Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold64
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: 7997333
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 95991 characters in sequence are not A, C, G, or T
File 40 of 45
Found at i:7049566 original size:15 final size:15
Alignment explanation
Indices: 7049548--7049591 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
7049538 ATTTATTTTT
7049548 AAATATAAATATTTA
1 AAATATAAATATTTA
** *
7049563 AAATATTTATATATA
1 AAATATAAATATTTA
*
7049578 ATATATAAATATTT
1 AAATATAAATATTT
7049592 TTTATATAAG
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AAATATAAATATTTA
Found at i:7049586 original size:22 final size:23
Alignment explanation
Indices: 7049544--7049610 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 23
7049534 AATAATTTAT
* *
7049544 TTTTAAATATAAATATTTAAAATA
1 TTTTATATAT-AATATATAAAATA
7049568 -TTTATATATAATATAT-AAATA
1 TTTTATATATAATATATAAAATA
* * *
7049589 TTTTTTATATAAGATAAAAAAT
1 TTTTATATATAATATATAAAAT
7049611 GATATAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 5 0.14
22 19 0.53
23 12 0.33
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (23 bp):
TTTTATATATAATATATAAAATA
Found at i:7051760 original size:34 final size:34
Alignment explanation
Indices: 7051718--7051836 Score: 220
Period size: 34 Copynumber: 3.5 Consensus size: 34
7051708 AATATAAAAT
*
7051718 ACCTAACACACCTAACATTCTCACCAAATACATT
1 ACCTAACACACCTAACATTCTCACCAAATACATC
7051752 ACCTAACACACCTAACATTCTCACCAAATACATC
1 ACCTAACACACCTAACATTCTCACCAAATACATC
*
7051786 ACCTAACACACCTAACATTCTCACCAATTACATC
1 ACCTAACACACCTAACATTCTCACCAAATACATC
7051820 ACCTAACACACCTAACA
1 ACCTAACACACCTAACA
7051837 AAGAAATTAA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 83 1.00
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (34 bp):
ACCTAACACACCTAACATTCTCACCAAATACATC
Found at i:7056575 original size:34 final size:34
Alignment explanation
Indices: 7056533--7056651 Score: 202
Period size: 34 Copynumber: 3.5 Consensus size: 34
7056523 AATATAAAAT
*
7056533 ACCTAACACACCTAACATTCTCACCAAATACATT
1 ACCTAACACACCTAACATTCTCACCAAATACATC
7056567 ACCTAACACACCTAACATTCTCACCAAATACATC
1 ACCTAACACACCTAACATTCTCACCAAATACATC
* *
7056601 ACCTAATACACCTAACATTCTTACCAAATACATC
1 ACCTAACACACCTAACATTCTCACCAAATACATC
*
7056635 ATCTAACACACCTAACA
1 ACCTAACACACCTAACA
7056652 AAGAAATTAA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 80 1.00
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (34 bp):
ACCTAACACACCTAACATTCTCACCAAATACATC
Found at i:7058622 original size:129 final size:129
Alignment explanation
Indices: 7058387--7058624 Score: 300
Period size: 129 Copynumber: 1.8 Consensus size: 129
7058377 AAGTTATTCA
* *
7058387 AAAACTTTAAATATAAAAATTAAATAATGAATAAAGACAAACATTACAACTATAATTTAAAACCT
1 AAAACTTTAAACATAAAAATTAAATAATGAATAAAGACAAACATTACAACTATAATTTAAAACAT
* * *** *
7058452 AAACAAGCAAGGGGGAAAAAACACAAAGACAAACTTGGAAAAAATCTGCACAGGAGATTAGAAT
66 AAAAAAGAAAGGAAAAAAAAACACAAAGACAAACTTCGAAAAAATCTGCACAGGAGATTAGAAT
* * * **
7058516 AAAACTTTAAACATGAAAAA-TAAATAATGAATAAAGCCAAAGATTATAACTATAATTTAAAGGA
1 AAAACTTTAAACAT-AAAAATTAAATAATGAATAAAGACAAACATTACAACTATAATTTAAAACA
** *
7058580 TAAAAAAGAAAGGAAAAAAAAAACACAGGGATAAAC-TCGAAAAAA
65 TAAAAAAGAAAGG-AAAAAAAAACACAAAGACAAACTTCGAAAAAA
7058625 AGTTTCCACC
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
129 70 0.77
130 21 0.23
ACGTcount: A:0.59, C:0.11, G:0.12, T:0.18
Consensus pattern (129 bp):
AAAACTTTAAACATAAAAATTAAATAATGAATAAAGACAAACATTACAACTATAATTTAAAACAT
AAAAAAGAAAGGAAAAAAAAACACAAAGACAAACTTCGAAAAAATCTGCACAGGAGATTAGAAT
Found at i:7059538 original size:17 final size:16
Alignment explanation
Indices: 7059507--7059540 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
7059497 ATACTATTAA
7059507 ATAATTAAAAAATAAT
1 ATAATTAAAAAATAAT
*
7059523 ATAATATAAAATATAAT
1 ATAAT-TAAAAAATAAT
7059540 A
1 A
7059541 CAAATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAATTAAAAAATAAT
Found at i:7060708 original size:15 final size:16
Alignment explanation
Indices: 7060688--7060720 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
7060678 ATTACTAAAA
*
7060688 TTACCCTT-TAATTAT
1 TTACCCTTCAAATTAT
7060703 TTACCCTTCAAATTAT
1 TTACCCTTCAAATTAT
7060719 TT
1 TT
7060721 TTATTTGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.27, C:0.21, G:0.00, T:0.52
Consensus pattern (16 bp):
TTACCCTTCAAATTAT
Found at i:7061314 original size:24 final size:27
Alignment explanation
Indices: 7061241--7061311 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
7061231 AAACAAGCCT
* *
7061241 CCATATTTGACAAATACAAAGGA-AACCA
1 CCATTTTTGACAAACACAAA--ATAACCA
7061269 CCATTTTTGACAAACACAAAATAACCA
1 CCATTTTTGACAAACACAAAATAACCA
7061296 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
7061312 AATGGGTGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAATAACCA
Found at i:7065719 original size:20 final size:20
Alignment explanation
Indices: 7065694--7065739 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
7065684 AAGAATTGAA
*
7065694 GAGGGATACAAGAGAGGGAT
1 GAGGGATACAAGAGAGGGAG
* **
7065714 GAGGGATGCTTGAGAGGGAG
1 GAGGGATACAAGAGAGGGAG
7065734 GAGGGA
1 GAGGGA
7065740 GCCTCTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.52, T:0.11
Consensus pattern (20 bp):
GAGGGATACAAGAGAGGGAG
Found at i:7065877 original size:27 final size:27
Alignment explanation
Indices: 7065816--7065886 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
7065806 AAACAAGCCT
* *
7065816 CCATATTTGACAAATACAAAGGAAACCA
1 CCATTTTTGACAAACACAAA-GAAACCA
*
7065844 CTATTTTTGACAAACACAAA-ATAACCA
1 CCATTTTTGACAAACACAAAGA-AACCA
7065871 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
7065887 AATGGGTGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.03
27 20 0.53
28 17 0.45
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.24
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAGAAACCA
Found at i:7066093 original size:5 final size:5
Alignment explanation
Indices: 7066083--7066109 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
7066073 AGAACTAAAC
7066083 CAACA CAACA CAACA CAACA CAACA CA
1 CAACA CAACA CAACA CAACA CAACA CA
7066110 TATCAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.41, G:0.00, T:0.00
Consensus pattern (5 bp):
CAACA
Found at i:7067640 original size:16 final size:16
Alignment explanation
Indices: 7067619--7067652 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7067609 AACAAAAATG
*
7067619 ATTTAAACACAAATAA
1 ATTTAAAAACAAATAA
*
7067635 ATTTAAAAATAAATAA
1 ATTTAAAAACAAATAA
7067651 AT
1 AT
7067653 AAATATGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
ATTTAAAAACAAATAA
Found at i:7068246 original size:24 final size:24
Alignment explanation
Indices: 7068217--7068262 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
7068207 TAATCACTTG
7068217 AATAATTTATCAAAAAATTATATA
1 AATAATTTATCAAAAAATTATATA
* *
7068241 AATAATTTATTAAATAATTATA
1 AATAATTTATCAAAAAATTATA
7068263 AAGTTACTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
AATAATTTATCAAAAAATTATATA
Found at i:7069600 original size:2 final size:2
Alignment explanation
Indices: 7069595--7069634 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
7069585 CTCTCTGTCC
7069595 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7069635 GATAAGTCTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7070696 original size:45 final size:44
Alignment explanation
Indices: 7070620--7070711 Score: 139
Period size: 45 Copynumber: 2.1 Consensus size: 44
7070610 TATCATCTAA
* *
7070620 CATACAACAAACTCAAATACAATGTATTAAAAGAACATGAAAATG
1 CATACAACAAACTCAAATACAAGGTACTAAAAGAACATG-AAATG
* *
7070665 CATACAGCAAACTCAAATTCAAGGTACTAAAAGAACATGAAATG
1 CATACAACAAACTCAAATACAAGGTACTAAAAGAACATGAAATG
7070709 CAT
1 CAT
7070712 GAGTCCATGG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
44 8 0.19
45 35 0.81
ACGTcount: A:0.52, C:0.17, G:0.11, T:0.20
Consensus pattern (44 bp):
CATACAACAAACTCAAATACAAGGTACTAAAAGAACATGAAATG
Found at i:7074809 original size:25 final size:23
Alignment explanation
Indices: 7074780--7074825 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
7074770 AATTTTGATT
7074780 TTATATAAAGAAAATTGATGTGA
1 TTATATAAAGAAAATTGATGTGA
7074803 TTATATAAAGAAAATTGATGTGA
1 TTATATAAAGAAAATTGATGTGA
7074826 ATGAGGACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (23 bp):
TTATATAAAGAAAATTGATGTGA
Found at i:7076954 original size:16 final size:16
Alignment explanation
Indices: 7076933--7076963 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
7076923 ATTTTAACTA
7076933 GATGTATCGATACATT
1 GATGTATCGATACATT
7076949 GATGTATCGATACAT
1 GATGTATCGATACAT
7076964 CTAGGTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (16 bp):
GATGTATCGATACATT
Found at i:7081431 original size:13 final size:13
Alignment explanation
Indices: 7081413--7081438 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7081403 CAATTTTTTG
7081413 TGTATCGATACAT
1 TGTATCGATACAT
7081426 TGTATCGATACAT
1 TGTATCGATACAT
7081439 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:7082178 original size:21 final size:21
Alignment explanation
Indices: 7082137--7082180 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
7082127 CTCTCCTTTA
* *
7082137 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
7082158 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
7082179 TC
1 TC
7082181 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:7084003 original size:13 final size:13
Alignment explanation
Indices: 7083985--7084010 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7083975 ATAATCACTC
7083985 TGTATCGATACAA
1 TGTATCGATACAA
7083998 TGTATCGATACAA
1 TGTATCGATACAA
7084011 AGAAAAATGT
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):
TGTATCGATACAA
Found at i:7086101 original size:15 final size:15
Alignment explanation
Indices: 7086081--7086111 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7086071 ATTTCGTTTG
*
7086081 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
7086096 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
7086111 G
1 G
7086112 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:7090202 original size:13 final size:13
Alignment explanation
Indices: 7090184--7090209 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7090174 CAATTTTTTG
7090184 TGTATCGATACAT
1 TGTATCGATACAT
7090197 TGTATCGATACAT
1 TGTATCGATACAT
7090210 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:7093501 original size:17 final size:18
Alignment explanation
Indices: 7093475--7093523 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
7093465 TAACCATATT
*
7093475 AATA-AATATAATA-AAA
1 AATATAATATAACATAAA
7093491 AATATAATATAACATAAA
1 AATATAATATAACATAAA
7093509 AAT-TAATATAA-ATAA
1 AATATAATATAACATAA
7093524 TTATAAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 8 0.27
17 16 0.53
18 6 0.20
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (18 bp):
AATATAATATAACATAAA
Found at i:7093507 original size:22 final size:22
Alignment explanation
Indices: 7093474--7093541 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 22
7093464 ATAACCATAT
7093474 TAATA-AATATAATAAAAAATA
1 TAATATAATATAATAAAAAATA
* *
7093495 TAATATAACATAA-AAATTAATA
1 TAATATAATATAATAAA-AAATA
7093517 TAA-ATAATTATAAATATAAAAATA
1 TAATATAA-TAT-AATA-AAAAATA
7093541 T
1 T
7093542 TTTAAAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
21 12 0.32
22 15 0.41
23 2 0.05
24 6 0.16
25 2 0.05
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (22 bp):
TAATATAATATAATAAAAAATA
Found at i:7094283 original size:29 final size:28
Alignment explanation
Indices: 7094240--7094295 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
7094230 ATATTTATGT
* *
7094240 TATTAATTTAAATATTTTTTGAACATAG
1 TATTAATTTAAATATTTGTGGAACATAG
7094268 TATTAATTTTAAATATTTGTGGAACATA
1 TATTAA-TTTAAATATTTGTGGAACATA
7094296 CTCTTATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (28 bp):
TATTAATTTAAATATTTGTGGAACATAG
Found at i:7098219 original size:152 final size:150
Alignment explanation
Indices: 7097974--7098421 Score: 426
Period size: 152 Copynumber: 3.0 Consensus size: 150
7097964 AAATAAAGGA
* * ** * *
7097974 AAAAACCAAACCTATTCCTAATACGTACCCATGGCATAGAAG-TGA-CTCGGTAGTTTCACAAGA
1 AAAAA-CAAACCTATTCCTAATTCATACCTTTGGCATAGAAGCTGACCT-GGTAGTTTTATAAGA
* * * * * *
7098037 CTAGGTTTCGAAAAAAAAAGCTGAAAAGGTCCCTAAGATCTACCATTGACTTAGAAGTGCCT-GA
64 CTAGTTTTAGAGAAAAAATGCT-AAAAGGTCCCTAAGGTCTACCATCGACTTAGAAGTGCCTAGA
*
7098101 AGATCCTATAGGACTTGGAAAAAAT
128 AGATCCTAGAGGACTT-G-AAAAAT
* *
7098126 AAAAACAAACCTATTCCTAATTCATACCTTTGGCATAAAAGCTGACCTGGTAGTTTTATAAGACC
1 AAAAACAAACCTATTCCTAATTCATACCTTTGGCATAGAAGCTGACCTGGTAGTTTTATAAGACT
* * **
7098191 AGCTTTTAGAGATAAAATGCTAAGAGGTCCCTAAGGTCTACCATCGACTTAGAAGTG-CTAGGTG
66 AG-TTTTAGAGAAAAAATGCTAAAAGGTCCCTAAGGTCTACCATCGACTTAGAAGTGCCTAGAAG
*
7098255 ATCCTAGAGGACTTGAAAAGT
130 ATCCTAGAGGACTTGAAAAAT
* * * * * * * * *
7098276 AAAATCAAGCCCATTCCTAATTCATACCTTTGGCGTAGAAGCGGACCCGATAATCTTATAAGACT
1 AAAAACAAACCTATTCCTAATTCATACCTTTGGCATAGAAGCTGACCTGGTAGTTTTATAAGACT
* * * * * * * * *
7098341 AGGTTTTAG-G-GAAAATACTAATAGATCCTTAAGGTTTACCATCGACTTAAAAGTGCCCAG-TG
66 A-GTTTTAGAGAAAAAATGCTAAAAGGTCCCTAAGGTCTACCATCGACTTAGAAGTGCCTAGAAG
7098403 ATCCTA-AGGGACTTGAAAA
130 ATCCTAGA-GGACTTGAAAA
7098422 GGGTAGTAAA
Statistics
Matches: 250, Mismatches: 39, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
147 1 0.00
148 57 0.23
149 4 0.02
150 66 0.26
151 35 0.14
152 72 0.29
153 15 0.06
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (150 bp):
AAAAACAAACCTATTCCTAATTCATACCTTTGGCATAGAAGCTGACCTGGTAGTTTTATAAGACT
AGTTTTAGAGAAAAAATGCTAAAAGGTCCCTAAGGTCTACCATCGACTTAGAAGTGCCTAGAAGA
TCCTAGAGGACTTGAAAAAT
Found at i:7098415 original size:148 final size:150
Alignment explanation
Indices: 7098066--7098422 Score: 391
Period size: 150 Copynumber: 2.4 Consensus size: 150
7098056 GCTGAAAAGG
* * * * ** *
7098066 TCCCTAAGATCTACCATTGACTTAGAAGTGCCTGAAGATCCTATA-GGACTTGGAAAAAATAAAA
1 TCCCTAAGGTCTACCATCGACTTAAAAGTGCCAGGTGATCCTA-AGGGACTT-G-AAAAGTAAAA
* * * * * *
7098130 ACAAACCTATTCCTAATTCATACCTTTGGCATAAAAGCTGACCTGGTAGTTTTATAAGACCAGCT
63 ACAAACCCATTCCTAATTCATACCTTTGGCATAAAAGCGGACCCGATAATCTTATAAGACCAGCT
* * *
7098195 TTTAGAGATAAAATGCTAAGAGG
128 TTTAGAGAGAAAATACTAAGAGA
* * *
7098218 TCCCTAAGGTCTACCATCGACTTAGAAGTGCTAGGTGATCCT-AGAGGACTTGAAAAGTAAAATC
1 TCCCTAAGGTCTACCATCGACTTAAAAGTGCCAGGTGATCCTAAG-GGACTTGAAAAGTAAAAAC
* * * * *
7098282 AAGCCCATTCCTAATTCATACCTTTGGCGTAGAAGCGGACCCGATAATCTTATAAGACTAGGTTT
65 AAACCCATTCCTAATTCATACCTTTGGCATAAAAGCGGACCCGATAATCTTATAAGACCAGCTTT
*
7098347 TAG-G-GAAAATACTAATAGA
130 TAGAGAGAAAATACTAAGAGA
* *
7098366 TCCTTAAGGTTTACCATCGACTTAAAAGTGCCCA-GTGATCCTAAGGGACTTGAAAAG
1 TCCCTAAGGTCTACCATCGACTTAAAAGTG-CCAGGTGATCCTAAGGGACTTGAAAAG
7098423 GGTAGTAAAA
Statistics
Matches: 174, Mismatches: 27, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
148 58 0.33
149 5 0.03
150 68 0.39
151 1 0.01
152 42 0.24
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (150 bp):
TCCCTAAGGTCTACCATCGACTTAAAAGTGCCAGGTGATCCTAAGGGACTTGAAAAGTAAAAACA
AACCCATTCCTAATTCATACCTTTGGCATAAAAGCGGACCCGATAATCTTATAAGACCAGCTTTT
AGAGAGAAAATACTAAGAGA
Found at i:7098734 original size:146 final size:145
Alignment explanation
Indices: 7098412--7098962 Score: 607
Period size: 145 Copynumber: 3.8 Consensus size: 145
7098402 GATCCTAAGG
* * * * * ** *
7098412 GACTTGAAAAGGGTAGTAAAA-AGTGAATCTATCCTATATATACACCTTTGGTGTAAGAGTGATA
1 GACTTGAAAAGGGTTG-AAAAGATTGGATCTATCCTATGTGTACACCTTTGGCATAAGAGTGACA
* * * * *
7098476 ACCTAGGACTCGATTCT-AAAAATAACAAAAATATCCTTA-AGGGATACC-TTCAACGTAGAAGT
65 ACCTAGGACTCGATCCTAAAAAATTACGAAAATACCCTTAGAAGG-TACCTTTCAACGTAGAAGT
* * *
7098538 ACCCAGT-ACTCCTAAAG
129 ATCCAATAAC-CCTAAAA
** *
7098555 GACTTGAAAAATGTTAAAAAGATTGGATCTATCCTATGTGTACACCTTTGGCATAAGAGTGACAA
1 GACTTGAAAAGGGTTGAAAAGATTGGATCTATCCTATGTGTACACCTTTGGCATAAGAGTGACAA
* * * * *
7098620 CTTAGGATTTGATCCTAGGAAAATTACGAAAATGCCCTTAGAAGGT-CCTTTCAACGTAGAAGTA
66 CCTAGGACTCGATCCTA-AAAAATTACGAAAATACCCTTAGAAGGTACCTTTCAACGTAGAAGTA
7098684 TCTCAATAACCCTAAAA
130 TC-CAATAACCCTAAAA
* * * *
7098701 AATTTGAAAAGGGTTGAAAAGATTGTATCTATCCTATGTGTACACCTTTGGTATAAGAGTGACAA
1 GACTTGAAAAGGGTTGAAAAGATTGGATCTATCCTATGTGTACACCTTTGGCATAAGAGTGACAA
** * *
7098766 CCTAGGACTTTATCTTTAAAAAATTACGAAAATACCCTT-GAGAGGTA-CTTTTAACGTAGAAGT
66 CCTAGGACTCGATC-CTAAAAAATTACGAAAATACCCTTAGA-AGGTACCTTTCAACGTAGAAGT
*
7098829 ATCCTAATAATCC-AAAA
129 ATCC-AATAACCCTAAAA
*
7098846 GACTTGAAAAGGGTTGAAAATATTGGATCTATCCTATGTGTACACCTTTGGCATAAGAGTGACAA
1 GACTTGAAAAGGGTTGAAAAGATTGGATCTATCCTATGTGTACACCTTTGGCATAAGAGTGACAA
* * * * *
7098911 CCTAGGACTCAATCCTAAAAAAAATACGAAAATGCCTTTATAAGGTACCTTT
66 CCTAGGACTCGATCCT-AAAAAATTACGAAAATACCCTTAGAAGGTACCTTT
7098963 GACATAAAAA
Statistics
Matches: 343, Mismatches: 51, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
142 4 0.01
143 61 0.18
144 3 0.01
145 137 0.40
146 134 0.39
147 4 0.01
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (145 bp):
GACTTGAAAAGGGTTGAAAAGATTGGATCTATCCTATGTGTACACCTTTGGCATAAGAGTGACAA
CCTAGGACTCGATCCTAAAAAATTACGAAAATACCCTTAGAAGGTACCTTTCAACGTAGAAGTAT
CCAATAACCCTAAAA
Found at i:7098941 original size:291 final size:290
Alignment explanation
Indices: 7098415--7098962 Score: 726
Period size: 291 Copynumber: 1.9 Consensus size: 290
7098405 CCTAAGGGAC
* *
7098415 TTGAAAAGGGTAGTAAAAAGTGAATCTATCCTATATATACACCTTTGGTGTAAGAGTGATAACCT
1 TTGAAAAGGGTAGTAAAAAGTGAATCTATCCTATATATACACCTTTGGTATAAGAGTGACAACCT
* *
7098480 AGGACTCGATTCTAAAAATAACAAAAATATCCTTAAGGGATACCTTCAACGTAGAAGTACCCAGT
66 AGGACTCGATTCTAAAAATAACAAAAATACCCTTAAGGGATACCTTCAACGTAGAAGTACCCAAT
* * *
7098545 ACTCCTAAAGGACTTGAAAAATGTTAAAAAGATTGGATCTATCCTATGTGTACACCTTTGGCATA
131 AATCCTAAAAGACTTGAAAAAGGTTAAAAAGATTGGATCTATCCTATGTGTACACCTTTGGCATA
* * ** ** *
7098610 AGAGTGACAACTTAGGATTTGATCCTAGGAAAATTACGAAAATGCCCTTAGAAGGT-CCTTTCAA
196 AGAGTGACAACCTAGGACTCAATCCTAAAAAAAATACGAAAATGCCCTTAGAAGGTACCTTTCAA
7098674 CGTAGAAGTATCTCAATAACCCTAAAAAAT
261 CGTAGAAGTATCTCAATAACCCTAAAAAAT
* * * * *
7098704 TTGAAAAGGGTTG-AAAAGATTGTATCTATCCTATGTGTACACCTTTGGTATAAGAGTGACAACC
1 TTGAAAAGGGTAGTAAAA-AGTGAATCTATCCTATATATACACCTTTGGTATAAGAGTGACAACC
** * * * * * *
7098768 TAGGACTTTATCTTTAAAAAATTACGAAAATACCCTTGAGAGG-TACTTTTAACGTAGAAGTATC
65 TAGGACTCGAT-TCT-AAAAATAACAAAAATACCCTTAAG-GGATACCTTCAACGTAGAAGTA-C
* * * *
7098832 CTAATAATCC-AAAAGACTTGAAAAGGGTTGAAAATATTGGATCTATCCTATGTGTACACCTTTG
126 CCAATAATCCTAAAAGACTTGAAAAAGGTTAAAAAGATTGGATCTATCCTATGTGTACACCTTTG
* *
7098896 GCATAAGAGTGACAACCTAGGACTCAATCCTAAAAAAAATACGAAAATGCCTTTATAAGGTACCT
191 GCATAAGAGTGACAACCTAGGACTCAATCCTAAAAAAAATACGAAAATGCCCTTAGAAGGTACCT
7098961 TT
256 TT
7098963 GACATAAAAA
Statistics
Matches: 220, Mismatches: 33, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
288 4 0.02
289 61 0.28
290 2 0.01
291 138 0.63
292 15 0.07
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.28
Consensus pattern (290 bp):
TTGAAAAGGGTAGTAAAAAGTGAATCTATCCTATATATACACCTTTGGTATAAGAGTGACAACCT
AGGACTCGATTCTAAAAATAACAAAAATACCCTTAAGGGATACCTTCAACGTAGAAGTACCCAAT
AATCCTAAAAGACTTGAAAAAGGTTAAAAAGATTGGATCTATCCTATGTGTACACCTTTGGCATA
AGAGTGACAACCTAGGACTCAATCCTAAAAAAAATACGAAAATGCCCTTAGAAGGTACCTTTCAA
CGTAGAAGTATCTCAATAACCCTAAAAAAT
Found at i:7099264 original size:20 final size:20
Alignment explanation
Indices: 7099222--7099274 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
7099212 TTTTAGAAGG
* *
7099222 TTATATTTATTCATTTTATTT
1 TTAT-TTTATTTATTTAATTT
7099243 TTATTATTATTTATTTAATTT
1 TTATT-TTATTTATTTAATTT
7099264 TTATTTTATTT
1 TTATTTTATTT
7099275 TATTAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 7 0.24
21 22 0.76
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (20 bp):
TTATTTTATTTATTTAATTT
Found at i:7099268 original size:11 final size:11
Alignment explanation
Indices: 7099234--7099275 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
7099224 ATATTTATTC
7099234 ATTTTATTTTT
1 ATTTTATTTTT
7099245 A--TTATTATTT
1 ATTTTATT-TTT
*
7099255 ATTTAATTTTT
1 ATTTTATTTTT
7099266 ATTTTATTTT
1 ATTTTATTTT
7099276 ATTAAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
11 13 0.50
12 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:7099906 original size:19 final size:19
Alignment explanation
Indices: 7099878--7099936 Score: 73
Period size: 20 Copynumber: 3.1 Consensus size: 19
7099868 ATGTATCGAT
* *
7099878 ACATTATATCGATACATGT
1 ACATTGTATCGATACATGA
* *
7099897 TCATTGTATCTATACATGA
1 ACATTGTATCGATACATGA
7099916 ACAATTGTATCGATACATGA
1 AC-ATTGTATCGATACATGA
7099936 A
1 A
7099937 ACTGGCAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (19 bp):
ACATTGTATCGATACATGA
Found at i:7106244 original size:20 final size:21
Alignment explanation
Indices: 7106208--7106247 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7106198 TTACAAATTT
*
7106208 CTTCATTTTTACTTCAAAATA
1 CTTCATTTTTACATCAAAATA
7106229 CTTCATTTTT-CATCAAAAT
1 CTTCATTTTTACATCAAAAT
7106248 CACCAACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (21 bp):
CTTCATTTTTACATCAAAATA
Found at i:7108698 original size:30 final size:30
Alignment explanation
Indices: 7108662--7108721 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
7108652 TACCACTATT
*
7108662 TGTATCGATACATAAT-ACATTGTATTGATA
1 TGTATCGATACATAATGA-ATTGTATCGATA
*
7108692 TGTATCGATACATGATGAATTGTATCGATA
1 TGTATCGATACATAATGAATTGTATCGATA
7108722 CATTGCTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (30 bp):
TGTATCGATACATAATGAATTGTATCGATA
Found at i:7110158 original size:22 final size:22
Alignment explanation
Indices: 7110116--7110159 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
7110106 ACAAGAAAAA
*
7110116 ATTTTCAACTCTATAATCATGT
1 ATTTTCAACTCTATAAGCATGT
*
7110138 ATTTT-AACTTTATAGAGCATGT
1 ATTTTCAACTCTATA-AGCATGT
7110160 TCTTGCATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (22 bp):
ATTTTCAACTCTATAAGCATGT
Found at i:7111262 original size:21 final size:21
Alignment explanation
Indices: 7111232--7111271 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7111222 TAGGAGAATA
7111232 TCAAGGAAAAAAAATGAAAAAC
1 TCAAGGAAAAAAAAT-AAAAAC
*
7111254 TCAA-GAAAATAAATAAAA
1 TCAAGGAAAAAAAATAAAA
7111272 TTTTCAAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.70, C:0.07, G:0.10, T:0.12
Consensus pattern (21 bp):
TCAAGGAAAAAAAATAAAAAC
Found at i:7111566 original size:154 final size:156
Alignment explanation
Indices: 7111259--7111543 Score: 393
Period size: 154 Copynumber: 1.8 Consensus size: 156
7111249 AAAACTCAAG
* * *
7111259 AAAATAAATAAAATTTTCAAAGCTAATTTAATGTGAAATTAATAACAATATTAGATGAATTTTAA
1 AAAATAAATAAAATTTTCAAAGATAATTTAATATGAAATT-ATAACAAGATTAGATGAATTTTAA
* * *
7111324 AAATTTTAAATCGAGAAAAATCTTTCCGAAAACATTTATGAAATAGAAAATTCGATTTTTTTGAG
65 AAATTTAAAATCGAGAAAAATCTCTCCGAAAACATTTATGAAATAGAAAACTCGATTTTTTTGAG
7111389 AACAATGGAATTTCAAGGAAAAATGAA
130 AACAATGGAATTTCAAGGAAAAATGAA
* * *
7111416 AAAATAAATAAATTTTTTAAA-ATAGATTTAATATG-AATT-TGACAAGATTAGATGAATTTTAA
1 AAAATAAATAAAATTTTCAAAGATA-ATTTAATATGAAATTATAACAAGATTAGATGAATTTT-A
* *
7111478 AAAATTTAAAAT-GAGAAAAATCATCT-CGAAAACATTTATGGAGTAGAAAACTCGA-TTTTTTG
64 AAAATTTAAAATCGAGAAAAATC-TCTCCGAAAACATTTATGAAATAGAAAACTCGATTTTTTTG
7111540 AGAA
128 AGAA
7111544 TAGGAAAATT
Statistics
Matches: 114, Mismatches: 11, Indels: 10
0.84 0.08 0.07
Matches are distributed among these distances:
153 11 0.10
154 55 0.48
155 14 0.12
156 6 0.05
157 28 0.25
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.33
Consensus pattern (156 bp):
AAAATAAATAAAATTTTCAAAGATAATTTAATATGAAATTATAACAAGATTAGATGAATTTTAAA
AATTTAAAATCGAGAAAAATCTCTCCGAAAACATTTATGAAATAGAAAACTCGATTTTTTTGAGA
ACAATGGAATTTCAAGGAAAAATGAA
Found at i:7114966 original size:30 final size:30
Alignment explanation
Indices: 7114892--7115066 Score: 138
Period size: 33 Copynumber: 5.7 Consensus size: 30
7114882 GTTGTCTTGA
* *
7114892 TTTTCAAAGTCTACAACTCTGTGGCACCTTT
1 TTTTCAAAGTCCACAACTCTGTGGCACC-TC
*
7114923 TTTTCCAAAAGTCCACAACTCTGTGGCACCCC
1 TTTT-C-AAAGTCCACAACTCTGTGGCACCTC
* * *
7114955 TTTTCAAAGTCCACAACTCCGTAGCACCCC
1 TTTTCAAAGTCCACAACTCTGTGGCACCTC
* * * *
7114985 TTTTGAAAAGTCTC-TAACTCCGTGGCGCACATC
1 TTTT-CAAAGTC-CACAACTCTGT-G-GCACCTC
* * *
7115018 TTTTCAAAGTCCACAACTTTGTAGCA-CTT
1 TTTTCAAAGTCCACAACTCTGTGGCACCTC
* *
7115047 TTTTCAAACTCCACACCTCT
1 TTTTCAAAGTCCACAACTCT
7115067 TTTCAAAATC
Statistics
Matches: 117, Mismatches: 20, Indels: 16
0.76 0.13 0.10
Matches are distributed among these distances:
29 18 0.15
30 30 0.26
31 20 0.17
32 18 0.15
33 31 0.26
ACGTcount: A:0.25, C:0.32, G:0.11, T:0.31
Consensus pattern (30 bp):
TTTTCAAAGTCCACAACTCTGTGGCACCTC
Found at i:7115109 original size:30 final size:30
Alignment explanation
Indices: 7115066--7115431 Score: 239
Period size: 30 Copynumber: 12.3 Consensus size: 30
7115056 TCCACACCTC
* *
7115066 TTTTCAAAATCCATAACTCCGTGGCACCCT
1 TTTTCAAAGTCCACAACTCCGTGGCACCCT
* * *
7115096 TTTTCGAAGTCCATAACTCCATGGCA-CCT
1 TTTTCAAAGTCCACAACTCCGTGGCACCCT
*
7115125 TTTTCTAAAGTCCATAACTCCGTGGCACCCT
1 TTTTC-AAAGTCCACAACTCCGTGGCACCCT
* * *
7115156 TTTTCAAAATCCACAACTCTGTGGCACTC-
1 TTTTCAAAGTCCACAACTCCGTGGCACCCT
* *
7115185 TTTTCAAAGTCCACAACTTCGTGACACCC-
1 TTTTCAAAGTCCACAACTCCGTGGCACCCT
* *
7115214 TTTTCAAAATCTACAACTCCGTGGCA--CT
1 TTTTCAAAGTCCACAACTCCGTGGCACCCT
** *
7115242 ATTTTCAAAGTTTACAACTCTGTGGCACCCTT
1 -TTTTCAAAGTCCACAACTCCGTGGCACCC-T
* * **
7115274 TTTTCAAAGTCTATAACTCAATGGCA-CCT
1 TTTTCAAAGTCCACAACTCCGTGGCACCCT
** * * * * *
7115303 TTTTCTAAAAGTTTATAACTTCATGGTACCTT
1 TTTTC--AAAGTCCACAACTCCGTGGCACCCT
* * ** *
7115335 TTTTCAAAGTTCACAAGTTAGTGGCAATCC-
1 TTTTCAAAGTCCACAACTCCGTGGC-ACCCT
* * **
7115365 TTTTCAAAGCCCACAAGTCATTGGCACCC-
1 TTTTCAAAGTCCACAACTCCGTGGCACCCT
* * *
7115394 -TTTCAAAGCCCACAAGTCAGTGGCATCCC-
1 TTTTCAAAGTCCACAACTCCGTGGCA-CCCT
*
7115423 CTTTCAAAG
1 TTTTCAAAG
7115432 CCCATAAGTA
Statistics
Matches: 279, Mismatches: 44, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
27 1 0.00
28 24 0.09
29 89 0.32
30 107 0.38
31 50 0.18
32 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.32
Consensus pattern (30 bp):
TTTTCAAAGTCCACAACTCCGTGGCACCCT
Found at i:7115143 original size:60 final size:60
Alignment explanation
Indices: 7115060--7115307 Score: 263
Period size: 60 Copynumber: 4.2 Consensus size: 60
7115050 TCAAACTCCA
* * * * *
7115060 CACCTCTTTTCAAAATCCATAACTCCGTGGCACCCTTTTTCGAAGTCCATAACTCCATGG
1 CACCTCTTTTCAAAGTCCACAACTCCGTGGCACCCTTTTTCAAAATCCACAACTCCATGG
* **
7115120 CACCT-TTTTCTAAAGTCCATAACTCCGTGGCACCCTTTTTCAAAATCCACAACTCTGTGG
1 CACCTCTTTTC-AAAGTCCACAACTCCGTGGCACCCTTTTTCAAAATCCACAACTCCATGG
* * * *
7115180 CA-CTCTTTTCAAAGTCCACAACTTCGTGACACCC-TTTTCAAAATCTACAACTCCGTGG
1 CACCTCTTTTCAAAGTCCACAACTCCGTGGCACCCTTTTTCAAAATCCACAACTCCATGG
* ** * * * * *
7115238 CA-CTATTTTCAAAGTTTACAACTCTGTGGCACCCTTTTTTCAAAGTCTATAACTCAATGG
1 CACCTCTTTTCAAAGTCCACAACTCCGTGGCACCC-TTTTTCAAAATCCACAACTCCATGG
7115298 CACCT-TTTTC
1 CACCTCTTTTC
7115308 TAAAAGTTTA
Statistics
Matches: 162, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
58 50 0.31
59 28 0.17
60 82 0.51
61 2 0.01
ACGTcount: A:0.26, C:0.31, G:0.11, T:0.33
Consensus pattern (60 bp):
CACCTCTTTTCAAAGTCCACAACTCCGTGGCACCCTTTTTCAAAATCCACAACTCCATGG
Found at i:7115432 original size:30 final size:30
Alignment explanation
Indices: 7115335--7115977 Score: 358
Period size: 30 Copynumber: 21.1 Consensus size: 30
7115325 ATGGTACCTT
** *
7115335 TTTTCAAAGTTCACAAGTTAGTGGCAAT-CC
1 TTTTCAAAGCCCACAAGTCAGTGGC-ATCCC
*
7115365 TTTTCAAAGCCCACAAGTCATTGGCA-CCC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCCC
7115394 -TTTCAAAGCCCACAAGTCAGTGGCATCCC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCCC
* * * * * **
7115423 CTTTCAAAGCCCATAAGTAAATGACATCTT
1 TTTTCAAAGCCCACAAGTCAGTGGCATCCC
* * ** * * *
7115453 TTTTTAAAACCCACAAGTTGGTGGTAACTCG
1 TTTTCAAAGCCCACAAGTCAGTGGCATC-CC
** * * * ***
7115484 TTTT-AAAATCCACAAATCTGTGACATTTT
1 TTTTCAAAGCCCACAAGTCAGTGGCATCCC
* **
7115513 TTTTCAAACCCCACAAGTCAGTGGCATCTT
1 TTTTCAAAGCCCACAAGTCAGTGGCATCCC
* * **
7115543 TTTTCTAAAGCCCATAAGTCGGTGGCAATCGTT
1 TTTTC-AAAGCCCACAAGTCAGTGGC-ATC-CC
* * * *
7115576 TTTTAAAAGCCCACATAAGTC-GATGGTAACTC
1 TTTTCAAAGCCCAC--AAGTCAG-TGGCATCCC
* * *
7115608 TTTTTAAAGCCCACACAAGTC-GATAGCAACCC
1 TTTTCAAAG-CC-CACAAGTCAG-TGGCATCCC
* * *
7115640 -TTTCTAAAGCCCACAAAAGTTAGTGGCAACTC
1 TTTTC-AAAGCCCAC--AAGTCAGTGGCATCCC
* *
7115672 TTTTCAAAAGCCCACACAAGTC-GATGGCAACCT
1 TTTTC-AAAG-CC-CACAAGTCAG-TGGCATCCC
* *
7115705 TTTTCCAAAGTCCACACAAGTCGGTGGCAACCC
1 TTTT-CAAAG-CC-CACAAGTCAGTGGCATCCC
* * *
7115738 -TCTCAAAGCCCACAAGTCAATGGCATTCC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCCC
* *
7115767 TTTTCAAAGCCTACAAGTTAGTGGCATCCC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCCC
* * * * *
7115797 CTTTCAAAACACACAAGTCAATGGTATCCC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCCC
* *
7115827 CTTTCAAAGCCCACAAGTCAATGGCA-CCC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCCC
* ** *
7115856 -TCTCAAAGTTCACAAGTCGGTGGCATCCC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCCC
*
7115885 CTTTCAAAGCCCACAAGTCAGTGGCATCCAC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCC-C
* * * *
7115916 -TTTCAAAGCCCACAAGTTAATAGCATCCT
1 TTTTCAAAGCCCACAAGTCAGTGGCATCCC
** *
7115945 TTTTCAAAGCTTACAAGTTAGTGGCA-CCC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCCC
7115974 TTTT
1 TTTT
7115978 TAATGCTCAT
Statistics
Matches: 486, Mismatches: 99, Indels: 57
0.76 0.15 0.09
Matches are distributed among these distances:
28 44 0.09
29 37 0.08
30 246 0.51
31 32 0.07
32 51 0.10
33 58 0.12
34 15 0.03
35 3 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (30 bp):
TTTTCAAAGCCCACAAGTCAGTGGCATCCC
Found at i:7115622 original size:32 final size:32
Alignment explanation
Indices: 7115512--7115735 Score: 176
Period size: 32 Copynumber: 6.9 Consensus size: 32
7115502 TGTGACATTT
* *
7115512 TTTTTCAAA-CCC-CACAAGTC-AGTGGCATCTT
1 TTTTT-AAAGCCCACACAAGTCGA-TGGCAACTC
* *
7115543 TTTTCTAAAG-CC-CATAAGTCGGTGGCAA-TC
1 TTTT-TAAAGCCCACACAAGTCGATGGCAACTC
* *
7115573 GTTTTTTAAAAGCCCACATAAGTCGATGGTAACTC
1 --TTTTT-AAAGCCCACACAAGTCGATGGCAACTC
* *
7115608 TTTTTAAAGCCCACACAAGTCGATAGCAACCC
1 TTTTTAAAGCCCACACAAGTCGATGGCAACTC
* * *
7115640 TTTCTAAAGCCCACAAAAGT-TAGTGGCAACTC
1 TTTTTAAAGCCCACACAAGTCGA-TGGCAACTC
*
7115672 TTTTCAAAAGCCCACACAAGTCGATGGCAAC-C
1 TTTT-TAAAGCCCACACAAGTCGATGGCAACTC
* *
7115704 TTTTTCCAAAGTCCACACAAGTCGGTGGCAAC
1 TTTTT--AAAGCCCACACAAGTCGATGGCAAC
7115736 CCTCTCAAAG
Statistics
Matches: 157, Mismatches: 22, Indels: 26
0.77 0.11 0.13
Matches are distributed among these distances:
30 1 0.01
31 23 0.15
32 65 0.41
33 51 0.32
34 15 0.10
35 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (32 bp):
TTTTTAAAGCCCACACAAGTCGATGGCAACTC
Found at i:7115681 original size:97 final size:96
Alignment explanation
Indices: 7115575--7115752 Score: 259
Period size: 97 Copynumber: 1.8 Consensus size: 96
7115565 TGGCAATCGT
* * *
7115575 TTTTTAAAAGCCCACATAAGTCGATGGTAACTCTTTTT-AAAGCCCACACAAGTCGATAGCAACC
1 TTTTCAAAAGCCCACACAAGTCGATGGCAAC-CTTTTTCAAAGCCCACACAAGTCGATAGCAACC
*
7115639 CTTTCTAAAGCCCACAAAAGTTAGTGGCAACTC
65 CTCTC-AAAGCCCACAAAAGTTAGTGGCAACTC
* * *
7115672 TTTTCAAAAGCCCACACAAGTCGATGGCAACCTTTTTCCAAAGTCCACACAAGTCGGTGGCAACC
1 TTTTCAAAAGCCCACACAAGTCGATGGCAACCTTTTT-CAAAGCCCACACAAGTCGATAGCAACC
7115737 CTCTCAAAGCCCACAA
65 CTCTCAAAGCCCACAA
7115753 GTCAATGGCA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
96 6 0.08
97 39 0.54
98 27 0.38
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (96 bp):
TTTTCAAAAGCCCACACAAGTCGATGGCAACCTTTTTCAAAGCCCACACAAGTCGATAGCAACCC
TCTCAAAGCCCACAAAAGTTAGTGGCAACTC
Found at i:7115686 original size:33 final size:32
Alignment explanation
Indices: 7115575--7115774 Score: 176
Period size: 33 Copynumber: 6.2 Consensus size: 32
7115565 TGGCAATCGT
* * *
7115575 TTTTTAAAAGCCCACATAAGTCGATGGTAACTC
1 TTTTCAAAAGCCCACACAAGTCGATGGCAAC-C
* *
7115608 TTTT-TAAAGCCCACACAAGTCGATAGCAACC
1 TTTTCAAAAGCCCACACAAGTCGATGGCAACC
* * * *
7115639 CTTTCTAAAGCCCACAAAAGT-TAGTGGCAACTC
1 TTTTCAAAAGCCCACACAAGTCGA-TGGCAAC-C
7115672 TTTTCAAAAGCCCACACAAGTCGATGGCAACC
1 TTTTCAAAAGCCCACACAAGTCGATGGCAACC
* * *
7115704 TTTTTCCAAAGTCCACACAAGTCGGTGGCAACC
1 -TTTTCAAAAGCCCACACAAGTCGATGGCAACC
* * * *
7115737 CTCTC-AAAG-CC-CACAAGTCAATGGCATTCC
1 TTTTCAAAAGCCCACACAAGTCGATGGCA-ACC
7115767 TTTTCAAA
1 TTTTCAAA
7115775 GCCTACAAGT
Statistics
Matches: 138, Mismatches: 22, Indels: 16
0.78 0.12 0.09
Matches are distributed among these distances:
29 13 0.09
30 7 0.05
31 11 0.08
32 47 0.34
33 59 0.43
34 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.24
Consensus pattern (32 bp):
TTTTCAAAAGCCCACACAAGTCGATGGCAACC
Found at i:7115885 original size:88 final size:89
Alignment explanation
Indices: 7115717--7115970 Score: 280
Period size: 88 Copynumber: 2.9 Consensus size: 89
7115707 TTCCAAAGTC
** * * * *
7115717 CACACAAGTCGGTGGCA-ACCCTCTCAAAGCCCACAAGTCAATGGCATTCCTTTTCAAAGCCTAC
1 CACACAAGTCAATGGCATCCCCTTTCAAAGCCCACAAGTCAATGGCA-TCCCTCTCAAAGCCTAC
*
7115781 AAGTTAGTGGCATCCCCTTTCAAAA
65 AAGTCAGTGGCATCCCCTTTCAAAA
* *
7115806 CACACAAGTCAATGGTATCCCCTTTCAAAGCCCACAAGTCAATGGCA-CCCTCTCAAAG-TTCAC
1 CACACAAGTCAATGGCATCCCCTTTCAAAGCCCACAAGTCAATGGCATCCCTCTCAAAGCCT-AC
* *
7115869 AAGTCGGTGGCATCCCCTTTCAAAG
65 AAGTCAGTGGCATCCCCTTTCAAAA
* * * * * * * *
7115894 CCCACAAGTCAGTGGCATCCACTTTCAAAGCCCACAAGTTAATAGCATCCTTTTTCAAAGCTTAC
1 CACACAAGTCAATGGCATCCCCTTTCAAAGCCCACAAGTCAATGGCATCC-CTCTCAAAGCCTAC
*
7115959 AAGTTAGTGGCA
65 AAGTCAGTGGCA
7115971 CCCTTTTTAA
Statistics
Matches: 139, Mismatches: 21, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
87 1 0.01
88 74 0.53
89 16 0.12
90 46 0.33
91 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (89 bp):
CACACAAGTCAATGGCATCCCCTTTCAAAGCCCACAAGTCAATGGCATCCCTCTCAAAGCCTACA
AGTCAGTGGCATCCCCTTTCAAAA
Found at i:7115950 original size:118 final size:118
Alignment explanation
Indices: 7115684--7115974 Score: 330
Period size: 118 Copynumber: 2.4 Consensus size: 118
7115674 TTCAAAAGCC
* * * *
7115684 CACACAAGTCGATGGCAACCTTTTTCCAAAGTCCACACAAGTCGGTGGCAACCCTCTCAAAGCCC
1 CACACAAGTCAATAGCATCCTTTTT-CAAAG-CC-CACAAGTCAGTGGC-ACCCTCTCAAAGCCC
* * * * *
7115749 ACAAGTCAATGGCATTCCTTTTCAAAGCCTACAAGTTAGTGGCATCCCCTTTCAAAA
62 ACAAGTCAATGGCATCCCCTTTCAAAGCCCACAAGTCAGTGGCATCCACTTTCAAAA
* * ** * **
7115806 CACACAAGTCAATGGTATCCCCTTTCAAAGCCCACAAGTCAATGGCACCCTCTCAAAGTTCACAA
1 CACACAAGTCAATAGCATCCTTTTTCAAAGCCCACAAGTCAGTGGCACCCTCTCAAAGCCCACAA
** *
7115871 GTCGGTGGCATCCCCTTTCAAAGCCCACAAGTCAGTGGCATCCACTTTCAAAG
66 GTCAATGGCATCCCCTTTCAAAGCCCACAAGTCAGTGGCATCCACTTTCAAAA
* * ** *
7115924 CCCACAAGTTAATAGCATCCTTTTTCAAAGCTTACAAGTTAGTGGCACCCT
1 CACACAAGTCAATAGCATCCTTTTTCAAAGCCCACAAGTCAGTGGCACCCT
7115975 TTTTAATGCT
Statistics
Matches: 142, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
118 103 0.73
119 12 0.08
120 2 0.01
121 5 0.04
122 20 0.14
ACGTcount: A:0.30, C:0.31, G:0.15, T:0.23
Consensus pattern (118 bp):
CACACAAGTCAATAGCATCCTTTTTCAAAGCCCACAAGTCAGTGGCACCCTCTCAAAGCCCACAA
GTCAATGGCATCCCCTTTCAAAGCCCACAAGTCAGTGGCATCCACTTTCAAAA
Found at i:7116730 original size:21 final size:21
Alignment explanation
Indices: 7116706--7116758 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
7116696 TTTGATAATT
*
7116706 TGTATCAATACAATAAGGT-GA
1 TGTATCAATACAATAA-GTAAA
*
7116727 TGTATCGATAC-ATAAGTAAA
1 TGTATCAATACAATAAGTAAA
7116747 TGTATCAATACA
1 TGTATCAATACA
7116759 TGTCTGAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 2 0.07
20 15 0.56
21 10 0.37
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.30
Consensus pattern (21 bp):
TGTATCAATACAATAAGTAAA
Found at i:7116749 original size:20 final size:21
Alignment explanation
Indices: 7116726--7116779 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
7116716 CAATAAGGTG
*
7116726 ATGTATCGATACATAAGT-AA
1 ATGTATCGATACATAACTGAA
* **
7116746 ATGTATCAATACATGTCTGAA
1 ATGTATCGATACATAACTGAA
7116767 ATGTATCGATACA
1 ATGTATCGATACA
7116780 GGACCATGCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (21 bp):
ATGTATCGATACATAACTGAA
Found at i:7128128 original size:35 final size:34
Alignment explanation
Indices: 7128053--7128150 Score: 117
Period size: 35 Copynumber: 2.7 Consensus size: 34
7128043 CCATTTTTTT
7128053 TAATTTTATATTAATTTTATTAATTTATTTTATAAGATA
1 TAATTTTA-A-TAA-TTT-TTAA-TTATTTTATAAGATA
7128092 TAATTTTAATAATTTTTAATTATTTAATATAA-ATA
1 TAATTTTAATAATTTTTAATTATTT--TATAAGATA
*
7128127 TAATTTAAATAATTTTTAATTATT
1 TAATTTTAATAATTTTTAATTATT
7128151 ATTTGATAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
34 6 0.11
35 30 0.54
36 8 0.14
37 3 0.05
38 1 0.02
39 8 0.14
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (34 bp):
TAATTTTAATAATTTTTAATTATTTTATAAGATA
Found at i:7128154 original size:38 final size:35
Alignment explanation
Indices: 7128083--7128150 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
7128073 TAATTTATTT
*
7128083 TATAAGATATAATTTTAATAATTTTTAATTATTTAA
1 TATAA-ATATAATTTAAATAATTTTTAATTATTTAA
7128119 TATAAATATAATTTAAATAATTTTTAATTATT
1 TATAAATATAATTTAAATAATTTTTAATTATT
7128151 ATTTGATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 26 0.84
36 5 0.16
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (35 bp):
TATAAATATAATTTAAATAATTTTTAATTATTTAA
Found at i:7129249 original size:17 final size:18
Alignment explanation
Indices: 7129227--7129260 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7129217 TATATATAGT
7129227 AAAATAATA-ATTTTATC
1 AAAATAATATATTTTATC
*
7129244 AAAATATTATATTTTAT
1 AAAATAATATATTTTAT
7129261 TCTTGTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
AAAATAATATATTTTATC
Found at i:7136871 original size:17 final size:15
Alignment explanation
Indices: 7136843--7136918 Score: 82
Period size: 16 Copynumber: 4.9 Consensus size: 15
7136833 CATAAAAAGG
7136843 AAAAATTAAAAATTTA
1 AAAAATTAAAAA-TTA
7136859 AAAAATTATAAAATTA
1 AAAAATTA-AAAATTA
*
7136875 TAAAATTAAAAAAATTA
1 AAAAATT--AAAAATTA
**
7136892 AAAAATTAAAAA-GG
1 AAAAATTAAAAATTA
7136906 AAAAATTAAAAAT
1 AAAAATTAAAAAT
7136919 GTTATTTTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
14 12 0.23
15 5 0.10
16 17 0.33
17 17 0.33
18 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
AAAAATTAAAAATTA
Found at i:7136910 original size:25 final size:25
Alignment explanation
Indices: 7136858--7136917 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
7136848 TTAAAAATTT
* **
7136858 AAAAAATTATAAAATTATAAAATTA
1 AAAAAATTAAAAAATTATAAAAGAA
7136883 AAAAAATTAAAAAATTA-AAAAG--
1 AAAAAATTAAAAAATTATAAAAGAA
*
7136905 GAAAAATTAAAAA
1 AAAAAATTAAAAA
7136918 TGTTATTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.38
24 4 0.12
25 16 0.50
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (25 bp):
AAAAAATTAAAAAATTATAAAAGAA
Found at i:7136917 original size:8 final size:8
Alignment explanation
Indices: 7136843--7136903 Score: 86
Period size: 8 Copynumber: 7.5 Consensus size: 8
7136833 CATAAAAAGG
7136843 AAAAATTA
1 AAAAATTA
*
7136851 AAAATTTA
1 AAAAATTA
7136859 AAAAATTA
1 AAAAATTA
*
7136867 TAAAATTA
1 AAAAATTA
*
7136875 TAAAATTAA
1 AAAAATT-A
7136884 AAAAATTA
1 AAAAATTA
7136892 AAAAATTA
1 AAAAATTA
7136900 AAAA
1 AAAA
7136904 GGAAAAATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
8 41 0.85
9 7 0.15
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (8 bp):
AAAAATTA
Found at i:7137227 original size:18 final size:17
Alignment explanation
Indices: 7137190--7137223 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7137180 TCAAAGAGAA
*
7137190 AAAAGAGAGGGGAAAGG
1 AAAAGAAAGGGGAAAGG
7137207 AAAAGAAAGGGGAAAGG
1 AAAAGAAAGGGGAAAGG
7137224 GAAACATGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (17 bp):
AAAAGAAAGGGGAAAGG
Found at i:7137393 original size:21 final size:19
Alignment explanation
Indices: 7137356--7137399 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
7137346 TTCTTTTCGC
*
7137356 TTTTTTTTTTTTGTTTTAA
1 TTTTTTTTTTTTCTTTTAA
*
7137375 TTTTTTTCTTTTTCCTTTTGA
1 TTTTTTT-TTTTT-CTTTTAA
7137396 TTTT
1 TTTT
7137400 GAATTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.33
20 5 0.24
21 9 0.43
ACGTcount: A:0.07, C:0.07, G:0.05, T:0.82
Consensus pattern (19 bp):
TTTTTTTTTTTTCTTTTAA
Found at i:7137427 original size:20 final size:20
Alignment explanation
Indices: 7137402--7137439 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7137392 TTGATTTTGA
7137402 ATTAAAAATATTCA-AATTAT
1 ATTAAAAA-ATTCATAATTAT
7137422 ATTAAAAAATTCATAATT
1 ATTAAAAAATTCATAATT
7137440 TAAAAATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTAAAAAATTCATAATTAT
Found at i:7137831 original size:2 final size:2
Alignment explanation
Indices: 7137824--7137863 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
7137814 ATTGGAACTC
7137824 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
7137864 TTGCAGGTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:7141693 original size:3 final size:3
Alignment explanation
Indices: 7141687--7141715 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7141677 AATGCATAAT
7141687 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7141716 TTGTTGGAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7142243 original size:23 final size:23
Alignment explanation
Indices: 7142192--7142243 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
7142182 ATATTAAAAT
* *
7142192 TAAATTTA-TAAAATATTTATTA
1 TAAATATATTAAAATATTTATAA
7142214 TAAATATATTAAAAT-TTATATAA
1 TAAATATATTAAAATATT-TATAA
*
7142237 TATATAT
1 TAAATAT
7142244 TATTTTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TAAATATATTAAAATATTTATAA
Found at i:7143053 original size:13 final size:14
Alignment explanation
Indices: 7143009--7143081 Score: 52
Period size: 13 Copynumber: 5.6 Consensus size: 14
7142999 GAACTAAAAT
*
7143009 TTTATGATAAGTATA
1 TTTAT-ATAATTATA
7143024 -TT-TATAATT-TA
1 TTTATATAATTATA
*
7143035 -TAATATAATTA-A
1 TTTATATAATTATA
7143047 TTTATATAATTATA
1 TTTATATAATTATA
* *
7143061 TTTA-AAAATAATA
1 TTTATATAATTATA
7143074 TTTA-ATAA
1 TTTATATAA
7143082 ATTTAAAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
11 3 0.06
12 13 0.27
13 25 0.52
14 7 0.15
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (14 bp):
TTTATATAATTATA
Found at i:7143085 original size:22 final size:23
Alignment explanation
Indices: 7143060--7143103 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
7143050 ATATAATTAT
*
7143060 ATTTAAAAATAATA-TTTAATAA
1 ATTTAAAAATAAAATTTTAATAA
*
7143082 ATTTAAAATTAAAATTTTAATA
1 ATTTAAAAATAAAATTTTAATA
7143104 TTTATAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTTAAAAATAAAATTTTAATAA
Found at i:7145092 original size:22 final size:22
Alignment explanation
Indices: 7145065--7145118 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
7145055 AGCAATAACA
7145065 TTTTCTTTTTTTTTCT-CTTCCT
1 TTTTCTTTTTTTTTCTGCTT-CT
**
7145087 TTTTCTTCATTTTTCTGCTTCT
1 TTTTCTTTTTTTTTCTGCTTCT
7145109 TTTTCTTTTT
1 TTTTCTTTTT
7145119 CTTCCCTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 24 0.89
23 3 0.11
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTTCTTTTTTTTTCTGCTTCT
Found at i:7145750 original size:30 final size:30
Alignment explanation
Indices: 7145716--7145773 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
7145706 CCACTCTACA
* *
7145716 TTTTAAAATTATTATTTTATCTCTTAAAAT
1 TTTTAAAATTATTATTATATCTATTAAAAT
* * *
7145746 TTTTACATTTTTTATTATATCTATTAAA
1 TTTTAAAATTATTATTATATCTATTAAA
7145774 TATAAAATCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (30 bp):
TTTTAAAATTATTATTATATCTATTAAAAT
Found at i:7146445 original size:21 final size:20
Alignment explanation
Indices: 7146380--7146452 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
7146370 TTCTATAATT
* *
7146380 TGTATTGATACAATAAGTTAA
1 TGTATCGATAC-ATAAGTGAA
*
7146401 TATATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
* *
7146421 TGTATCGATACATGATTGAAA
1 TGTATCGATACATAAGTG-AA
7146442 TGTATCGATAC
1 TGTATCGATAC
7146453 TAGACTATGT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 23 0.51
21 22 0.49
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:7149012 original size:98 final size:98
Alignment explanation
Indices: 7148829--7149012 Score: 226
Period size: 98 Copynumber: 1.9 Consensus size: 98
7148819 TCCAACATGT
** * * * * *
7148829 TTTTAAACTTGTCAAGATTTAAATATTATTTTTTGCTTAAATTGTCATCATCGGGGATACTTCAA
1 TTTTAAACTTGTCAAGATTTAAATATTATTTTTACCTCAAATTGCCATCATCGAGGACACTCCAA
** *
7148894 CTCTATTCTTTTAAGGGGATACTCTAACCCTAA
66 CTCTATTCTTACAAGAGGATACTCTAACCCTAA
* * *
7148927 TTTTAAACTTGTCAATATTTAAATTTTATTTTTACCTCAAATTGCCATCATTGAGGACACTCCAA
1 TTTTAAACTTGTCAAGATTTAAATATTATTTTTACCTCAAATTGCCATCATCGAGGACACTCCAA
*
7148992 C-CTTATTCTTACGAGAGGATA
66 CTC-TATTCTTACAAGAGGATA
7149013 TTCCAGGCTT
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
97 1 0.01
98 70 0.99
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.41
Consensus pattern (98 bp):
TTTTAAACTTGTCAAGATTTAAATATTATTTTTACCTCAAATTGCCATCATCGAGGACACTCCAA
CTCTATTCTTACAAGAGGATACTCTAACCCTAA
Found at i:7153247 original size:24 final size:24
Alignment explanation
Indices: 7153215--7153263 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
7153205 TATTAGGTTT
7153215 TACCGAATTTATTCCCAATACAAA
1 TACCGAATTTATTCCCAATACAAA
7153239 TACCGAATTTATTCCCAATACAAA
1 TACCGAATTTATTCCCAATACAAA
7153263 T
1 T
7153264 GGATCCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.24, G:0.04, T:0.31
Consensus pattern (24 bp):
TACCGAATTTATTCCCAATACAAA
Found at i:7155887 original size:737 final size:728
Alignment explanation
Indices: 7154219--7156390 Score: 3366
Period size: 728 Copynumber: 3.0 Consensus size: 728
7154209 TATCAAATGT
*
7154219 AATGATAGCATCAAATGGTGAAAAAAACATTAGCCATCGTTGATTTATTGTTTAAATCAACCTAG
1 AATGATAGCATCAAATGGTGAAAAAAACATTAGCCATAGTTGATTTATTGTTTAAATCAACCTAG
* * *
7154284 AATTAGCTTTGGAAGTTTTAAAAATTAGACTTTGGCACTCAAATCCAACATACATTTTATCTAAT
66 ACTTAGCTTTGGAAGTTTTAAAAATCAGATTTTGGCACTCAAATCCAACATACATTTTATCTAAT
* *
7154349 GCCTCATAATCTTAAGTGCATCGACATAGCACAAAATCACTAAAAACATGTTGTAACGTGAATGT
131 ACCTCATAATCTTAAGTGCATCAACATAGCACAAAATCACTAAAAACATGTTGTAACGTGAATGT
* *
7154414 AGAGACATTTCATCCAAC-TTGTCCTGAACTAAAGCATATTAGATGGCAAATATTAACAAGAACA
196 AGAGACATTTCATCCAACATT-TCCTGAACTAAAGCATATTAGATGACATATATTAACAAGAACA
* *
7154478 AGTTATGATATCAAAATAAATATAAATATGGCGTGTAACGTTTTAAAATCATGCAAATCATGAAG
260 AGTTATGATATCAAAATAAATATAAATATGGAGTGTAACATTTTAAAATCATGCAAATCATGAAG
* *
7154543 CAAAATACATTTGCATAGAGAAATAGGCATGGTCAAAACATATT-TAGGTC--AAGGGGGCATTT
325 CAAAATACATTTGCATAGAGAAATAGGCATGGTCAAAACAT-TTATAGGTCAAAAGAGGACATTT
*
7154605 GATCACACAAAAACCATTCAAATATGCAATAAATATCATCAAAATCATGAGAAAGCAAAGCAAAA
389 GATCACACAAAAACCATTCAAATATGCAACAAATATCATCAAAATCATGAGAAAGCAAAGCAAAA
* * *
7154670 TACATGAACTCCTAGAAGAGGTCATAGCTGAACATATGAGGGTCACTAGTATGACATGGTCATGC
454 TGCATGAACTCCTAGAAGAGGTCATAACTGAACATATGAGGGTCATTAGTATGACATGGTCATGC
* * *
7154735 TTCCAAATGCT-TAAAAATGAATTGAAACTAGTAAGAGATATATTCTAGAGCTTTAGGGTTTTAA
519 TTTCAAATG-TATAACAATGAATTGAAACTAGTAAGAGATATATTCTAGAGCTTTAGGTTTTTAA
* ** * *
7154799 GACTTCTTTTTTGTTTTTTTTTTTCCTTTTCTAACCTTTTTTCCTTAGCCTTTTTTTCTTTTTCT
583 GA--T-TTTCTCCTTGTTTTTTTTCCTTTTCTAGCCTTTTTTCCTTAG-CTTTTTTT-TTTTTCT
* *
7154864 TTTTCTTTGTGCTAGAACTTTTCTAGGGTTTCAAGAATGAGTGAACATGTGTAAAAAAACTAAAG
643 TTTTCTTTGTGCTAGAATTTTTCTAGGGTTTCAAGAATGAGAGAACATGTGTAAAAAAACTAAAG
7154929 AAATGGTGAAAAAAACATTAG
708 AAATGGTGAAAAAAACATTAG
* * * *
7154950 AATGATAGCATCAAATGGCG-AAAAAA-A-TAGTCATAATTGATTTATTGTTTAAATCAACCTAA
1 AATGATAGCATCAAATGGTGAAAAAAACATTAGCCATAGTTGATTTATTGTTTAAATCAACCTAG
*
7155012 ACTTAGCTTTGGAAGTTTTAAAAATCAGATTTTGGCACTCAAATGCAACATACATTTTATCTAAT
66 ACTTAGCTTTGGAAGTTTTAAAAATCAGATTTTGGCACTCAAATCCAACATACATTTTATCTAAT
* * *
7155077 ACCTCCTAATCTTAAGTGCATCAATATAGCACAAAATCACTAAAAACATGTTGTAACGTGGATGT
131 ACCTCATAATCTTAAGTGCATCAACATAGCACAAAATCACTAAAAACATGTTGTAACGTGAATGT
* *
7155142 AGAGACATTTCATCCAACATTTCCTGAACTAATGCATACTAGATGACATATATTAACAAGAACAA
196 AGAGACATTTCATCCAACATTTCCTGAACTAAAGCATATTAGATGACATATATTAACAAGAACAA
* * *
7155207 GTTATGAAATCAAAATAAATATAAATATGGAGTGTAACATTTTAAAGTCATGCAAATTATGAAGC
261 GTTATGATATCAAAATAAATATAAATATGGAGTGTAACATTTTAAAATCATGCAAATCATGAAGC
*
7155272 AAAATACATTTGCATAGAGAAATAGGCACGGTCAAAACATTTATAGGTCAAAAGAGGACATTTGA
326 AAAATACATTTGCATAGAGAAATAGGCATGGTCAAAACATTTATAGGTCAAAAGAGGACATTTGA
* * * **
7155337 TCACACAAAAACCATAT-AAATATGTAACAAATATCATCAAAATCATAAAAAAAAAAAAAGCAAA
391 TCACACAAAAACCAT-TCAAATATGCAACAAATATCATCAAAATCAT--GAGAAAGCAAAGCAAA
* * * *
7155401 ATGCATGAACTCCTAGAAAAAGTCATAATTGAACATATGAGGGTCATTAATATGACATGGTCATG
453 ATGCATGAACTCCTAGAAGAGGTCATAACTGAACATATGAGGGTCATTAGTATGACATGGTCATG
* *
7155466 CTTTTAAATGTATAACAATGAATTGAAACTAGTAAGAGATATATTATAGAGCTTTAGGTTTTTAA
518 CTTTCAAATGTATAACAATGAATTGAAACTAGTAAGAGATATATTCTAGAGCTTTAGGTTTTTAA
* *
7155531 GATTTTCTCCTAGTTTTCTTTCCTTTTCTAGCCTTTTTTCCTTAGCTTTTTTTTTATTTTTCTTT
583 GATTTTCTCCTTGTTTTTTTTCCTTTTCTAGCCTTTTTTCCTTAGC--TTTTTTT-TTTTTCTTT
7155596 TTCTTTGTGCTAGAATTTTTCTAGGGTTTCAAGAATGAGAGAACATGTGTAAAAAAAACTCTAAA
645 TTCTTTGTGCTAGAATTTTTCTAGGGTTTCAAGAATGAGAGAACATGTGT-AAAAAAA--CTAAA
7155661 GAAATGGTGAAAAAAAACATTAG
707 GAAATGGTG-AAAAAAACATTAG
** * *
7155684 GTTGATAGCATTAAATGGTGAAAAAAACATTGGCCATAGTTGATTTATTGTTTAAATCAACCTAG
1 AATGATAGCATCAAATGGTGAAAAAAACATTAGCCATAGTTGATTTATTGTTTAAATCAACCTAG
* * *
7155749 ACTTAACTTTGGAAGTTTTAAAAATCAAATTTTTGCACTCAAATCCAACATACATTTTATCTAAT
66 ACTTAGCTTTGGAAGTTTTAAAAATCAGATTTTGGCACTCAAATCCAACATACATTTTATCTAAT
* *
7155814 ACCTCATAATCTTAAGTGCATCAACGTAGCACAAAATCACTAAAAATATGTTGTAACGTGAATGT
131 ACCTCATAATCTTAAGTGCATCAACATAGCACAAAATCACTAAAAACATGTTGTAACGTGAATGT
* * *
7155879 AGAGACATTTCATCCAACATGTCCTAAACTAAAGCATATTAAATGACATATATTAACAAGAACAA
196 AGAGACATTTCATCCAACATTTCCTGAACTAAAGCATATTAGATGACATATATTAACAAGAACAA
*
7155944 GTTATGATATCAAAATAAATATAAATATGGTGTGTAACATTTTAAAATCATGCAAATCATGAAGC
261 GTTATGATATCAAAATAAATATAAATATGGAGTGTAACATTTTAAAATCATGCAAATCATGAAGC
*
7156009 AAAATACATTTGC--AGAGAAATGGGCATGGTCAAAACATTTATAGGTCAAAA-AGGGACATTTG
326 AAAATACATTTGCATAGAGAAATAGGCATGGTCAAAACATTTATAGGTCAAAAGA-GGACATTTG
7156071 ATCACACAAAAACCATTCAAATATGCAACAAATATCATCAAAATCATGAGAAAGCAAAGCAAAAT
390 ATCACACAAAAACCATTCAAATATGCAACAAATATCATCAAAATCATGAGAAAGCAAAGCAAAAT
7156136 GCATGAACTCCTAGAAGAGGTCATAACTGAACATATGAGGGTCATTAGT-TGACATGGTCATGCT
455 GCATGAACTCCTAGAAGAGGTCATAACTGAACATATGAGGGTCATTAGTATGACATGGTCATGCT
* * *
7156200 TTCAAATGCATAACAATGAATTGAAACCAGTAAAAGATATATTCTAGAGCTTTAGGTTTTTAAGA
520 TTCAAATGTATAACAATGAATTGAAACTAGTAAGAGATATATTCTAGAGCTTTAGGTTTTTAAGA
* * * *
7156265 TTTCCTCCTTGTTTTTTTTCCTTTTCTAGCCTCTTTTCCTTAGC-CTTTTTTTCTT-TTTTTCTT
585 TTTTCTCCTTGTTTTTTTTCCTTTTCTAGCCTTTTTTCCTTAGCTTTTTTTTTTTTCTTTTTCTT
* * * *
7156328 TATGCTAGAATATTTCTAGGGTTTGAAGTATGAGAGAACATGTGTAAAAAAACTAAAGAAATG
650 TGTGCTAGAATTTTTCTAGGGTTTCAAGAATGAGAGAACATGTGTAAAAAAACTAAAGAAATG
7156391 TCTTAGTTAT
Statistics
Matches: 1316, Mismatches: 106, Indels: 45
0.90 0.07 0.03
Matches are distributed among these distances:
724 11 0.01
726 7 0.01
727 51 0.04
728 320 0.24
729 43 0.03
730 125 0.09
731 28 0.02
732 245 0.19
733 73 0.06
734 31 0.02
735 95 0.07
736 1 0.00
737 286 0.22
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (728 bp):
AATGATAGCATCAAATGGTGAAAAAAACATTAGCCATAGTTGATTTATTGTTTAAATCAACCTAG
ACTTAGCTTTGGAAGTTTTAAAAATCAGATTTTGGCACTCAAATCCAACATACATTTTATCTAAT
ACCTCATAATCTTAAGTGCATCAACATAGCACAAAATCACTAAAAACATGTTGTAACGTGAATGT
AGAGACATTTCATCCAACATTTCCTGAACTAAAGCATATTAGATGACATATATTAACAAGAACAA
GTTATGATATCAAAATAAATATAAATATGGAGTGTAACATTTTAAAATCATGCAAATCATGAAGC
AAAATACATTTGCATAGAGAAATAGGCATGGTCAAAACATTTATAGGTCAAAAGAGGACATTTGA
TCACACAAAAACCATTCAAATATGCAACAAATATCATCAAAATCATGAGAAAGCAAAGCAAAATG
CATGAACTCCTAGAAGAGGTCATAACTGAACATATGAGGGTCATTAGTATGACATGGTCATGCTT
TCAAATGTATAACAATGAATTGAAACTAGTAAGAGATATATTCTAGAGCTTTAGGTTTTTAAGAT
TTTCTCCTTGTTTTTTTTCCTTTTCTAGCCTTTTTTCCTTAGCTTTTTTTTTTTTCTTTTTCTTT
GTGCTAGAATTTTTCTAGGGTTTCAAGAATGAGAGAACATGTGTAAAAAAACTAAAGAAATGGTG
AAAAAAACATTAG
Found at i:7161864 original size:31 final size:31
Alignment explanation
Indices: 7161816--7161874 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
7161806 ATTATAAAGT
*
7161816 AAATGTAACAATTATGGAAATAAAGTAAGCA
1 AAATATAACAATTATGGAAATAAAGTAAGCA
7161847 AAATATAAC-ATTAATGGAAATAAAGTAA
1 AAATATAACAATT-ATGGAAATAAAGTAA
7161875 ATAAACATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.58, C:0.05, G:0.14, T:0.24
Consensus pattern (31 bp):
AAATATAACAATTATGGAAATAAAGTAAGCA
Found at i:7162460 original size:21 final size:21
Alignment explanation
Indices: 7162395--7162466 Score: 80
Period size: 20 Copynumber: 3.5 Consensus size: 21
7162385 CTCTCATTTC
7162395 TATCGATACA-CATGA-AAATG
1 TATCGATACATCAT-ATAAATG
*
7162415 TATCGATACAT-AT-TGCAATG
1 TATCGATACATCATAT-AAATG
*
7162435 TATCGATACATCATATAAAAG
1 TATCGATACATCATATAAATG
7162456 TATCGATACAT
1 TATCGATACAT
7162467 TTCATTGGCA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
20 27 0.61
21 16 0.36
22 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (21 bp):
TATCGATACATCATATAAATG
Found at i:7162524 original size:21 final size:21
Alignment explanation
Indices: 7162513--7162567 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
7162503 CACTTTGTAT
7162513 ATGTATCAATACAATTCTAGA
1 ATGTATCAATACAATTCTAGA
7162534 ATGTATCAATACAATTCTAGA
1 ATGTATCAATACAATTCTAGA
*
7162555 ATGTATCGATACA
1 ATGTATCAATACA
7162568 TCCATACTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCAATACAATTCTAGA
Found at i:7166932 original size:9 final size:9
Alignment explanation
Indices: 7166918--7166948 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7166908 AATACTCTCG
*
7166918 TTTTATTCA
1 TTTTATTTA
7166927 TTTTATTTA
1 TTTTATTTA
7166936 TTTTATTTA
1 TTTTATTTA
7166945 TTTT
1 TTTT
7166949 TATCTTTTTT
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:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTATTTA
Found at i:7166957 original size:18 final size:19
Alignment explanation
Indices: 7166918--7166967 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
7166908 AATACTCTCG
* *
7166918 TTTTATTCA-TTTTATTTA
1 TTTTATTTATTTTTATCTA
7166936 TTTTATTTATTTTTATCT-
1 TTTTATTTATTTTTATCTA
7166954 TTTT-TTTAATTTTT
1 TTTTATTT-ATTTTT
7166968 TGTTTTAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 3 0.11
18 18 0.64
19 7 0.25
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTATTTATTTTTATCTA
Found at i:7167995 original size:25 final size:25
Alignment explanation
Indices: 7167960--7168007 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
7167950 AATTATATTT
* *
7167960 ATATATTATATAATTATATAAATTA
1 ATATATAATATAATAATATAAATTA
*
7167985 ATATATAATATTATAATATAAAT
1 ATATATAATATAATAATATAAAT
7168008 ATGAATAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
ATATATAATATAATAATATAAATTA
Found at i:7168008 original size:14 final size:14
Alignment explanation
Indices: 7167983--7168025 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
7167973 TTATATAAAT
7167983 TAATATATAATATTA
1 TAATATA-AATATTA
*
7167998 TAATATAAATATGAA
1 TAATATAAATAT-TA
7168013 TAA-ATAAATATTA
1 TAATATAAATATTA
7168026 AATTATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 1 0.04
14 13 0.52
15 11 0.44
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
TAATATAAATATTA
Found at i:7168619 original size:16 final size:16
Alignment explanation
Indices: 7168574--7168623 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
7168564 TTTTAATTTC
*
7168574 ATTAAATTATATAGTTAA
1 ATTAAATTAT-TA-ATAA
*
7168592 ATTTACATTATTAATAA
1 A-TTAAATTATTAATAA
7168609 ATTAAATTATTAATA
1 ATTAAATTATTAATA
7168624 TTAATTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 13 0.46
17 4 0.14
18 3 0.11
19 8 0.29
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATTATTAATAA
Found at i:7169692 original size:22 final size:22
Alignment explanation
Indices: 7169661--7169712 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
7169651 GTGTGATCAG
*
7169661 TTTATATATA-TTTATGAATAAA
1 TTTATTTATAGTTTATGAA-AAA
**
7169683 TTTATTTATAGTTTATTTAAAA
1 TTTATTTATAGTTTATGAAAAA
7169705 TTTATTTA
1 TTTATTTA
7169713 CCAATTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (22 bp):
TTTATTTATAGTTTATGAAAAA
Found at i:7169720 original size:12 final size:11
Alignment explanation
Indices: 7169680--7169726 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
7169670 ATTTATGAAT
7169680 AAATTTATTTA
1 AAATTTATTTA
* *
7169691 TAGTTTATTTA
1 AAATTTATTTA
7169702 AAATTTATTTA
1 AAATTTATTTA
*
7169713 CCAATTTATTTA
1 -AAATTTATTTA
7169725 AA
1 AA
7169727 GCTTGTTTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
11 19 0.66
12 10 0.34
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (11 bp):
AAATTTATTTA
Found at i:7187443 original size:31 final size:31
Alignment explanation
Indices: 7187376--7187443 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
7187366 CCTAATCATG
* *
7187376 AAAGTTACTAAGGTATTTGAATTAAAAGTGA
1 AAAGTTACTAAGGCATTTGAATTAAAAGTAA
* *
7187407 GAAGTTACTAGGGCATTTGAATTAAAAGTAA
1 AAAGTTACTAAGGCATTTGAATTAAAAGTAA
7187438 AAAGTT
1 AAAGTT
7187444 TTTTTAGGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.44, C:0.04, G:0.21, T:0.31
Consensus pattern (31 bp):
AAAGTTACTAAGGCATTTGAATTAAAAGTAA
Found at i:7187639 original size:43 final size:43
Alignment explanation
Indices: 7187570--7187684 Score: 124
Period size: 43 Copynumber: 2.6 Consensus size: 43
7187560 ATATTTGCTT
* *
7187570 TGAAAAAAAAAAGAAAAAATAAAAAAATGAAAATGAAAAATAAAA
1 TGAAAAAAAAAA-AAAAAAGAAAAAAAAGAAAATGAAAAA-AAAA
* * * * *
7187615 T-AAAAAAAAAAAAAAGAGAGAAAAAAGAAAATTACAAAAAAT
1 TGAAAAAAAAAAAAAAAAGAAAAAAAAGAAAATGAAAAAAAAA
*
7187657 TGAAAAAAAGAAAAAAAATGAAAAAAAA
1 TGAAAAAAA-AAAAAAAAAGAAAAAAAA
7187685 TTTATTTAAG
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
42 4 0.07
43 28 0.48
44 25 0.43
45 1 0.02
ACGTcount: A:0.80, C:0.01, G:0.10, T:0.10
Consensus pattern (43 bp):
TGAAAAAAAAAAAAAAAAGAAAAAAAAGAAAATGAAAAAAAAA
Found at i:7194664 original size:19 final size:20
Alignment explanation
Indices: 7194640--7194699 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
7194630 TTTGAATTTC
7194640 AACAAT-TTGTATCGATACA
1 AACAATATTGTATCGATACA
*
7194659 AACAATAAATGTATCGATACA
1 AACAAT-ATTGTATCGATACA
* * *
7194680 TA-AGTGTTGTATCGATACA
1 AACAATATTGTATCGATACA
7194699 A
1 A
7194700 TGTATGGATA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 18 0.55
20 2 0.06
21 13 0.39
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (20 bp):
AACAATATTGTATCGATACA
Found at i:7198981 original size:16 final size:16
Alignment explanation
Indices: 7198960--7198992 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7198950 TCACAGCTAG
7198960 TAATTA-AATTGTAATT
1 TAATTAGAATT-TAATT
7198976 TAATTAGAATTTAATT
1 TAATTAGAATTTAATT
7198992 T
1 T
7198993 TATAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
TAATTAGAATTTAATT
Found at i:7207688 original size:114 final size:114
Alignment explanation
Indices: 7207488--7207714 Score: 373
Period size: 114 Copynumber: 2.0 Consensus size: 114
7207478 TGTATCAGAA
*
7207488 TATTCAAATATTTAATATCAAATTCTTGCACTTTCTTTCTCTTTTGCTTTATATTCTGATCTTCT
1 TATTCAAATATTTAATATCAAATTCTTGCACTTTCTTTCTCTTTTACTTTATATTCTGATCTTCT
*
7207553 GTGCTCTCTCTATTTGCTTGTACAGGTATTGTTCGAGAGCATTCTTCTG
66 ATGCTCTCTCTATTTGCTTGTACAGGTATTGTTCGAGAGCATTCTTCTG
* * * *
7207602 TATTCAAATATTTAATATTAAATTCTTGCATTTTCTTTCTCTTTTACTTTATATTTTGATCTTTT
1 TATTCAAATATTTAATATCAAATTCTTGCACTTTCTTTCTCTTTTACTTTATATTCTGATCTTCT
* * *
7207667 ATGTTTTTTCTATTTGCTTGTACAGGTATTGTTCGAGAGCATTCTTCT
66 ATGCTCTCTCTATTTGCTTGTACAGGTATTGTTCGAGAGCATTCTTCT
7207715 AACCAGCTCT
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 104 1.00
ACGTcount: A:0.20, C:0.16, G:0.11, T:0.52
Consensus pattern (114 bp):
TATTCAAATATTTAATATCAAATTCTTGCACTTTCTTTCTCTTTTACTTTATATTCTGATCTTCT
ATGCTCTCTCTATTTGCTTGTACAGGTATTGTTCGAGAGCATTCTTCTG
Found at i:7209286 original size:6 final size:6
Alignment explanation
Indices: 7209275--7209307 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
7209265 GTGAATGAGA
7209275 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
7209308 TATTAAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:7210865 original size:11 final size:11
Alignment explanation
Indices: 7210847--7210890 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
7210837 TATATTTTAT
7210847 TTATTTTTAAAA
1 TTATTTTT-AAA
*
7210859 TTATTTTTATA
1 TTATTTTTAAA
*
7210870 TTATATTTTAAT
1 TTAT-TTTTAAA
7210882 TTATTTTTA
1 TTATTTTTA
7210891 TTTTATATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 11 0.39
12 17 0.61
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTATTTTTAAA
Found at i:7210873 original size:23 final size:22
Alignment explanation
Indices: 7210835--7210898 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 22
7210825 TTTTCTCTGT
7210835 ATTATATTTTATTTAT-TTTTAAA
1 ATTAT-TTTTATTTATATTTT-AA
7210858 ATTATTTTTATATTATATTTTAA
1 ATTATTTTTAT-TTATATTTTAA
*
7210881 TTTATTTTTATTTTATAT
1 ATTATTTTTA-TTTATAT
7210899 AGTTTATCAC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
22 6 0.16
23 26 0.70
24 5 0.14
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
ATTATTTTTATTTATATTTTAA
Found at i:7210895 original size:11 final size:11
Alignment explanation
Indices: 7210836--7210896 Score: 54
Period size: 11 Copynumber: 5.4 Consensus size: 11
7210826 TTTCTCTGTA
7210836 TTATATTTT-AT
1 TTAT-TTTTAAT
*
7210847 TTATTTTTAAAA
1 TTATTTTT-AAT
7210859 TTATTTTT-AT
1 TTATTTTTAAT
7210869 ATTATATTTTAAT
1 -TTAT-TTTTAAT
*
7210882 TTATTTTTATT
1 TTATTTTTAAT
7210893 TTAT
1 TTAT
7210897 ATAGTTTATC
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
10 5 0.12
11 18 0.43
12 17 0.40
13 2 0.05
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTATTTTTAAT
Found at i:7211468 original size:14 final size:14
Alignment explanation
Indices: 7211449--7211501 Score: 76
Period size: 14 Copynumber: 4.0 Consensus size: 14
7211439 TACCTATTTT
7211449 TTATATAATATAAA
1 TTATATAATATAAA
*
7211463 TTATATAATATATA
1 TTATATAATATAAA
7211477 -TATA-AATATAAA
1 TTATATAATATAAA
7211489 TTATATAAT-TAAA
1 TTATATAATATAAA
7211502 AAACTAATTG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
12 7 0.20
13 12 0.34
14 16 0.46
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTATATAATATAAA
Found at i:7212329 original size:17 final size:17
Alignment explanation
Indices: 7212302--7212345 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
7212292 ACAGAATCTT
7212302 AATTAATAATTATT-TTTA
1 AATTAA-AATT-TTATTTA
*
7212320 AATTTAAATTTTATTTA
1 AATTAAAATTTTATTTA
7212337 AATTAAAAT
1 AATTAAAAT
7212346 CTGTAACGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 2 0.09
17 16 0.70
18 5 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AATTAAAATTTTATTTA
Found at i:7213089 original size:30 final size:30
Alignment explanation
Indices: 7213033--7213092 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
7213023 GAATAGTTTA
*
7213033 AAATATTTTATATTTTTAAAGTAAATTTTT
1 AAATATTTTATATATTTAAAGTAAATTTTT
*
7213063 AAAT-TTTTATTATATTTAAA-TAAAATTTT
1 AAATATTTTA-TATATTTAAAGTAAATTTTT
7213092 A
1 A
7213093 TTTTAAGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 14 0.52
30 13 0.48
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (30 bp):
AAATATTTTATATATTTAAAGTAAATTTTT
Found at i:7213524 original size:16 final size:16
Alignment explanation
Indices: 7213499--7213553 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
7213489 CATAATTTTT
*
7213499 AATTAATTTTAATAAA
1 AATTATTTTTAATAAA
*
7213515 AATTATTTTTAAT-TA
1 AATTATTTTTAATAAA
* *
7213530 AATT-TTATTAAATAAT
1 AATTATT-TTTAATAAA
7213546 AATTATTT
1 AATTATTT
7213554 ATTTAAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
14 2 0.06
15 10 0.32
16 17 0.55
17 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTATTTTTAATAAA
Found at i:7213528 original size:26 final size:27
Alignment explanation
Indices: 7213490--7213559 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 27
7213480 AATTTTTTCC
7213490 ATAATTTTTAATTAATTTTAATAAA-A
1 ATAATTTTTAATTAATTTTAATAAATA
* *
7213516 ATTATTTTTAATTAAATTTTATTAAATA
1 ATAATTTTTAATT-AATTTTAATAAATA
*
7213544 ATAATTATTTATTTAA
1 ATAATT-TTTAATTAA
7213560 AATTTATATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 12 0.32
27 11 0.30
28 8 0.22
29 6 0.16
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
ATAATTTTTAATTAATTTTAATAAATA
Found at i:7213747 original size:6 final size:6
Alignment explanation
Indices: 7213736--7213760 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7213726 AAGAAATTAT
7213736 TTAAAA TTAAAA TTAAAA TTAAAA T
1 TTAAAA TTAAAA TTAAAA TTAAAA T
7213761 AATTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
TTAAAA
Found at i:7214823 original size:92 final size:90
Alignment explanation
Indices: 7214599--7214850 Score: 479
Period size: 92 Copynumber: 2.8 Consensus size: 90
7214589 ATTCTATGCA
7214599 TCTAATAATTTTTTATGCATAATTCCAATTTCAGTGGTCATCATGCATCATGGTTATGTTTTTC-
1 TCTAATAATTTTTTATGCATAATTCCAATTTCAGTGGTCATCATGCATCATGGTTATGTTTTTCT
7214663 TTTTTTTTTTTAAATAAAAATCAGG
66 TTTTTTTTTTTAAATAAAAATCAGG
7214688 TCTAATAATTTTTTATGCATAATTCCAATTTCAGTGGTCATCATGCATCATGGTTATGTTTTTCT
1 TCTAATAATTTTTTATGCATAATTCCAATTTCAGTGGTCATCATGCATCATGGTTATGTTTTTCT
7214753 TTTTCTTTTTTTATAATAAAAATCAGG
66 TTTT-TTTTTTTA-AATAAAAATCAGG
7214780 TCTAATAATTTTTTATGCATAATTCCAATTTCAGTGGTCATCATGCATCATGGTTATGTTTTTCT
1 TCTAATAATTTTTTATGCATAATTCCAATTTCAGTGGTCATCATGCATCATGGTTATGTTTTTCT
7214845 TTTTTT
66 TTTTTT
7214851 AATAAAAATC
Statistics
Matches: 160, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
89 64 0.40
90 4 0.03
91 10 0.06
92 82 0.51
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.50
Consensus pattern (90 bp):
TCTAATAATTTTTTATGCATAATTCCAATTTCAGTGGTCATCATGCATCATGGTTATGTTTTTCT
TTTTTTTTTTTAAATAAAAATCAGG
Found at i:7215066 original size:14 final size:15
Alignment explanation
Indices: 7215025--7215066 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
7215015 TATATAATTC
*
7215025 ATTTACATATGTTAG
1 ATTTACATATATTAG
7215040 ATTTTACATATATTAG
1 A-TTTACATATATTAG
7215056 ATTTA-ATATAT
1 ATTTACATATAT
7215067 CAAATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 6 0.24
15 5 0.20
16 14 0.56
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (15 bp):
ATTTACATATATTAG
Found at i:7215417 original size:22 final size:22
Alignment explanation
Indices: 7215382--7215423 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
7215372 TATTTTTATT
7215382 TAAATTTAATTATAAAAATATA
1 TAAATTTAATTATAAAAATATA
7215404 TAAATATTAA-TATAAAAATA
1 TAAAT-TTAATTATAAAAATA
7215424 ATTTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATTTAATTATAAAAATATA
Found at i:7216811 original size:2 final size:2
Alignment explanation
Indices: 7216804--7216831 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7216794 GTCCTCATAA
7216804 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7216832 GAGTAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7217023 original size:25 final size:24
Alignment explanation
Indices: 7216988--7217048 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
7216978 ATAAATATAC
*
7216988 ATTTTATTAATTATTAATTACAAAGT
1 ATTTTA-TAATTATTAATT-CAAAAT
* *
7217014 TTTTTATAATT-TTTATTCAAAAT
1 ATTTTATAATTATTAATTCAAAAT
7217037 ATTTT-TAATTAT
1 ATTTTATAATTAT
7217049 AAAATAATGA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
22 5 0.17
23 10 0.33
24 5 0.17
25 5 0.17
26 5 0.17
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (24 bp):
ATTTTATAATTATTAATTCAAAAT
Found at i:7218354 original size:16 final size:17
Alignment explanation
Indices: 7218322--7218357 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
7218312 CCATCTATTT
7218322 ATAAAAGCTAATAAAAG
1 ATAAAAGCTAATAAAAG
*
7218339 ATAAAAG-TAATTAAAG
1 ATAAAAGCTAATAAAAG
7218355 ATA
1 ATA
7218358 TTTAATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.64, C:0.03, G:0.11, T:0.22
Consensus pattern (17 bp):
ATAAAAGCTAATAAAAG
Found at i:7222245 original size:28 final size:28
Alignment explanation
Indices: 7222213--7222283 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
7222203 ATAAAATCGA
*
7222213 GGTTGGAGTATCCCTTTGAAAATAAAGG
1 GGTTGGAGTATCCCTTCGAAAATAAAGG
* *
7222241 GGTTGGAGTATCCCCTCGAAAATAACGG
1 GGTTGGAGTATCCCTTCGAAAATAAAGG
*
7222269 GGTTTGAGTATCCCT
1 GGTTGGAGTATCCCT
7222284 GATTGTGGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (28 bp):
GGTTGGAGTATCCCTTCGAAAATAAAGG
Found at i:7222402 original size:79 final size:79
Alignment explanation
Indices: 7222320--7222919 Score: 528
Period size: 79 Copynumber: 7.6 Consensus size: 79
7222310 ATAAAGTCGA
** * *
7222320 GGTTGGAGTATCTCCGAAGGTGAAAAATTAGTGTTTTGGAAA-AAAACCGAGGTTGGAGTATCCC
1 GGTTGGAGTATCTCCGATTGTGAAAAATTAGTATTTTAGAAATAAAACCGAGGTTGGAGTATCCC
***
7222384 TTCGAAAAATAATAA
66 TTC-AAAAATAACGG
* * *
7222399 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTATTTTAGAAATAAAATC-AGGGTTGGAGTAT-C
1 GGTTGGAGTATCTCCGATTGTGAAAAATTAGTATTTTAGAAATAAAACCGA-GGTTGGAGTATCC
*
7222462 CTCTCAAAAATAACAG
65 CT-TCAAAAATAACGG
* * *
7222478 GGTTGGAGTATCCCCGATTGTGAAAAA-TCGATGTTTTAGAAATAAAACC-AGGGTTGGAGTAT-
1 GGTTGGAGTATCTCCGATTGTGAAAAATTAG-TATTTTAGAAATAAAACCGA-GGTTGGAGTATC
*
7222540 CCTCTCAGAAATAACGG
64 CCT-TCAAAAATAACGG
* * * ** *
7222557 GGTTAGAGTATCTCCGATTGTGAAAAATCAATATTTTAGAAATAAATTCGAGATTGGAGTATCTC
1 GGTTGGAGTATCTCCGATTGTGAAAAATTAGTATTTTAGAAATAAAACCGAGGTTGGAGTATC-C
*
7222622 CTT-GAAAATAACGG
65 CTTCAAAAATAACGG
* *
7222636 GGTTAGAGTATCTCCGATTGTGAAAAA-TCGATATTTT-GAAAATAAAACCGAGGTTGGAGTATA
1 GGTTGGAGTATCTCCGATTGTGAAAAATTAG-TATTTTAG-AAATAAAACCGAGGTTGGAGTAT-
* *
7222699 ACC-TCAGAAATAACGG
63 CCCTTCAAAAATAACGG
* * * * ** *
7222715 GGTTGGAGTATTTTCGATTGTGAAAAA-TCGATATTTTAGAAATAAAATCTCGGATGGAGTATCC
1 GGTTGGAGTATCTCCGATTGTGAAAAATTAG-TATTTTAGAAATAAAACCGAGGTTGGAGTATCC
7222779 TCTT-AAAAATAACGG
65 -CTTCAAAAATAACGG
* * * * * * *
7222794 GGTTGGAATATAC-CCGATTGTGAAAAATCAATGTTTTGGAAACAAAATCTG-GGTTGGAGTATA
1 GGTTGGAGTAT-CTCCGATTGTGAAAAATTAGTATTTTAGAAATAAAA-CCGAGGTTGGAGTAT-
** **
7222857 CCC-TCGGAAATAATAG
63 CCCTTCAAAAATAACGG
* ** *
7222873 GGTTGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTAGAAATAAAA
1 GGTTGGAGTATCTCCGATTGTGAAAAATTAGTATTTTAGAAATAAAA
7222920 ACATGAATGT
Statistics
Matches: 434, Mismatches: 66, Indels: 42
0.80 0.12 0.08
Matches are distributed among these distances:
78 7 0.02
79 400 0.92
80 24 0.06
81 3 0.01
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (79 bp):
GGTTGGAGTATCTCCGATTGTGAAAAATTAGTATTTTAGAAATAAAACCGAGGTTGGAGTATCCC
TTCAAAAATAACGG
Found at i:7222483 original size:158 final size:157
Alignment explanation
Indices: 7222320--7222919 Score: 680
Period size: 158 Copynumber: 3.8 Consensus size: 157
7222310 ATAAAGTCGA
**
7222320 GGTTGGAGTATCTCCGAAGGTGAAAAATTAG-TGTTTTGGAAA-AAAACCGAGGTTGGAGTAT-C
1 GGTTGGAGTATCTCCGATTGTGAAAAA-TAGATGTTTTGGAAATAAAACCGAGGTTGGAGTATAC
* * * * *
7222382 CCTTCGAAAAATAATAAGGTTGGAGTATCCCCGATTGTGGAAAATTAGTATTTTAGAAATAAAAT
65 CC-TC-AGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTATTTTAGAAATAAAAT
* *
7222447 CAGGGTTGGAGTATCCTCTCAAAAATAACAG
128 C-GGGTTGGAGTATCCTCTTAAAAATAACGG
* * *
7222478 GGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAACC-AGGGTTGGAGTAT-C
1 GGTTGGAGTATCTCCGATTGTGAAAAATAGATGTTTTGGAAATAAAACCGA-GGTTGGAGTATAC
* * * * *
7222541 CTCTCAGAAATAACGGGGTTAGAGTATCTCCGATTGTGAAAAATCAATATTTTAGAAATAAATTC
65 C-CTCAGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTATTTTAGAAATAAAATC
* *
7222606 GAGATTGGAGTAT-CTCCTTGAAAATAACGG
129 G-GGTTGGAGTATCCT-CTTAAAAATAACGG
* * * * *
7222636 GGTTAGAGTATCTCCGATTGTGAAAAATCGATATTTTGAAAATAAAACCGAGGTTGGAGTATAAC
1 GGTTGGAGTATCTCCGATTGTGAAAAATAGATGTTTTGGAAATAAAACCGAGGTTGGAGTATACC
* ***
7222701 CTCAGAAATAACGGGGTTGGAGTATTTTCGATTGTGAAAAATC-GATATTTTAGAAATAAAATCT
66 CTCAGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCAG-TATTTTAGAAATAAAATC-
* *
7222765 CGGATGGAGTATCCTCTTAAAAATAACGG
129 GGGTTGGAGTATCCTCTTAAAAATAACGG
* * *
7222794 GGTTGGAATATAC-CCGATTGTGAAAAATCA-ATGTTTTGGAAACAAAATCTG-GGTTGGAGTAT
1 GGTTGGAGTAT-CTCCGATTGTGAAAAAT-AGATGTTTTGGAAATAAAA-CCGAGGTTGGAGTAT
* * * *
7222856 ACCCTCGGAAATAATAGGGTTGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTAGAAATAAAA
63 ACCCTCAGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTATTTTAGAAATAAAA
7222920 ACATGAATGT
Statistics
Matches: 378, Mismatches: 49, Indels: 30
0.83 0.11 0.07
Matches are distributed among these distances:
157 5 0.01
158 343 0.91
159 29 0.08
160 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (157 bp):
GGTTGGAGTATCTCCGATTGTGAAAAATAGATGTTTTGGAAATAAAACCGAGGTTGGAGTATACC
CTCAGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTATTTTAGAAATAAAATCGG
GTTGGAGTATCCTCTTAAAAATAACGG
Found at i:7222632 original size:237 final size:235
Alignment explanation
Indices: 7222320--7222919 Score: 708
Period size: 237 Copynumber: 2.5 Consensus size: 235
7222310 ATAAAGTCGA
** * * *
7222320 GGTTGGAGTATCTCCGAAGGTGAAAAATTAGTGTTTTGGAAAAAAACCGAGGTTGGAGTATCCCT
1 GGTTGGAGTATCTCCGATTGTGAAAAATCAATGTTTTGGAAAAAAATCGAGGTTGGAGTATCCCT
*
7222385 TCGAAAAATAATAAGGTTGGAGTATCCCCGATTGTGGAAAATTAGTATTTTAGAAATAAAATCAG
66 T-G-AAAATAATAGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTATTTTAGAAATAAAA-CAG
* *
7222450 -GGTTGGAGTAT-CCTCTCAAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTT
128 AGGTTGGAGTATAAC-CTCAAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCGATATT
* * *
7222513 TTAGAAATAAAACCAGGGTTGGAGTATCCTCTCAGAAATAACGG
192 TTAGAAATAAAACCACGGATGGAGTATCCTCTCAAAAATAACGG
* * * * *
7222557 GGTTAGAGTATCTCCGATTGTGAAAAATCAATATTTTAGAAATAAATTCGAGATTGGAGTATCTC
1 GGTTGGAGTATCTCCGATTGTGAAAAATCAATGTTTTGGAAA-AAAATCGAGGTTGGAGTATC-C
** * * * * *
7222622 CTTGAAAATAACGGGGTTAGAGTATCTCCGATTGT-GAAAAATCGATATTTT-GAAAATAAAACC
64 CTTGAAAATAATAGGGTTGGAGTATCCCCGATTGTGGAAAATTAG-TATTTTAG-AAATAAAACA
* * ***
7222685 GAGGTTGGAGTATAACCTCAGAAATAACGGGGTTGGAGTATTTTCGATTGTGAAAAATCGATATT
127 GAGGTTGGAGTATAACCTCAAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCGATATT
* * *
7222750 TTAGAAATAAAATCTCGGATGGAGTATCCTCTTAAAAATAACGG
192 TTAGAAATAAAACCACGGATGGAGTATCCTCTCAAAAATAACGG
*
7222794 GGTTGGAATATAC-CCGATTGTGAAAAATCAATGTTTTGGAAACAAAATCTG-GGTTGGAGTATA
1 GGTTGGAGTAT-CTCCGATTGTGAAAAATCAATGTTTTGGAAA-AAAATC-GAGGTTGGAGTAT-
* * * ** *
7222857 CCCTCGGAAATAATAGGGTTGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTAGAAATAAAA
62 CCCTTGAAAATAATAGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTATTTTAGAAATAAAA
7222920 ACATGAATGT
Statistics
Matches: 303, Mismatches: 49, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
236 10 0.03
237 261 0.86
238 28 0.09
239 4 0.01
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (235 bp):
GGTTGGAGTATCTCCGATTGTGAAAAATCAATGTTTTGGAAAAAAATCGAGGTTGGAGTATCCCT
TGAAAATAATAGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTATTTTAGAAATAAAACAGAGG
TTGGAGTATAACCTCAAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCGATATTTTAG
AAATAAAACCACGGATGGAGTATCCTCTCAAAAATAACGG
Found at i:7223476 original size:41 final size:42
Alignment explanation
Indices: 7223404--7223500 Score: 160
Period size: 41 Copynumber: 2.3 Consensus size: 42
7223394 AAATGTGACT
*
7223404 TGCTCTTTGAGGGCAAAAGAGAAAAGGAAATAAAGTGCGTCC
1 TGCTCTTTGAGGACAAAAGAGAAAAGGAAATAAAGTGCGTCC
*
7223446 TGCTCTTTGAGGAC-AAAGGGAAAAGGAAATAAAGTGCGTCC
1 TGCTCTTTGAGGACAAAAGAGAAAAGGAAATAAAGTGCGTCC
*
7223487 TGCTCTTTGGGGAC
1 TGCTCTTTGAGGAC
7223501 TAGAATATGC
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 39 0.75
42 13 0.25
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (42 bp):
TGCTCTTTGAGGACAAAAGAGAAAAGGAAATAAAGTGCGTCC
Found at i:7223853 original size:237 final size:237
Alignment explanation
Indices: 7223569--7224080 Score: 749
Period size: 237 Copynumber: 2.1 Consensus size: 237
7223559 GACTAGAAGG
* * * * *
7223569 TGCCACCAACTTATGTGGGCTTTGAAAGGAAAACGTCTTGCTCTTTGAGGATTGGAATGTGCCAC
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACATCCTACTCTTTGAGGATTGGAAGGTGCCAC
*
7223634 CAACTTGTGTAGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACCGAAA-ATTGCTACCAA
66 CAACTTGTGTAGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACCGAAAGA-TGCCACCAA
* ** *
7223698 CTTGTGTGGTCTTTAAAAGGAAAAGGTGTCTTGCTCTTTAAGGACTAAAAGGTGCCACCAACTTG
130 CTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTCTTTAAGGACTAAAAGGTGCCACCAACTTG
** * *
7223763 TGTAGGCTTTAAAAGGAAAAAGGTGTCTTGCTCTTTGAGGACT-
195 TGTAGGCTTTAAAAGG-AAAAGGCATCCTGCTCTTTGAAGACTA
* * *
7223806 TGCCATCAACTTGTGTGGGCTTTGAAAGGAAAGCATCCTACTCTTTGAGGATTGTAAGGTGCCAC
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACATCCTACTCTTTGAGGATTGGAAGGTGCCAC
* **
7223871 CAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGATTGAAAGATGCCACCAAC
66 CAACTTGTGTAGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACCGAAAGATGCCACCAAC
7223936 TTGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTCTTTAAGGACTAAAAGGTGCCACCAACTTGT
131 TTGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTCTTTAAGGACTAAAAGGTGCCACCAACTTGT
*
7224001 GTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAAGACTGAAAAA
196 GTAGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAAGACT-----A
*
7224048 TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAA
7224081 GGCATCTTGC
Statistics
Matches: 244, Mismatches: 24, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
236 22 0.09
237 191 0.78
238 1 0.00
242 30 0.12
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (237 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACATCCTACTCTTTGAGGATTGGAAGGTGCCAC
CAACTTGTGTAGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACCGAAAGATGCCACCAAC
TTGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTCTTTAAGGACTAAAAGGTGCCACCAACTTGT
GTAGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAAGACTA
Found at i:7224103 original size:61 final size:61
Alignment explanation
Indices: 7223476--7224106 Score: 709
Period size: 61 Copynumber: 10.5 Consensus size: 61
7223466 AAAAGGAAAT
* * * * **
7223476 AAAGTGCGTCCTGCTCTTTGGGGACTAGAATA-TGCCACCAACTCGTATGGGCTTTGCAAGGA
1 AAAG-GCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * * *
7223538 GAAA-GCGTCCTGCTTTTTGAGGACT-AGAAGGTGCCACCAACTTATGTGGGCTTTGAAAGGA
1 -AAAGGCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * * * *
7223599 AAA--CGTCTTGCTCTTTGAGGATTGGAATGTGCCACCAACTTGTGTAGGCTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * * *
7223658 AAAGGCGTCCTGCTCTTTGAGGACCGAAAATTGCTACCAACTTGTGTGGTCTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * * *
7223719 AAAGGTGTCTTGCTCTTTAAGGACT-AAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGG-A
* * * *
7223781 AAAGGTGTCTTGCTCTTTGAGGACT------TGCCATCAACTTGTGTGGGCTTTGAAAGG-
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * * * *
7223835 AAA-GCATCCTACTCTTTGAGGATTGTAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
*
7223895 AAAGGCGTCCTGCTCTTTGAGGATTG-AAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTTGTGTGGGCTTTAAAAGGA
* *
7223956 AAAGACGTCCTGCTCTTTAAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * *
7224017 AAAGGCATCCTGCTCTTTGAAGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * *
7224078 AAAGGCATCTTGCTCCTTGAGGACTGAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAA
7224107 GGATAAAAGG
Statistics
Matches: 491, Mismatches: 58, Indels: 40
0.83 0.10 0.07
Matches are distributed among these distances:
53 16 0.03
54 3 0.01
56 26 0.05
59 78 0.16
60 14 0.03
61 321 0.65
62 30 0.06
63 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (61 bp):
AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Found at i:7234617 original size:67 final size:67
Alignment explanation
Indices: 7234509--7234641 Score: 248
Period size: 67 Copynumber: 2.0 Consensus size: 67
7234499 AGAAAAGCAA
7234509 CATAATCACAAGTATTTATAAGAGATGATCTAGTTCTTATCCCATGACTTAGATTACCGATAATC
1 CATAATCACAAGTATTTATAAGAGATGATCTAGTTCTTATCCCATGACTTAGATTACCGATAATC
7234574 TG
66 TG
* *
7234576 CATAATCACAAGTATTTCTAAGAGATGATCTAGTTCTTATCCCATGACTTGGATTACCGATAATC
1 CATAATCACAAGTATTTATAAGAGATGATCTAGTTCTTATCCCATGACTTAGATTACCGATAATC
7234641 T
66 T
7234642 CACCTTCTTG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (67 bp):
CATAATCACAAGTATTTATAAGAGATGATCTAGTTCTTATCCCATGACTTAGATTACCGATAATC
TG
Found at i:7237422 original size:19 final size:18
Alignment explanation
Indices: 7237397--7237525 Score: 108
Period size: 19 Copynumber: 7.8 Consensus size: 18
7237387 ATTTCAGCGA
7237397 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
7237415 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
7237431 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
7237447 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
7237463 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
7237479 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
7237495 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
7237511 TTTTATATCGATACA
1 -TTTGTATCGATACA
7237526 ATGTATCGCT
Statistics
Matches: 91, Mismatches: 1, Indels: 37
0.71 0.01 0.29
Matches are distributed among these distances:
13 33 0.36
15 6 0.07
17 6 0.07
18 1 0.01
19 45 0.49
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.36
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:7237435 original size:32 final size:32
Alignment explanation
Indices: 7237399--7237533 Score: 252
Period size: 32 Copynumber: 4.2 Consensus size: 32
7237389 TTCAGCGATT
7237399 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
7237431 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
7237463 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
7237495 TGTATCGATACATAAGTTTTATATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
7237527 TGTATCG
1 TGTATCG
7237534 CTAGGAAGCT
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 101 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:7237436 original size:13 final size:13
Alignment explanation
Indices: 7237418--7237506 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 13
7237408 ACATAAGTGT
7237418 TGTATCGATACAA
1 TGTATCGATACAA
7237431 TGTATCGATACATAA
1 TGTATCGATAC--AA
7237446 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
7237463 TGTATCGATACATAA
1 TGTATCGATAC--AA
7237478 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
7237495 TGTATCGATACA
1 TGTATCGATACA
7237507 TAAGTTTTAT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 34 0.53
15 4 0.06
17 4 0.06
19 22 0.34
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:7237595 original size:13 final size:13
Alignment explanation
Indices: 7237577--7237602 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7237567 CATTGTTCTG
7237577 TGTATCGATACAT
1 TGTATCGATACAT
7237590 TGTATCGATACAT
1 TGTATCGATACAT
7237603 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:7237620 original size:34 final size:33
Alignment explanation
Indices: 7237398--7237623 Score: 119
Period size: 32 Copynumber: 7.0 Consensus size: 33
7237388 TTTCAGCGAT
* * *
7237398 TTGTATCGATACATAAGTGT-TGTATCGATACA
1 TTGTATCGATACATTATTCTGTGTATCGATACA
* * * *
7237430 ATGTATCGATACATAAGTGT-TGTATCGATACA
1 TTGTATCGATACATTATTCTGTGTATCGATACA
* * * *
7237462 ATGTATCGATACATAAGTGT-TGTATCGATACA
1 TTGTATCGATACATTATTCTGTGTATCGATACA
* * *
7237494 ATGTATCGATACATAAGTT-T-TATATCGATACA
1 TTGTATCGATACATTA-TTCTGTGTATCGATACA
* * * *** * ** **
7237526 ATGTATCGCTAGGAAGCTACTG-CCAAGGA-A-A
1 TTGTATCGATA-CATTATTCTGTGTATCGATACA
*
7237557 -TGTATCGATACATTGTTCTGTGTATCGATACA
1 TTGTATCGATACATTATTCTGTGTATCGATACA
*
7237589 TTGTATCGATACATCTATTCTTTGTATCGATACA
1 TTGTATCGATACAT-TATTCTGTGTATCGATACA
7237623 T
1 T
7237624 CTAGGAAGTT
Statistics
Matches: 160, Mismatches: 25, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
29 5 0.03
30 12 0.08
31 2 0.01
32 104 0.65
33 19 0.12
34 18 0.11
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATTATTCTGTGTATCGATACA
Found at i:7240026 original size:51 final size:51
Alignment explanation
Indices: 7239970--7240086 Score: 147
Period size: 51 Copynumber: 2.4 Consensus size: 51
7239960 AATTCTCCGC
*
7239970 AATCGGGGATA-TCCTAACTCCGATTTTATTT-TCAAAACA-CTAATTTTCTAT
1 AATCGGGGATACTCC-AACGCCGATTTTATTTCT-AAAACATC-AATTTTCTAT
7240021 AATCGGGGATACTCCAACGCCGATTTTATTTCTAAAACATCAA-TTT-T-T
1 AATCGGGGATACTCCAACGCCGATTTTATTTCTAAAACATCAATTTTCTAT
*
7240069 CATCGGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
7240087 CTCGTTATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
48 18 0.30
49 1 0.02
50 3 0.05
51 34 0.56
52 5 0.08
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (51 bp):
AATCGGGGATACTCCAACGCCGATTTTATTTCTAAAACATCAATTTTCTAT
Found at i:7240106 original size:28 final size:28
Alignment explanation
Indices: 7240066--7240121 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
7240056 AACATCAATT
*
7240066 TTTCATCGGGGATACTCCAACCTCGTTA
1 TTTCATCGGGGATACTCCAACCCCGTTA
7240094 TTTCATCGGGGATACTCCAACCCCGTTA
1 TTTCATCGGGGATACTCCAACCCCGTTA
7240122 CCTCCGAGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.30
Consensus pattern (28 bp):
TTTCATCGGGGATACTCCAACCCCGTTA
Found at i:7240132 original size:28 final size:28
Alignment explanation
Indices: 7240073--7240144 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 28
7240063 ATTTTTCATC
* ** **
7240073 GGGGATACTCCAACCTCGTTATTTCATC
1 GGGGATACTCCAACCCCGTTACCTCAGA
*
7240101 GGGGATACTCCAACCCCGTTACCTCCGA
1 GGGGATACTCCAACCCCGTTACCTCAGA
*
7240129 GGGGATACTCAAACCC
1 GGGGATACTCCAACCC
7240145 TGACTTTATT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.22
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTACCTCAGA
Found at i:7240249 original size:79 final size:78
Alignment explanation
Indices: 7240100--7240304 Score: 191
Period size: 79 Copynumber: 2.6 Consensus size: 78
7240090 GTTATTTCAT
**
7240100 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACT-CAAACCCTGACTTTATTCCCAAAATA
1 CGGGGATACTCCAA-CCCGTTATTTCCGAGGGGATACTCCAAACCC-GACTTTATTCCCAAAATA
* *
7240164 TTGATTTCTCATAAA
64 TCGATTTCTCACAAA
* * * * ** *
7240179 TGGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAATCCCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACC-CGTTATTTCCGAGGGGATACTCCAAACCCGACTTTATTCCCAAAAT-A
*
7240243 TCGATTTCTCACAAC
64 TCGATTTCTCACAAA
* * * *
7240258 CGGAGATACTCCAACCCTGTTATTGT-CAAGGGGACACTCCAACCCCG
1 CGGGGATACTCCAACCC-GTTATT-TCCGAGGGGATACTCCAAACCCG
7240305 TTATTATCTC
Statistics
Matches: 104, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
78 6 0.06
79 91 0.88
80 7 0.07
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (78 bp):
CGGGGATACTCCAACCCGTTATTTCCGAGGGGATACTCCAAACCCGACTTTATTCCCAAAATATC
GATTTCTCACAAA
Found at i:7242869 original size:13 final size:13
Alignment explanation
Indices: 7242851--7242875 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7242841 TTTGAAGCAA
7242851 TGTATCGATACAT
1 TGTATCGATACAT
7242864 TGTATCGATACA
1 TGTATCGATACA
7242876 ATGTGCCATG
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:7242969 original size:19 final size:20
Alignment explanation
Indices: 7242925--7242977 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
7242915 CTGCCAGTTT
**
7242925 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
7242945 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
7242964 CATGTATCGATACA
1 CATGTATCGATACA
7242978 TCGATACAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:7243956 original size:52 final size:52
Alignment explanation
Indices: 7243878--7243981 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
7243868 GACGGTCGCG
7243878 GTTTTCTTTTTGTCATAAAACTCAATACTACATTTTTTCATCAACCTCTGGA
1 GTTTTCTTTTTGTCATAAAACTCAATACTACATTTTTTCATCAACCTCTGGA
*
7243930 GTTTTCTTTTTGTCATAAAACTCAATACTACCTTTTTTCATCAACCTCTGGA
1 GTTTTCTTTTTGTCATAAAACTCAATACTACATTTTTTCATCAACCTCTGGA
7243982 CTAAGGCATG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.44
Consensus pattern (52 bp):
GTTTTCTTTTTGTCATAAAACTCAATACTACATTTTTTCATCAACCTCTGGA
Found at i:7243984 original size:25 final size:25
Alignment explanation
Indices: 7243904--7243984 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
7243894 AAAACTCAAT
*
7243904 ACTACATTTTTTCATCAACCTCTGG
1 ACTACCTTTTTTCATCAACCTCTGG
* ** * * ***
7243929 AGTTTTCTTTTTGTCATAAAACTCAAT
1 A-CTACCTTTTT-TCATCAACCTCTGG
7243956 ACTACCTTTTTTCATCAACCTCTGG
1 ACTACCTTTTTTCATCAACCTCTGG
7243981 ACTA
1 ACTA
7243985 AGGCATGAAA
Statistics
Matches: 37, Mismatches: 17, Indels: 4
0.64 0.29 0.07
Matches are distributed among these distances:
25 14 0.38
26 13 0.35
27 10 0.27
ACGTcount: A:0.26, C:0.25, G:0.07, T:0.42
Consensus pattern (25 bp):
ACTACCTTTTTTCATCAACCTCTGG
Done.