAGTAAATAGGTGCCACCAATTGGTAGGGCTTTATCGATAGACGCTCAGCTTTT
CATAGATTGTGGTAGATTAACGTAGTGCCACAAGCTTATATGGGCTTTAAGCTAAGTAAAAAAAG
GAGTCTAACTCTTTATGGACTAAGGTAGATAGGTGCCACTAACTTCTGTAGGCTTTGAAGTAGCT
AAGTGTCTTTCTT
Found at i:1029545 original size:73 final size:73
Alignment explanation
Indices: 1029416--1029676 Score: 228
Period size: 73 Copynumber: 3.5 Consensus size: 73
1029406 GATTAATGTG
* * *
1029416 GTGCCA-CAAGCTTGTATGGGCTTTGAGGTAAGTAAAAAAATGAGTCTAACTCTTTGTGGACTAA
1 GTGCCAGCAA-CTTGTGTGGGCTTTGAGGTAAGTAAGAAAAGGAGTCTAACTCTTTGTGGACTAA
* *
1029480 GGTAGATAG
65 GGTAAATAC
** * *
1029489 GTGCCATTAACTTGTGTGGGCTTTGAGGTAAGTAAGAAAAGGAGTTTGAC-CATTTGTGGACTAA
1 GTGCCAGCAACTTGTGTGGGCTTTGAGGTAAGTAAGAAAAGGAGTCTAACTC-TTTGTGGACTAA
1029553 GGTAAATAC
65 GGTAAATAC
* ** *
1029562 GTGCCAGCAGCTTGTGTGGGCTTT-ATGGT-AGTTAAGAAAAAAACATCCTACACT-TTT-TGGA
1 GTGCCAGCAACTTGTGTGGGCTTTGA-GGTAAG-TAAGAAAAGGA-GT-CTA-ACTCTTTGTGGA
* *
1029623 CTATAGGTAGATAA
61 CTA-AGGTAAATAC
* * * * *
1029637 GTGCCACCAACTTTTATGGGCTTTGTGGTACGTAAGAAAA
1 GTGCCAGCAACTTGTGTGGGCTTTGAGGTAAGTAAGAAAA
1029677 AATGTCCTAC
Statistics
Matches: 153, Mismatches: 24, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
72 4 0.03
73 93 0.61
74 10 0.07
75 43 0.28
76 3 0.02
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (73 bp):
GTGCCAGCAACTTGTGTGGGCTTTGAGGTAAGTAAGAAAAGGAGTCTAACTCTTTGTGGACTAAG
GTAAATAC
Found at i:1031756 original size:79 final size:77
Alignment explanation
Indices: 1031571--1032137 Score: 370
Period size: 78 Copynumber: 7.3 Consensus size: 77
1031561 TCCCCGATGA
* * * * * * * *
1031571 AAAATTTGATATTTTAGAGATAAAAAT-AGGGATAGAGTATCCCCTCGAAAACAACGAGGTTAGA
1 AAAA-TTGATATTTTAGAAAT-AAAATCGGGGTTGGAGTATCCCTTCGAAAATAAAG-GGTTGGA
1031635 GTATCCCCGATGGT-G
63 GTAT-CCCGATGGTGG
* * * * *
1031650 AAAATT-AGTGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCATCAAAAATAATGTGGTTGGAG
1 AAAATTGA-TATTTTAGAAATAAAATCGGGGTTGGAGTATCCCTTCGAAAATAAAG-GGTTGGAG
1031714 TATCCCTGATGGTGG
64 TATCCC-GATGGTGG
* * * * *
1031729 AAAATTGATGTTTTAGAAATAAAATCGGGGTTGGTGTCTCCCCTTAG-AAAT-AA-CG--GG-GT
1 AAAATTGATATTTTAGAAATAAAATCGGGGTTGGAGTAT-CCCTTCGAAAATAAAGGGTTGGAGT
* *
1031788 CT-CCGATAGTGG
65 ATCCCGATGGTGG
* * * * * * *
1031800 AAAATT-ACTGTTTTAAAAAT-AAATTGAGGTTAGAGTATTCCCTT-TAAAATAACAGGGTTAGA
1 AAAATTGA-TATTTTAGAAATAAAATCGGGGTTGGAGTA-TCCCTTCGAAAATAA-AGGGTTGGA
* *
1031862 GTATCCCCGATAGTGA
63 GTAT-CCCGATGGTGG
* * * * *
1031878 AAAATCGATATTTTAAAAATAAAGTTGGGGTTGGAGCATCCCTTCGAAAATAACAGGGTTGGAGT
1 AAAATTGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCTTCGAAAATAA-AGGGTTGGAGT
** * *
1031943 ATCTTGATTGAGG
65 ATCCCGATGGTGG
* * * * * * * *
1031956 AAAATCGATATTTTAAAAATAAAGTCAGGGTTGGAGTATCCTTTTGAGAATAATAGGGTCGGAGT
1 AAAATTGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCTTCGAAAATAA-AGGGTTGGAGT
* * *
1032021 ATCTCGATGGAGC
65 ATCCCGATGGTGG
* * * * *
1032034 AAAATCGATATTTTAGAAATAAAGTCGAGGTTGGAGTATCTCTTCGAAAATAACGGGGTTGGAGT
1 AAAATTGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCTTCGAAAATAA-AGGGTTGGAGT
1032099 ATCCCGATGGTGAAG
65 ATCCCGATGGTG--G
* *
1032114 AAAA-TCATATTTTGGAAATTAAAA
1 AAAATTGATATTTTAGAAA-TAAAA
1032138 ACATCAATGA
Statistics
Matches: 393, Mismatches: 72, Indels: 45
0.77 0.14 0.09
Matches are distributed among these distances:
70 22 0.06
71 26 0.07
72 3 0.01
73 4 0.01
74 2 0.01
75 1 0.00
76 4 0.01
77 9 0.02
78 221 0.56
79 88 0.22
80 13 0.03
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (77 bp):
AAAATTGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCTTCGAAAATAAAGGGTTGGAGTA
TCCCGATGGTGG
Found at i:1031864 original size:149 final size:149
Alignment explanation
Indices: 1031641--1031911 Score: 341
Period size: 149 Copynumber: 1.8 Consensus size: 149
1031631 TAGAGTATCC
* * * * *
1031641 CCGATGGTGAAAATTAGTGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCATCAAAAATAATGT
1 CCGATAGTGAAAATTACTGTTTTAAAAATAAAATCGAGGTTAGAGTATCCCATCAAAAATAAAGT
* * * * * * *
1031706 GGTTGGAGTATCCCTGATGGTGGAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGTGTCTCCC
66 GGTTAGAGTATCCCCGATAGTGAAAAATCGATATTTTAAAAATAAAATCGGGGTTGGTGTCTCCC
1031771 CTTAGAAATAACGGGGTCT
131 CTTAGAAATAACGGGGTCT
* **
1031790 CCGATAGTGGAAAATTACTGTTTTAAAAAT-AAATTGAGGTTAGAGTATTCCC-TTTAAAATAAC
1 CCGATAGT-GAAAATTACTGTTTTAAAAATAAAATCGAGGTTAGAGTA-TCCCATCAAAAATAA-
* *
1031853 AG-GGTTAGAGTATCCCCGATAGTGAAAAATCGATATTTTAAAAATAAAGTTGGGGTTGG
63 AGTGGTTAGAGTATCCCCGATAGTGAAAAATCGATATTTTAAAAATAAAATCGGGGTTGG
1031912 AGCATCCCTT
Statistics
Matches: 102, Mismatches: 17, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
149 78 0.76
150 24 0.24
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (149 bp):
CCGATAGTGAAAATTACTGTTTTAAAAATAAAATCGAGGTTAGAGTATCCCATCAAAAATAAAGT
GGTTAGAGTATCCCCGATAGTGAAAAATCGATATTTTAAAAATAAAATCGGGGTTGGTGTCTCCC
CTTAGAAATAACGGGGTCT
Found at i:1034663 original size:13 final size:13
Alignment explanation
Indices: 1034645--1034669 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1034635 TTTAGGCATG
1034645 TATCGATACATTA
1 TATCGATACATTA
1034658 TATCGATACATT
1 TATCGATACATT
1034670 TACTGTTTGT
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:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:1035432 original size:43 final size:44
Alignment explanation
Indices: 1035346--1035446 Score: 107
Period size: 43 Copynumber: 2.3 Consensus size: 44
1035336 CTGCTCTTAT
* * *
1035346 AGGACAAAGG-AAAAAAGAAGAAGAAAATGGGTCCTGCTCCTTG
1 AGGACAAAGGAAAAAAAGAAAAAGAAAATGGGTACTGCTACTTG
* * *
1035389 AGGACAAAGGAAAAAAAGAAAAAGGAAA-GTGTATTGCTACTTG
1 AGGACAAAGGAAAAAAAGAAAAAGAAAATGGGTACTGCTACTTG
* *
1035432 AAGATAAAAGGAAAA
1 AGGA-CAAAGGAAAA
1035447 TGAGTATGTC
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
43 24 0.50
44 24 0.50
ACGTcount: A:0.51, C:0.09, G:0.26, T:0.14
Consensus pattern (44 bp):
AGGACAAAGGAAAAAAAGAAAAAGAAAATGGGTACTGCTACTTG
Found at i:1035581 original size:41 final size:42
Alignment explanation
Indices: 1035507--1035632 Score: 148
Period size: 41 Copynumber: 3.0 Consensus size: 42
1035497 CCTATTTTTT
* *
1035507 GAGGAAAAAGGGAAAAGAAGGAAAAAAAGTGTGTCTAGCTCTTG
1 GAGGAAAAA-AGAAAA-AAGGAAATAAAGTGTGTCTAGCTCTTG
* *
1035551 GAGGAAAAAAG-AAAAAGGAAATAAAGTGTGTCCT-GCACTTT
1 GAGGAAAAAAGAAAAAAGGAAATAAAGTGTGT-CTAGCTCTTG
* * *
1035592 GAGGACAAAAGAAAAAAGGAACTAAAGTGCGTCTAGCTCTT
1 GAGGAAAAAAGAAAAAAGGAAATAAAGTGTGTCTAGCTCTT
1035633 TGAAGACCTA
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
41 33 0.46
42 28 0.39
43 1 0.01
44 9 0.13
ACGTcount: A:0.45, C:0.10, G:0.27, T:0.17
Consensus pattern (42 bp):
GAGGAAAAAAGAAAAAAGGAAATAAAGTGTGTCTAGCTCTTG
Found at i:1035634 original size:42 final size:41
Alignment explanation
Indices: 1035504--1035635 Score: 151
Period size: 42 Copynumber: 3.1 Consensus size: 41
1035494 CATCCTATTT
*
1035504 TTTGAGGAAAAAGGGAAAAGAAGGAAAAAAAGTGTGTCTAGCTC
1 TTTGAGGAAAAA--GAAAA-AAGGAAATAAAGTGTGTCTAGCTC
* *
1035548 TTGGAGGAAAAA-AGAAAAAGGAAATAAAGTGTGTCCT-GCAC
1 TTTGAGGAAAAAGA-AAAAAGGAAATAAAGTGTGT-CTAGCTC
* *
1035589 TTTGAGGACAAAAGAAAAAAGGAACTAAAGTGCGTCTAGCTC
1 TTTGAGGA-AAAAGAAAAAAGGAAATAAAGTGTGTCTAGCTC
1035631 TTTGA
1 TTTGA
1035636 AGACCTAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
41 29 0.38
42 35 0.46
43 1 0.01
44 11 0.14
ACGTcount: A:0.44, C:0.10, G:0.27, T:0.20
Consensus pattern (41 bp):
TTTGAGGAAAAAGAAAAAAGGAAATAAAGTGTGTCTAGCTC
Found at i:1035768 original size:62 final size:61
Alignment explanation
Indices: 1035627--1036686 Score: 1090
Period size: 62 Copynumber: 17.3 Consensus size: 61
1035617 AGTGCGTCTA
* * *
1035627 GCTCTTTGAA-GACCTAAAAGGTGCCACAAACTCGTGTGGGCTTCAAAAAGGAAA-GCATCCT
1 GCTCTTT-AAGGA-CTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCATCCT
* * * *
1035688 GCTCTTTAAGGACAAAAAGGTACCACCAACTCATGTGGGCTTTAAAAAGAAAAAGACATCCT
1 GCTCTTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-AAAAGGCATCCT
* *
1035750 GCTCTTTAAGGACTAAAAGGTGCCACCAACTCGTATGGGCTTTAAAAAGGAAAA--CGTCCT
1 GCTCTTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAA-GAAAAGGCATCCT
** * * * * * *
1035810 GCTCTTTGTGGACTAAAAAGTGCCACCAACTCATGTAGGCTTCAAATAGAAAAGGCGTCCT
1 GCTCTTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCATCCT
* * * *
1035871 ACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAA--CATCTT
1 GCTCTTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAA-GAAAAGGCATCCT
* *
1035931 GC-CTTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCATCCC
1 GCTC-TTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-AAAAGGCATCCT
** * * * * *
1035993 ATTCTTTGAGGATTAAAATGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGACGTCCT
1 GCTCTTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-AAAAGGCATCCT
* * * * * * *
1036055 GCTCTTTGAGGACAAAAATGAGCCACCAACTTGTGTGGGCTTTAAAAAGGAAA-GCTTCCT
1 GCTCTTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCATCCT
* * * * *
1036115 GCTCTTTGAGGACTAAAAGGGGCTACCAACTTC-TGTGGGCTTTAAAACGAAAAAAGCATCCT
1 GCTCTTTAAGGACTAAAAGGTGCCACCAAC-TCGTGTGGGCTTTAAAAAG-AAAAGGCATCCT
* * * *
1036177 GCACTTTAAGGACTAAAAGGTGCCACCAACTCGTGTCGGCTTTAAAAGGGAAA-GCATCCT
1 GCTCTTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCATCCT
* * * * * *
1036237 ACTCTTTGAA-GACTAAAAAGTGCAACCAACTCATGTGGGCTTTAAAAAG-GAAGGCATCCA
1 GCTCTTT-AAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCATCCT
* * *
1036297 GCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAGAAAG--AAGGCAACCT
1 GCTCTTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCATCCT
* * * * * *
1036356 ACTCTTTATGGAATAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGGAAAGGGCATCCT
1 GCTCTTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCATCCT
* * * *
1036417 GATTTTTGAA-GACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAACGAAAAGGCGGTATCCT
1 GCTCTTT-AAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGC---ATCCT
* * ** * *
1036481 GCTCTTTGAGGACTAAATGGTGCCACCATTTTGTGTGGGCTTTGAAAAAGAAAAGGCGTCCT
1 GCTCTTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAAGAAAAGGCATCCT
* * * * * **
1036543 ACTTTTTGAA-GACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAATGTGTCCT
1 GCTCTTT-AAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-AAAAGGCATCCT
* * * * *
1036605 ACTCTTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGTTTTGAAAAGAAAAAGACGTCCT
1 GCTCTTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-AAAAGGCATCCT
1036667 GCTCTTTAAGGACTAAAAGG
1 GCTCTTTAAGGACTAAAAGG
1036687 CTAAAAGAGA
Statistics
Matches: 845, Mismatches: 124, Indels: 59
0.82 0.12 0.06
Matches are distributed among these distances:
59 60 0.07
60 270 0.32
61 134 0.16
62 327 0.39
63 4 0.00
64 39 0.05
65 11 0.01
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (61 bp):
GCTCTTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCATCCT
Found at i:1035774 original size:122 final size:121
Alignment explanation
Indices: 1035640--1036686 Score: 1106
Period size: 122 Copynumber: 8.6 Consensus size: 121
1035630 CTTTGAAGAC
* * *
1035640 CTAAAAGGTGCCACAAACTCGTGTGGGCTTCAAAAAGGAAAGCATCCTGCTCTTTAAGGACAAAA
1 CTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAGCATCCTGCTCTTTAAGGACTAAA
* * * *
1035705 AGGTACCACCAACTCATGTGGGCTTTAAAAAGAAAAAGACATCCTGCTCTTTAAGGA
66 AGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-AAAAGGCATCCTACTCTTTAAGGA
* * * **
1035762 CTAAAAGGTGCCACCAACTCGTATGGGCTTTAAAAAGGAAAACGTCCTGCTCTTTGTGGACTAAA
1 CTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAGCATCCTGCTCTTTAAGGACTAAA
* * * * * * *
1035827 AAGTGCCACCAACTCATGTAGGCTTCAAATAGAAAAGGCGTCCTACTCTTTGAGGA
66 AGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCATCCTACTCTTTAAGGA
* * * *
1035883 CTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAACATCTTGC-CTTTTGAGGACTAA
1 CTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAGCATCCTGCTC-TTTAAGGACTAA
* * *
1035947 AAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCATCCCATTCTTTGAGGA
65 AAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-AAAAGGCATCCTACTCTTTAAGGA
* * * * * *
1036005 TTAAAATGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGACGTCCTGCTCTTTGAGGACAA
1 CTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-GAAAG-CATCCTGCTCTTTAAGGACTA
* * * * * * *
1036070 AAATGAGCCACCAACTTGTGTGGGCTTTAAAAAGGAAA-GCTTCCTGCTCTTTGAGGA
64 AAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCATCCTACTCTTTAAGGA
* * ** *
1036127 CTAAAAGGGGCTACCAACTTC-TGTGGGCTTTAAAACGAAAAAAGCATCCTGCACTTTAAGGACT
1 CTAAAAGGTGCCACCAAC-TCGTGTGGGCTTTAAAA--AGGAAAGCATCCTGCTCTTTAAGGACT
* * *
1036191 AAAAGGTGCCACCAACTCGTGTCGGCTTTAAAAGGGAAA-GCATCCTACTCTTTGAA-GA
63 AAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCATCCTACTCTTT-AAGGA
* * * * * *
1036249 CTAAAAAGTGCAACCAACTCATGTGGGCTTTAAAAAGGAAGGCATCCAGCTCTTTGAGGACTAAA
1 CTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAGCATCCTGCTCTTTAAGGACTAAA
* * *
1036314 AGGTGCCACCAACTCGTGTGGGCTTTAGAAAG--AAGGCAACCTACTCTTTATGGA
66 AGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCATCCTACTCTTTAAGGA
* * * *
1036368 ATAAAAGGTGCCACCAACTCGTGTGGGCTTT-GAAAGGAAAGGGCATCCTGATTTTTGAA-GACT
1 CTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAA--GCATCCTGCTCTTT-AAGGACT
* * * *
1036431 AAAAGGTGCCACCAACTCGTGTGGGCTTTGAAACGAAAAGGCGGTATCCTGCTCTTTGAGGA
63 AAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGC---ATCCTACTCTTTAAGGA
* ** * * * * *
1036493 CTAAATGGTGCCACCATTTTGTGTGGGCTTTGAAAAAGAAAAGGCGTCCTACTTTTTGAA-GACT
1 CTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAAGGAAA-GCATCCTGCTCTTT-AAGGACT
* * * **
1036557 AAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAATGTGTCCTACTCTTTAAGGA
63 AAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-AAAAGGCATCCTACTCTTTAAGGA
* * * *
1036617 CTAAAAGGTGCCACCAACTCGTGTGGGTTTTGAAAAGAAAAAGACGTCCTGCTCTTTAAGGACTA
1 CTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-GAAAG-CATCCTGCTCTTTAAGGACTA
1036682 AAAGG
64 AAAGG
1036687 CTAAAAGAGA
Statistics
Matches: 780, Mismatches: 119, Indels: 50
0.82 0.13 0.05
Matches are distributed among these distances:
118 10 0.01
119 42 0.05
120 101 0.13
121 108 0.14
122 280 0.36
123 22 0.03
124 113 0.14
125 40 0.05
126 52 0.07
127 12 0.02
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (121 bp):
CTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAGCATCCTGCTCTTTAAGGACTAAA
AGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCATCCTACTCTTTAAGGA
Found at i:1043016 original size:79 final size:78
Alignment explanation
Indices: 1042806--1043048 Score: 276
Period size: 78 Copynumber: 3.1 Consensus size: 78
1042796 CACTCCCAGA
* * * * * *
1042806 TGAAAAATTGATATTTTAGAGATAAAAATGGGATTAGAGTATCCCCTTGAAAACAACGAGGTTGG
1 TGAAAAATTGATGTTTTAGAAATAAAAACGGGGTTGGAGTATCCCCTTGAAAATAACG-GGTTGG
* *
1042871 AATACCCCCGATGG
65 AGTATCCCCGATGG
* **
1042885 TG-AAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGTGGTTGG
1 TGAAAAATTGATGTTTTAGAAATAAAAACGGGGTTGGAGTATCCCCTTGAAAATAACG-GGTTGG
1042949 AGTATCCCCGATGG
65 AGTATCCCCGATGG
* * * *
1042963 TGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTA-CCTTCTTGAAAATAATGGGCTTA
1 TGAAAAATTGATGTTTTAGAAATAAAAACGGGGTTGGAGTATCC-CCTTGAAAATAACGGG-TTG
* *
1043027 GAGTATCTCCGATAG
64 GAGTATCCCCGATGG
1043042 T-AAAAAT
1 TGAAAAAT
1043049 CAGGGTTGGT
Statistics
Matches: 141, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 76 0.54
79 65 0.46
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (78 bp):
TGAAAAATTGATGTTTTAGAAATAAAAACGGGGTTGGAGTATCCCCTTGAAAATAACGGGTTGGA
GTATCCCCGATGG
Found at i:1043154 original size:137 final size:137
Alignment explanation
Indices: 1042907--1043167 Score: 348
Period size: 137 Copynumber: 1.9 Consensus size: 137
1042897 TTTTAGAAAT
* * * *
1042907 AAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGTGGTTGGAGTATCCCCGATGGTGAAAAATT
1 AAAATCAGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATAGTGAAAAATA
* * * *
1042972 GATGTTTTAGAAATAAAACCGGGGTTGGAGTACCTTCTTGAAAATAATGGGCTTAGAGTATCTCC
66 GATGTTTTAGAAATAAAACCGAGGTTGGAGTACCCTCTTGAAAATAATAGGATTAGAGTATCTCC
1043037 GATAGTA
131 GATAGTA
* * * * * *
1043044 AAAATCAGGGTTGGTGTATCCCTTCATAATTAATGGGGTTGGAGTATCCCCGATAGTGGAAAATC
1 AAAATCAGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATAGTGAAAAAT-
1043109 AG-TGTTTTAGAAATAAAACCGAGGTTGGAGTATCCC-CTCTG-AAATAATAGGATTAGAGT
65 AGATGTTTTAGAAATAAAACCGAGGTTGGAGTA-CCCTCT-TGAAAATAATAGGATTAGAGT
1043168 GTCCCCAATG
Statistics
Matches: 107, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
137 102 0.95
138 5 0.05
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (137 bp):
AAAATCAGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATAGTGAAAAATA
GATGTTTTAGAAATAAAACCGAGGTTGGAGTACCCTCTTGAAAATAATAGGATTAGAGTATCTCC
GATAGTA
Found at i:1043186 original size:79 final size:80
Alignment explanation
Indices: 1043052--1043364 Score: 302
Period size: 79 Copynumber: 4.0 Consensus size: 80
1043042 TAAAAATCAG
* * * * * * * * *
1043052 GGTTGGTGTATCCCTTCATAATTAATGGGGTTGGAGTATCCCCGATAGTGGAAAATCAG-TGTTT
1 GGTTGGAGTATCCCCTCAGAAATAATGGGATTAGAGTATCCCCGATGGTGAAAAATCAGATATTT
1043116 TAGAAATAAAACCGA
66 TAGAAATAAAACCGA
* * * *
1043131 GGTTGGAGTATCCCCTCTGAAATAATAGGATTAGAGTGTCCCCAATGGTGAAAAATC-GATATTT
1 GGTTGGAGTATCCCCTCAGAAATAATGGGATTAGAGTATCCCCGATGGTGAAAAATCAGATATTT
*
1043195 TAGAAAT-AAACCTGG
66 TAGAAATAAAACC-GA
* * * *
1043210 GGTTGGAGTGTCCCCT-AGAAAATAATGGGGTTGGAGTATCCCCGATGGT-AAAAAGT-TGATAT
1 GGTTGGAGTATCCCCTCAG-AAATAATGGGATTAGAGTATCCCCGATGGTGAAAAA-TCAGATAT
*
1043272 TTTAGAAATAAAGCC-A
64 TTTAGAAATAAAACCGA
** *
1043288 GGGTTGGAGTATTTCCTCAAAAATAATGGGATTAGAGTATCCCCGATGGTGAAGAAAATC--ATA
1 -GGTTGGAGTATCCCCTCAGAAATAATGGGATTAGAGTATCCCCGATGGTG-A-AAAATCAGATA
*
1043351 TTTTGGAAATAAAA
63 TTTTAGAAATAAAA
1043365 ACATTAGTGA
Statistics
Matches: 191, Mismatches: 31, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
78 12 0.06
79 153 0.80
80 20 0.10
81 2 0.01
82 4 0.02
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (80 bp):
GGTTGGAGTATCCCCTCAGAAATAATGGGATTAGAGTATCCCCGATGGTGAAAAATCAGATATTT
TAGAAATAAAACCGA
Found at i:1043339 original size:158 final size:159
Alignment explanation
Indices: 1043074--1043363 Score: 392
Period size: 158 Copynumber: 1.8 Consensus size: 159
1043064 CCTTCATAAT
* *
1043074 TAATGGGGTTGGAGTATCCCCGATAGTGGAAAATCAGTGTTTTAGAAATAAAACCGAGGTTGGAG
1 TAATGGGGTTGGAGTATCCCCGATAGTGAAAAATCAGTATTTTAGAAATAAAACCGAGGTTGGAG
** *
1043139 TATCCCCTCTGAAATAATAGGATTAGAGTGTCCCCAATGGTG-A-AAAATCGATATTTTAGAAAT
66 TATCCCCTCAAAAATAATAGGATTAGAGTATCCCCAATGGTGAAGAAAATC-ATATTTTAGAAAT
1043202 AAACCTGGGGTTGGAGTGTCCCCTAGAAAA
130 AAACCTGGGGTTGGAGTGTCCCCTAGAAAA
* * *
1043232 TAATGGGGTTGGAGTATCCCCGATGGT-AAAAAGT-TGATATTTTAGAAATAAAGCC-AGGGTTG
1 TAATGGGGTTGGAGTATCCCCGATAGTGAAAAA-TCAG-TATTTTAGAAATAAAACCGA-GGTTG
** * * *
1043294 GAGTATTTCCTCAAAAATAATGGGATTAGAGTATCCCCGATGGTGAAGAAAATCATATTTTGGAA
63 GAGTATCCCCTCAAAAATAATAGGATTAGAGTATCCCCAATGGTGAAGAAAATCATATTTTAGAA
1043359 ATAAA
128 ATAAA
1043364 AACATTAGTG
Statistics
Matches: 114, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
157 6 0.05
158 86 0.75
159 16 0.14
160 6 0.05
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.28
Consensus pattern (159 bp):
TAATGGGGTTGGAGTATCCCCGATAGTGAAAAATCAGTATTTTAGAAATAAAACCGAGGTTGGAG
TATCCCCTCAAAAATAATAGGATTAGAGTATCCCCAATGGTGAAGAAAATCATATTTTAGAAATA
AACCTGGGGTTGGAGTGTCCCCTAGAAAA
Found at i:1045778 original size:20 final size:20
Alignment explanation
Indices: 1045753--1045793 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
1045743 CAAATAGTAA
1045753 ATGTATCGATACATTTACTT
1 ATGTATCGATACATTTACTT
*
1045773 ATGTATCGATACATTTCCTT
1 ATGTATCGATACATTTACTT
1045793 A
1 A
1045794 GCAGTATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTACTT
Found at i:1054423 original size:20 final size:20
Alignment explanation
Indices: 1054398--1054572 Score: 107
Period size: 20 Copynumber: 7.7 Consensus size: 20
1054388 TTTTAACTAG
*
1054398 ATGTATCGATAGATTGAAAA
1 ATGTATCGATACATTGAAAA
1054418 ATGTATCGATACATCTAGGAAAAAA
1 ATGTATCGATACAT-T--G--AAAA
*
1054443 GATAGAATATATCGATACATTGAAGA
1 -AT-G--T--ATCGATACATTGAAAA
* * *
1054469 ATATATCGATACATTGATAC
1 ATGTATCGATACATTGAAAA
1054489 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
1054509 ATGTATCGATACATCTAGGTAAAAGACGGA
1 ATGTATCGATACAT-T--G---AA-A---A
*
1054539 ATGTATCGATATATTGAAAA
1 ATGTATCGATACATTGAAAA
1054559 ATGTATCGATACAT
1 ATGTATCGATACAT
1054573 CTGGGTAAAA
Statistics
Matches: 123, Mismatches: 11, Indels: 42
0.70 0.06 0.24
Matches are distributed among these distances:
20 71 0.58
21 2 0.02
22 1 0.01
23 3 0.02
24 2 0.02
25 6 0.05
26 7 0.06
27 3 0.02
28 1 0.01
29 2 0.02
30 15 0.12
31 10 0.08
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:1092192 original size:20 final size:20
Alignment explanation
Indices: 1092167--1092207 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
1092157 CAAATAGTAA
1092167 ATGTATCGATACATTTACTT
1 ATGTATCGATACATTTACTT
*
1092187 ATGTATCGATACATTTCCTT
1 ATGTATCGATACATTTACTT
1092207 A
1 A
1092208 GCAGTATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTACTT
Found at i:1100836 original size:20 final size:20
Alignment explanation
Indices: 1100811--1100985 Score: 107
Period size: 20 Copynumber: 7.7 Consensus size: 20
1100801 TTTTAACTAG
*
1100811 ATGTATCGATAGATTGAAAA
1 ATGTATCGATACATTGAAAA
1100831 ATGTATCGATACATCTAGGAAAAAA
1 ATGTATCGATACAT-T--G--AAAA
*
1100856 GATAGAATATATCGATACATTGAAGA
1 -AT-G--T--ATCGATACATTGAAAA
* * *
1100882 ATATATCGATACATTGATAC
1 ATGTATCGATACATTGAAAA
1100902 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
1100922 ATGTATCGATACATCTAGGTAAAAGACGGA
1 ATGTATCGATACAT-T--G---AA-A---A
*
1100952 ATGTATCGATATATTGAAAA
1 ATGTATCGATACATTGAAAA
1100972 ATGTATCGATACAT
1 ATGTATCGATACAT
1100986 CTGGGTAAAA
Statistics
Matches: 123, Mismatches: 11, Indels: 42
0.70 0.06 0.24
Matches are distributed among these distances:
20 71 0.58
21 2 0.02
22 1 0.01
23 3 0.02
24 2 0.02
25 6 0.05
26 7 0.06
27 3 0.02
28 1 0.01
29 2 0.02
30 15 0.12
31 10 0.08
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:1105856 original size:45 final size:47
Alignment explanation
Indices: 1105736--1105859 Score: 144
Period size: 49 Copynumber: 2.6 Consensus size: 47
1105726 AGATGAGAGG
* * *
1105736 AGTGCCAATGTGCCAATTCAAGGCGAACGATATTGGGCTAAGGGAAA
1 AGTGCCAATGTGCTAATTCAAGGCCAACGACATTGGGCTAAGGGAAA
* *
1105783 AGTGGACCAATGTGCTGATTCAAGGCCAACGACATTGGGCTAA-TG-AA
1 AGT-G-CCAATGTGCTAATTCAAGGCCAACGACATTGGGCTAAGGGAAA
* * *
1105830 GGTGCCAATATGCTAATTCAATGCCAACGA
1 AGTGCCAATGTGCTAATTCAAGGCCAACGA
1105860 TATGGGACTT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
45 23 0.35
46 1 0.02
47 7 0.11
48 2 0.03
49 33 0.50
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (47 bp):
AGTGCCAATGTGCTAATTCAAGGCCAACGACATTGGGCTAAGGGAAA
Found at i:1106083 original size:29 final size:28
Alignment explanation
Indices: 1105902--1106239 Score: 285
Period size: 28 Copynumber: 11.9 Consensus size: 28
1105892 TGAAAAGGGT
*
1105902 TGCCACTGACTTGCGTGGGCTTTGAAAAGAGT
1 TGCCACTGACTT--GTGGGCTTTG-AAAG-GA
* *
1105934 TACCACTGACTTGTGGGCTTTGAAAAGAGT
1 TGCCACTGACTTGTGGGCTTTG-AAAG-GA
* * *
1105964 TGCTA-TTAGCTTATGGGCTTTGAAA--A
1 TGCCACTGA-CTTGTGGGCTTTGAAAGGA
*
1105990 TGCCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
1106018 TGCCAATGATTTTTGGGCTTTGAAAGG-
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
1106045 TGCCACTGACTTGTGGGCTTTGAGAAGGA
1 TGCCACTGACTTGTGGGCTTTGA-AAGGA
*
1106074 TGCCACTGACTTTTGGGCTTTGAGAAGGA
1 TGCCACTGACTTGTGGGCTTTGA-AAGGA
* * * * *
1106103 TGGCACTAACTTATGGGCTTTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
** *
1106131 TGTTACT-AGCTTCTGGGCTTTGAAAGGA
1 TGCCACTGA-CTTGTGGGCTTTGAAAGGA
* **
1106159 TGCCACTGACTTATGGGCTTTGAAAAAA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
1106187 TGCCACTGACCTATGGGCTTTTGGAGAA--A
1 TGCCACTGACTTGTGGGC-TTT-GA-AAGGA
*
1106216 TGCCACTGACCTGTGGGCTTTGAA
1 TGCCACTGACTTGTGGGCTTTGAA
1106240 GAGATGAACG
Statistics
Matches: 261, Mismatches: 34, Indels: 28
0.81 0.11 0.09
Matches are distributed among these distances:
26 20 0.08
27 25 0.10
28 94 0.36
29 74 0.28
30 35 0.13
31 2 0.01
32 11 0.04
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGA
Found at i:1106148 original size:113 final size:110
Alignment explanation
Indices: 1105894--1106236 Score: 314
Period size: 113 Copynumber: 3.0 Consensus size: 110
1105884 TGGTGATTTG
* * *
1105894 AAAAGGGTTGCCACTGACTTGCGTGGGCTTTGAAAAGAGTTACCACTGACTTGTGGGCTTTGAAA
1 AAAAGGG-TGCCAATGACTT-C-TGGGCTTTG-AAAG-GATGCCACTGACTTGTGGGCTTTG-AA
* * * * *
1105959 AGAGTTGCTA-TTAGCTTATGGGCTTTGAAAATGCCACTGACTTGTGGGCTTT
60 AG-GATGCCACTGA-CTTATGGGCTTTGAAAATGCCACTAACTTATGGGCTTT
* * *
1106011 GAAAGGGTGCCAATGATTTTTGGGCTTTGAAAGG-TGCCACTGACTTGTGGGCTTTGAGAAGGAT
1 AAAAGGGTGCCAATGACTTCTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGA-AAGGAT
* *
1106075 GCCACTGACTTTTGGGCTTTGAGAAGGATGGCACTAACTTATGGGCTTT
65 GCCACTGACTTATGGGCTTTGA-AA--ATGCCACTAACTTATGGGCTTT
** * * **
1106124 AAAAGGGTGTTACT-AGCTTCTGGGCTTTGAAAGGATGCCACTGACTTATGGGCTTTGAAAAAAT
1 AAAAGGGTGCCAATGA-CTTCTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGAT
* * * *
1106188 GCCACTGACCTATGGGCTTTTGGAGAAATGCCACTGACCTGTGGGCTTT
65 GCCACTGACTTATGGGC-TTT-GA-AAATGCCACTAACTTATGGGCTTT
1106237 GAAGAGATGA
Statistics
Matches: 190, Mismatches: 27, Indels: 22
0.79 0.11 0.09
Matches are distributed among these distances:
110 19 0.10
111 28 0.15
112 2 0.01
113 86 0.45
114 34 0.18
115 5 0.03
116 10 0.05
117 6 0.03
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (110 bp):
AAAAGGGTGCCAATGACTTCTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATG
CCACTGACTTATGGGCTTTGAAAATGCCACTAACTTATGGGCTTT
Found at i:1107472 original size:10 final size:11
Alignment explanation
Indices: 1107435--1107483 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
1107425 TGAACCCCTT
*
1107435 TTTTTTATTTG
1 TTTTTTAATTG
1107446 TTTATTTTAATTG
1 -TT-TTTTAATTG
1107459 TTTTTTAATT-
1 TTTTTTAATTG
1107469 TTTTTT--TTG
1 TTTTTTAATTG
1107478 TTTTTT
1 TTTTTT
1107484 TGGGTACAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
8 2 0.06
9 6 0.18
10 6 0.18
11 8 0.24
12 4 0.12
13 8 0.24
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (11 bp):
TTTTTTAATTG
Found at i:1121078 original size:20 final size:20
Alignment explanation
Indices: 1121053--1121111 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
1121043 AAAAAAACAG
1121053 AATGTATCGATACATTGAAC
1 AATGTATCGATACATTGAAC
*
1121073 AATGTATCGATACATTCATAC
1 AATGTATCGATACATTGA-AC
*
1121094 -ATGTATTGATACATTGAA
1 AATGTATCGATACATTGAA
1121112 GTTGTATGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 1 0.03
20 32 0.91
21 2 0.06
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTGAAC
Found at i:1127748 original size:104 final size:105
Alignment explanation
Indices: 1127580--1127904 Score: 406
Period size: 105 Copynumber: 3.1 Consensus size: 105
1127570 GGGTTGGAGC
* * * * * *
1127580 ATCCCCTCAGAGCAGTAGGGCTAG-AGTTTCCCTAAAGTCGAGAATTATGAAAATATTTAGGAAC
1 ATCCCCTCGGAGTAATAGGGTTAGAATTTTCCC-AAAGTCGAGAATTATGAAAATATTTAAGAAC
* *
1127644 AAAGAGAAAAATTGATTTTTTATGAAGAACGAGGCTGGAAT
65 AAAGAGAAAATTTGATTTTTTATGAAGAACGAGGCTAGAAT
* * * * * *
1127685 ATCCCCTCGGA-TAAT-GGGATTGGAGTTTTCTCGAAGTTGAGCATTATGAAAATATTTAAGAAC
1 ATCCCCTCGGAGTAATAGGG-TTAGAATTTTCCCAAAGTCGAGAATTATGAAAATATTTAAGAAC
*
1127748 AAAGAGAAAATTTGATTTTTTATGAAGAACGAGGTTA-AAGT
65 AAAGAGAAAATTTGATTTTTTATGAAGAACGAGGCTAGAA-T
* ** *
1127789 ATCCCTTCAAAGTAGTAGGGTTAGAATTTTCCCAAAGTCGAGAATTATGAAAATATTTAAGAACA
1 ATCCCCTCGGAGTAATAGGGTTAGAATTTTCCCAAAGTCGAGAATTATGAAAATATTTAAGAACA
*
1127854 AAGAGAAAATTTGATTTTTTATGAAGAACGAGGCTAGATT
66 AAGAGAAAATTTGATTTTTTATGAAGAACGAGGCTAGAAT
*
1127894 ATCACCTCGGA
1 ATCCCCTCGGA
1127905 CTAGTGCAGT
Statistics
Matches: 183, Mismatches: 31, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
103 5 0.03
104 74 0.40
105 100 0.55
106 4 0.02
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (105 bp):
ATCCCCTCGGAGTAATAGGGTTAGAATTTTCCCAAAGTCGAGAATTATGAAAATATTTAAGAACA
AAGAGAAAATTTGATTTTTTATGAAGAACGAGGCTAGAAT
Found at i:1129129 original size:373 final size:372
Alignment explanation
Indices: 1128414--1129093 Score: 868
Period size: 373 Copynumber: 1.8 Consensus size: 372
1128404 TGCAAAAAAC
* * *
1128414 AAAAACAAATCAAAATTTGAAAAATTATTTTGGGCCATCCGAAATCATAAAATCATGAACCATAC
1 AAAAACAAATCAAAATTTGAAAAATCATTTTGGACCATCCGAAACCATAAAATCATGAACCATAC
* * * * * *
1128479 CTTTTCAAAAATAAAATTTCATAAACTTTTTAAGGAAAGTATTTAAAAGTTTTGGAAAAATCTTT
66 CTTTTCAAAAAGAAAATTTCATAAACCTTTTAAGAAAAATATTTAAAAGTTATGGAAAAATCATT
* * *
1128544 TGATGAGCCCAAATTGCCCAAATAGAATATCACATGCTAGCTCTAAAGGTTCTGAGCAACAAAGG
131 TGATGAGCCCAAATTGCCCAAACAGAATATCACATGCTAGCTCTAAAGGTTCCGAGCAACAAAGC
* * * * *
1128609 TTCGAAAAATCATAACTCCCTCATCTAAAATTATCGAGGGCAAATGAGACATCTTTTGAAAGGTA
196 TTCGAAAAATCATAACTCCCTCATCTAAAATGATCAAAGGCAAATGAGACACCTTTGGAAAGGTA
1128674 TTTTCATGGCCTTTAAGGGAAAAATATCAAAAAAATCAAGGAAAATAATATTTGGCTCAAAAATG
261 TTTTCATGGCCTTTAAGGGAAAAATATCAAAAAAATCAAGGAAAATAATATTTGGCTCAAAAATG
1128739 ATTTTCCAACCTTAGGCCTCAACATTGCTAGTTACTAGATGCAAGTA
326 ATTTTCCAACCTTAGGCCTCAACATTGCTAGTTACTAGATGCAAGTA
* * * * * *
1128786 AAAAACAAATCAAACTTTG-AAAATCATTTTGGACTTATCTGGAACCATTAAATCGTGAACCATA
1 AAAAACAAATCAAAATTTGAAAAATCATTTTGGAC-CATCCGAAACCATAAAATCATGAACCATA
* ** * *
1128850 CCTTTTCCAAAAAGAGAATTTTGTAGACCTTTTAAGAAAAATATTTAAAAGTTATGTAAAAATCA
65 CCTTTT-CAAAAAGAAAATTTCATAAACCTTTTAAGAAAAATATTTAAAAGTTATGGAAAAATCA
* * * ** **
1128915 TTTGAT-AGGCCCAAA-TGCCCCGAACAGAATGTCACATGCTATCTCTAGGGGTTCCGAGCAGTA
129 TTTGATGA-GCCCAAATTG-CCCAAACAGAATATCACATGCTAGCTCTAAAGGTTCCGAGCAACA
*
1128978 AAGCTTTGAAAAATCATAACTCCCTCATCCT-AAATGATTCAAAGGCAAATGAGACACCTTTGGA
192 AAGCTTCGAAAAATCATAACTCCCTCAT-CTAAAATGA-TCAAAGGCAAATGAGACACCTTTGGA
* ** ** * *
1129042 AATGTA-TTTCGATGTTCTTTAAGGGAAATTTATTAAAAAAGTCAA-GAAAATA
255 AAGGTATTTTC-ATGGCCTTTAAGGGAAAAATATCAAAAAAATCAAGGAAAATA
1129094 TTTTATGGTT
Statistics
Matches: 258, Mismatches: 43, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
371 13 0.05
372 50 0.19
373 138 0.53
374 57 0.22
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.29
Consensus pattern (372 bp):
AAAAACAAATCAAAATTTGAAAAATCATTTTGGACCATCCGAAACCATAAAATCATGAACCATAC
CTTTTCAAAAAGAAAATTTCATAAACCTTTTAAGAAAAATATTTAAAAGTTATGGAAAAATCATT
TGATGAGCCCAAATTGCCCAAACAGAATATCACATGCTAGCTCTAAAGGTTCCGAGCAACAAAGC
TTCGAAAAATCATAACTCCCTCATCTAAAATGATCAAAGGCAAATGAGACACCTTTGGAAAGGTA
TTTTCATGGCCTTTAAGGGAAAAATATCAAAAAAATCAAGGAAAATAATATTTGGCTCAAAAATG
ATTTTCCAACCTTAGGCCTCAACATTGCTAGTTACTAGATGCAAGTA
Found at i:1129473 original size:50 final size:51
Alignment explanation
Indices: 1129398--1129530 Score: 162
Period size: 50 Copynumber: 2.6 Consensus size: 51
1129388 CACAATTTGT
* * *
1129398 ATCGATACATCCTTCATTGTATCAATACATTCTAGGTTTT-ACCTAGATGC
1 ATCGATACATTCTTCATTGTATCAATACATTCTAGGTTTTAACCCAAATGC
* * * *
1129448 ATCGATACATTCTTTATTGTATCAATGCATTCTGGGTTTTAACCCAAATGT
1 ATCGATACATTCTTCATTGTATCAATACATTCTAGGTTTTAACCCAAATGC
* *
1129499 ATCGATACATT-TCTCAATGTATCGATACATTC
1 ATCGATACATTCT-TCATTGTATCAATACATTC
1129531 AGGCATTTTT
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 37 0.53
51 33 0.47
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (51 bp):
ATCGATACATTCTTCATTGTATCAATACATTCTAGGTTTTAACCCAAATGC
Found at i:1132155 original size:79 final size:78
Alignment explanation
Indices: 1131866--1132267 Score: 300
Period size: 79 Copynumber: 5.1 Consensus size: 78
1131856 TAAAATACTG
* * * * * *
1131866 ATTTTCCACCATCGAGGATACTCCAACCCCGTTATTTTC-AAGAGGATACTCTAACCCTGGTTTT
1 ATTTTCCACCATCAAGGATACTCCAA-CCCGTTGTTTCCGAAG-GGATACTCCAACCCCGATTTT
1131930 ATTTTCAAAACATCGA
64 ATTTTCAAAACATC-A
* ** * * * * ** * * * *
1131946 CTTTT-CATAATCAAGGATATTCTAACCCCATTATTTTTGAGGGGATACTCTAATCCAG-TTTTA
1 ATTTTCCACCATCAAGGATACTCCAA-CCCGTTGTTTCCGAAGGGATACTCCAACCCCGATTTTA
* *
1132009 -TATCTAAAACA-CTG
65 TTTTC-AAAACATC-A
* * *
1132023 ATTTTCCACCTTCAGGGATACTCTAACCCCGTTGTTTCCGAAGGGATACTCCAACCCCGATTTTA
1 ATTTTCCACCATCAAGGATACTCCAA-CCCGTTGTTTCCGAAGGGATACTCCAACCCCGATTTTA
1132088 TTTTCAAAACATCA
65 TTTTCAAAACATCA
* ** * *
1132102 ATTTTTCATGATCAAGGATGCTCCAACGCCGTTGTTTCTC-AAGGGAT-CTTCCAACCCCTATTT
1 ATTTTCCACCATCAAGGATACTCCAAC-CCGTTGTTTC-CGAAGGGATAC-TCCAACCCCGATTT
* * *
1132165 TATTTCCAAAATA-CTG
63 TATTTTCAAAACATC-A
** *
1132181 ATTTTCCACCATTGAGGATACTCCAACCTCGTTGTTTCCGAGGGGATACTCCAACCCCGATTTTA
1 ATTTTCCACCATCAAGGATACTCCAACC-CGTTGTTTCCGAAGGGATACTCCAACCCCGATTTTA
*
1132246 -TTTCTAAGACATCA
65 TTTTC-AAAACATCA
1132260 ATTTTCCA
1 ATTTTCCA
1132268 TAACCTTGTT
Statistics
Matches: 254, Mismatches: 53, Indels: 31
0.75 0.16 0.09
Matches are distributed among these distances:
77 8 0.03
78 59 0.23
79 174 0.69
80 13 0.05
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (78 bp):
ATTTTCCACCATCAAGGATACTCCAACCCGTTGTTTCCGAAGGGATACTCCAACCCCGATTTTAT
TTTCAAAACATCA
Found at i:1132230 original size:158 final size:157
Alignment explanation
Indices: 1131847--1132270 Score: 496
Period size: 157 Copynumber: 2.7 Consensus size: 157
1131837 TCAGTAGTGT
* * * * *
1131847 TTTTATTTCTAAAATACTGATTTTCCACCATCGAGGATACTCCAACCCCGTTATTTTCAAGAGGA
1 TTTTATTTCTAAAATACTGATTTTCCACCATTGAGGATACTCCAACCCCGTTGTTTCCGAGGGGA
* * * * * * *
1131912 TACTCTAACCCTGGTTTTATTTTCAAAACATCGACTTTTCATAATCAAGGATATTCTAACCCCAT
66 TACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCATAATCAAGGATACTCCAACCCCAT
* * * * *
1131977 TATTTTTGAGGGGATACTCTAATCCAG
131 TATTTCTCAAGGGATACTCCAACCCAG
* * * * *
1132004 TTTTATATCTAAAACACTGATTTTCCACC-TTCAGGGATACTCTAACCCCGTTGTTTCCGAAGGG
1 TTTTATTTCTAAAATACTGATTTTCCACCATTGA-GGATACTCCAACCCCGTTGTTTCCGAGGGG
* * * *
1132068 ATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCATGATCAAGGATGCTCCAACGCCG
65 ATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCATAATCAAGGATACTCCAACCCCA
*
1132133 TTGTTTCTCAAGGGAT-CTTCCAACCCCTA-
130 TTATTTCTCAAGGGATAC-TCCAA-CCC-AG
* *
1132162 TTTTATTTCCAAAATACTGATTTTCCACCATTGAGGATACTCCAACCTCGTTGTTTCCGAGGGGA
1 TTTTATTTCTAAAATACTGATTTTCCACCATTGAGGATACTCCAACCCCGTTGTTTCCGAGGGGA
* *
1132227 TACTCCAACCCCGATTTTA-TTTCTAAGACATCAATTTTCCATAA
66 TACTCCAACCCCGATTTTATTTTC-AAAACATCAATTTTTCATAA
1132271 CCTTGTTATT
Statistics
Matches: 224, Mismatches: 37, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
156 3 0.01
157 125 0.56
158 92 0.41
159 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (157 bp):
TTTTATTTCTAAAATACTGATTTTCCACCATTGAGGATACTCCAACCCCGTTGTTTCCGAGGGGA
TACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCATAATCAAGGATACTCCAACCCCAT
TATTTCTCAAGGGATACTCCAACCCAG
Found at i:1132291 original size:63 final size:64
Alignment explanation
Indices: 1132205--1132328 Score: 178
Period size: 63 Copynumber: 2.0 Consensus size: 64
1132195 AGGATACTCC
* * *
1132205 AACCTCGTTGTTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAGACATCAATTTTCCAT
1 AACCTCGTTATTTCCGAGGGGATACTCCAACCCCAATTTTATTTCTAAAACATCAATTTTCCAT
* * * *
1132269 AACCTTGTTATTT-CGAGGGGATACTTCGACCCCAATTTTATTTCTAAAACATCGATTTTC
1 AACCTCGTTATTTCCGAGGGGATACTCCAACCCCAATTTTATTTCTAAAACATCAATTTTC
1132329 TACAATCGGG
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
63 42 0.79
64 11 0.21
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (64 bp):
AACCTCGTTATTTCCGAGGGGATACTCCAACCCCAATTTTATTTCTAAAACATCAATTTTCCAT
Found at i:1134374 original size:21 final size:21
Alignment explanation
Indices: 1134348--1134401 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
1134338 TGTTGCAATT
1134348 TATCGATACATGAAAAAGATG
1 TATCGATACATGAAAAAGATG
1134369 TATCGATACATGAAAAAGATG
1 TATCGATACATGAAAAAGATG
1134390 TATCGATACATG
1 TATCGATACATG
1134402 TCATTGGGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.26
Consensus pattern (21 bp):
TATCGATACATGAAAAAGATG
Found at i:1134476 original size:20 final size:20
Alignment explanation
Indices: 1134431--1134482 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
1134421 GTAGCCAAAC
**
1134431 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
1134451 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
1134470 TTGTATCGATACA
1 TTGTATCGATACA
1134483 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:1134978 original size:34 final size:35
Alignment explanation
Indices: 1134915--1134981 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1134905 CTAAGTGATT
1134915 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1134951 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1134982 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:1141584 original size:19 final size:20
Alignment explanation
Indices: 1141560--1141614 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
1141550 GTATCGATAT
1141560 ATTGTATCGATACATGCTC-
1 ATTGTATCGATACATGCTCA
*
1141579 ATTGTATCGATACATACTCA
1 ATTGTATCGATACATGCTCA
*
1141599 ATCGTATCGATACATG
1 ATTGTATCGATACATG
1141615 AAACTGACAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.35
Consensus pattern (20 bp):
ATTGTATCGATACATGCTCA
Found at i:1143524 original size:13 final size:13
Alignment explanation
Indices: 1143506--1143530 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1143496 ATAATGCACA
1143506 GTATCGATACATT
1 GTATCGATACATT
1143519 GTATCGATACAT
1 GTATCGATACAT
1143531 GACCAAATGT
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:1143564 original size:21 final size:21
Alignment explanation
Indices: 1143516--1143568 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1143506 GTATCGATAC
*
1143516 ATTGTATCGATACATGACCAA
1 ATTGTATCGATACATGACAAA
*
1143537 A-TGTATCGATACTTG-CAAA
1 ATTGTATCGATACATGACAAA
1143556 GATTGTATCGATA
1 -ATTGTATCGATA
1143569 TAGGTGATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 3 0.11
20 14 0.50
21 11 0.39
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (21 bp):
ATTGTATCGATACATGACAAA
Found at i:1149801 original size:13 final size:13
Alignment explanation
Indices: 1149785--1149815 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1149775 CTCTGTATTG
*
1149785 ATACATTGTATCA
1 ATACAGTGTATCA
1149798 ATACAGTGTATCA
1 ATACAGTGTATCA
1149811 ATACA
1 ATACA
1149816 AAGGGTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (13 bp):
ATACAGTGTATCA
Found at i:1151578 original size:48 final size:48
Alignment explanation
Indices: 1151526--1151671 Score: 258
Period size: 48 Copynumber: 3.0 Consensus size: 48
1151516 AAAATTATTT
1151526 TTGGCATTTGACAAAGGGGTAGAAAATCTTTTTAAAAGAGAACTTTAA
1 TTGGCATTTGACAAAGGGGTAGAAAATCTTTTTAAAAGAGAACTTTAA
*
1151574 TTGGCATTTGACAAAGGGGTAGAAAATCTTTTTAAAAGAGAGCTTTAA
1 TTGGCATTTGACAAAGGGGTAGAAAATCTTTTTAAAAGAGAACTTTAA
*
1151622 TTGGCATTTGACAAAGGGGGAGAAAATCTTTTTAAAAGA-AAGCTTTAA
1 TTGGCATTTGACAAAGGGGTAGAAAATCTTTTTAAAAGAGAA-CTTTAA
1151670 TT
1 TT
1151672 ATTTTAACGA
Statistics
Matches: 94, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
47 1 0.01
48 93 0.99
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (48 bp):
TTGGCATTTGACAAAGGGGTAGAAAATCTTTTTAAAAGAGAACTTTAA
Found at i:1157302 original size:61 final size:60
Alignment explanation
Indices: 1157170--1157561 Score: 386
Period size: 61 Copynumber: 6.4 Consensus size: 60
1157160 AACCTTTTAT
* * * * *
1157170 CCTTTCAGTACTTAAAAAGCAAGATGCCTTTTTCTTTTAAACCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAACCCACACAAGTTGGTGGCA
* *
1157230 CCTTTCAGTCCTTAAAGAGCAGGATGCCTTTTCCTTTTAAAGGCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAA-CCCACACAAGTTGGTGGCA
* * * *
1157291 CCTTTCCGTCCTCAAACAGCATGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAA-CCCACACAAGTTGGTGGCA
* *
1157352 CC-TTCTAGTCCTCAAAGAGCAGGACG-C-TTT-CTTTTCAAAGCACACACAAGTTGGTGGCA
1 CCTTTC-AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT-AAA-CCCACACAAGTTGGTGGCA
* *
1157411 CC-TTCTAGTCCTCAAAGAGCAGGATG-CTTTCTCCTTGTAAAACCCACTCAAGTTGGTGGCA
1 CCTTTC-AGTCCTCAAAGAGCAGGATGCCTTT-TCCTT-TTAAACCCACACAAGTTGGTGGCA
* * * * *
1157472 CC-TTCTAGT-CTCCAAAGAGCAAGACACTTTCCTTTTTCCTTTTAAAACCCATACAAATTAGTG
1 CCTTTC-AGTCCT-CAAAGAGC-AG-GA--TGCC-TTTTCCTTTT-AAACCCACACAAGTTGGTG
1157535 GCA
58 GCA
* *
1157538 CCTTTTAGTCCCCAAAGAGCAGGA
1 CCTTTCAGTCCTCAAAGAGCAGGA
1157562 CAAACTTCTT
Statistics
Matches: 284, Mismatches: 31, Indels: 30
0.82 0.09 0.09
Matches are distributed among these distances:
58 4 0.01
59 51 0.18
60 45 0.16
61 126 0.44
62 8 0.03
63 2 0.01
64 1 0.00
65 4 0.01
66 37 0.13
67 6 0.02
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (60 bp):
CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAACCCACACAAGTTGGTGGCA
Found at i:1157437 original size:120 final size:118
Alignment explanation
Indices: 1157170--1157507 Score: 400
Period size: 120 Copynumber: 2.8 Consensus size: 118
1157160 AACCTTTTAT
* * * *
1157170 CCTTTCAGTACTTAAAAAGCAAGATGCCTTTTTCTTTTAAACCCACACAAGTTGGTGGCACCTT-
1 CCTTTCAGTCCTCAAACAGCAAGATGCC-TTTTCCTTTAAACCCACACAAGTTGGTGGCACCTTC
* *
1157234 TCAGTCCTTAAAGAGCAGGATGCCTTTTCCTTTTAAAGGCCACACAAGTTGGTGGCA
65 T-AGTCCTCAAAGAGCAGGACG-C-TTTCCTTTTAAAGGCCACACAAGTTGGTGGCA
* *
1157291 CCTTTCCGTCCTCAAACAGCATGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
1 CCTTTCAGTCCTCAAACAGCAAGATGCCTTTTCCTTT-AAA-CCCACACAAGTTGGTGGCACCTT
1157356 CTAGTCCTCAAAGAGCAGGACGCTTT-CTTTTCAAA-GCACACACAAGTTGGTGGCA
64 CTAGTCCTCAAAGAGCAGGACGCTTTCCTTTT-AAAGGC-CACACAAGTTGGTGGCA
* * *
1157411 CC-TTCTAGTCCTCAAAGAGCAGGATG-CTTTCTCCTTGTAAAACCCACTCAAGTTGGTGGCACC
1 CCTTTC-AGTCCTCAAACAGCAAGATGCCTTT-TCCTT-T-AAACCCACACAAGTTGGTGGCACC
* *
1157474 TTCTAGT-CTCCAAAGAGCAAGACACTTTCCTTTT
62 TTCTAGTCCT-CAAAGAGCAGGACGCTTTCCTTTT
1157508 TCCTTTTAAA
Statistics
Matches: 192, Mismatches: 15, Indels: 20
0.85 0.07 0.09
Matches are distributed among these distances:
119 16 0.08
120 98 0.51
121 36 0.19
122 41 0.21
123 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (118 bp):
CCTTTCAGTCCTCAAACAGCAAGATGCCTTTTCCTTTAAACCCACACAAGTTGGTGGCACCTTCT
AGTCCTCAAAGAGCAGGACGCTTTCCTTTTAAAGGCCACACAAGTTGGTGGCA
Found at i:1157573 original size:66 final size:64
Alignment explanation
Indices: 1157319--1157579 Score: 202
Period size: 66 Copynumber: 4.2 Consensus size: 64
1157309 GCATGATGCC
* * * * * * *
1157319 TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGG--AC-GC-
1 TTTTCCTTTTAAAACCCACTCAAATTAGTGGCACCTTCTAGTCCCCAAAGAGCAGGACACTTCT
* * * * * * *
1157379 -TTT-CTTTTCAAAGCACACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGG--A-TGCT
1 TTTTCCTTTT-AAAACCCACTCAAATTAGTGGCACCTTCTAGTCCCCAAAGAGCAGGACACTTCT
* * * * * *
1157439 TTCTCCTTGTAAAACCCACTCAAGTTGGTGGCACCTTCTAGTCTCCAAAGAGCAAGACACTTTCC
1 TTTTCCTTTTAAAACCCACTCAAATTAGTGGCACCTTCTAGTCCCCAAAGAGCAGGACAC-TT-C
1157504 T
64 T
*
1157505 TTTTCCTTTTAAAACCCA-TACAAATTAGTGGCACCTTTTAGTCCCCAAAGAGCAGGACAAACTT
1 TTTTCCTTTTAAAACCCACT-CAAATTAGTGGCACCTTCTAGTCCCCAAAGAGCAGGAC--ACTT
1157569 C-
63 CT
1157570 TTTTCCTTTT
1 TTTTCCTTTT
1157580 TTTCCCTTTT
Statistics
Matches: 170, Mismatches: 18, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
58 4 0.02
59 51 0.30
61 42 0.25
62 4 0.02
63 1 0.01
65 12 0.07
66 52 0.31
67 2 0.01
68 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (64 bp):
TTTTCCTTTTAAAACCCACTCAAATTAGTGGCACCTTCTAGTCCCCAAAGAGCAGGACACTTCT
Found at i:1157773 original size:43 final size:42
Alignment explanation
Indices: 1157545--1157804 Score: 267
Period size: 43 Copynumber: 6.1 Consensus size: 42
1157535 GCACCTTTTA
* **
1157545 GTCCCCAAAGAGCAGGACAAACTTCT-TTTCCTTTTTTTCCCTTTT
1 GTCCTCAAAGAGCAGGACGCACTT-TATTTCC-TTTTTT-CC-TTT
* * **
1157590 GTCCTCAAAGAGTAGGATGCAC-TTATTT-CTTTTCCCCTTT
1 GTCCTCAAAGAGCAGGACGCACTTTATTTCCTTTTTTCCTTT
* * *
1157630 GTCCTCAAAGAGCAGGATGCACTTTATTTCC-TTTTCCCGTT
1 GTCCTCAAAGAGCAGGACGCACTTTATTTCCTTTTTTCCTTT
*
1157671 GTCCTCAAAGAGCAGGACGCACTTTATTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGACGCACTTTATTTCCTTTTTTCCTTT
* * *
1157713 ATCCTCAAAGAGCAGGACACACTTAATTTCCTTTTTTTCCTTT
1 GTCCTCAAAGAGCAGGACGCACTTTATTTCC-TTTTTTCCTTT
* * * * *
1157756 GTCCTTAAAAAGTAGGACACAATTTATTTCCTTATTTTCCTTT
1 GTCCTCAAAGAGCAGGACGCACTTTATTTCCTT-TTTTCCTTT
1157799 GTCCTC
1 GTCCTC
1157805 GAACAGCAAG
Statistics
Matches: 184, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
40 24 0.13
41 46 0.25
42 42 0.23
43 51 0.28
44 4 0.02
45 17 0.09
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.40
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACGCACTTTATTTCCTTTTTTCCTTT
Found at i:1157782 original size:126 final size:126
Alignment explanation
Indices: 1157545--1157788 Score: 280
Period size: 126 Copynumber: 1.9 Consensus size: 126
1157535 GCACCTTTTA
* * * **
1157545 GTCCCCAAAGAGCAGGACAAACTTCTTTTCCTTTTTTTCCCTTTTGTCCTCAAAGAGTAGGATGC
1 GTCCCCAAAGAGCAGGACAAACTTCTTTTCCTTTTTCTCCCTTTTATCCTCAAAGAGCAGGACAC
* ** *
1157610 ACTTATTTCTTTTCCCCTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCCCGTT
66 ACTTATTTCTTTTCCCCTTTGTCCTCAAAAAGCAGGACACAATTTATTTCCTTTTCCCGTT
* **
1157671 GTCCTCAAAGAGCAGGACGCACTT-TATTTCC-TTTTCT-CC-TTTATCCTCAAAGAGCAGGACA
1 GTCCCCAAAGAGCAGGACAAACTTCT-TTTCCTTTTTCTCCCTTTTATCCTCAAAGAGCAGGACA
** * *
1157732 CACTTAATTTCCTTTTTTTCCTTTGTCCTTAAAAAGTAGGACACAATTTATTTCCTT
65 CACTT-ATTT-C-TTTTCCCCTTTGTCCTCAAAAAGCAGGACACAATTTATTTCCTT
1157789 ATTTTCCTTT
Statistics
Matches: 98, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
123 23 0.23
124 6 0.06
125 7 0.07
126 62 0.63
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.39
Consensus pattern (126 bp):
GTCCCCAAAGAGCAGGACAAACTTCTTTTCCTTTTTCTCCCTTTTATCCTCAAAGAGCAGGACAC
ACTTATTTCTTTTCCCCTTTGTCCTCAAAAAGCAGGACACAATTTATTTCCTTTTCCCGTT
Found at i:1158545 original size:50 final size:51
Alignment explanation
Indices: 1158461--1158596 Score: 134
Period size: 51 Copynumber: 2.7 Consensus size: 51
1158451 TTGTATTGAT
* ****
1158461 ACATCCTTCATTGTATCGATACATTCTGGGTTTT-A-CTTAGATGTATCAAA
1 ACATTCTTCATTGTATCGATACATTCAACATTTTAATCTT-GATGTATCAAA
* * * *
1158511 ACATTCTTCATTTTATCGATACATTCCACATTTTAATCTTGATGTATCGAT
1 ACATTCTTCATTGTATCGATACATTCAACATTTTAATCTTGATGTATCAAA
*
1158562 ACATTTCTT-AATGTATCGATACATTCAAGCATTTT
1 ACA-TTCTTCATTGTATCGATACATTCAA-CATTTT
1158597 TGACCATTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
50 28 0.39
51 29 0.41
52 14 0.20
ACGTcount: A:0.29, C:0.18, G:0.10, T:0.43
Consensus pattern (51 bp):
ACATTCTTCATTGTATCGATACATTCAACATTTTAATCTTGATGTATCAAA
Found at i:1158566 original size:24 final size:22
Alignment explanation
Indices: 1158538--1158586 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 22
1158528 GATACATTCC
*
1158538 ACATTTTAATCTTGATGTATCGAT
1 ACATTTT--TCTTAATGTATCGAT
1158562 ACA--TTTCTTAATGTATCGAT
1 ACATTTTTCTTAATGTATCGAT
1158582 ACATT
1 ACATT
1158587 CAAGCATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
20 17 0.77
22 2 0.09
24 3 0.14
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (22 bp):
ACATTTTTCTTAATGTATCGAT
Found at i:1158575 original size:20 final size:20
Alignment explanation
Indices: 1158547--1158586 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1158537 CACATTTTAA
*
1158547 TCTTGATGTATCGATACATT
1 TCTTAATGTATCGATACATT
1158567 TCTTAATGTATCGATACATT
1 TCTTAATGTATCGATACATT
1158587 CAAGCATTTT
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:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (20 bp):
TCTTAATGTATCGATACATT
Found at i:1160840 original size:79 final size:79
Alignment explanation
Indices: 1160643--1160847 Score: 241
Period size: 79 Copynumber: 2.6 Consensus size: 79
1160633 TTATTCATGT
* *
1160643 TTTTATTTCTAAAAGATTGATTTTTCACCATCGGGGATACTCCAACCTCGTTGTTTCCAAGGGGA
1 TTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCTCGTTGTTTCCAAGGGGA
*
1160708 TACTCCAATCTCAA
66 TACTCCAACCTCAA
* * *** * * *
1160722 TTTTATTTCCAAAACA-CTAATTTTTCACCATCACAGATACTCCAACCTTGTTGTTTTCGAGGGG
1 TTTTATTTCTAAAACATC-GATTTTTCACCATCGGGGATACTCCAACCTCGTTGTTTCCAAGGGG
***
1160786 ATACTCCAACCTTGG
65 ATACTCCAACCTCAA
* * *
1160801 TTTTATTTCTAAGACATCGATTTTTCACAATTGGGGATACTCCAACC
1 TTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACC
1160848 CTAGTTTTAT
Statistics
Matches: 102, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
79 101 0.99
80 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (79 bp):
TTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCTCGTTGTTTCCAAGGGGA
TACTCCAACCTCAA
Found at i:1160847 original size:51 final size:51
Alignment explanation
Indices: 1160782--1160899 Score: 182
Period size: 51 Copynumber: 2.3 Consensus size: 51
1160772 TTGTTTTCGA
* * * * *
1160782 GGGGATACTCCAACCTTGGTTTTATTTCTAAGACATCGATTTTTCACAATT
1 GGGGATACTCCAACCCTAGTTTTATTTCTAAAACATCGATTTTCCACAATC
1160833 GGGGATACTCCAACCCTAGTTTTATTTCTAAAACATCGATTTTCCACAATC
1 GGGGATACTCCAACCCTAGTTTTATTTCTAAAACATCGATTTTCCACAATC
*
1160884 GAGGATACTCCAACCC
1 GGGGATACTCCAACCC
1160900 CATTATTTTG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCTAGTTTTATTTCTAAAACATCGATTTTCCACAATC
Found at i:1160966 original size:78 final size:80
Alignment explanation
Indices: 1160852--1161057 Score: 271
Period size: 78 Copynumber: 2.6 Consensus size: 80
1160842 CCAACCCTAG
1160852 TTTTATTTCTAAAAC-ATCGATTTTCCACAATCGAGGATACTCCAACCCCATTATTTT-GAAGGA
1 TTTTATTTCTAAAACAATCGATTTTCCACAATCGAGGATACTCCAACCCCATTATTTTCGAAGGA
1160915 ATACTCTAACCTCGA
66 ATACTCTAACCTCGA
* * * * * *
1160930 TTTTGTTTCTAAAACAAT-GATTTTCTACCATCGAGGATACTCCAACCCCGTTGTTTTCGAAGGG
1 TTTTATTTCTAAAACAATCGATTTTCCACAATCGAGGATACTCCAACCCCATTATTTTCGAAGGA
*
1160994 ATACTCTAATCTCGA
66 ATACTCTAACCTCGA
* * *
1161009 TTTTATTTCCAAAAC-ATCAATTTTCCATAATCG-GAGATACT-CAACCCCA
1 TTTTATTTCTAAAACAATCGATTTTCCACAATCGAG-GATACTCCAACCCCA
1161058 GTTTTATTTC
Statistics
Matches: 110, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
78 59 0.54
79 51 0.46
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (80 bp):
TTTTATTTCTAAAACAATCGATTTTCCACAATCGAGGATACTCCAACCCCATTATTTTCGAAGGA
ATACTCTAACCTCGA
Found at i:1161015 original size:208 final size:208
Alignment explanation
Indices: 1160643--1161087 Score: 527
Period size: 208 Copynumber: 2.1 Consensus size: 208
1160633 TTATTCATGT
* * * * * * * * *
1160643 TTTTATTTCTAAAAGATTGATTTTTCACCATCGGGGATACTCCAACCTCGTTGTTTCCAAGGGGA
1 TTTTATTTCTAAAACATCGATTTTCCACAATCGAGGATACTCCAACCCCATTATTTCCAAGGGAA
* * **
1160708 TACTCCAATCTCAATTTTATTTCCAAAACACTAATTTTTCACCATCACAGATACTCCAACCTTGT
66 TACTCCAACCTCAATTTTATTTCCAAAACAATAATTTTTCACCATCACAGATACTCCAACCCCGT
* * * * * * * * *
1160773 TGTTTTCGAGGGGATACTCCAACCTTGGTTTTATTTCTAAGACATCGATTTTTCACAATTGGGGA
131 TGTTTTCGAAGGGATACTCCAACCTCGATTTTATTTCCAAAACATCAATTTTCCACAATCGGAGA
*
1160838 TACTCCAACCCTAG
196 TACT-CAACCCCAG
**
1160852 TTTTATTTCTAAAACATCGATTTTCCACAATCGAGGATACTCCAACCCCATTATTTTGAA-GGAA
1 TTTTATTTCTAAAACATCGATTTTCCACAATCGAGGATACTCCAACCCCATTATTTCCAAGGGAA
* * * * * *
1160916 TACTCTAACCTCGATTTTGTTTCTAAAACAATGA-TTTTCTACCATCGA-GGATACTCCAACCCC
66 TACTCCAACCTCAATTTTATTTCCAAAACAATAATTTTTC-ACCATC-ACAGATACTCCAACCCC
* * *
1160979 GTTGTTTTCGAAGGGATACTCTAATCTCGATTTTATTTCCAAAACATCAATTTTCCATAATCGGA
129 GTTGTTTTCGAAGGGATACTCCAACCTCGATTTTATTTCCAAAACATCAATTTTCCACAATCGGA
1161044 GATACTCAACCCCAG
194 GATACTCAACCCCAG
*
1161059 TTTTATTTCTAAAACACCGATTTTCCACA
1 TTTTATTTCTAAAACATCGATTTTCCACA
1161088 CTTCATTGAA
Statistics
Matches: 199, Mismatches: 35, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
207 41 0.21
208 107 0.54
209 51 0.26
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (208 bp):
TTTTATTTCTAAAACATCGATTTTCCACAATCGAGGATACTCCAACCCCATTATTTCCAAGGGAA
TACTCCAACCTCAATTTTATTTCCAAAACAATAATTTTTCACCATCACAGATACTCCAACCCCGT
TGTTTTCGAAGGGATACTCCAACCTCGATTTTATTTCCAAAACATCAATTTTCCACAATCGGAGA
TACTCAACCCCAG
Found at i:1164565 original size:52 final size:52
Alignment explanation
Indices: 1164417--1164545 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1164407 CGAAATATGA
*
1164417 AAATTTGCCTGCATGTATTGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1164469 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1164521 AGATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1164546 AAGATGAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1164655 original size:19 final size:18
Alignment explanation
Indices: 1164631--1164695 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
1164621 AGCGATACAT
1164631 TGTATCGATACAAAACCTA
1 TGTATCGATACAAAA-CTA
1164650 TGTATCGATAC---A-T-
1 TGTATCGATACAAAACTA
*
1164663 TGTATCGATACAACACTTA
1 TGTATCGATACAAAAC-TA
1164682 TGTATCGATACAAA
1 TGTATCGATACAAA
1164696 TCGTTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.31
Consensus pattern (18 bp):
TGTATCGATACAAAACTA
Found at i:1164664 original size:32 final size:32
Alignment explanation
Indices: 1164623--1164693 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
1164613 AGCTTCGTAG
1164623 CGATACATTGTATCGATACAAAACCTATGTAT
1 CGATACATTGTATCGATACAAAACCTATGTAT
* *
1164655 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACCTATGTAT
1164687 CGATACA
1 CGATACA
1164694 AATCGTTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.31
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACCTATGTAT
Found at i:1164668 original size:13 final size:13
Alignment explanation
Indices: 1164650--1164674 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1164640 ACAAAACCTA
1164650 TGTATCGATACAT
1 TGTATCGATACAT
1164663 TGTATCGATACA
1 TGTATCGATACA
1164675 ACACTTATGT
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:1167307 original size:21 final size:21
Alignment explanation
Indices: 1167281--1167349 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
1167271 TATATAAGTA
1167281 AATGTATCGATGCATGCTTGC
1 AATGTATCGATGCATGCTTGC
* * *
1167302 AATGTATTGATACAT--TTCTC
1 AATGTATCGATGCATGCTT-GC
* *
1167322 ATTATATCGATGCATGCTTGC
1 AATGTATCGATGCATGCTTGC
1167343 AATGTAT
1 AATGTAT
1167350 TGATACATTT
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
19 2 0.06
20 12 0.34
21 19 0.54
22 2 0.06
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (21 bp):
AATGTATCGATGCATGCTTGC
Found at i:1167330 original size:41 final size:41
Alignment explanation
Indices: 1167285--1167377 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
1167275 TAAGTAAATG
1167285 TATCGATGCATGCTTGCAATGTATTGATACATTTCTCATTA
1 TATCGATGCATGCTTGCAATGTATTGATACATTTCTCATTA
*
1167326 TATCGATGCATGCTTGCAATGTATTGATACATTTCTCATTG
1 TATCGATGCATGCTTGCAATGTATTGATACATTTCTCATTA
1167367 TATCGATGCAT
1 TATCGATGCAT
1167378 TTTGGGTTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (41 bp):
TATCGATGCATGCTTGCAATGTATTGATACATTTCTCATTA
Done.