Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold51
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: 3712191
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.32
Warning! 131352 characters in sequence are not A, C, G, or T
File 11 of 23
Found at i:1557046 original size:139 final size:139
Alignment explanation
Indices: 1556786--1557159 Score: 410
Period size: 139 Copynumber: 2.6 Consensus size: 139
1556776 GGGGGTATGA
* * * *
1556786 AAATTTTCAAAATTTTTTGTACCTTTTCGGTTCTTCT-TTAAAGTATGAAATGAATTTTCAAAAA
1 AAATATTCAAAA-TTTTTGTATCTTTTCGGTTC-TCTATTAAAGTACGAAATGAATTTTTAAAAA
* * *
1556850 TTAAAAAATAAATAAATAAAAATTATTATCTTAATTTTTCGAGATTTCTAATATTCCTATGATTT
64 TT-AAAAAT---TAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCTACGATTC
1556915 TTCATAGGAGTATAG
125 TTCATAGGAGTATAG
* * ** * *
1556930 AAATATTCAAAATTTTCGTATCTTTTTGGTTCTCTATTACGGTACGAATTGAATTTTTGAAAATT
1 AAATATTCAAAATTTTTGTATCTTTTCGGTTCTCTATTAAAGTACGAAATGAATTTTTAAAAATT
* * * * * * *
1556995 AAAAATTAATTAAAAATTATTGTCTTAGTTTTTCAAGATTTTTAGTCTTCCTACGATTCTTCGTA
66 AAAAATTAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCTACGATTCTTCATA
*
1557060 GGGGTATAG
131 GGAGTATAG
* * * *
1557069 AAATCTTCAAAATATTTTGTATCTTTTCAGTTCTCCATTAAAGTACGAAAT-AATTTTTTTAGAA
1 AAATATTCAAAAT-TTTTGTATCTTTTCGGTTCTCTATTAAAGTACGAAATGAA--TTTTTAAAA
*
1557133 ATAAAAAAATTAAATAAAAATTATTAT
63 AT-TAAAAATTAAATAAAAATTATTAT
1557160 TATCTTAATT
Statistics
Matches: 191, Mismatches: 34, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
139 71 0.37
140 30 0.16
141 9 0.05
142 30 0.16
143 40 0.21
144 11 0.06
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (139 bp):
AAATATTCAAAATTTTTGTATCTTTTCGGTTCTCTATTAAAGTACGAAATGAATTTTTAAAAATT
AAAAATTAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCTACGATTCTTCATA
GGAGTATAG
Found at i:1557786 original size:156 final size:154
Alignment explanation
Indices: 1557491--1557872 Score: 390
Period size: 155 Copynumber: 2.5 Consensus size: 154
1557481 ATAGGTTCGC
* * * *
1557491 TAATCCTTTTTAAGTCCCTTT-AGGGTAAT-GGGCACTTATAAGTCGAAGGTATCCCATAGGGGT
1 TAATCC-TTTTAAGT-CCTTTAAGGAT-ATCAGGCACTTATAAGTCGAAGGTATCCCATAGAGGC
* * * * **
1557554 ATTTTCATAATTTTTTAGAATTGAGTCATAGGTTGTCACCGGGTTAGCGTTTATGTTGAAAGTGA
63 ATTTTCATAAATTTTTAAAATCGAGTCATAGGTTGTCACCGGGTCAGCGTTTATGCAGAAAGTGA
* *
1557619 GTAATTAGGATAGGTTCTTCCCATTTA
128 GTAATTAGGATAGGTTCATCCCATCTA
* * * * * ** *
1557646 TTATCCTTTTGAAGTCTTTTAAGGGTATCAGGTACTTTTAAGTCGAAAATATCCCCTAGAGGCAT
1 TAATCCTTTT-AAGTCCTTTAAGGATATCAGGCACTTATAAGTCGAAGGTATCCCATAGAGGCAT
* * * * ** * *
1557711 TTTCCTAAAATTTTTAAAATCGAGTCCTAGGTTGTCATCGGGTCCGTTTTTATGCAGAAGGTGGG
65 TTTCAT-AAATTTTTAAAATCGAGTCATAGGTTGTCACCGGGTCAGCGTTTATGCAGAAAGTGAG
* *
1557776 TATTTAGGATAGGTTCATCCTATCTA
129 TAATTAGGATAGGTTCATCCCATCTA
** * * *
1557802 TAATCCTTTTAAGTCCTTTGTGGATATCAGGCACTTCTAAATCGAAGGTATCCTATAGAGGCATT
1 TAATCCTTTTAAGTCCTTTAAGGATATCAGGCACTTATAAGTCGAAGGTATCCCATAGAGGCATT
1557867 TTCATA
66 TTCATA
1557873 TTTTTTCGAG
Statistics
Matches: 182, Mismatches: 41, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
154 11 0.06
155 95 0.52
156 76 0.42
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (154 bp):
TAATCCTTTTAAGTCCTTTAAGGATATCAGGCACTTATAAGTCGAAGGTATCCCATAGAGGCATT
TTCATAAATTTTTAAAATCGAGTCATAGGTTGTCACCGGGTCAGCGTTTATGCAGAAAGTGAGTA
ATTAGGATAGGTTCATCCCATCTA
Found at i:1559649 original size:19 final size:19
Alignment explanation
Indices: 1559625--1559668 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
1559615 TGAACTCTTG
1559625 CTCCATTAACCTTATAGGT
1 CTCCATTAACCTTATAGGT
1559644 CTCCATTAACCTTATAGGT
1 CTCCATTAACCTTATAGGT
*
1559663 CACCAT
1 CTCCAT
1559669 CCCAAATTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (19 bp):
CTCCATTAACCTTATAGGT
Found at i:1562479 original size:36 final size:36
Alignment explanation
Indices: 1562439--1562508 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
1562429 TAAATTTATG
1562439 ATTAAGGGGGAGAAAGAAACATGTGAGGAAACATAA
1 ATTAAGGGGGAGAAAGAAACATGTGAGGAAACATAA
1562475 ATTAAGGGGGAGAAAGAAACATGTGAGGAAACAT
1 ATTAAGGGGGAGAAAGAAACATGTGAGGAAACAT
1562509 GTGATTAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.49, C:0.06, G:0.31, T:0.14
Consensus pattern (36 bp):
ATTAAGGGGGAGAAAGAAACATGTGAGGAAACATAA
Found at i:1562550 original size:21 final size:22
Alignment explanation
Indices: 1562523--1562564 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1562513 TTAAAGGAAA
1562523 TTGTTTTATTAAGGGGGAGAAT
1 TTGTTTTATTAAGGGGGAGAAT
*
1562545 TTTTTTTATTAAGGGGGAGA
1 TTGTTTTATTAAGGGGGAGA
1562565 GAAAAGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.43
Consensus pattern (22 bp):
TTGTTTTATTAAGGGGGAGAAT
Found at i:1563134 original size:13 final size:13
Alignment explanation
Indices: 1563116--1563140 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1563106 ATAATGCACA
1563116 GTATCGATACATT
1 GTATCGATACATT
1563129 GTATCGATACAT
1 GTATCGATACAT
1563141 GACTACTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1569873 original size:30 final size:30
Alignment explanation
Indices: 1569813--1570013 Score: 90
Period size: 30 Copynumber: 6.4 Consensus size: 30
1569803 AATGACACCC
** * * *
1569813 TTTCAAAGTCCACAACTTAGTAGCATCTTT
1 TTTCAAAGTCCATGACTTCGTGGCACCTTT
1569843 TTTCAAAGTCCATGACTTCGTGGCACCTTT
1 TTTCAAAGTCCATGACTTCGTGGCACCTTT
* *
1569873 TTTCCTTTTAAAGTCTATGA-ATCAGTGGCA--TTT
1 TTT-C----AAAGTCCATGACTTC-GTGGCACCTTT
** *
1569906 TTTCTTAAAGTCCATGAC-TCAGTGAAATCTTTTT
1 TTTC--AAAGTCCATGACTTC-GTGGCA-C-CTTT
* * *
1569940 TCTTCAAAGTCCACGACTTAGTGGCATCATTTT
1 T-TTCAAAGTCCATGACTTCGTGGCA-C-CTTT
* *
1569973 TCTTTAAAGTCCATAACTTCGTGGCACCTTT
1 T-TTCAAAGTCCATGACTTCGTGGCACCTTT
1570004 TTT--AAGTCCA
1 TTTCAAAGTCCA
1570014 CAACTCTATG
Statistics
Matches: 138, Mismatches: 20, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
28 7 0.05
30 49 0.36
31 5 0.04
32 2 0.01
33 49 0.36
34 7 0.05
35 19 0.14
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (30 bp):
TTTCAAAGTCCATGACTTCGTGGCACCTTT
Found at i:1569916 original size:65 final size:63
Alignment explanation
Indices: 1569814--1570006 Score: 185
Period size: 65 Copynumber: 3.0 Consensus size: 63
1569804 ATGACACCCT
* * *
1569814 TTCAAAGTCCAC-AACTTAGTAGCATCTTTTT-TCAAAGTCCATGACTTCGTGGCACCTTTTTTC
1 TTCAAAGTCCACGAA-TCAGTGGCAT-TTTTTCTTAAAGTCCATGACTTCGTGGCACCTTTTTT-
1569877 C
63 C
* * * ** *
1569878 TTTTAAAGTCTATGAATCAGTGGCATTTTTTCTTAAAGTCCATGAC-TCAGTGAAATCTTTTTTC
1 -TTCAAAGTCCACGAATCAGTGGCATTTTTTCTTAAAGTCCATGACTTC-GTGGCACCTTTTTTC
* * *
1569942 TTCAAAGTCCACGACTTAGTGGCATCATTTTTCTTTAAAGTCCATAACTTCGTGGCACCTTTTTT
1 TTCAAAGTCCACGAATCAGTGGCAT--TTTTTC-TTAAAGTCCATGACTTCGTGGCACCTTTTTT
1570007 AAGTCCACAA
Statistics
Matches: 103, Mismatches: 18, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
63 20 0.19
64 8 0.08
65 47 0.46
66 26 0.25
67 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.40
Consensus pattern (63 bp):
TTCAAAGTCCACGAATCAGTGGCATTTTTTCTTAAAGTCCATGACTTCGTGGCACCTTTTTTC
Found at i:1569997 original size:33 final size:32
Alignment explanation
Indices: 1569812--1570186 Score: 169
Period size: 33 Copynumber: 11.8 Consensus size: 32
1569802 CAATGACACC
* *
1569812 CTTTCAAAGTCCACAACTTAGTAGCATC-TTTT
1 CTTT-AAAGTCCACAACTTCGTGGCATCTTTTT
* ** *
1569844 -TTCAAAGTCCATGACTTCGTGGCACCTTTTTT
1 CTTTAAAGTCCACAACTTCGTGGCATC-TTTTT
* *
1569876 CCTTTTAAAGTCTATGAA--TCAGTGGCAT-TTTTT
1 -C-TTTAAAGTCCA-CAACTTC-GTGGCATCTTTTT
** **
1569909 C-TTAAAGTCCATGAC-TCAGTGAAATCTTTTTT
1 CTTTAAAGTCCACAACTTC-GTGGCATC-TTTTT
* * *
1569941 CTTCAAAGTCCACGACTTAGTGGCATCATTTTT
1 CTTTAAAGTCCACAACTTCGTGGCATC-TTTTT
* *
1569974 CTTTAAAGTCCATAACTTCGTGGCA-C-CTTT
1 CTTTAAAGTCCACAACTTCGTGGCATCTTTTT
*
1570004 -TTT-AAGTCCACAAC-TCTATGGCA-CTGTTTCT
1 CTTTAAAGTCCACAACTTC-GTGGCATCT-TTT-T
* *
1570035 CTTT-AATTCCACAACTTTGTGGCATCTTTTT
1 CTTTAAAGTCCACAACTTCGTGGCATCTTTTT
* * * *
1570066 CTTTTAAAATCCATAACTTTGTGGCACCTTTTT
1 C-TTTAAAGTCCACAACTTCGTGGCATCTTTTT
* * *
1570099 CTTTTAAAAGTCTACAACTCCGTGGCA-C---CT
1 C-TTT-AAAGTCCACAACTTCGTGGCATCTTTTT
* * *
1570129 CTTT-AAGTCCACAAC-TCGGTGGCACCGTTTC
1 CTTTAAAGTCCACAACTTC-GTGGCATCTTTTT
*
1570160 CTTTCAAAAGTCCATAACTTCGTGGCA
1 CTTT--AAAGTCCACAACTTCGTGGCA
1570187 CCCCTTTAAG
Statistics
Matches: 265, Mismatches: 47, Indels: 60
0.71 0.13 0.16
Matches are distributed among these distances:
26 1 0.00
27 18 0.07
28 17 0.06
29 7 0.03
30 42 0.16
31 9 0.03
32 36 0.14
33 82 0.31
34 35 0.13
35 17 0.06
36 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.38
Consensus pattern (32 bp):
CTTTAAAGTCCACAACTTCGTGGCATCTTTTT
Found at i:1570039 original size:61 final size:60
Alignment explanation
Indices: 1569973--1570238 Score: 207
Period size: 61 Copynumber: 4.3 Consensus size: 60
1569963 GCATCATTTT
* *
1569973 TCTTTAAAGTCCATAACTTCGTGGCACCTTTTTTAAGTCCACAACTCTATGGCACTGTTTC
1 TCTTTAAAGTCCACAACTTCGTGGCACC-TCTTTAAGTCCACAACTCTATGGCACTGTTTC
* * * * * * * *
1570034 TCTTT-AATTCCACAACTTTGTGGCATCTTTTTCTTTTAAAATCCATAACTTTGTGGCACCTTTT
1 TCTTTAAAGTCCACAACTTCGTGGCA-C---CTC-TTT-AAGTCCACAACTCTATGGCA-CTGTT
1570098 TC
59 TC
* * ** *
1570100 T-TTTAAAAGTCTACAACTCCGTGGCACCTCTTTAAGTCCACAACTCGGTGGCACCGTTTC
1 TCTTT-AAAGTCCACAACTTCGTGGCACCTCTTTAAGTCCACAACTCTATGGCACTGTTTC
* * * * *
1570160 -CTTTCAAAAGTCCATAACTTCGTGGCACCCCTTTAAGTCCACAACTCCATGGCGCCTTTTTC
1 TCTTT--AAAGTCCACAACTTCGTGGCACCTCTTTAAGTCCACAACTCTATGGC-ACTGTTTC
*
1570222 TGTTT-AAGTCCACAACT
1 TCTTTAAAGTCCACAACT
1570239 CTATGGTACC
Statistics
Matches: 160, Mismatches: 32, Indels: 27
0.73 0.15 0.12
Matches are distributed among these distances:
60 36 0.22
61 64 0.40
62 8 0.05
63 6 0.04
64 3 0.02
65 19 0.12
66 8 0.05
67 16 0.10
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (60 bp):
TCTTTAAAGTCCACAACTTCGTGGCACCTCTTTAAGTCCACAACTCTATGGCACTGTTTC
Found at i:1570142 original size:27 final size:27
Alignment explanation
Indices: 1570106--1570212 Score: 97
Period size: 27 Copynumber: 3.7 Consensus size: 27
1570096 TTTCTTTTAA
*
1570106 AAGTCTACAACTCCGTGGCACCTCTTT
1 AAGTCCACAACTCCGTGGCACCTCTTT
*
1570133 AAGTCCACAACTCGGTGGCACCGTTTCCTTT
1 AAGTCCACAACTCCGTGGCACC---T-CTTT
* * *
1570164 CAAAAGTCCATAACTTCGTGGCACCCCTTT
1 ---AAGTCCACAACTCCGTGGCACCTCTTT
*
1570194 AAGTCCACAACTCCATGGC
1 AAGTCCACAACTCCGTGGC
1570213 GCCTTTTTCT
Statistics
Matches: 64, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
27 36 0.56
30 5 0.08
31 4 0.06
34 19 0.30
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCACCTCTTT
Found at i:1570228 original size:94 final size:92
Alignment explanation
Indices: 1569978--1570239 Score: 248
Period size: 94 Copynumber: 2.8 Consensus size: 92
1569968 ATTTTTCTTT
* * * *
1569978 AAAGTCCATAACTTCGTGGCACCTTTTTTAAGTCCACAACTCTATGGCACTGTTTCTCTTTAATT
1 AAAGTCCATAACTTCGTGGCACCTCTTTTAAGTCCACAACTCCATGGCCCT-TTTCT-TTTAAGT
** * * * *
1570043 CCACAACTTTGTGGCATCTTTTTCTTTTA
64 CCACAACTCGGTGGCACCGTTTCCTTTCA
* * *
1570072 AAA-TCCATAACTTTGTGGCACCTTTTTCTTTTAAAAGTCTACAACTCCGTGGCACC---TC-TT
1 AAAGTCCATAACTTCGTGGCACC----TCTTTT--AAGTCCACAACTCCATGGC-CCTTTTCTTT
1570132 TAAGTCCACAACTCGGTGGCACCGTTTCCTTTCA
59 TAAGTCCACAACTCGGTGGCACCGTTTCCTTTCA
*
1570166 AAAGTCCATAACTTCGTGGCACC-CCTTTAAGTCCACAACTCCATGGCGCCTTTTTCTGTTTAAG
1 AAAGTCCATAACTTCGTGGCACCTCTTTTAAGTCCACAACTCCATGGC-CC-TTTTCT-TTTAAG
1570230 TCCACAACTC
63 TCCACAACTC
1570240 TATGGTACCT
Statistics
Matches: 136, Mismatches: 18, Indels: 28
0.75 0.10 0.15
Matches are distributed among these distances:
88 19 0.14
90 4 0.03
92 2 0.01
93 18 0.13
94 51 0.38
95 18 0.13
96 2 0.01
97 5 0.04
99 16 0.12
100 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.35
Consensus pattern (92 bp):
AAAGTCCATAACTTCGTGGCACCTCTTTTAAGTCCACAACTCCATGGCCCTTTTCTTTTAAGTCC
ACAACTCGGTGGCACCGTTTCCTTTCA
Found at i:1570289 original size:32 final size:32
Alignment explanation
Indices: 1570251--1570712 Score: 434
Period size: 32 Copynumber: 14.3 Consensus size: 32
1570241 ATGGTACCTT
*
1570251 TCAAAGCCCAGACAAGTCGGTGGCAACCTTTC
1 TCAAAGCCCACACAAGTCGGTGGCAACCTTTC
*
1570283 TCAAAGCCCACACAAGTCAGTGGCAACCCTTGTC
1 TCAAAGCCCACACAAGTCGGTGGCAA-CCTT-TC
* * * * *
1570317 T-AAAACCCGCACAAGTTGATGGCAACCATTC
1 TCAAAGCCCACACAAGTCGGTGGCAACCTTTC
* *
1570348 TCAAAGCCCACACAAGTTGGTGGCAACCCTTC
1 TCAAAGCCCACACAAGTCGGTGGCAACCTTTC
**
1570380 TCAAAGCCCACACAAGTTAGTGGCAACCCTTT-
1 TCAAAGCCCACACAAGTCGGTGGCAA-CCTTTC
* *
1570412 TCTAAAGCCCACATAAGTCGGTGGCAACCCTTC
1 TC-AAAGCCCACACAAGTCGGTGGCAACCTTTC
* * *
1570445 TCAAAGCCCACACAACTTGGTGGCAACCCTTTT
1 TCAAAGCCCACACAAGTCGGTGGCAA-CCTTTC
* * * * *
1570478 TTAAAGCCTACACAAGTCGGTGTCAACCCTTG
1 TCAAAGCCCACACAAGTCGGTGGCAACCTTTC
* * *
1570510 TCAAAGCCGACAGAAGTCGGTGGCAACCGTTC
1 TCAAAGCCCACACAAGTCGGTGGCAACCTTTC
** *
1570542 TCAAAGCCCACACAAGTTAGTGGCAA-TTGTTC
1 TCAAAGCCCACACAAGTCGGTGGCAACCT-TTC
*
1570574 TCAAAGCCCACACAAGTCAGTGGCAACCTTTC
1 TCAAAGCCCACACAAGTCGGTGGCAACCTTTC
* * * * * *
1570606 TTTAAAGGCCACATAAGTTGATGGCAACTTTTC
1 -TCAAAGCCCACACAAGTCGGTGGCAACCTTTC
* *
1570639 T-AAAGCCCACACAAGTCGGTAGCAAACCCCTTC
1 TCAAAGCCCACACAAGTCGGTGGC-AA-CCTTTC
* *
1570672 -AAAAGCCCACACAAGTCAGG-GGCAACC-CTC
1 TCAAAGCCCACACAAGTC-GGTGGCAACCTTTC
1570702 TCAAAAGCCCA
1 TC-AAAGCCCA
1570713 TAAAAATCGA
Statistics
Matches: 353, Mismatches: 61, Indels: 32
0.79 0.14 0.07
Matches are distributed among these distances:
30 2 0.01
31 22 0.06
32 201 0.57
33 123 0.35
34 5 0.01
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (32 bp):
TCAAAGCCCACACAAGTCGGTGGCAACCTTTC
Found at i:1570340 original size:65 final size:64
Alignment explanation
Indices: 1570247--1570700 Score: 425
Period size: 65 Copynumber: 7.0 Consensus size: 64
1570237 CTCTATGGTA
* *
1570247 CCTT-TCAAAGCCCAGACAAGTCGGTGGCAACCTTTCTCAAAGCCCACACAAGTCAGTGGCAAC
1 CCTTGTCAAAGCCCACACAAGTTGGTGGCAACCTTTCTCAAAGCCCACACAAGTCAGTGGCAAC
* * * * **
1570310 CCTTGTCTAAAACCCGCACAAGTTGATGGCAACCATTCTCAAAGCCCACACAAGTTGGTGGCAAC
1 CCTTGTC-AAAGCCCACACAAGTTGGTGGCAACCTTTCTCAAAGCCCACACAAGTCAGTGGCAAC
* * * *
1570375 CCTTCTCAAAGCCCACACAAGTTAGTGGCAACCCTTT-TCTAAAGCCCACATAAGTCGGTGGCAA
1 CCTTGTCAAAGCCCACACAAGTTGGTGGCAA-CCTTTCTC-AAAGCCCACACAAGTCAGTGGCAA
1570439 C
64 C
* * * * * * *
1570440 CCTTCTCAAAGCCCACACAACTTGGTGGCAACCCTTTTTTAAAGCCTACACAAGTCGGTGTCAAC
1 CCTTGTCAAAGCCCACACAAGTTGGTGGCAA-CCTTTCTCAAAGCCCACACAAGTCAGTGGCAAC
* * * * * *
1570505 CCTTGTCAAAGCCGACAGAAGTCGGTGGCAACCGTTCTCAAAGCCCACACAAGTTAGTGGCAAT
1 CCTTGTCAAAGCCCACACAAGTTGGTGGCAACCTTTCTCAAAGCCCACACAAGTCAGTGGCAAC
** * ** * * * *
1570569 TGTTCTCAAAGCCCACACAAGTCAGTGGCAACCTTTCTTTAAAGGCCACATAAGT-TGATGGCAA
1 CCTTGTCAAAGCCCACACAAGTTGGTGGCAACCTTTC-TCAAAGCCCACACAAGTCAG-TGGCAA
1570633 -
64 C
* * * * * *
1570633 -CTTTTCTAAAGCCCACACAAGTCGGTAGCAAACCCCTTC-AAAAGCCCACACAAGTCAGGGGCA
1 CCTTGTC-AAAGCCCACACAAGTTGGTGGC-AA-CCTTTCTCAAAGCCCACACAAGTCAGTGGCA
1570696 AC
63 AC
1570698 CCT
1 CCT
1570701 CTCAAAAGCC
Statistics
Matches: 322, Mismatches: 56, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
63 8 0.02
64 118 0.37
65 188 0.58
66 8 0.02
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.20
Consensus pattern (64 bp):
CCTTGTCAAAGCCCACACAAGTTGGTGGCAACCTTTCTCAAAGCCCACACAAGTCAGTGGCAAC
Found at i:1570371 original size:97 final size:97
Alignment explanation
Indices: 1570251--1570700 Score: 503
Period size: 97 Copynumber: 4.6 Consensus size: 97
1570241 ATGGTACCTT
* *
1570251 TCAAAGCCCAGACAAGTCGGTGGCAACCTTTCTCAAAGCCCACACAAGTCAGTGGCAACCCTTGT
1 TCAAAGCCCACACAAGTTGGTGGCAACCTTTCTCAAAGCCCACACAAGTCAGTGGCAACCCTTGT
* * *
1570316 CTAAAACCCGCACAAGTTGATGGCAACCATTC
66 CTAAAACCCACATAAGTCGATGGCAACCATTC
* * *
1570348 TCAAAGCCCACACAAGTTGGTGGCAACCCTTCTCAAAGCCCACACAAGTTAGTGGCAACCCTTTT
1 TCAAAGCCCACACAAGTTGGTGGCAACCTTTCTCAAAGCCCACACAAGTCAGTGGCAACCCTTGT
* * *
1570413 CTAAAGCCCACATAAGTCGGTGGCAACCCTTC
66 CTAAAACCCACATAAGTCGATGGCAACCATTC
* * * * * *
1570445 TCAAAGCCCACACAACTTGGTGGCAACCCTTTTTTAAAGCCTACACAAGTCGGTGTCAACCCTTG
1 TCAAAGCCCACACAAGTTGGTGGCAA-CCTTTCTCAAAGCCCACACAAGTCAGTGGCAACCCTTG
* * * * *
1570510 TC-AAAGCCGACAGAAGTCGGTGGCAACCGTTC
65 TCTAAAACCCACATAAGTCGATGGCAACCATTC
* * * *
1570542 TCAAAGCCCACACAAGTTAGTGGCAA-TTGTTCTCAAAGCCCACACAAGTCAGTGGCAACCTTTC
1 TCAAAGCCCACACAAGTTGGTGGCAACCT-TTCTCAAAGCCCACACAAGTCAGTGGCAACCCTTG
* ** * **
1570606 TTTAAAGGCCACATAAGTTGATGGCAACTTTTC
65 TCTAAAACCCACATAAGTCGATGGCAACCATTC
* * * * *
1570639 T-AAAGCCCACACAAGTCGGTAGCAAACCCCTTC-AAAAGCCCACACAAGTCAGGGGCAACCCT
1 TCAAAGCCCACACAAGTTGGTGGC-AA-CCTTTCTCAAAGCCCACACAAGTCAGTGGCAACCCT
1570701 CTCAAAAGCC
Statistics
Matches: 298, Mismatches: 49, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
95 1 0.00
96 48 0.16
97 214 0.72
98 35 0.12
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.20
Consensus pattern (97 bp):
TCAAAGCCCACACAAGTTGGTGGCAACCTTTCTCAAAGCCCACACAAGTCAGTGGCAACCCTTGT
CTAAAACCCACATAAGTCGATGGCAACCATTC
Found at i:1570677 original size:33 final size:32
Alignment explanation
Indices: 1570640--1570712 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 32
1570630 CAACTTTTCT
1570640 AAAGCCCACACAAGTC-GGTAGCAAACCC-CTTCA
1 AAAGCCCACACAAGTCAGG-AGC-AACCCTC-TCA
*
1570673 AAAGCCCACACAAGTCAGGGGCAACCCTCTCA
1 AAAGCCCACACAAGTCAGGAGCAACCCTCTCA
1570705 AAAGCCCA
1 AAAGCCCA
1570713 TAAAAATCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
32 16 0.43
33 19 0.51
34 2 0.05
ACGTcount: A:0.37, C:0.37, G:0.16, T:0.10
Consensus pattern (32 bp):
AAAGCCCACACAAGTCAGGAGCAACCCTCTCA
Found at i:1570908 original size:51 final size:50
Alignment explanation
Indices: 1570789--1570949 Score: 153
Period size: 51 Copynumber: 3.1 Consensus size: 50
1570779 TCAAACCATT
* * *
1570789 TCTTTCTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTT
1 TCTTTCTAAGTCCAATATCGCTGG-CTTGAATCAGCATATTGGCACCTTTG
* * *
1570840 TCTTTCTTAGTTCCAATATCACTGGCTTGAATCAGCATATTGGTACCTTTG
1 TCTTTCTAAG-TCCAATATCGCTGGCTTGAATCAGCATATTGGCACCTTTG
* * * * ** *
1570891 TCATCTT-TAAGTACAATATCGCTGACTTTGAATTAGCATATCGAAACCTTTA
1 TC-T-TTCTAAGTCCAATATCGCTGGC-TTGAATCAGCATATTGGCACCTTTG
1570943 TCTTTCT
1 TCTTTCT
1570950 TCTTATCTTT
Statistics
Matches: 90, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
50 2 0.02
51 48 0.53
52 38 0.42
53 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (50 bp):
TCTTTCTAAGTCCAATATCGCTGGCTTGAATCAGCATATTGGCACCTTTG
Found at i:1571087 original size:113 final size:113
Alignment explanation
Indices: 1570852--1571120 Score: 274
Period size: 113 Copynumber: 2.4 Consensus size: 113
1570842 TTTCTTAGTT
* * * *
1570852 CCAATATCACTGG-CTTGAATCAGCATATTGGTACCTTTGTCATCTTTAAGTACAATATCGCTGA
1 CCAATATCGCTGGCCTTGAATAAGCATATTGGCACCTTTGTCATCTTTAAGTACAATATCACTGA
* * * * *
1570916 CTTTGAATTAGCATATCGAAACCTTTATCTTTCTTCTTATCTTTAAGT
66 CCTTAAATTAGCATATCGAAACCTTTATCATTCTTCTCATCTTTAAGC
** ** * * *
1570964 TTAACGTCGCTGGCCTTGAATAAGTATATTGGCACTTTTGTCATCTTTAAG-CCTAATATCACT-
1 CCAATATCGCTGGCCTTGAATAAGCATATTGGCACCTTTGTCATCTTTAAGTAC-AATATCACTG
* ** *
1571027 AGCCTTAAATTAGCATATTGGCATCTTTATCATTCTTCTCATCTTTAAGC
65 A-CCTTAAATTAGCATATCGAAACCTTTATCATTCTTCTCATCTTTAAGC
* * * * *
1571077 CCGATATCGCTAGCCGTGAATTAGCATATTGGCACCTTTATCAT
1 CCAATATCGCTGGCCTTGAATAAGCATATTGGCACCTTTGTCAT
1571121 TCTTCGCTTA
Statistics
Matches: 123, Mismatches: 31, Indels: 5
0.77 0.19 0.03
Matches are distributed among these distances:
112 10 0.08
113 113 0.92
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.39
Consensus pattern (113 bp):
CCAATATCGCTGGCCTTGAATAAGCATATTGGCACCTTTGTCATCTTTAAGTACAATATCACTGA
CCTTAAATTAGCATATCGAAACCTTTATCATTCTTCTCATCTTTAAGC
Found at i:1571099 original size:61 final size:61
Alignment explanation
Indices: 1571004--1571125 Score: 190
Period size: 61 Copynumber: 2.0 Consensus size: 61
1570994 GGCACTTTTG
* * *
1571004 TCATCTTTAAGCCTAATATCACTAGCCTTAAATTAGCATATTGGCATCTTTATCATTCTTC
1 TCATCTTTAAGCCCAATATCACTAGCCGTAAATTAGCATATTGGCACCTTTATCATTCTTC
* * *
1571065 TCATCTTTAAGCCCGATATCGCTAGCCGTGAATTAGCATATTGGCACCTTTATCATTCTTC
1 TCATCTTTAAGCCCAATATCACTAGCCGTAAATTAGCATATTGGCACCTTTATCATTCTTC
1571126 GCTTATTTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (61 bp):
TCATCTTTAAGCCCAATATCACTAGCCGTAAATTAGCATATTGGCACCTTTATCATTCTTC
Found at i:1571135 original size:61 final size:61
Alignment explanation
Indices: 1571009--1571142 Score: 178
Period size: 61 Copynumber: 2.2 Consensus size: 61
1570999 TTTTGTCATC
* * * * *
1571009 TTTAAGCCTAATATCACTAGCCTTAAATTAGCATATTGGCATCTTTATCATTCTTCTCATC
1 TTTAAGCCCAATATCACTAGCCGTAAATTAGCATATTGGCACCTTTATCATTCTTCGCATA
* * * *
1571070 TTTAAGCCCGATATCGCTAGCCGTGAATTAGCATATTGGCACCTTTATCATTCTTCGCTTA
1 TTTAAGCCCAATATCACTAGCCGTAAATTAGCATATTGGCACCTTTATCATTCTTCGCATA
*
1571131 TTTAAGTCCAAT
1 TTTAAGCCCAAT
1571143 GTGGCCGACC
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (61 bp):
TTTAAGCCCAATATCACTAGCCGTAAATTAGCATATTGGCACCTTTATCATTCTTCGCATA
Found at i:1571234 original size:61 final size:62
Alignment explanation
Indices: 1571040--1571281 Score: 228
Period size: 61 Copynumber: 4.0 Consensus size: 62
1571030 CTTAAATTAG
* * * * * * *
1571040 CATATTGGCA-TCTTTATCATTCTTCT-CATCTTTAAGCCCGATATCGCT-AGCCGTGAATTAG
1 CATATTGGCACTATTTATCATTCTT-TGCATCTTTAAGTCCAATGTCGCTGA-CCTTGAATCAC
* * * * * *
1571101 CATATTGGCAC-CTTTATCATTCTTCGCTTATTTAAGTCCAATGTGGCCGACCTTGAATCAC
1 CATATTGGCACTATTTATCATTCTTTGCATCTTTAAGTCCAATGTCGCTGACCTTGAATCAC
*
1571162 TATATTGGCACT-TTTATCATTCTTTGCATCTTTAAGTCCAATGTCGCTGACCTTGAATCAC
1 CATATTGGCACTATTTATCATTCTTTGCATCTTTAAGTCCAATGTCGCTGACCTTGAATCAC
* * * * * *
1571223 CATATTGGCACTATTT-TCA-TCTTTATCATCTTTAAGGCCAGTGTCACAGGCCTTGAATC
1 CATATTGGCACTATTTATCATTCTTT-GCATCTTTAAGTCCAATGTCGCTGACCTTGAATC
1571282 TACACACTGG
Statistics
Matches: 151, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
60 5 0.03
61 142 0.94
62 4 0.03
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.38
Consensus pattern (62 bp):
CATATTGGCACTATTTATCATTCTTTGCATCTTTAAGTCCAATGTCGCTGACCTTGAATCAC
Found at i:1577978 original size:61 final size:59
Alignment explanation
Indices: 1577826--1578080 Score: 272
Period size: 61 Copynumber: 4.3 Consensus size: 59
1577816 TCGCCTTTTT
** * *
1577826 GTCCTCAAAGAGCAGGA---TACCTTTT-AAAGCCCACACAAGCTGGTGGCAC-CTTCA
1 GTCCTCAAAGAGCAGGACGTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
* * *
1577880 ATCCTCAGAA-AGCAGGACACCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCA
1 GTCCTCA-AAGAGCAGG--ACGTT-TTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
* * * *
1577941 GTCCTCAAAGAGCAGGATGTTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGTACCTTCCA
1 GTCCTCAAAGAGCAGGACGTTTTC-TTTT-CAAAGCCCACACAAGTTGGTGGCACTTTTCA
* *
1578002 GTCCTCAAAGGGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTCA
1 GTCCTCAAAGAGCAGGACG--TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
1578063 GTCCTCAAAGAGCAGGAC
1 GTCCTCAAAGAGCAGGAC
1578081 ACACTTCTTG
Statistics
Matches: 169, Mismatches: 18, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
54 12 0.07
55 2 0.01
56 1 0.01
58 2 0.01
59 8 0.05
60 31 0.18
61 104 0.62
62 4 0.02
63 5 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (59 bp):
GTCCTCAAAGAGCAGGACGTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
Found at i:1578051 original size:122 final size:121
Alignment explanation
Indices: 1577851--1578079 Score: 354
Period size: 122 Copynumber: 1.9 Consensus size: 121
1577841 GATACCTTTT
1577851 AAAGCCCACACAAGCTGGTGGCACCTTCAATCCTCAGAAAGCAGGACACCTTCTCCTTTTAAAGC
1 AAAGCCCACACAAGCTGGTGGCACCTTCAATCCTCAGAAAGCAGGACACCTTCTCCTTTTAAAGC
1577916 CCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGTTTTCTTTTTGC
66 CCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGTTTTCTTTTTGC
* * * * * *
1577972 AAAGCCCACACAAGTTGGTGGTACCTTCCAGTCCTCA-AAGGGCAGGACGCCTT-TTCTTTTCAA
1 AAAGCCCACACAAGCTGGTGGCACCTT-CAATCCTCAGAA-AGCAGGACACCTTCTCCTTTT-AA
*
1578035 AGCCCACACGAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
63 AGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
1578080 CACACTTCTT
Statistics
Matches: 98, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
121 33 0.34
122 65 0.66
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (121 bp):
AAAGCCCACACAAGCTGGTGGCACCTTCAATCCTCAGAAAGCAGGACACCTTCTCCTTTTAAAGC
CCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGTTTTCTTTTTGC
Found at i:1578167 original size:42 final size:42
Alignment explanation
Indices: 1578063--1578197 Score: 121
Period size: 42 Copynumber: 3.1 Consensus size: 42
1578053 GCACTTTTCA
* * *
1578063 GTCCTCAAAGAGCAGGACACACTTC-TTGCCCTTCTTTTCTCTTTT
1 GTCCTCAAAGAGCAGGACGCATTTCATT-TCC--CTTTT-TCTTTT
* *
1578108 GTCCTAAAAGAGCAGGACGCACTTT-ATTTTCCTTTTTCTTTT
1 GTCCTCAAAGAGCAGGACGCA-TTTCATTTCCCTTTTTCTTTT
* * * * *
1578150 GTCCTCAGAGAGTAGGACGTATTTCGTTTCCCTTTTTCCTTT
1 GTCCTCAAAGAGCAGGACGCATTTCATTTCCCTTTTTCTTTT
1578192 GTCCTC
1 GTCCTC
1578198 GAAAAACGAG
Statistics
Matches: 75, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
41 3 0.04
42 43 0.57
43 5 0.07
45 20 0.27
46 4 0.05
ACGTcount: A:0.17, C:0.27, G:0.16, T:0.41
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACGCATTTCATTTCCCTTTTTCTTTT
Found at i:1578241 original size:119 final size:117
Alignment explanation
Indices: 1578105--1578320 Score: 251
Period size: 119 Copynumber: 1.8 Consensus size: 117
1578095 TCTTTTCTCT
* * * *
1578105 TTTGTCCTAAAAGAGCAGGACGCACTTT-ATTTTC-CTTTTTCTTTTGTCCTC-AGAGAGTAGGA
1 TTTGTCCTAAAAGAGCAGGA--CACTTTCATTTTCTCTTTTTCCTTGGTCCTCAAG-GAGCAAGA
* * *
1578167 CGTATTTCGTTTCCCTTTTTCCTTTGTCCTCGAAAAACGAGATGTACTCTTTTTCAC
63 CCTATTTC-ATTCCC-TTTTCCTTTGTCCTCAAAAAACGAGATGTACTCTTTTTCAC
* * *
1578224 TTTGTCCT-CAAGAAGCAGGACACTTTCCTTTTCTTTTTTTCCTTGGTCCTCAAGGAGCAAGACC
1 TTTGTCCTAAAAG-AGCAGGACACTTTCATTTTCTCTTTTTCCTTGGTCCTCAAGGAGCAAGACC
*
1578288 TATTTCATTCTCTTTTCCTTTGTCCTCAAAAAA
65 TATTTCATTCCCTTTTCCTTTGTCCTCAAAAAA
1578321 TGGGACACCC
Statistics
Matches: 82, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
117 26 0.32
118 12 0.15
119 42 0.51
120 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (117 bp):
TTTGTCCTAAAAGAGCAGGACACTTTCATTTTCTCTTTTTCCTTGGTCCTCAAGGAGCAAGACCT
ATTTCATTCCCTTTTCCTTTGTCCTCAAAAAACGAGATGTACTCTTTTTCAC
Found at i:1578302 original size:43 final size:43
Alignment explanation
Indices: 1578216--1578303 Score: 99
Period size: 42 Copynumber: 2.0 Consensus size: 43
1578206 AGATGTACTC
* * * *
1578216 TTTTTCACTTTGTCCTCAAGAAGCAGGACACTTTCCTTTTCTT
1 TTTTTCACTTGGTCCTCAAGAAGCAAGACACTTTCATTCTCTT
*
1578259 TTTTTC-CTTGGTCCTCAAGGAGCAAGAC-CTATTTCATTCTCTT
1 TTTTTCACTTGGTCCTCAAGAAGCAAGACAC--TTTCATTCTCTT
1578302 TT
1 TT
1578304 CCTTTGTCCT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
41 1 0.03
42 19 0.50
43 18 0.47
ACGTcount: A:0.18, C:0.25, G:0.12, T:0.44
Consensus pattern (43 bp):
TTTTTCACTTGGTCCTCAAGAAGCAAGACACTTTCATTCTCTT
Found at i:1578953 original size:13 final size:13
Alignment explanation
Indices: 1578935--1578960 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1578925 CATTATTCAA
1578935 TGTATCGATACAT
1 TGTATCGATACAT
1578948 TGTATCGATACAT
1 TGTATCGATACAT
1578961 CGATCTTTGT
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:1579023 original size:20 final size:19
Alignment explanation
Indices: 1578998--1579085 Score: 89
Period size: 20 Copynumber: 4.8 Consensus size: 19
1578988 GTTTACCCAG
1578998 TTGTATCGATACATTTTGCA
1 TTGTATCGATACATTTT-CA
1579018 TTGTATCGAT--A----CA
1 TTGTATCGATACATTTTCA
*
1579031 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATT-TTCA
1579051 TTGTATCGATACATTTTACA
1 TTGTATCGATACATTTT-CA
*
1579071 ATGTATCGATACATT
1 TTGTATCGATACATT
1579086 CAGGCATTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
13 12 0.21
15 1 0.02
18 1 0.02
19 1 0.02
20 43 0.74
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (19 bp):
TTGTATCGATACATTTTCA
Found at i:1579040 original size:33 final size:33
Alignment explanation
Indices: 1578998--1579065 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
1578988 GTTTACCCAG
*
1578998 TTGTATCGATACATT-TTGCATTGTATCGATACA
1 TTGTATCGATACATTGCT-CATTGTATCGATACA
1579031 TTGTATCGATACATTGCTCATTGTATCGATACA
1 TTGTATCGATACATTGCTCATTGTATCGATACA
1579064 TT
1 TT
1579066 TTACAATGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (33 bp):
TTGTATCGATACATTGCTCATTGTATCGATACA
Found at i:1579065 original size:13 final size:13
Alignment explanation
Indices: 1579016--1579046 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
1579006 ATACATTTTG
1579016 CATTGTATCGATA
1 CATTGTATCGATA
1579029 CATTGTATCGATA
1 CATTGTATCGATA
1579042 CATTG
1 CATTG
1579047 CTCATTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:1581549 original size:79 final size:79
Alignment explanation
Indices: 1581386--1581668 Score: 360
Period size: 79 Copynumber: 3.6 Consensus size: 79
1581376 TTTTTCTTAA
* * * * *
1581386 TCGAGGGGATACCCCAATCCCGATTTTATTTCTAAAACATCAATTTTTCAT--T-AGGGATACTC
1 TCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTC
*
1581448 CAACCGCGTTATTT
66 CAACCCCGTTATTT
* * *
1581462 TCGAGGGGATACTCTAACCCCGGTTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTC
*
1581527 CAACCTCGTTATTT
66 CAACCCCGTTATTT
* * * *
1581541 TCGAGGGGATACTCCAATCCCGATTTTATTTCT-AAGTCATTGATTTTTCACAATCGGGGATACT
1 TCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAAT-ATTAATTTTTCATAATCGGGGATACT
1581605 CCAACCCCGTTATTT
65 CCAACCCCGTTATTT
* *
1581620 TCGAGGGGATACTCCAACCCCG-TTGTTATCTCCAAAATATTAAATTTTT
1 TCGAGGGGATACTCCAACCCCGATT-TTATTTCTAAAATATT-AATTTTT
1581669 TATCAAAAAA
Statistics
Matches: 178, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
76 44 0.25
78 6 0.03
79 119 0.67
80 9 0.05
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (79 bp):
TCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTC
CAACCCCGTTATTT
Found at i:1583744 original size:93 final size:93
Alignment explanation
Indices: 1583628--1583815 Score: 360
Period size: 93 Copynumber: 2.0 Consensus size: 93
1583618 TCATGAAAGC
1583628 AAATAGTCCTAATTTCATTCATTAATAAAGGTTAAGTACAATCAAAAGCAAAGAAAAAAAGTAAC
1 AAATAGTCCTAATTTCATTCATTAATAAAGGTTAAGTACAATCAAAAGCAAAGAAAAAAAGTAAC
1583693 TA-CTCCTATCACAAAGATCACAAAGACT
66 TACCT-CTATCACAAAGATCACAAAGACT
1583721 AAATAGTCCTAATTTCATTCATTAATAAAGGTTAAGTACAATCAAAAGCAAAGAAAAAAAGTAAC
1 AAATAGTCCTAATTTCATTCATTAATAAAGGTTAAGTACAATCAAAAGCAAAGAAAAAAAGTAAC
1583786 TACCTCTATCACAAAGATCACAAAGACT
66 TACCTCTATCACAAAGATCACAAAGACT
1583814 AA
1 AA
1583816 TCCTATAACT
Statistics
Matches: 94, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
93 92 0.98
94 2 0.02
ACGTcount: A:0.50, C:0.17, G:0.10, T:0.23
Consensus pattern (93 bp):
AAATAGTCCTAATTTCATTCATTAATAAAGGTTAAGTACAATCAAAAGCAAAGAAAAAAAGTAAC
TACCTCTATCACAAAGATCACAAAGACT
Found at i:1587217 original size:13 final size:13
Alignment explanation
Indices: 1587199--1587225 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1587189 ATAGTAACCC
1587199 ATGTATCGATACA
1 ATGTATCGATACA
1587212 ATGTATCGATACA
1 ATGTATCGATACA
1587225 A
1 A
1587226 GGAATGTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1593464 original size:33 final size:33
Alignment explanation
Indices: 1593406--1593474 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
1593396 CTGTTACAAG
*
1593406 CAATGTATCGATACAATTCATCATGTATCCATA
1 CAATGTATCGATACAATTCACCATGTATCCATA
* *
1593439 CAATGTATCGATAC-ATTGTACCATGTATCGATA
1 CAATGTATCGATACAATT-CACCATGTATCCATA
1593472 CAA
1 CAA
1593475 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 3 0.09
33 29 0.91
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACAATTCACCATGTATCCATA
Found at i:1593547 original size:19 final size:19
Alignment explanation
Indices: 1593503--1593558 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
1593493 TTGCCAATTT
**
1593503 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
1593523 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1593542 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1593559 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1593561 original size:13 final size:13
Alignment explanation
Indices: 1593543--1593569 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1593533 TACAATGAAC
1593543 ATGTATCGATACA
1 ATGTATCGATACA
1593556 ATGTATCGATACA
1 ATGTATCGATACA
1593569 A
1 A
1593570 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1593937 original size:21 final size:21
Alignment explanation
Indices: 1593890--1593934 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
1593880 GAGATATTGG
1593890 ACAT-GCT-AAAATGCATGGA
1 ACATGGCTCAAAATGCATGGA
1593909 ACATGGCTCAAAATGCAT-GA
1 ACATGGCTCAAAATGCATGGA
1593929 ACATGG
1 ACATGG
1593935 GCTGTTTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.17
20 11 0.46
21 9 0.38
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.20
Consensus pattern (21 bp):
ACATGGCTCAAAATGCATGGA
Found at i:1594887 original size:21 final size:20
Alignment explanation
Indices: 1594840--1594895 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
1594830 CAAAAACTTA
1594840 AAATGTATCGATAC-AATGG
1 AAATGTATCGATACAAATGG
*
1594859 ATAATGTATCGATACAAATAGT
1 A-AATGTATCGATACAAAT-GG
1594881 AAATGTATCGATACA
1 AAATGTATCGATACA
1594896 TTTACTTATG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 1 0.03
20 13 0.39
21 17 0.52
22 2 0.06
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.29
Consensus pattern (20 bp):
AAATGTATCGATACAAATGG
Found at i:1594986 original size:20 final size:20
Alignment explanation
Indices: 1594943--1594997 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
1594933 AGGGTGGTTT
*
1594943 TGTATCGATACATTTCAGGCA
1 TGTATCGATACA-TTCACGCA
**
1594964 TGTATCGATACATTCACTTA
1 TGTATCGATACATTCACGCA
*
1594984 TGTATCAATACATT
1 TGTATCGATACATT
1594998 TACTGTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTCACGCA
Found at i:1596236 original size:166 final size:167
Alignment explanation
Indices: 1596034--1596346 Score: 375
Period size: 166 Copynumber: 1.9 Consensus size: 167
1596024 GCATTTCAAA
* * * *
1596034 GAAAAAAATGAAAAACTAATAAAAATAAATGAATTTTTCAAAACTGATTTACTATAAATTAAATG
1 GAAAAAAATGAAAAACTAATAAAAATAAAGGAATTTTTCAAAACTAATATACTATAAATTAAATA
* *
1596099 ATGATATTTGATGAAATTTAAAAATTAT-AACCAAGAAAAATCC-CCTTAAAAATAA-TTACGGA
66 ATAATATTTGATGAAATTTAAAAATTATAAACCAAG-AAAATCCTCC-CAAAAA-AATTTACGGA
*
1596161 GTAGAAAACTTCATATTTCGAATGTAGAGGAAATTGAAAG
128 GAAGAAAACTTCATATTTCGAATGTAGAGGAAATTGAAAG
* * ** * *
1596201 GAAAAAAGT-AAAAATTAAT-AAAATAATAGGAATTTTTTTAAACTAATATATTATGAATTAAAT
1 GAAAAAAATGAAAAACTAATAAAAATAA-AGGAATTTTTCAAAACTAATATACTATAAATTAAAT
* * * * *
1596264 AATAATATTTTATGAATTTTAAAATTTATAAAACCATGAAAATCCTCCCAAAAAAATTTATGGAG
65 AATAATATTTGATGAAATTTAAAAATTAT-AAACCAAGAAAATCCTCCCAAAAAAATTTACGGAG
*
1596329 AAGAAAACTTTATATTTC
129 AAGAAAACTTCATATTTC
1596347 AAAAATAGGA
Statistics
Matches: 122, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
165 7 0.06
166 64 0.52
167 43 0.35
168 8 0.07
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.32
Consensus pattern (167 bp):
GAAAAAAATGAAAAACTAATAAAAATAAAGGAATTTTTCAAAACTAATATACTATAAATTAAATA
ATAATATTTGATGAAATTTAAAAATTATAAACCAAGAAAATCCTCCCAAAAAAATTTACGGAGAA
GAAAACTTCATATTTCGAATGTAGAGGAAATTGAAAG
Found at i:1597404 original size:408 final size:408
Alignment explanation
Indices: 1596649--1597446 Score: 1409
Period size: 408 Copynumber: 2.0 Consensus size: 408
1596639 AAATAAAATT
* *
1596649 TACGTGCATAGTGCTTATGATACCGTGAAAATTTAAAATTAATTTACAAAATTCACAATTCTATA
1 TACGTGCATAGTGCTTATGATACCGTGAAAAGTCAAAATTAATTTACAAAATTCACAATTCTATA
* *
1596714 TTGGGTGGTAGAAAATACCAAAACGTATGTTTTTTTGAAAATTTTTGAGGCATGTATTGGCATAA
66 TTAGGTGGTAGAAAATACCAAAACGTATGTTTTTTGGAAAATTTTTGAGGCATGTATTGGCATAA
* *
1596779 AAACTACACTAGTGTCAGTAAAAATATACGATAGATAATTTTTTTAGGATTTCATAAAAATTTTA
131 AAACTACACTAGTATCAGTAAAAATATACGATAGATAATTTTTTTAGGATTTCATAAAAATTTCA
* *
1596844 GAAAATTTTCAAAAATAAAAAATTTGACTGTGATATCATCTGCATAAATATTTTTCAAAACTTGT
196 GAAAATTCTCAAAAATAAAAAATTTAACTGTGATATCATCTGCATAAATATTTTTCAAAACTTGT
*
1596909 CAAGAAATTATTTAAAAATTTTTTTCTTGGGGGATTTGTCCTTTTTATACGAAAAAAGTGAATTT
261 CAAGAAATTATTTAAAAAATTTTTTCTTGGGGGATTTGTCCTTTTTATACGAAAAAAGTGAATTT
*
1596974 TTTCATTATGTGCAAGCACAACCATTCACATATTATTGATTATATTGCAAAAAATATGAAATACT
326 TTTCATTATGTGCAAGCACAACCATTCACATATTATTGATTATATTACAAAAAATATGAAATACT
1597039 ATATTGGGTGGTAGAAAA
391 ATATTGGGTGGTAGAAAA
1597057 TACGTGCATAGTGCTTATGATACCGTGAAAAGTCAAAATTAATTTACAAAATTCACAATTCTATA
1 TACGTGCATAGTGCTTATGATACCGTGAAAAGTCAAAATTAATTTACAAAATTCACAATTCTATA
* *
1597122 TTAGGTGGTAGAAAATACCAATACGTATGTTTTCTTGGAAAA-TTTTGAGGCATGTATTGGCATG
66 TTAGGTGGTAGAAAATACCAAAACGTATGTTTT-TTGGAAAATTTTTGAGGCATGTATTGGCATA
* **
1597186 AAAACTACACTAGTATCAGTAAAAATATACGATAGCTAATTTTTTTAGTTTTTCATAAAAATTTC
130 AAAACTACACTAGTATCAGTAAAAATATACGATAGATAATTTTTTTAGGATTTCATAAAAATTTC
*
1597251 AGAAAATTCTCAAAAATAAGAAATTTAACTGTGATATCATCTGCATAAATATTTTTCAAAACTTG
195 AGAAAATTCTCAAAAATAAAAAATTTAACTGTGATATCATCTGCATAAATATTTTTCAAAACTTG
*
1597316 TCAAGAAATTATTTAAAAAATTTTTTCTTGGGGGATTTGTCCTTTTTATACGAGAAAAGTGAATT
260 TCAAGAAATTATTTAAAAAATTTTTTCTTGGGGGATTTGTCCTTTTTATACGAAAAAAGTGAATT
* *
1597381 TTTTCATTATGTGCATGCACAACCATTTACATATTATTGATTATATTACAAAAAATATGAAATAC
325 TTTTCATTATGTGCAAGCACAACCATTCACATATTATTGATTATATTACAAAAAATATGAAATAC
1597446 T
390 T
1597447 CCTGATAGAA
Statistics
Matches: 370, Mismatches: 19, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
408 363 0.98
409 7 0.02
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (408 bp):
TACGTGCATAGTGCTTATGATACCGTGAAAAGTCAAAATTAATTTACAAAATTCACAATTCTATA
TTAGGTGGTAGAAAATACCAAAACGTATGTTTTTTGGAAAATTTTTGAGGCATGTATTGGCATAA
AAACTACACTAGTATCAGTAAAAATATACGATAGATAATTTTTTTAGGATTTCATAAAAATTTCA
GAAAATTCTCAAAAATAAAAAATTTAACTGTGATATCATCTGCATAAATATTTTTCAAAACTTGT
CAAGAAATTATTTAAAAAATTTTTTCTTGGGGGATTTGTCCTTTTTATACGAAAAAAGTGAATTT
TTTCATTATGTGCAAGCACAACCATTCACATATTATTGATTATATTACAAAAAATATGAAATACT
ATATTGGGTGGTAGAAAA
Found at i:1597928 original size:85 final size:85
Alignment explanation
Indices: 1597839--1598430 Score: 561
Period size: 85 Copynumber: 7.0 Consensus size: 85
1597829 GGGGTACAAA
* * * * * *
1597839 AGTTGACCAGGATTAAACCAATAAGTCAACAAATGATAAAAAGATTTATCTAGGACTAAGCTGAC
1 AGTTGACCAGGATTGAACCAACAAGTCAACAAAGGAT-AAGAGATTTACCTAGGACTAAGCTGAT
* * *
1597904 GGGTAGACAAAGGAT-GAAAG
65 AGGTAAACAAAGGATAAAAAG
* * * * * ** *
1597924 AGTTGACC-GCGATTAAACTAATAAGTCAACAAAGGATAAAAGATTTACCCAGGACTAAGCCAAC
1 AGTTGACCAG-GATTGAACCAACAAGTCAACAAAGGATAAGAGATTTACCTAGGACTAAGCTGAT
*
1597988 AGGTAAGCAAAGGATAAAAAG
65 AGGTAAACAAAGGATAAAAAG
* ** *
1598009 AGTTGATC-GAGATTGAACTGACAAGTCAACAAAGGATAAGAGATTTACCTAAGACTAAG-TCGA
1 AGTTGACCAG-GATTGAACCAACAAGTCAACAAAGGATAAGAGATTTACCTAGGACTAAGCT-GA
* *
1598072 TAGGTAAACAAAGGTTAAAAGG
64 TAGGTAAACAAAGGATAAAAAG
* * ** * * * * **
1598094 AGATAACC-GGAATTGAACTGATAAGTCAACAAAGAATAAGAGATTTACTTGGGACTAAGCCAAT
1 AGTTGACCAGG-ATTGAACCAACAAGTCAACAAAGGATAAGAGATTTACCTAGGACTAAGCTGAT
* *
1598158 AGGTAAACAAAAGATAAAAAA
65 AGGTAAACAAAGGATAAAAAG
** * * * * * *
1598179 AGTTGATTAGGATTAAATCGACAAGCCAACAAAGGATAAGAGATTTATCCGAGG-CTAAGCTAAT
1 AGTTGACCAGGATTGAACCAACAAGTCAACAAAGGATAAGAGATTTA-CCTAGGACTAAGCTGAT
*
1598243 AGGTAAACAAAGGATCAAAAG
65 AGGTAAACAAAGGATAAAAAG
* * *
1598264 -GTTGACTAGGGTTGAACCAACAAGTCAACAAAGGATAAGAGATTTA-CTCGAGACTAAGCTGAT
1 AGTTGACCAGGATTGAACCAACAAGTCAACAAAGGATAAGAGATTTACCTAG-GACTAAGCTGAT
* *
1598327 AAGTAAATAAAGGATAAAAAG
65 AGGTAAACAAAGGATAAAAAG
* * * * * *
1598348 AGTTGATCAAGATTGAAGCAACAAGCCAACAAAGGTTAAGAGATTTACCTAGGACTAAGCCGATA
1 AGTTGACCAGGATTGAACCAACAAGTCAACAAAGGATAAGAGATTTACCTAGGACTAAGCTGATA
1598413 GGTAAACAAAGGATAAAA
66 GGTAAACAAAGGATAAAA
1598431 TGGTTGATCG
Statistics
Matches: 418, Mismatches: 78, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
82 2 0.00
83 1 0.00
84 104 0.25
85 303 0.72
86 8 0.02
ACGTcount: A:0.46, C:0.13, G:0.22, T:0.19
Consensus pattern (85 bp):
AGTTGACCAGGATTGAACCAACAAGTCAACAAAGGATAAGAGATTTACCTAGGACTAAGCTGATA
GGTAAACAAAGGATAAAAAG
Found at i:1598085 original size:169 final size:167
Alignment explanation
Indices: 1597865--1598449 Score: 615
Period size: 169 Copynumber: 3.4 Consensus size: 167
1597855 ACCAATAAGT
* * * * ** * *
1597865 CAACAAATGATAAAAAGATTTATCTAGGACTAAGCTGACGGGTAGACAAAGGATGAAAGAGTTGA
1 CAACAAAGGAT-AAGAGATTTACCTAAGACTAAGCTGATAGGTAAACAAAGGATAAAAGAGTTGA
* * * * *
1597930 CCGCGATTAAACTAATAAGTCAACAAAGGATAAAAGATTTACCCAGGACTAAGCCAACAGGTAAG
65 CCG-GATTGAACTAATAAGTCAACAAAGGATAAGAGATTTACTC-GGACTAAGCCAATAGGTAAA
* *
1597995 CAAAGGATAAAAAGAGTTGATCGAGATTGAACTGACAAGT
128 CAAAGGATAAAAAGAGTTGATCAAGATTGAACTGACAAGC
* * *
1598035 CAACAAAGGATAAGAGATTTACCTAAGACTAAG-TCGATAGGTAAACAAAGGTTAAAAGGAGATA
1 CAACAAAGGATAAGAGATTTACCTAAGACTAAGCT-GATAGGTAAACAAAGGATAAAA-GAGTTG
* * *
1598099 ACCGGAATTGAACTGATAAGTCAACAAAGAATAAGAGATTTACTTGGGACTAAGCCAATAGGTAA
64 ACCGG-ATTGAACTAATAAGTCAACAAAGGATAAGAGATTTAC-TCGGACTAAGCCAATAGGTAA
* * * * *
1598164 ACAAAAGATAAAAAAAGTTGATTAGGATT-AAATCGACAAGC
127 ACAAAGGATAAAAAGAGTTGATCAAGATTGAACT-GACAAGC
* * *
1598205 CAACAAAGGATAAGAGATTTATCC-GAGGCTAAGCTAATAGGTAAACAAAGGATCAAAAG-GTTG
1 CAACAAAGGATAAGAGATTTA-CCTAAGACTAAGCTGATAGGTAAACAAAGGAT-AAAAGAGTTG
* * * * ** *
1598268 ACTAGGGTTGAACCAACAAGTCAACAAAGGATAAGAGATTTACTCGAGACTAAGCTGATAAGTAA
64 AC-CGGATTGAACTAATAAGTCAACAAAGGATAAGAGATTTACTCG-GACTAAGCCAATAGGTAA
* *
1598333 ATAAAGGATAAAAAGAGTTGATCAAGATTGAAGC-AACAAGC
127 ACAAAGGATAAAAAGAGTTGATCAAGATTGAA-CTGACAAGC
* * *
1598374 CAACAAAGGTTAAGAGATTTACCTAGGACTAAGCCGATAGGTAAACAAAGGATAAAATG-GTTGA
1 CAACAAAGGATAAGAGATTTACCTAAGACTAAGCTGATAGGTAAACAAAGGATAAAA-GAGTTGA
*
1598438 TCGAGATTGAAC
65 CCG-GATTGAAC
1598450 CGAAAGGCAA
Statistics
Matches: 342, Mismatches: 58, Indels: 31
0.79 0.13 0.07
Matches are distributed among these distances:
168 10 0.03
169 178 0.52
170 147 0.43
171 7 0.02
ACGTcount: A:0.45, C:0.13, G:0.22, T:0.19
Consensus pattern (167 bp):
CAACAAAGGATAAGAGATTTACCTAAGACTAAGCTGATAGGTAAACAAAGGATAAAAGAGTTGAC
CGGATTGAACTAATAAGTCAACAAAGGATAAGAGATTTACTCGGACTAAGCCAATAGGTAAACAA
AGGATAAAAAGAGTTGATCAAGATTGAACTGACAAGC
Found at i:1598320 original size:254 final size:255
Alignment explanation
Indices: 1597950--1598430 Score: 607
Period size: 254 Copynumber: 1.9 Consensus size: 255
1597940 ACTAATAAGT
*
1597950 CAACAAAGGATAAAAGATTTACCCAGGACTAAGCCAACAGGTAAGCAAAGGATAAAAAGAGTTGA
1 CAACAAAGGATAAAAGATTTACCCAGGACTAAGCCAACAGGTAAACAAAGGATAAAAAGAGTTGA
* ** *
1598015 TCGAGATTGAACTGACAAGTCAACAAAGGATAAGAGATTTACCTAAGACTAAG-TCGATAGGTAA
66 TAGAGATTGAACCAACAAGTCAACAAAGGATAAGAGATTTACCTAAGACTAAGCT-GATAAGTAA
* * * * * *
1598079 ACAAAGGTTAAAAGGAGATAACC-GGAATTGAA-CTGATAAGTCAACAAAGAATAAGAGATTTAC
130 ACAAAGGATAAAAAGAGATAACCAAG-ATTGAAGC-AACAAGCCAACAAAGAATAAGAGATTTAC
* *
1598142 TTGGGACTAAGCCAATAGGTAAACAAAAGATAAAAAAAGTTGATTAGGATTAAATCGACAAGC
193 CTAGGACTAAGCCAATAGGTAAACAAAAGATAAAAAAAGTTGATTAGGATTAAATCGACAAGC
* * * * *
1598205 CAACAAAGGATAAGAGATTTATCCGAGG-CTAAGCTAATAGGTAAACAAAGGATCAAAAG-GTTG
1 CAACAAAGGATAAAAGATTTA-CCCAGGACTAAGCCAACAGGTAAACAAAGGATAAAAAGAGTTG
* *
1598268 ACTAG-GGTTGAACCAACAAGTCAACAAAGGATAAGAGATTTA-CTCGAGACTAAGCTGATAAGT
65 A-TAGAGATTGAACCAACAAGTCAACAAAGGATAAGAGATTTACCT-AAGACTAAGCTGATAAGT
* * * * **
1598331 AAATAAAGGATAAAAAGAGTTGATCAAGATTGAAGCAACAAGCCAACAAAGGTTAAGAGATTTAC
128 AAACAAAGGATAAAAAGAGATAACCAAGATTGAAGCAACAAGCCAACAAAGAATAAGAGATTTAC
* *
1598396 CTAGGACTAAGCCGATAGGTAAACAAAGGATAAAA
193 CTAGGACTAAGCCAATAGGTAAACAAAAGATAAAA
1598431 TGGTTGATCG
Statistics
Matches: 192, Mismatches: 28, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
253 2 0.01
254 133 0.69
255 52 0.27
256 5 0.03
ACGTcount: A:0.47, C:0.13, G:0.22, T:0.19
Consensus pattern (255 bp):
CAACAAAGGATAAAAGATTTACCCAGGACTAAGCCAACAGGTAAACAAAGGATAAAAAGAGTTGA
TAGAGATTGAACCAACAAGTCAACAAAGGATAAGAGATTTACCTAAGACTAAGCTGATAAGTAAA
CAAAGGATAAAAAGAGATAACCAAGATTGAAGCAACAAGCCAACAAAGAATAAGAGATTTACCTA
GGACTAAGCCAATAGGTAAACAAAAGATAAAAAAAGTTGATTAGGATTAAATCGACAAGC
Found at i:1599274 original size:20 final size:21
Alignment explanation
Indices: 1599232--1599280 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
1599222 TTCTACAATT
*
1599232 TGTATCGATATGAAAAGTAAA
1 TGTATCAATATGAAAAGTAAA
* *
1599253 TGTATCAATAT-ATAAGTGAA
1 TGTATCAATATGAAAAGTAAA
1599273 TGTATCAA
1 TGTATCAA
1599281 CACATGCCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (21 bp):
TGTATCAATATGAAAAGTAAA
Found at i:1599395 original size:21 final size:21
Alignment explanation
Indices: 1599353--1599395 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
1599343 CATAAGTAAA
*
1599353 TGTATCGATACATTTATTGTT
1 TGTATCGATACATTTATGGTT
1599374 TGTATCGATACATTCTA-GGTT
1 TGTATCGATACATT-TATGGTT
1599395 T
1 T
1599396 TTGACCTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.23, C:0.12, G:0.16, T:0.49
Consensus pattern (21 bp):
TGTATCGATACATTTATGGTT
Found at i:1600354 original size:21 final size:20
Alignment explanation
Indices: 1600316--1600354 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1600306 TTTTAGTAGC
*
1600316 CCATATTTATGCATTTTATT
1 CCATATTTATGCAGTTTATT
*
1600336 CCATGTTTCATGCAGTTTA
1 CCATATTT-ATGCAGTTTA
1600355 ACATGTCCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.23, C:0.18, G:0.10, T:0.49
Consensus pattern (20 bp):
CCATATTTATGCAGTTTATT
Found at i:1604807 original size:20 final size:20
Alignment explanation
Indices: 1604781--1604834 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
1604771 CCGCCAGTTT
*
1604781 CATGTATCGATACAATTGAG
1 CATGTATCGATACAAGTGAG
*
1604801 TATGTATCGATAC-AGTGAG
1 CATGTATCGATACAAGTGAG
*
1604820 CATGTATTGATACAA
1 CATGTATCGATACAA
1604835 AGCATAATGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAAGTGAG
Found at i:1609953 original size:33 final size:33
Alignment explanation
Indices: 1609909--1609979 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
1609899 ATCGCTTCTA
*
1609909 AAAGTCTACAACTCAGTGGCATCTTTTTTCTTC
1 AAAGTCCACAACTCAGTGGCATCTTTTTTCTTC
* * *
1609942 AAAGTCCACAACTTAGTGGTATCTTTTTTCTTT
1 AAAGTCCACAACTCAGTGGCATCTTTTTTCTTC
1609975 AAAGT
1 AAAGT
1609980 TAATAACTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.41
Consensus pattern (33 bp):
AAAGTCCACAACTCAGTGGCATCTTTTTTCTTC
Found at i:1609988 original size:33 final size:33
Alignment explanation
Indices: 1609909--1609995 Score: 102
Period size: 33 Copynumber: 2.6 Consensus size: 33
1609899 ATCGCTTCTA
* *
1609909 AAAGTCTACAACTCAGTGGCATCTTTTTTCTTC
1 AAAGTCAACAACTTAGTGGCATCTTTTTTCTTC
* * *
1609942 AAAGTCCACAACTTAGTGGTATCTTTTTTCTTT
1 AAAGTCAACAACTTAGTGGCATCTTTTTTCTTC
* * *
1609975 AAAGTTAATAACTTCGTGGCA
1 AAAGTCAACAACTTAGTGGCA
1609996 CCCTTTTTAA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.39
Consensus pattern (33 bp):
AAAGTCAACAACTTAGTGGCATCTTTTTTCTTC
Found at i:1610027 original size:27 final size:28
Alignment explanation
Indices: 1609976--1610029 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
1609966 TTTTTCTTTA
* * *
1609976 AAGTTAATAACTTCGTGGCACCCTTTTT
1 AAGTCAATAACTCCATGGCACCCTTTTT
1610004 AAGTCAATAACTCCATGGCA-CCTTTT
1 AAGTCAATAACTCCATGGCACCCTTTT
1610030 CCTTTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (28 bp):
AAGTCAATAACTCCATGGCACCCTTTTT
Found at i:1610034 original size:33 final size:34
Alignment explanation
Indices: 1610004--1610159 Score: 149
Period size: 34 Copynumber: 4.7 Consensus size: 34
1609994 CACCCTTTTT
* **
1610004 AAGTCAATAACTCCATGGCACCTTTTCCTTTTAA
1 AAGTCCATAACTCTGTGGCACCTTTTCCTTTTAA
* * * *
1610038 AAGTCCACATCTCTGTGGC-GCTATTTCCCTTT--
1 AAGTCCATAACTCTGTGGCACCT-TTTCCTTTTAA
* * *
1610070 AAGTCCATAACTTTATGGCACCTTTTTCTTTTAA
1 AAGTCCATAACTCTGTGGCACCTTTTCCTTTTAA
* *
1610104 AA-TTCATAACTCTGTGGCACATTTTCCTTTTAA
1 AAGTCCATAACTCTGTGGCACCTTTTCCTTTTAA
* *
1610137 AAGTCCACAACTCCGTGGCACCT
1 AAGTCCATAACTCTGTGGCACCT
1610160 CTTTAAGTCC
Statistics
Matches: 94, Mismatches: 23, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
32 22 0.23
33 32 0.34
34 40 0.43
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.37
Consensus pattern (34 bp):
AAGTCCATAACTCTGTGGCACCTTTTCCTTTTAA
Found at i:1610080 original size:66 final size:65
Alignment explanation
Indices: 1610001--1610241 Score: 177
Period size: 66 Copynumber: 3.8 Consensus size: 65
1609991 TGGCACCCTT
* * *
1610001 TTTAAGTCAATAACTCCATGGCACCTTTTCCTTTTAAAAGTCCACATCTCTGTGGCGC-TATTTC
1 TTTAAGTCCATAACTCCATGGCACCTTTTCCTTTTAAAA-TCCACAACTCTGTGGCACAT-TTTC
1610065 CC
64 CC
** * * * *
1610067 TTTAAGTCCATAACTTTATGGCACCTTTTTCTTTTAAAATTCATAACTCTGTGGCACATTTTCCT
1 TTTAAGTCCATAACTCCATGGCACCTTTTCCTTTTAAAATCCACAACTCTGTGGCACATTTTCCC
* * * **
1610132 TTTAAAAGTCCACAACTCCGTGGCACC---T-C-TTT-AAGTCCACAACTCCATGG--CA----C
1 TTT--AAGTCCATAACTCCATGGCACCTTTTCCTTTTAAAATCCACAACTCTGTGGCACATTTTC
1610185 CC
64 CC
* * *
1610187 TTTGAAGTCCACAACTCCATGGCACCTATTTCCTTTT-AAGTCCACAACACTGTGG
1 TTT-AAGTCCATAACTCCATGGCACCT-TTTCCTTTTAAAATCCACAACTCTGTGG
1610242 TACCCTTCAA
Statistics
Matches: 142, Mismatches: 24, Indels: 24
0.75 0.13 0.13
Matches are distributed among these distances:
54 21 0.15
55 5 0.04
58 1 0.01
59 3 0.02
60 18 0.13
61 13 0.09
62 3 0.02
63 1 0.01
64 1 0.01
65 22 0.15
66 36 0.25
67 18 0.13
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (65 bp):
TTTAAGTCCATAACTCCATGGCACCTTTTCCTTTTAAAATCCACAACTCTGTGGCACATTTTCCC
Found at i:1610172 original size:27 final size:28
Alignment explanation
Indices: 1610137--1610213 Score: 131
Period size: 27 Copynumber: 2.8 Consensus size: 28
1610127 TTCCTTTTAA
*
1610137 AAGTCCACAACTCCGTGGCACCTCTTT-
1 AAGTCCACAACTCCATGGCACCTCTTTG
1610164 AAGTCCACAACTCCATGGCACC-CTTTG
1 AAGTCCACAACTCCATGGCACCTCTTTG
1610191 AAGTCCACAACTCCATGGCACCT
1 AAGTCCACAACTCCATGGCACCT
1610214 ATTTCCTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
26 4 0.09
27 43 0.91
ACGTcount: A:0.26, C:0.38, G:0.14, T:0.22
Consensus pattern (28 bp):
AAGTCCACAACTCCATGGCACCTCTTTG
Found at i:1610228 original size:33 final size:32
Alignment explanation
Indices: 1610000--1610234 Score: 159
Period size: 33 Copynumber: 7.5 Consensus size: 32
1609990 GTGGCACCCT
* *
1610000 TTTTAAGTCAATAACTCCATGGCACCTTTTCC
1 TTTTAAGTCCACAACTCCATGGCACCTTTTCC
* ** *
1610032 TTTTAAAAGTCCACATCTCTGTGGC-GCTATTTCC
1 TTTT--AAGTCCACAACTCCATGGCACCT-TTTCC
* * ** *
1610066 CTTTAAGTCCATAACTTTATGGCACCTTTTTC
1 TTTTAAGTCCACAACTCCATGGCACCTTTTCC
* * * ** *
1610098 TTTTAAAATTCATAACTCTGTGGCACATTTTCC
1 TTTT-AAGTCCACAACTCCATGGCACCTTTTCC
*
1610131 TTTTAAAAGTCCACAACTCCGTGGCACC---T-C
1 TTTT--AAGTCCACAACTCCATGGCACCTTTTCC
1610161 -TTTAAGTCCACAACTCCATGGCA-C----CC
1 TTTTAAGTCCACAACTCCATGGCACCTTTTCC
*
1610187 TTTGAAGTCCACAACTCCATGGCACCTATTTCC
1 TTTTAAGTCCACAACTCCATGGCACCT-TTTCC
1610220 TTTTAAGTCCACAAC
1 TTTTAAGTCCACAAC
1610235 ACTGTGGTAC
Statistics
Matches: 161, Mismatches: 28, Indels: 27
0.75 0.13 0.12
Matches are distributed among these distances:
26 2 0.01
27 41 0.25
28 1 0.01
29 3 0.02
30 1 0.01
31 1 0.01
32 26 0.16
33 46 0.29
34 40 0.25
ACGTcount: A:0.25, C:0.29, G:0.11, T:0.35
Consensus pattern (32 bp):
TTTTAAGTCCACAACTCCATGGCACCTTTTCC
Found at i:1610289 original size:32 final size:32
Alignment explanation
Indices: 1610248--1610448 Score: 289
Period size: 32 Copynumber: 6.2 Consensus size: 32
1610238 GTGGTACCCT
* *
1610248 TCAAAGCCCACACATGTCAGTGGCAACCTTTC
1 TCAAAGCCCACACAAGTCAGTGGCAACCCTTC
*
1610280 TCAAAGCCCACACAAGTCGGTGGCAACCCTTC
1 TCAAAGCCCACACAAGTCAGTGGCAACCCTTC
1610312 TCAAAGCCCACACAAGTCAGTGGCAACCCTTC
1 TCAAAGCCCACACAAGTCAGTGGCAACCCTTC
1610344 TCAAAGCCCACACAAGTC-GATGGCAACCCTTC
1 TCAAAGCCCACACAAGTCAG-TGGCAACCCTTC
*
1610376 TCAAAGCCCACACAAGTCAGTGGCGACCCTTC
1 TCAAAGCCCACACAAGTCAGTGGCAACCCTTC
* * *
1610408 CCTAAAGCCCACACAAGT-TGATGGCAACCATTC
1 TC-AAAGCCCACACAAGTCAG-TGGCAACCCTTC
*
1610441 CCAAAGCC
1 TCAAAGCC
1610449 TGGCAACCCT
Statistics
Matches: 156, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
31 1 0.01
32 127 0.81
33 28 0.18
ACGTcount: A:0.30, C:0.37, G:0.16, T:0.16
Consensus pattern (32 bp):
TCAAAGCCCACACAAGTCAGTGGCAACCCTTC
Found at i:1610323 original size:64 final size:64
Alignment explanation
Indices: 1610248--1610689 Score: 454
Period size: 64 Copynumber: 7.1 Consensus size: 64
1610238 GTGGTACCCT
*
1610248 TCAAAGCCCACACATGTCAGTGGCAACCTTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTC
1 TCAAAGCCCACACAAGTCAGTGGCAACCTTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTC
* *
1610312 TCAAAGCCCACACAAGTCAGTGGCAACCCTTCTCAAAGCCCACACAAGTCGATGGCAACCCTTC
1 TCAAAGCCCACACAAGTCAGTGGCAACCTTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTC
* * * * * *
1610376 TCAAAGCCCACACAAGTCAGTGGCGACCCTTCCCTAAAGCCCACACAAGTTGATGGCAA-CCAT-
1 TCAAAGCCCACACAAGTCAGTGGCAACCTTTCTC-AAAGCCCACACAAGTCGGTGGCAACCCTTC
* *
1610439 T------CC-CA-AAG-C-CTGGCAACCCTTT-TCAAAGCCCACACAAGTCAGTGGCAACCCTTC
1 TCAAAGCCCACACAAGTCAGTGGCAA-CCTTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTC
* * * *
1610493 TCTAAAGCCCACATAAGTCTGTGGTAACCCTTT-TCAAAGCCCACACAAGTCGGTGGCAACCGTT
1 TC-AAAGCCCACACAAGTCAGTGGCAA-CCTTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTT
1610557 C
64 C
* * * * *
1610558 TCAAAGCCCACACAAGTCGGTGGCAACCCTTCTTTC-AAGGCCACACTAGTCGGTGGCAACTCTT
1 TCAAAGCCCACACAAGTCAGTGGCAA-CCTT-TCTCAAAGCCCACACAAGTCGGTGGCAACCCTT
1610622 C
64 C
* * * * *
1610623 T-AAACCCCACACAAGTCAGTGGCAGCCCCTTC-AAAAGCCCACACAAGTTAGG-GGCAACCCTT
1 TCAAAGCCCACACAAGTCAGTGGCA-ACCTTTCTCAAAGCCCACACAAG-TCGGTGGCAACCCTT
1610685 -
64 C
1610685 TCAAA
1 TCAAA
1610690 AGTGCACAAA
Statistics
Matches: 321, Mismatches: 36, Indels: 43
0.80 0.09 0.11
Matches are distributed among these distances:
52 21 0.07
53 9 0.03
54 6 0.02
55 3 0.01
56 2 0.01
57 2 0.01
61 2 0.01
62 3 0.01
63 28 0.09
64 150 0.47
65 93 0.29
66 2 0.01
ACGTcount: A:0.29, C:0.35, G:0.17, T:0.18
Consensus pattern (64 bp):
TCAAAGCCCACACAAGTCAGTGGCAACCTTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTC
Found at i:1610490 original size:32 final size:32
Alignment explanation
Indices: 1610449--1610689 Score: 256
Period size: 32 Copynumber: 7.5 Consensus size: 32
1610439 TCCCAAAGCC
1610449 TGGCAACCCTTTTCAAAGCCCACACAAGTCAG
1 TGGCAACCCTTTTCAAAGCCCACACAAGTCAG
* * *
1610481 TGGCAACCCTTCTCTAAAGCCCACATAAGTCTG
1 TGGCAACCCTTTTC-AAAGCCCACACAAGTCAG
* *
1610514 TGGTAACCCTTTTCAAAGCCCACACAAGTCGG
1 TGGCAACCCTTTTCAAAGCCCACACAAGTCAG
* * *
1610546 TGGCAACCGTTCTCAAAGCCCACACAAGTCGG
1 TGGCAACCCTTTTCAAAGCCCACACAAGTCAG
* * *
1610578 TGGCAACCCTTCTTTC-AAGGCCACACTAGTCGG
1 TGGCAACCC-T-TTTCAAAGCCCACACAAGTCAG
* * *
1610611 TGGCAACTCTTCT-AAACCCCACACAAGTCAG
1 TGGCAACCCTTTTCAAAGCCCACACAAGTCAG
* * *
1610642 TGGCAGCCC-CTTCAAAAGCCCACACAAGTTAG
1 TGGCAACCCTTTTC-AAAGCCCACACAAGTCAG
*
1610674 GGGCAACCC-TTTCAAA
1 TGGCAACCCTTTTCAAA
1610690 AGTGCACAAA
Statistics
Matches: 174, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
30 1 0.01
31 25 0.14
32 93 0.53
33 52 0.30
34 3 0.02
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.20
Consensus pattern (32 bp):
TGGCAACCCTTTTCAAAGCCCACACAAGTCAG
Found at i:1610538 original size:117 final size:117
Alignment explanation
Indices: 1610332--1610565 Score: 337
Period size: 117 Copynumber: 2.0 Consensus size: 117
1610322 CACAAGTCAG
1610332 TGGCAACCCTTCTCAAAGCCCACACAAGTCGATGGCAACCCTTCTCAAAGCCCACACAAGTCAGT
1 TGGCAACCCTTCTCAAAGCCCACACAAGTCGATGGCAACCCTTCTCAAAGCCCACACAAGTCAGT
* *
1610397 GGCGACCCTTCCCTAAAGCCCACACAAGTTGATGGCAACCATTCCCAAAGCC
66 GGCAACCCTTCCCTAAAGCCCACACAAGTCGATGGCAACCATTCCCAAAGCC
* * *
1610449 TGGCAACCCTTTTCAAAGCCCACACAAGTC-AGTGGCAACCCTTCTCTAAAGCCCACATAAGTCT
1 TGGCAACCCTTCTCAAAGCCCACACAAGTCGA-TGGCAACCCTTCTC-AAAGCCCACACAAGTCA
* ** * * *
1610513 GTGGTAACCCTTTTC-AAAGCCCACACAAGTCGGTGGCAACCGTTCTCAAAGCC
64 GTGGCAACCCTTCCCTAAAGCCCACACAAGTCGATGGCAACCATTCCCAAAGCC
1610566 CACACAAGTC
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
116 1 0.01
117 77 0.74
118 26 0.25
ACGTcount: A:0.29, C:0.35, G:0.17, T:0.19
Consensus pattern (117 bp):
TGGCAACCCTTCTCAAAGCCCACACAAGTCGATGGCAACCCTTCTCAAAGCCCACACAAGTCAGT
GGCAACCCTTCCCTAAAGCCCACACAAGTCGATGGCAACCATTCCCAAAGCC
Found at i:1610559 original size:65 final size:64
Alignment explanation
Indices: 1610449--1610670 Score: 265
Period size: 65 Copynumber: 3.5 Consensus size: 64
1610439 TCCCAAAGCC
* * *
1610449 TGGCAACCCTTTTCAAAGCCCACACAAGTCAGTGGCAACCCTTCTCTAAAGCCCACATAAGTCTG
1 TGGCAACCCTTTTCAAAGCCCACACAAGTCGGTGGCAA-CCTTCTCTAAAGCCCACACAAGTCAG
* *
1610514 TGGTAACCCTTTTCAAAGCCCACACAAGTCGGTGGCAACCGTTCTC-AAAGCCCACACAAGTCGG
1 TGGCAACCCTTTTCAAAGCCCACACAAGTCGGTGGCAACC-TTCTCTAAAGCCCACACAAGTCAG
* * *
1610578 TGGCAACCCTTCTTTC-AAGGCCACACTAGTCGGTGGCAA-C-TCTTCTAAACCCCACACAAGTC
1 TGGCAACCC-T-TTTCAAAGCCCACACAAGTCGGTGGCAACCTTC-TCTAAAGCCCACACAAGTC
1610640 AG
63 AG
* *
1610642 TGGCAGCCC-CTTCAAAAGCCCACACAAGT
1 TGGCAACCCTTTTC-AAAGCCCACACAAGT
1610671 TAGGGGCAAC
Statistics
Matches: 137, Mismatches: 13, Indels: 16
0.83 0.08 0.10
Matches are distributed among these distances:
61 3 0.02
62 2 0.01
63 14 0.10
64 51 0.37
65 63 0.46
66 4 0.03
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (64 bp):
TGGCAACCCTTTTCAAAGCCCACACAAGTCGGTGGCAACCTTCTCTAAAGCCCACACAAGTCAG
Found at i:1610617 original size:182 final size:181
Alignment explanation
Indices: 1610268--1610617 Score: 531
Period size: 182 Copynumber: 1.9 Consensus size: 181
1610258 CACATGTCAG
*
1610268 TGGCAACCTTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCAGT
1 TGGCAACCTTTCTCAAAGCCCACACAAGTCAGTGGCAACCCTTCTCAAAGCCCACACAAGTCAGT
1610333 GGCAACCCTTCTCAAAGCCCACACAAGTCGATGGCAACCCTTCTCAAAGCCCACACAAGTCAGTG
66 GGCAACCCTTCTCAAAGCCCACACAAGTCGATGGCAACCCTTCTCAAAGCCCACACAAGTCAGTG
* *
1610398 GCGACCCTTCCCTAAAGCCCACACAAGTTGATGGCAACCATTCCCAAAGCC
131 GCAACCCTTCCCTAAAGCCCACACAAGTCGATGGCAACCATTCCCAAAGCC
* *
1610449 TGGCAACCCTTT-TCAAAGCCCACACAAGTCAGTGGCAACCCTTCTCTAAAGCCCACATAAGTCT
1 TGGCAA-CCTTTCTCAAAGCCCACACAAGTCAGTGGCAACCCTTCTC-AAAGCCCACACAAGTCA
* * * * *
1610513 GTGGTAACCCTTTTCAAAGCCCACACAAGTCGGTGGCAACCGTTCTCAAAGCCCACACAAGTCGG
64 GTGGCAACCCTTCTCAAAGCCCACACAAGTCGATGGCAACCCTTCTCAAAGCCCACACAAGTCAG
** * * * *
1610578 TGGCAACCCTTCTTTCAAGGCCACACTAGTCGGTGGCAAC
129 TGGCAACCCTTCCCTAAAGCCCACACAAGTCGATGGCAAC
1610618 TCTTCTAAAC
Statistics
Matches: 151, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
181 39 0.26
182 112 0.74
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.19
Consensus pattern (181 bp):
TGGCAACCTTTCTCAAAGCCCACACAAGTCAGTGGCAACCCTTCTCAAAGCCCACACAAGTCAGT
GGCAACCCTTCTCAAAGCCCACACAAGTCGATGGCAACCCTTCTCAAAGCCCACACAAGTCAGTG
GCAACCCTTCCCTAAAGCCCACACAAGTCGATGGCAACCATTCCCAAAGCC
Found at i:1610877 original size:52 final size:52
Alignment explanation
Indices: 1610778--1611028 Score: 173
Period size: 52 Copynumber: 4.7 Consensus size: 52
1610768 CCAATGTTGT
* * * * *
1610778 TGGCCTTGAATCAACACATTGGCACCTTTT-TC-TTTTTTAGTTCCAATATCAC
1 TGGCCTTGAATTAGCATATTGGCA-CTTTTGTCATCTTTAAG-TCCAATATCAC
* *
1610830 TGGCCTTGAATTAGCATATTGGCACTTTTGTCATCTTTAAGTACAATATCGC
1 TGGCCTTGAATTAGCATATTGGCACTTTTGTCATCTTTAAGTCCAATATCAC
* * * * * * *
1610882 TAGCCTTGAATTAGCATATCGGCACCTTTATCATTCTTCTTATCTTCAAGTCTAACATCAG
1 TGGCCTTGAATTAGCATATTGGCA-C--T-T--TT-GTC--ATCTTTAAGTCCAATATCAC
* * * * * * *
1610943 TGGCCTTGAATTAGCATACTAGAACCTTTGTTACCTTTAAGCCCAATATCAC
1 TGGCCTTGAATTAGCATATTGGCACTTTTGTCATCTTTAAGTCCAATATCAC
* * *
1610995 TAGCCTTGAATCAGCATATTGGCACCTTTGTCAT
1 TGGCCTTGAATTAGCATATTGGCACTTTTGTCAT
1611029 TCTTCTCATC
Statistics
Matches: 151, Mismatches: 37, Indels: 22
0.72 0.18 0.10
Matches are distributed among these distances:
51 5 0.03
52 95 0.63
53 7 0.05
54 1 0.01
55 3 0.02
56 1 0.01
57 1 0.01
58 2 0.01
59 2 0.01
60 1 0.01
61 33 0.22
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (52 bp):
TGGCCTTGAATTAGCATATTGGCACTTTTGTCATCTTTAAGTCCAATATCAC
Found at i:1611029 original size:113 final size:113
Alignment explanation
Indices: 1610825--1611040 Score: 306
Period size: 113 Copynumber: 1.9 Consensus size: 113
1610815 TAGTTCCAAT
* * * * * * *
1610825 ATCACTGGCCTTGAATTAGCATATTGGCACTTTTGTCATCTTTAAGTACAATATCGCTAGCCTTG
1 ATCACTGGCCTTGAATTAGCATACTAGAACCTTTGTCACCTTTAAGCACAATATCACTAGCCTTG
* *
1610890 AATTAGCATATCGGCACCTTTATCATTCTTCTTATCTTCAAGTCTAAC
66 AATCAGCATATCGGCACCTTTATCATTCTTCTCATCTTCAAGTCTAAC
* * *
1610938 ATCAGTGGCCTTGAATTAGCATACTAGAACCTTTGTTACCTTTAAGCCCAATATCACTAGCCTTG
1 ATCACTGGCCTTGAATTAGCATACTAGAACCTTTGTCACCTTTAAGCACAATATCACTAGCCTTG
* *
1611003 AATCAGCATATTGGCACCTTTGTCATTCTTCTCATCTT
66 AATCAGCATATCGGCACCTTTATCATTCTTCTCATCTT
1611041 TAAGCCCGAT
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
113 89 1.00
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.37
Consensus pattern (113 bp):
ATCACTGGCCTTGAATTAGCATACTAGAACCTTTGTCACCTTTAAGCACAATATCACTAGCCTTG
AATCAGCATATCGGCACCTTTATCATTCTTCTCATCTTCAAGTCTAAC
Found at i:1611053 original size:61 final size:60
Alignment explanation
Indices: 1610977--1611197 Score: 184
Period size: 61 Copynumber: 3.6 Consensus size: 60
1610967 CCTTTGTTAC
* *
1610977 CTTTAAGCCCAATATCACTAGCCTTGAATCAGCATATTGGCACCTTTGTCATTCTTCTCAT
1 CTTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCA-CTTTATCATTCTTCTCAT
* * * * *
1611038 CTTTAAGCCCGATATCGCTAG-CTGTGAATTAGCATATTAGCATATTTATCACTT-TTCGCAT
1 CTTTAAGCCCAATATCGCTAGCCT-TGAATCAGCATATTGGCA-CTTTATCA-TTCTTCTCAT
* * *
1611099 CTTTAAGTCCAATGTCGCT-GACCTTAAATCA-CTATATTGGCACTCTTATCATTCTT-TACAT
1 CTTTAAGCCCAATATCGCTAG-CCTTGAATCAGC-ATATTGGCACT-TTATCATTCTTCT-CAT
* * * * *
1611160 CTTTAAGTCTAATGTCCCT-GACCTTGAATCACCATATT
1 CTTTAAGCCCAATATCGCTAG-CCTTGAATCAGCATATT
1611198 CACACTCTTC
Statistics
Matches: 132, Mismatches: 19, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
60 7 0.05
61 120 0.91
62 5 0.04
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.38
Consensus pattern (60 bp):
CTTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACTTTATCATTCTTCTCAT
Found at i:1611066 original size:113 final size:113
Alignment explanation
Indices: 1610832--1611073 Score: 281
Period size: 113 Copynumber: 2.1 Consensus size: 113
1610822 AATATCACTG
* * * * * * * *
1610832 GCCTTGAATTAGCATATTGGCACTTTTGTCATCTTTAAGTACAATATCGCTAGCCTTGAATTAGC
1 GCCTTGAATTAGCATACTAGAACCTTTGTCACCTTTAAGCACAATATCACTAGCCTTGAATCAGC
* * * *
1610897 ATATCGGCACCTTTATCATTCTTCTTATCTTCAAGTCTAACATCAGTG
66 ATATCGGCACCTTTATCATTCTTCTCATCTTCAAGCCCAACATCAGTA
* *
1610945 GCCTTGAATTAGCATACTAGAACCTTTGTTACCTTTAAGCCCAATATCACTAGCCTTGAATCAGC
1 GCCTTGAATTAGCATACTAGAACCTTTGTCACCTTTAAGCACAATATCACTAGCCTTGAATCAGC
* * * * *
1611010 ATATTGGCACCTTTGTCATTCTTCTCATCTTTAAGCCCGATATC-GCTA
66 ATATCGGCACCTTTATCATTCTTCTCATCTTCAAGCCCAACATCAG-TA
1611058 G-CTGTGAATTAGCATA
1 GCCT-TGAATTAGCATA
1611074 TTAGCATATT
Statistics
Matches: 108, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
112 3 0.03
113 105 0.97
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (113 bp):
GCCTTGAATTAGCATACTAGAACCTTTGTCACCTTTAAGCACAATATCACTAGCCTTGAATCAGC
ATATCGGCACCTTTATCATTCTTCTCATCTTCAAGCCCAACATCAGTA
Found at i:1611227 original size:61 final size:61
Alignment explanation
Indices: 1611096--1611215 Score: 159
Period size: 61 Copynumber: 2.0 Consensus size: 61
1611086 TCACTTTTCG
* * ** *
1611096 CATCTTTAAGTCCAATGTCGCTGACCTTAAATCACTATATTGGCACTCTTATCATTCTTTA
1 CATCTTTAAGTCCAATGTCCCTGACCTTAAATCACCATATTCACACTCTTATCATCCTTTA
* * * *
1611157 CATCTTTAAGTCTAATGTCCCTGACCTTGAATCACCATATTCACACTCTTCTTATCCTT
1 CATCTTTAAGTCCAATGTCCCTGACCTTAAATCACCATATTCACACTCTTATCATCCTT
1611216 ATCTTCTTTA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.39
Consensus pattern (61 bp):
CATCTTTAAGTCCAATGTCCCTGACCTTAAATCACCATATTCACACTCTTATCATCCTTTA
Found at i:1611919 original size:20 final size:22
Alignment explanation
Indices: 1611867--1611920 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 22
1611857 TTCTACAATT
1611867 TGTATCGATACA-AATAGTAAA
1 TGTATCGATACATAATAGTAAA
* * *
1611888 TATATTGATACATAA-A-TGAA
1 TGTATCGATACATAATAGTAAA
1611908 TGTATCGATACAT
1 TGTATCGATACAT
1611921 GCTTGAAATG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 14 0.52
21 11 0.41
22 2 0.07
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.33
Consensus pattern (22 bp):
TGTATCGATACATAATAGTAAA
Found at i:1618818 original size:140 final size:141
Alignment explanation
Indices: 1618508--1618841 Score: 350
Period size: 140 Copynumber: 2.4 Consensus size: 141
1618498 CCCCTATGGT
* * *
1618508 AAACCATGGGAATATTAGAAATCTTAAAAAATTAAGATAATAATTTTTTATTTAATTTTTAATTT
1 AAACCAT-GGAATATTAGAAATCTTGAAAAATTAAGATAATAA-TTTTTATTCAATTATTAATTT
* * * * ** ** * * *
1618573 CTAAAAATATTTATTTCATACCTTAATGGAGAACTGAAAAGATATGAAAGGTTTTGAAGATTTTT
64 CCAAAAATAATCATTTCATACCTTAATGGAAAACCAAAAAGATATGAAAAATTTTAAAAATTTTC
*
1618638 ATACCTCTATGCA
129 ATACCTCTACGCA
* * * *
1618651 AAACTATAGGAGTATTGGAAATCTTGAAAAGTTAAGATAATAA-TTTTATTCAATTATTAATTTC
1 AAACCAT-GGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTCAATTATTAATTTC
*
1618715 CAAAAA-AATCATTTCGTACCTTAATGGAAAACCAAAAAGATATGAAAAATTTTAAAAATTTTCA
65 CAAAAATAATCATTTCATACCTTAATGGAAAACCAAAAAGATATGAAAAATTTTAAAAATTTTCA
*
1618779 TACC-CTCACGGA
130 TACCTCT-ACGCA
* * * * * * *
1618791 TACCCATGGAAATATTAAAAATTTTGAAAAATTGAGGTGATAATTTTTATT
1 AAACCATGG-AATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATT
1618842 GGATAAAATA
Statistics
Matches: 155, Mismatches: 33, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
139 4 0.03
140 83 0.54
141 31 0.20
143 37 0.24
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (141 bp):
AAACCATGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTCAATTATTAATTTCC
AAAAATAATCATTTCATACCTTAATGGAAAACCAAAAAGATATGAAAAATTTTAAAAATTTTCAT
ACCTCTACGCA
Found at i:1621931 original size:21 final size:18
Alignment explanation
Indices: 1621900--1621943 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
1621890 GAGATATTGG
1621900 ACATGCTAAAATGCATGGA
1 ACATGCTAAAATGCAT-GA
1621919 ACATCGCTGAAAATGCATGA
1 ACAT-GCT-AAAATGCATGA
1621939 ACATG
1 ACATG
1621944 GGCTATTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.22
20 9 0.39
21 9 0.39
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.20
Consensus pattern (18 bp):
ACATGCTAAAATGCATGA
Found at i:1623839 original size:33 final size:32
Alignment explanation
Indices: 1623784--1623848 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
1623774 GAATTCATGA
* *
1623784 TGTATTGATATAATTAACATGTATCGATACAT
1 TGTATCGATATAAATAACATGTATCGATACAT
*
1623816 TGTATCGATACTAAATAATATGTATCGATACAT
1 TGTATCGATA-TAAATAACATGTATCGATACAT
1623849 CTGGGTGTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 9 0.31
33 20 0.69
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.38
Consensus pattern (32 bp):
TGTATCGATATAAATAACATGTATCGATACAT
Found at i:1627612 original size:57 final size:52
Alignment explanation
Indices: 1627483--1627610 Score: 256
Period size: 52 Copynumber: 2.5 Consensus size: 52
1627473 GTCAAATAGA
1627483 TGGGAAAAGAACCATACCATACCACCGCTGACTCCACATGACCTAATATCCT
1 TGGGAAAAGAACCATACCATACCACCGCTGACTCCACATGACCTAATATCCT
1627535 TGGGAAAAGAACCATACCATACCACCGCTGACTCCACATGACCTAATATCCT
1 TGGGAAAAGAACCATACCATACCACCGCTGACTCCACATGACCTAATATCCT
1627587 TGGGAAAAGAACCATACCATACCA
1 TGGGAAAAGAACCATACCATACCA
1627611 TAAATGGCAA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.37, C:0.31, G:0.14, T:0.18
Consensus pattern (52 bp):
TGGGAAAAGAACCATACCATACCACCGCTGACTCCACATGACCTAATATCCT
Found at i:1630891 original size:133 final size:134
Alignment explanation
Indices: 1630626--1630868 Score: 357
Period size: 133 Copynumber: 1.8 Consensus size: 134
1630616 TAGAAATCTT
*
1630626 GAAAAATTAAGATAATAATTTTTTATTTAATTTTTAATTTCTAAAAAATTCATTTCATACATTAA
1 GAAAAATTAAGATAATAATTTTTTATTCAATTTTTAATTTCTAAAAAATTCATTTCATACATTAA
* *
1630691 TGGAGAACCAAAAAGATACGAAAAGTTTTGAAGATTTCTATACCCCTACGAAAAACCATAGGAAT
66 TGGAGAACCAAAAAGATACGAAAAGTTTTAAAAATTTCTATACCCCTACGAAAAACCATAGGAAT
*
1630756 ATTG
131 ATTA
* * * *
1630760 GAAAGATTAAGATAATAA-TTTTTATTCAATTTTTAATTT-TCAAACAATTCATTTCGTACCTTA
1 GAAAAATTAAGATAATAATTTTTTATTCAATTTTTAATTTCT-AAAAAATTCATTTCATACATTA
* *
1630823 ATGGAGAACCGAAAAGATATGAAAAGTTTTAAAAATTT-TCATACCC
65 ATGGAGAACCAAAAAGATACGAAAAGTTTTAAAAATTTCT-ATACCC
1630869 TCACGGATAC
Statistics
Matches: 98, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
132 2 0.02
133 79 0.81
134 17 0.17
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (134 bp):
GAAAAATTAAGATAATAATTTTTTATTCAATTTTTAATTTCTAAAAAATTCATTTCATACATTAA
TGGAGAACCAAAAAGATACGAAAAGTTTTAAAAATTTCTATACCCCTACGAAAAACCATAGGAAT
ATTA
Found at i:1631821 original size:21 final size:19
Alignment explanation
Indices: 1631795--1631840 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
1631785 TTTACCTTAA
1631795 TTTTTCTTTTTTTTTCTCTT
1 TTTTTC-TTTTTTTTCTCTT
1631815 TTCTTTC-TTTTTTTCTCTT
1 TT-TTTCTTTTTTTTCTCTT
1631834 TTTTTCT
1 TTTTTCT
1631841 CTCTACTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 4 0.17
19 14 0.58
20 2 0.08
21 4 0.17
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTTCTTTTTTTTCTCTT
Found at i:1631839 original size:10 final size:10
Alignment explanation
Indices: 1631795--1631842 Score: 71
Period size: 10 Copynumber: 4.9 Consensus size: 10
1631785 TTTACCTTAA
*
1631795 TTTTTCTTTT
1 TTTTTCTCTT
1631805 TTTTTCTCTT
1 TTTTTCTCTT
*
1631815 TTCTT-TCTT
1 TTTTTCTCTT
1631824 TTTTTCTCTT
1 TTTTTCTCTT
1631834 TTTTTCTCT
1 TTTTTCTCT
1631843 CTACTTATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
9 8 0.24
10 26 0.76
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTCTCTT
Found at i:1635782 original size:66 final size:67
Alignment explanation
Indices: 1635626--1635975 Score: 250
Period size: 66 Copynumber: 5.3 Consensus size: 67
1635616 CTCTAGTGAT
* * ** * * * * * * *
1635626 CCAAAGTTAGTTTATATTGTTTCATCTCAAG-CAACCCTTCTTCGACTTAGGTT-TCCACCTAGT
1 CCAAAGTTAGTTTGTATGGTTTTGTCTCGAGCCAACCCTTTTTTGACTTAAGTTCTGC-CTTGGT
*
1635689 CAT
65 CAC
* * * * * * * *
1635692 CCAAAATTGGTTCGTATGGCTTTGTCTCGA-CCAACCCTTCTTTGACTTAAGTTCTACCCTGTTC
1 CCAAAGTTAGTTTGTATGGTTTTGTCTCGAGCCAACCCTTTTTTGACTTAAGTTCTGCCTTGGTC
1635756 AC
66 AC
* * * * *
1635758 CCAAAGTTAGTTTGCATGGTTTTGTCTTGA-CCAA-ACTTTGTTTTACTCAAGTTCTGCCTTGGT
1 CCAAAGTTAGTTTGTATGGTTTTGTCTCGAGCCAACCCTTT-TTTGACTTAAGTTCTGCCTTGGT
1635821 CAC
65 CAC
*** * * * ** * *
1635824 CTTTAGCTGGTTTGTATGGTTTCGTCTC-AGCCAACCCTTTTTTGACTTGGGTTTTGCCTTAGTC
1 CCAAAGTTAGTTTGTATGGTTTTGTCTCGAGCCAACCCTTTTTTGACTTAAGTTCTGCCTTGGTC
1635888 A-
66 AC
* * *
1635889 CCAAAGTTAGTTCGTATGGTTTTATC-CCAGCCAA-CCTTTTTTGACTTAAGTTCTGCCTTGGTC
1 CCAAAGTTAGTTTGTATGGTTTTGTCTCGAGCCAACCCTTTTTTGACTTAAGTTCTGCCTTGGTC
1635952 AC
66 AC
***
1635954 CTTTAGTTAGTTTGTATGGTTT
1 CCAAAGTTAGTTTGTATGGTTT
1635976 CATCCTAGTT
Statistics
Matches: 218, Mismatches: 59, Indels: 15
0.75 0.20 0.05
Matches are distributed among these distances:
64 27 0.12
65 46 0.21
66 139 0.64
67 6 0.03
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (67 bp):
CCAAAGTTAGTTTGTATGGTTTTGTCTCGAGCCAACCCTTTTTTGACTTAAGTTCTGCCTTGGTC
AC
Found at i:1636153 original size:64 final size:67
Alignment explanation
Indices: 1636085--1636238 Score: 194
Period size: 64 Copynumber: 2.4 Consensus size: 67
1636075 GGTCACCCTT
* * *
1636085 AGTTGGTTCATATGGTTTCATCTCT-ACTAACCTTTTTT-GACT-TAGATTTC-TCCTGGTCATC
1 AGTTGGTTCATATGGTTTCATCTCTGACTAACCTTTTTTCGACTCAAG-TTTCAACCTAGTCATC
1636146 CAA
65 CAA
* *
1636149 AGTTGGTTCATATGGTTTCATCT-TGATTAACCTTTTTTCGACTCAAGTTTCAACCTAGTCATCT
1 AGTTGGTTCATATGGTTTCATCTCTGACTAACCTTTTTTCGACTCAAGTTTCAACCTAGTCATCC
*
1636213 TA
66 AA
1636215 AGTTGGTTC-TATTGGTTTCATCTC
1 AGTTGGTTCATA-TGGTTTCATCTC
1636239 GAGCAATTCC
Statistics
Matches: 78, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
63 1 0.01
64 35 0.45
65 10 0.13
66 32 0.41
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (67 bp):
AGTTGGTTCATATGGTTTCATCTCTGACTAACCTTTTTTCGACTCAAGTTTCAACCTAGTCATCC
AA
Found at i:1641763 original size:29 final size:29
Alignment explanation
Indices: 1641721--1641807 Score: 149
Period size: 29 Copynumber: 3.0 Consensus size: 29
1641711 ATTCTGCTGC
1641721 ATATTCAGCCATCATCTTAGCCCCTTGAA
1 ATATTCAGCCATCATCTTAGCCCCTTGAA
1641750 ATATTCAGCCATCATCTTAGCCCCTTGAA
1 ATATTCAGCCATCATCTTAGCCCCTTGAA
*
1641779 ATATTTAGCCATCATCTTA-CTCCCTTGAA
1 ATATTCAGCCATCATCTTAGC-CCCTTGAA
1641808 TTAGCTCAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
28 1 0.02
29 55 0.98
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (29 bp):
ATATTCAGCCATCATCTTAGCCCCTTGAA
Found at i:1642524 original size:31 final size:31
Alignment explanation
Indices: 1642482--1642549 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
1642472 ACTTGACTTG
* *
1642482 GACTTAGGTGCCATCAGCTTGTGTGGGCTTC
1 GACTCAGGTGCCACCAGCTTGTGTGGGCTTC
* *
1642513 GACTCAGGTGCCGCCAGCTTGTGTGGGCTTT
1 GACTCAGGTGCCACCAGCTTGTGTGGGCTTC
1642544 GACTCA
1 GACTCA
1642550 AACTTGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.13, C:0.25, G:0.32, T:0.29
Consensus pattern (31 bp):
GACTCAGGTGCCACCAGCTTGTGTGGGCTTC
Found at i:1642676 original size:31 final size:31
Alignment explanation
Indices: 1642638--1642763 Score: 110
Period size: 31 Copynumber: 4.1 Consensus size: 31
1642628 CTTGACTCGA
* * *
1642638 ACTTAGGTGCCACCAACTTGTGTGGGCTTTG
1 ACTTAGGTACCACCAACTCGTGCGGGCTTTG
* * * *
1642669 ACTTAGGTGCTATCAACTCGTACGGGCTTTG
1 ACTTAGGTACCACCAACTCGTGCGGGCTTTG
** * *
1642700 ACTTAGGTACTGCCAGCTTGTGCGGGCTTTG
1 ACTTAGGTACCACCAACTCGTGCGGGCTTTG
** *
1642731 AC-TAGGGTACCACCAACTCAAGTGGGCTTTG
1 ACTTA-GGTACCACCAACTCGTGCGGGCTTTG
1642762 AC
1 AC
1642764 ATGCTAAGGC
Statistics
Matches: 76, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
30 2 0.03
31 74 0.97
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.29
Consensus pattern (31 bp):
ACTTAGGTACCACCAACTCGTGCGGGCTTTG
Found at i:1642798 original size:180 final size:178
Alignment explanation
Indices: 1642578--1642928 Score: 490
Period size: 180 Copynumber: 1.9 Consensus size: 178
1642568 TTCTGTAGGT
* * *
1642578 TTTGACATTCTAAGGCTTGATCTCCTTAGACAGGTGCCAACTAATTTGGACTTGACTCGAACTTA
1 TTTGACATGCTAAGGCTTGACCTCCTTAGACAGGTGCCAACTAATTTGGACTTGACTCAAACTTA
* *
1642643 GGTGCCACCAACTTGTGTGGGCTTTGACTTAGGTGCTAT-CAACTCGTACGGGCTTTGACTTAGG
66 GGTGCCACCAACTTGTATGGGCTTTGACTTA---GCTATCCAACTCGTACAGGCTTTGAC-TAGG
* * *
1642707 -TACTGCCAGCTTGTGCGGGCTTTGACTAGGGTACCACCAACTCAAGTGGGC
127 ATACTGCCAGCTTGTGCAGGCTTTGACTAAGATACCACCAACTCAAGTGGGC
* *
1642758 TTTGACATGCTAAGGCTTGACCTCCTTAGATAGTTGCCAACTAATTTGGACTTGACTCAAACTTA
1 TTTGACATGCTAAGGCTTGACCTCCTTAGACAGGTGCCAACTAATTTGGACTTGACTCAAACTTA
* * *
1642823 GGTGCCACCAGCTTGTATGGGCTTTGACTTAGCTATCGCCAACTCGTGCAGGCTTTGACTCGGAT
66 GGTGCCACCAACTTGTATGGGCTTTGACTTAGCTAT--CCAACTCGTACAGGCTTTGACTAGGAT
* * *
1642888 GCTGTCAGCTTGTGCAGGCTTTGACTAAGATGCCACCAACT
129 ACTGCCAGCTTGTGCAGGCTTTGACTAAGATACCACCAACT
1642929 TGTGTGAGCT
Statistics
Matches: 151, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
177 5 0.03
179 3 0.02
180 143 0.95
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (178 bp):
TTTGACATGCTAAGGCTTGACCTCCTTAGACAGGTGCCAACTAATTTGGACTTGACTCAAACTTA
GGTGCCACCAACTTGTATGGGCTTTGACTTAGCTATCCAACTCGTACAGGCTTTGACTAGGATAC
TGCCAGCTTGTGCAGGCTTTGACTAAGATACCACCAACTCAAGTGGGC
Found at i:1642931 original size:31 final size:31
Alignment explanation
Indices: 1642861--1642932 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
1642851 TTAGCTATCG
* ** **
1642861 CCAACTCGTGCAGGCTTTGACTCGGATGCTG
1 CCAACTTGTGCAGGCTTTGACTAAGATGCCA
* *
1642892 TCAGCTTGTGCAGGCTTTGACTAAGATGCCA
1 CCAACTTGTGCAGGCTTTGACTAAGATGCCA
1642923 CCAACTTGTG
1 CCAACTTGTG
1642933 TGAGCTTATA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.28
Consensus pattern (31 bp):
CCAACTTGTGCAGGCTTTGACTAAGATGCCA
Found at i:1643754 original size:10 final size:10
Alignment explanation
Indices: 1643739--1643772 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
1643729 CTAGTCGAGA
*
1643739 TAGATTGGCG
1 TAGATTGGTG
1643749 TAGATTGGTG
1 TAGATTGGTG
1643759 TAGATTGGTG
1 TAGATTGGTG
1643769 TAGA
1 TAGA
1643773 CACCTCATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.24, C:0.03, G:0.38, T:0.35
Consensus pattern (10 bp):
TAGATTGGTG
Found at i:1644046 original size:13 final size:13
Alignment explanation
Indices: 1644028--1644084 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1644018 CATAAAGTGT
1644028 TGTATCGATACAA
1 TGTATCGATACAA
1644041 TGTATCGATACATAA
1 TGTATCGATAC--AA
1644056 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1644073 TGTATCGATACA
1 TGTATCGATACA
1644085 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1644063 original size:32 final size:32
Alignment explanation
Indices: 1644008--1644108 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
1643998 TTCAATGATT
1644008 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
1644041 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
1644073 TGTATCGATACATAAGTTTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1644105 TGTA
1 TGTA
1644109 AGCTACTGCC
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 53 0.80
33 13 0.20
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1644065 original size:19 final size:18
Alignment explanation
Indices: 1644006--1644103 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
1643996 ATTTCAATGA
1644006 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
1644025 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1644041 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1644057 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1644073 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
1644089 TTTTGTATCAATACA
1 -TTTGTATCGATACA
1644104 ATGTAAGCTA
Statistics
Matches: 65, Mismatches: 1, Indels: 26
0.71 0.01 0.28
Matches are distributed among these distances:
13 22 0.34
15 4 0.06
17 4 0.06
19 23 0.35
20 12 0.18
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:1644164 original size:13 final size:13
Alignment explanation
Indices: 1644146--1644173 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1644136 ATTACTCAAA
1644146 TGTATCGATACAT
1 TGTATCGATACAT
1644159 TGTATCGATACAT
1 TGTATCGATACAT
1644172 TG
1 TG
1644174 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1644260 original size:51 final size:51
Alignment explanation
Indices: 1644179--1644305 Score: 220
Period size: 52 Copynumber: 2.5 Consensus size: 51
1644169 CATTGATCTT
* *
1644179 TGTATCGATACATGCAGGTAAATTTTCCAGATGTATCGATACACTAT-AAA
1 TGTATCGATACATGCAGGCAAATTTCCCAGATGTATCGATACACTATGAAA
1644229 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTT-CCCAGATGTATCGATACACTATGAAA
1644281 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1644306 TCATATTTCG
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
50 24 0.33
51 21 0.29
52 28 0.38
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (51 bp):
TGTATCGATACATGCAGGCAAATTTCCCAGATGTATCGATACACTATGAAA
Found at i:1650900 original size:13 final size:13
Alignment explanation
Indices: 1650882--1650907 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1650872 CAATTTTTTG
1650882 TGTATCGATACAT
1 TGTATCGATACAT
1650895 TGTATCGATACAT
1 TGTATCGATACAT
1650908 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:1650972 original size:21 final size:21
Alignment explanation
Indices: 1650946--1651021 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1650936 CTGCCAAGAA
*
1650946 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1650967 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1650987 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1651008 ATGTATCGATACAT
1 ATGTATCGATACAT
1651022 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1650992 original size:20 final size:20
Alignment explanation
Indices: 1650967--1651039 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1650957 CATCTTTTTT
1650967 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1650987 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1651008 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1651028 ATGTATCGATAC
1 ATGTATCGATAC
1651040 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1651003 original size:41 final size:41
Alignment explanation
Indices: 1650946--1651039 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1650936 CTGCCAAGAA
*
1650946 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1650987 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1651028 ATGTATCGATAC
1 ATGTATCGATAC
1651040 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1653514 original size:13 final size:13
Alignment explanation
Indices: 1653496--1653534 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1653486 ATAATCACCC
*
1653496 TGTATCGATACAG
1 TGTATCGATACAA
1653509 TGTATCGATACAA
1 TGTATCGATACAA
1653522 TGTATCGATACAA
1 TGTATCGATACAA
1653535 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1653545 original size:20 final size:20
Alignment explanation
Indices: 1653520--1653598 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
1653510 GTATCGATAC
1653520 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
1653540 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
1653565 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
1653585 CATGTATCGATACA
1 AATGTATCGATACA
1653599 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1655633 original size:15 final size:15
Alignment explanation
Indices: 1655613--1655643 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1655603 ATTTCGTTTG
*
1655613 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1655628 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1655643 G
1 G
1655644 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:1659725 original size:13 final size:13
Alignment explanation
Indices: 1659707--1659732 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1659697 CAATTTTTTG
1659707 TGTATCGATACAT
1 TGTATCGATACAT
1659720 TGTATCGATACAT
1 TGTATCGATACAT
1659733 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:1659818 original size:20 final size:20
Alignment explanation
Indices: 1659793--1659865 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1659783 ATCTTTTTTT
1659793 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1659813 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1659834 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1659854 ATGTATCGATAC
1 ATGTATCGATAC
1659866 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1659844 original size:41 final size:42
Alignment explanation
Indices: 1659771--1659865 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
1659761 CTGCCAAGAA
*
1659771 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1659813 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1659854 ATGTATCGATAC
1 ATGTATCGATAC
1659866 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:1675651 original size:21 final size:21
Alignment explanation
Indices: 1675622--1675675 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
1675612 GGTTGTTTTG
* *
1675622 TATCAATACATTTCAAGC-ATA
1 TATCGATACATTTC-ACCTATA
*
1675643 TATCGATACA-TTCACCTATG
1 TATCGATACATTTCACCTATA
1675663 TATCGATACATTT
1 TATCGATACATTT
1675676 ACTATTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 2 0.07
20 15 0.54
21 11 0.39
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.37
Consensus pattern (21 bp):
TATCGATACATTTCACCTATA
Found at i:1675687 original size:21 final size:20
Alignment explanation
Indices: 1675643--1675693 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
1675633 TTCAAGCATA
1675643 TATCGATACATTCACCTATG
1 TATCGATACATTCACCTATG
*
1675663 TATCGATACATTTA-CTATTTG
1 TATCGATACATTCACCTA--TG
1675684 TATCGATACA
1 TATCGATACA
1675694 AATTGTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 3 0.11
20 13 0.46
21 12 0.43
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (20 bp):
TATCGATACATTCACCTATG
Found at i:1678383 original size:32 final size:33
Alignment explanation
Indices: 1678321--1678384 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
1678311 CACAACCAGA
1678321 TGTATCGATACATATTGCTTAGTATCGATACAT
1 TGTATCGATACATATTGCTTAGTATCGATACAT
*
1678354 TGTATCGATACA-AGTT-CTTGGTATCGATACA
1 TGTATCGATACATA-TTGCTTAGTATCGATACA
1678385 CCTTGAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATATTGCTTAGTATCGATACAT
Found at i:1678458 original size:20 final size:21
Alignment explanation
Indices: 1678433--1678483 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
1678423 AAACTCTTTG
1678433 TATCGATACATGATGAATT-A
1 TATCGATACATGATGAATTGA
*
1678453 TATCGATACATGGTGAATTGA
1 TATCGATACATGATGAATTGA
1678474 -ATCGATACAT
1 TATCGATACAT
1678484 TGAGCCCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (21 bp):
TATCGATACATGATGAATTGA
Found at i:1680592 original size:21 final size:22
Alignment explanation
Indices: 1680541--1680593 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
1680531 AGTAAACTAG
*
1680541 AGAAGAAAATAAATAAGTTGGA
1 AGAAGAAAATAAATAAGTTGCA
* * *
1680563 A-AGGAAAAAAAATGAGTTGCA
1 AGAAGAAAATAAATAAGTTGCA
1680584 AGAAGAAAAT
1 AGAAGAAAAT
1680594 GATGAATTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.60, C:0.02, G:0.23, T:0.15
Consensus pattern (22 bp):
AGAAGAAAATAAATAAGTTGCA
Found at i:1687175 original size:11 final size:11
Alignment explanation
Indices: 1687161--1687211 Score: 68
Period size: 11 Copynumber: 4.5 Consensus size: 11
1687151 GAAAAAGTCA
1687161 AAAAAAACAAC
1 AAAAAAACAAC
1687172 AAAAAAACAAC
1 AAAAAAACAAC
*
1687183 AAAAACAAAAAC
1 AAAAA-AACAAC
1687195 -AAAAAACACAC
1 AAAAAAACA-AC
1687206 AAAAAA
1 AAAAAA
1687212 GAGTATATAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 3 0.09
11 22 0.63
12 10 0.29
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAC
Found at i:1687178 original size:23 final size:23
Alignment explanation
Indices: 1687159--1687210 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
1687149 ATGAAAAAGT
1687159 CAAAAA-AAACAACAAAAAAACAA
1 CAAAAACAAA-AACAAAAAAACAA
1687182 CAAAAACAAAAAC-AAAAAACACA
1 CAAAAACAAAAACAAAAAAACA-A
1687205 CAAAAA
1 CAAAAA
1687211 AGAGTATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.30
23 16 0.59
24 3 0.11
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (23 bp):
CAAAAACAAAAACAAAAAAACAA
Found at i:1687207 original size:26 final size:25
Alignment explanation
Indices: 1687163--1687211 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
1687153 AAAAGTCAAA
1687163 AAAAACAACAAAAAAACAACAAAAAC
1 AAAAACAACAAAAAAACAA-AAAAAC
*
1687189 AAAAACAA-AAAACACACAAAAAA
1 AAAAACAACAAAA-AAACAAAAAA
1687212 GAGTATATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (25 bp):
AAAAACAACAAAAAAACAAAAAAAC
Found at i:1688559 original size:31 final size:31
Alignment explanation
Indices: 1688488--1688786 Score: 271
Period size: 31 Copynumber: 9.7 Consensus size: 31
1688478 ATCTCTCTTC
1688488 TCAAAGTCCACGACTCAGTGGCATCTCTTT-T
1 TCAAAGTCCACGACTCAGTGGCATCT-TTTCT
*
1688519 T-TAAGTCCACGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
1688549 TCAAAGTCCACGACTCAGTGGCAATC---TCT
1 TCAAAGTCCACGACTCAGTGGC-ATCTTTTCT
* *
1688578 TCAAAGTCCACAACTCAATGGCATCTCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCA--TCTTTTCT
* *
1688611 T-TAAGTCCACGACTCAGTGGCAATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGC-ATCTTTTCT
* * *
1688641 TCAAAGTCCACGAGTCAGTGGTAATC--AT-T
1 TCAAAGTCCACGACTCAGTGG-CATCTTTTCT
*
1688670 TCAAAGTCCACGACTCAGTGGCAATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGC-ATCTTTTCT
* * *
1688701 TCAAAGTCCATGACTCAGTGGCACCTTGTTCC
1 TCAAAGTCCACGACTCAGTGGCATCTT-TTCT
* *
1688733 T-AAAGTCCACGACTCTGTGGCACTTTTTTCTTT
1 TCAAAGTCCACGACTCAGTGGCA-TCTTTTC--T
* *
1688766 TCAAAGTCCACAACTCTGTGG
1 TCAAAGTCCACGACTCAGTGG
1688787 TACCCTTTTA
Statistics
Matches: 222, Mismatches: 24, Indels: 41
0.77 0.08 0.14
Matches are distributed among these distances:
28 1 0.00
29 50 0.23
30 31 0.14
31 93 0.42
32 23 0.10
33 6 0.03
34 18 0.08
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.31
Consensus pattern (31 bp):
TCAAAGTCCACGACTCAGTGGCATCTTTTCT
Found at i:1688645 original size:92 final size:90
Alignment explanation
Indices: 1688488--1688754 Score: 344
Period size: 92 Copynumber: 2.9 Consensus size: 90
1688478 ATCTCTCTTC
*
1688488 TCAAAGTCCACGACTCAGTGGCATCTCTTT-TTTAAGTCCACGACTCAGTGGCATCTTTTCTTCA
1 TCAAAGTCCACGACTCAGTGGCATCTCTTTCTTTAAGTCCACGACTCAGTGGCATCTCTTC-TCA
1688552 AAGTCCACGACTCAGTGGCAATC-TCT
65 AAGTCCACGACTCAGTGGCAATCAT-T
* *
1688578 TCAAAGTCCACAACTCAATGGCATCTCTTTTCTTTAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 TCAAAGTCCACGACTCAGTGGCATCTC-TTTCTTTAAGTCCACGACTCAGTGGC-ATCTCTTCTC
* *
1688643 AAAGTCCACGAGTCAGTGGTAATCATT
64 AAAGTCCACGACTCAGTGGCAATCATT
** * * *
1688670 TCAAAGTCCACGACTCAGTGGCAATCTC-TTCTCAAAGTCCATGACTCAGTGGCACCTTGTTC-C
1 TCAAAGTCCACGACTCAGTGGC-ATCTCTTTCTTTAAGTCCACGACTCAGTGGCATC-TCTTCTC
*
1688733 TAAAGTCCACGACTCTGTGGCA
64 -AAAGTCCACGACTCAGTGGCA
1688755 CTTTTTTCTT
Statistics
Matches: 155, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
90 28 0.18
91 47 0.30
92 67 0.43
93 13 0.08
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (90 bp):
TCAAAGTCCACGACTCAGTGGCATCTCTTTCTTTAAGTCCACGACTCAGTGGCATCTCTTCTCAA
AGTCCACGACTCAGTGGCAATCATT
Found at i:1688700 original size:60 final size:59
Alignment explanation
Indices: 1688483--1688754 Score: 289
Period size: 60 Copynumber: 4.5 Consensus size: 59
1688473 TTCAAATCTC
* * ** *
1688483 TCTTCTCAAAGTCCACGACTCAGTGGC-ATCTCTTTTTTAAGTCCACGACTCAGTGGCA
1 TCTTTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGAA
* * *
1688541 TCTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTC-T-TCAAAGTCCACAACTCAATGGCATC
1 TC--TT-TTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGG-A-A
* *
1688603 TCTTTTCTTTAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGAGTCAGTGGTAA
1 TCTTTTC--AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGG-AA
* * *
1688665 TCATTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCATGACTCAGTGGCA
1 TCTTTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGAA
* *
1688724 CCTTGTTCCTAAAGTCCACGACTCTGTGGCA
1 TCTT-TT-C-AAAGTCCACGACTCAGTGGCA
1688755 CTTTTTTCTT
Statistics
Matches: 180, Mismatches: 21, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
58 2 0.01
59 6 0.03
60 70 0.39
61 49 0.27
62 34 0.19
63 19 0.11
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.30
Consensus pattern (59 bp):
TCTTTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGAA
Found at i:1688782 original size:34 final size:32
Alignment explanation
Indices: 1688735--1689397 Score: 444
Period size: 34 Copynumber: 20.7 Consensus size: 32
1688725 CTTGTTCCTA
*
1688735 AAGTCCACGACTCTGTGGCACTTTTTTCTTTT
1 AAGTCCACAACTCTGTGGCACTTTTTTCTTTT
* *
1688767 CAAAGTCCACAACTCTGTGGTAC-----CCTTTT
1 --AAGTCCACAACTCTGTGGCACTTTTTTCTTTT
** **
1688796 AAGTCCACAACTCCATGGCATCTTTGTCCCTTTT
1 AAGTCCACAACTCTGTGGCA-CTTT-TTTCTTTT
* **
1688830 AAGTCCACAACTCTGTGACACCATTTTCTTTTT
1 AAGTCCACAACTCTGTGGCACTTTTTTC-TTTT
* *
1688863 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
1 -AAGTCCACAACTCTGTGGCACT-TTTTT-CTTTT
* *
1688898 AAGTCCACAACTCCGTGGCAC-----CCTTTT
1 AAGTCCACAACTCTGTGGCACTTTTTTCTTTT
* *
1688925 AAGTCCATAACTCCGTGGCACCTTTTTT-TTTT
1 AAGTCCACAACTCTGTGGCA-CTTTTTTCTTTT
* *
1688957 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
1 -AAGTCCACAACTCTGTGGCACT-TTTTT-CTTTT
* *
1688992 AAGTCCACAACTCCGTGGCATTTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCACTTTTTT-CTTTT
*
1689025 AAGTCCACAACTCTGTGGCACCTTTTTCTTTT
1 AAGTCCACAACTCTGTGGCACTTTTTTCTTTT
*
1689057 CAAAGTCCACAACTCTGTGGCAC-----CCTTTT
1 --AAGTCCACAACTCTGTGGCACTTTTTTCTTTT
* **
1689086 AAGTCCACAACTCTGTGGCACCTTTTTCCCTTCA
1 AAGTCCACAACTCTGTGGCA-CTTTTT-TCTTTT
*
1689120 AAGTCCACAACTCTGTGGCAC-----CCTTTT
1 AAGTCCACAACTCTGTGGCACTTTTTTCTTTT
* * *
1689147 AAGTCCACAACTCTATGGCACCTTTTTCCCTTTA
1 AAGTCCACAACTCTGTGGCA-CTTTTT-TCTTTT
*
1689181 AAGCCCACAACTCTGTGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCACT-TTTTT-CTTTT
* *
1689215 AAGTCCACAACTGTGTCGCATCTTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCA-CTTTTTT-CTTTT
* ** *
1689249 AAATCCACAACTCCATGGCACCTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCA-CTTTTTTCTTTT
* *
1689282 AAGTCCACAAC-CACGTGGCAC-----CCTTTT
1 AAGTCCACAACTC-TGTGGCACTTTTTTCTTTT
* * *
1689309 AAATCCACAACTCCGTGGCACCTTTTTCCCTTTT
1 AAGTCCACAACTCTGTGGCA-CTTTTT-TCTTTT
* * * ** *
1689343 AAGCCCACACCACCATGGCATCCTTTTTTCTTGT
1 AAGTCCACAACTCTGTGGCA--CTTTTTTCTTTT
*
1689377 AAGTCCACAACTCCGTGGCAC
1 AAGTCCACAACTCTGTGGCAC
1689398 CTTTAAGTCC
Statistics
Matches: 515, Mismatches: 64, Indels: 102
0.76 0.09 0.15
Matches are distributed among these distances:
27 107 0.21
28 6 0.01
29 10 0.02
32 16 0.03
33 88 0.17
34 266 0.52
35 21 0.04
36 1 0.00
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (32 bp):
AAGTCCACAACTCTGTGGCACTTTTTTCTTTT
Found at i:1688922 original size:27 final size:27
Alignment explanation
Indices: 1688892--1689173 Score: 168
Period size: 27 Copynumber: 9.2 Consensus size: 27
1688882 CACTCTTTTT
*
1688892 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
* *
1688919 CCTTTTAAGTCCATAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
* * *
1688946 CTTTTTTTTTTAAAGCCCACAACTCCGTGGCACTC
1 C-----CTTTT-AAGTCCACAACTCTGTGGCA--C
* *
1688981 TTTTTCCTTTTAAGTCCACAACTCCGTGGCATTTTTTT
1 -----CCTTTTAAGTCCACAACTCTGTGGCA------C
1689019 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
1689046 CTTTTTCTTTTCAAAGTCCACAACTCTGTGGCAC
1 C-----CTTTT--AAGTCCACAACTCTGTGGCAC
1689080 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
*
1689107 CTTTTTCCCTTCAAAGTCCACAACTCTGTGGCAC
1 C--CTT---TT--AAGTCCACAACTCTGTGGCAC
*
1689141 CCTTTTAAGTCCACAACTCTATGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
*
1689168 CTTTTT
1 CCTTTT
1689174 CCCTTTAAAG
Statistics
Matches: 210, Mismatches: 14, Indels: 62
0.73 0.05 0.22
Matches are distributed among these distances:
27 75 0.36
29 9 0.04
32 13 0.06
33 43 0.20
34 63 0.30
35 5 0.02
38 1 0.00
40 1 0.00
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCTGTGGCAC
Found at i:1688975 original size:94 final size:93
Alignment explanation
Indices: 1688823--1689408 Score: 504
Period size: 94 Copynumber: 6.2 Consensus size: 93
1688813 GCATCTTTGT
* * *
1688823 CCCTTTTAAGTCCACAACTCTGTGACACCATTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCT
1 CCCTTTTAAGTCCACAACTCTGTGGCACC-TTTTTTTTTTAAAGCCCACAACTCCATGGCAC-CT
1688888 TTTTCCTTTTAAGTCCACAACTCCGTGGCA
64 TTTTCCTTTTAAGTCCACAACTCCGTGGCA
* * *
1688918 CCCTTTTAAGTCCATAACTCCGTGGCACCTTTTTTTTTTAAAGCCCACAACTCCGTGGCACTCTT
1 CCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTTTTTTAAAGCCCACAACTCCATGGCAC-CTT
1688983 TTTCCTTTTAAGTCCACAACTCCGTGGCA
65 TTTCCTTTTAAGTCCACAACTCCGTGGCA
* * * **
1689012 TTTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCTGTGG
1 ------CCCTTTTAAGTCCACAACTCTGTGGCACCTTTTT-TTTTTAAAGCCCACAACTCCATGG
*
1689077 CA-C-----CCTTTTAAGTCCACAACTCTGTGGCA
59 CACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
* * * *
1689106 CCTTTTTCCCTTCAAAGTCCACAACTCTGTGGCACC-----CTTTT-AAGTCCACAACTCTATGG
1 CC--CTT---TT--AAGTCCACAACTCTGTGGCACCTTTTTTTTTTAAAGCCCACAACTCCATGG
* * *
1689165 CACCTTTTTCCCTTTAAAGCCCACAACTCTGTGGCA
59 CACCTTTTT-CCTTTTAAGTCCACAACTCCGTGGCA
* * * *
1689201 CTCTTTTTCCTTTTAAGTCCACAACTGTGTCGCATCTTTTTTCCTTTTAAA-TCCACAACTCCAT
1 --C-----CCTTTTAAGTCCACAACTCTGTGGCACCTTTTTT--TTTTAAAGCCCACAACTCCAT
1689265 GGCACCTTTTTCCTTTTAAGTCCACAAC-CACGTGGCA
57 GGCACCTTTTTCCTTTTAAGTCCACAACTC-CGTGGCA
* * * * *
1689302 CCCTTTTAAATCCACAACTCCGTGGCACCTTTTTCCCTTTT-AAGCCCACACCACCATGGCATCC
1 CCCTTTTAAGTCCACAACTCTGTGGCACCTTTTT--TTTTTAAAGCCCACAACTCCATGGCA-CC
* *
1689366 TTTTTTCTTGTAAGTCCACAACTCCGTGGCA
63 TTTTTCCTTTTAAGTCCACAACTCCGTGGCA
1689397 -CC-TTTAAGTCCA
1 CCCTTTTAAGTCCA
1689409 ATATCGTTGG
Statistics
Matches: 410, Mismatches: 39, Indels: 86
0.77 0.07 0.16
Matches are distributed among these distances:
88 20 0.05
89 4 0.01
90 2 0.00
93 13 0.03
94 137 0.33
95 120 0.29
96 1 0.00
97 3 0.01
99 2 0.00
100 34 0.08
101 44 0.11
102 28 0.07
103 2 0.00
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (93 bp):
CCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTTTTTTAAAGCCCACAACTCCATGGCACCTTT
TTCCTTTTAAGTCCACAACTCCGTGGCA
Found at i:1688992 original size:162 final size:154
Alignment explanation
Indices: 1688823--1689408 Score: 637
Period size: 162 Copynumber: 3.7 Consensus size: 154
1688813 GCATCTTTGT
* * * *
1688823 CCCTTTTAAGTCCACAACTCTGTGACACCATTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCT
1 CCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT-AAGCCCACAACTCCGTGGCACTCT
*
1688888 TTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCACCTTTTT-
65 TTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTC
* *
1688952 TTTTTAAAGCCCACAACTCCGTGGCA
130 CTTTT-AAGTCCACAACTCCGTGGCA
** * *
1688978 CTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCATTTTTTTCCTTTTAAGTCCACAACTCTGTGG
1 --C-----CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGCCCACAACTCCGTGG
* *
1689043 CAC-CTTTTT-CTTTTCAAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCTGTGGCA
59 CACTCTTTTTCCTTTT--AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA
** *
1689106 CCTTTTTCCCTTCAAAGTCCACAACTCTGTGGCA
122 CCTTTTT-CCTTTTAAGTCCACAACTCCGTGGCA
** * *
1689140 CCCTTTTAAGTCCACAACTCTATGGCACCTTTTTCCCTTTAAAGCCCACAACTCTGTGGCACTCT
1 CCCTTTTAAGTCCACAACTCCGTGGCACCTTTTT-CCTTTTAAGCCCACAACTCCGTGGCACTCT
** * * *
1689205 TTTTCCTTTTAAGTCCACAACTGTGTCGCATCTTTTTTCCTTTTAAATCCACAACTCCATGGCAC
65 TTTTCCTTTTAAGTCCACAACTCCGTGGCA-C------CCTTTTAAGTCCACAACTCCGTGGCAC
1689270 CTTTTTCCTTTTAAGTCCACAAC-CACGTGGCA
123 CTTTTTCCTTTTAAGTCCACAACTC-CGTGGCA
* * * *
1689302 CCCTTTTAAATCCACAACTCCGTGGCACCTTTTTCCCTTTTAAGCCCACACCACCATGGCA-TCC
1 CCCTTTTAAGTCCACAACTCCGTGGCACCTTTTT-CCTTTTAAGCCCACAACTCCGTGGCACT-C
* *
1689366 TTTTTTCTTGTAAGTCCACAACTCCGTGGCA-CC-TTTAAGTCCA
64 TTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1689409 ATATCGTTGG
Statistics
Matches: 364, Mismatches: 44, Indels: 46
0.80 0.10 0.10
Matches are distributed among these distances:
153 9 0.02
154 2 0.01
155 29 0.08
156 43 0.12
157 8 0.02
158 5 0.01
159 5 0.01
160 7 0.02
161 72 0.20
162 152 0.42
163 32 0.09
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (154 bp):
CCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTT
TTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCC
TTTTAAGTCCACAACTCCGTGGCA
Found at i:1689087 original size:61 final size:61
Alignment explanation
Indices: 1688953--1689275 Score: 328
Period size: 61 Copynumber: 5.1 Consensus size: 61
1688943 CACCTTTTTT
* * * *
1688953 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTAAGTCCACAACTCCGTGGCATTTTT
1 TTTT-AAGTCCACAACTCTGTGGCAC-CTTTTTCCCTTTAAAGTCCACAACTCTGTGGCA-----
*
1689017 TTCC
59 -CCC
*
1689021 TTTTAAGTCCACAACTCTGTGGCACCTTTTT-CTTTTCAAAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCTGTGGCACCTTTTTCCCTTT-AAAGTCCACAACTCTGTGGCACCC
*
1689082 TTTTAAGTCCACAACTCTGTGGCACCTTTTTCCCTTCAAAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCTGTGGCACCTTTTTCCCTTTAAAGTCCACAACTCTGTGGCACCC
* *
1689143 TTTTAAGTCCACAACTCTATGGCACCTTTTTCCCTTTAAAGCCCACAACTCTGTGGCACTCTTTT
1 TTTTAAGTCCACAACTCTGTGGCACCTTTTTCCCTTTAAAGTCCACAACTCTGTGGCA--C----
1689208 TCC
60 -CC
* * * * ** *
1689211 TTTTAAGTCCACAACTGTGTCGCATCTTTTTTCCTTTTAAA-TCCACAACTCCATGGCACCT
1 TTTTAAGTCCACAACTCTGTGGCA-CCTTTTTCCCTTTAAAGTCCACAACTCTGTGGCACCC
1689272 TTTT
1 TTTT
1689276 CCTTTTAAGT
Statistics
Matches: 225, Mismatches: 20, Indels: 27
0.83 0.07 0.10
Matches are distributed among these distances:
61 117 0.52
62 3 0.01
63 1 0.00
66 11 0.05
67 38 0.17
68 41 0.18
69 14 0.06
ACGTcount: A:0.21, C:0.31, G:0.11, T:0.37
Consensus pattern (61 bp):
TTTTAAGTCCACAACTCTGTGGCACCTTTTTCCCTTTAAAGTCCACAACTCTGTGGCACCC
Found at i:1689141 original size:95 final size:95
Alignment explanation
Indices: 1688668--1689336 Score: 483
Period size: 95 Copynumber: 7.0 Consensus size: 95
1688658 GTGGTAATCA
* * * * ** * *
1688668 TTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCATGACTCAGTGGCACCTTGTTCC
1 TTTCAAAGTCCACAACTCCGTGGC-ATCCCTT-T-TAAGTCCACAACTCCGTGGCACCTTTTTCC
* * *
1688733 --TAAAGTCCACGACTCTGTGGCACTTTTTTCT
63 TTTTAAGTCCACAACTCTGTGGCACCTTTTTCT
* * * * *
1688764 TTTCAAAGTCCACAACTCTGTGGTA-CCCTTTTAAGTCCACAACTCCATGGCATCTTTGTCCCTT
1 TTTCAAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCTTT-TTCCTT
* *
1688828 TTAAGTCCACAACTCTGTGACACCATTTTCT
65 TTAAGTCCACAACTCTGTGGCACCTTTTTCT
* *
1688859 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-C----
1 TTTCAAAGTCCACAACTCCGTGGCA-TC-----CCTTTTAAGTCCACAACTCCGTGGCACCTTTT
* *
1688919 -CCTTTTAAGTCCATAACTCCGTGGCACCTTTTT-T
60 TCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCT
* * **
1688953 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCATTTTTT
1 TTTCAAAGTCCACAACTCCGTGGCA-TC-----CCTTTTAAGTCCACAACTCCGTGGCACCTTTT
1689018 TCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCT
60 TCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCT
* *
1689054 TTTCAAAGTCCACAACTCTGTGGCA-CCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCCTT
1 TTTCAAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCTTTTT-CCTT
**
1689118 CAAAGTCCACAACTCTGTGGCACC-----CT
65 TTAAGTCCACAACTCTGTGGCACCTTTTTCT
** * * *
1689144 TTT--AAGTCCACAACTCTATGGCACCTTTTTCCCTTTAAAGCCCACAACTCTGTGGCACTCTTT
1 TTTCAAAGTCCACAACTCCGTGGCA------TCCCTTTTAAGTCCACAACTCCGTGGCAC-CTTT
* * *
1689207 TTCCTTTTAAGTCCACAACTGTGTCGCATCTTTTTTCCT
59 TTCCTTTTAAGTCCACAACTCTGTGGCA-CCTTTTT-CT
* *
1689246 TTT-AAA-TCCACAACTCCATGGCACCTTTTTCCTTTTAAGTCCACAAC-CACGTGGCA-C----
1 TTTCAAAGTCCACAACTCCGTGGCA-----TCCCTTTTAAGTCCACAACTC-CGTGGCACCTTTT
* *
1689303 -CCTTTTAAATCCACAACTCCGTGGCACCTTTTTC
60 TCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTC
1689337 CCTTTTAAGC
Statistics
Matches: 482, Mismatches: 56, Indels: 74
0.79 0.09 0.12
Matches are distributed among these distances:
88 19 0.04
90 5 0.01
92 20 0.04
93 10 0.02
94 116 0.24
95 151 0.31
96 28 0.06
97 1 0.00
99 2 0.00
100 32 0.07
101 50 0.10
102 46 0.10
103 2 0.00
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.35
Consensus pattern (95 bp):
TTTCAAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTT
TAAGTCCACAACTCTGTGGCACCTTTTTCT
Found at i:1689306 original size:27 final size:27
Alignment explanation
Indices: 1689276--1689335 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
1689266 GCACCTTTTT
*
1689276 CCTTTTAAGTCCACAAC-CACGTGGCAC
1 CCTTTTAAATCCACAACTC-CGTGGCAC
1689303 CCTTTTAAATCCACAACTCCGTGGCAC
1 CCTTTTAAATCCACAACTCCGTGGCAC
*
1689330 CTTTTT
1 CCTTTT
1689336 CCCTTTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.35, G:0.12, T:0.30
Consensus pattern (27 bp):
CCTTTTAAATCCACAACTCCGTGGCAC
Found at i:1689315 original size:60 final size:61
Alignment explanation
Indices: 1689243--1689369 Score: 195
Period size: 60 Copynumber: 2.1 Consensus size: 61
1689233 CATCTTTTTT
* *
1689243 CCTTTTAAATCCACAACTCCATGGCACCTTTTT-CCTTTTAAGTCCACAACCA-CGTGGCAC
1 CCTTTTAAATCCACAACTCCATGGCACCTTTTTCCCTTTTAAGCCCAC-ACCACCATGGCAC
* *
1689303 CCTTTTAAATCCACAACTCCGTGGCACCTTTTTCCCTTTTAAGCCCACACCACCATGGCAT
1 CCTTTTAAATCCACAACTCCATGGCACCTTTTTCCCTTTTAAGCCCACACCACCATGGCAC
1689364 CCTTTT
1 CCTTTT
1689370 TTCTTGTAAG
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
60 36 0.59
61 25 0.41
ACGTcount: A:0.23, C:0.36, G:0.09, T:0.31
Consensus pattern (61 bp):
CCTTTTAAATCCACAACTCCATGGCACCTTTTTCCCTTTTAAGCCCACACCACCATGGCAC
Found at i:1689536 original size:21 final size:20
Alignment explanation
Indices: 1689468--1689536 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 20
1689458 ATGTCGCTAG
1689468 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCA-ATTGGCA
* *
1689489 CCTTTAAGTC--CAATATCGCTA
1 CCTTGAA-TCAGCAAT-TGGC-A
1689510 GCCTTGAATCAGCATATTGGCA
1 -CCTTGAATCAGCA-ATTGGCA
1689532 CCTTG
1 CCTTG
1689537 TCTCTAAGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
19 2 0.05
20 5 0.14
21 14 0.38
22 9 0.24
23 5 0.14
24 2 0.05
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (20 bp):
CCTTGAATCAGCAATTGGCA
Found at i:1689577 original size:48 final size:46
Alignment explanation
Indices: 1689400--1690238 Score: 447
Period size: 49 Copynumber: 17.8 Consensus size: 46
1689390 CGTGGCACCT
* * * * * *
1689400 TTAAGTCCAATATCGTTGGCCTTGAATCAGTATATTAGCACCTTTATC
1 TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TT-TC
* *
1689448 TTTAAAACCAATGTCGCTAGCCTTGAATCAGCACATTGGCACC--T-
1 -TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTC
* * * *
1689492 TTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTC
1 TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TC
* * *
1689539 TCTAAGACCATTGTCGCTGGCCTTGAACCAGTACATTGGCA------
1 T-TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTC
* *
1689580 -TAA-ACCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTC
1 TTAAGA-CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TC
* *
1689626 TTTAAGACCATTGTCGCTGGCCTTGAATCAGCACATTAGCA-----C
1 -TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTC
*
1689668 --AAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-----C
1 TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTC
* * *
1689707 --AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT--TC
* * *
1689753 TTTAAGACCGATGTCGTTGGCCTTGAATCATCACATTGGCACCTTAACCATC
1 -TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-----TC
* * * *
1689805 TTTAAGTCCAATGTCTCCGGCCTTGAATCAGCACATTGGCATCTTCATC
1 -TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT--TC
* * * * * *
1689854 TGTAAGTCCGATATCGCTGGCCTTGAATCAGCATATTAGAACCTTCATC
1 T-TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT--TC
* * * * * *
1689903 TTTAAGACCGATGTCGTTGGTCTAGAATCAGCACATTAGCACCATAACCATC
1 -TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-T----TTC
* ** *
1689955 TTTAAGTCCAATGTCGCCAGCCTTGAATCAGCACATTGGCATCTTCATC
1 -TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT--TC
* * * * * *
1690004 TGTAAGTCCGATATCGCTGGCCTTGAATTAGCATATTGGCACCGTTAATT
1 T-TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TT--TC
*
1690054 TTAAGACCAATGTCGC-GAGCCTTGAATCAGCACATTGGCATCTTCATC
1 TTAAGACCAATGTCGCTG-GCCTTGAATCAGCACATTGGCACCTT--TC
* ** * * * *
1690102 TTTAAGTCCGGTATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTC
1 -TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-----CTTTC
* ** *
1690155 TTAAGCCCAATGTCGCTGGCCTTGTCTCAGCACATTGGCA-TTCTTC
1 TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT-TTC
* * *
1690201 TATAA-ATCTAATGTCACTGGCCATGAATCAGCACATTG
1 T-TAAGA-CCAATGTCGCTGGCCTTGAATCAGCACATTG
1690239 TCATTCTTCG
Statistics
Matches: 625, Mismatches: 113, Indels: 106
0.74 0.13 0.13
Matches are distributed among these distances:
38 1 0.00
39 104 0.17
42 1 0.00
43 38 0.06
45 1 0.00
46 6 0.01
47 30 0.05
48 72 0.12
49 249 0.40
50 8 0.01
51 1 0.00
52 110 0.18
53 2 0.00
55 2 0.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (46 bp):
TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTC
Found at i:1689609 original size:87 final size:87
Alignment explanation
Indices: 1689401--1689706 Score: 405
Period size: 87 Copynumber: 3.5 Consensus size: 87
1689391 GTGGCACCTT
* * * * * * *
1689401 TAAGTCCAATATCGTTGGCCTTGAATCAGTATATTAGCACCTTTATCTTTAAAACCAATGTCGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGACCATTGTCGCT
*
1689466 AGCCTTGAATCAGCACATTGGCA
65 GGCCTTGAATCAGCACATTGGCA
* * *
1689489 CCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCATTGTC
1 ----TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCATTGTC
* *
1689554 GCTGGCCTTGAACCAGTACATTGGCA
62 GCTGGCCTTGAATCAGCACATTGGCA
*
1689580 TAAACCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCATTGTCGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCATTGTCGCTG
*
1689645 GCCTTGAATCAGCACATTAGCA
66 GCCTTGAATCAGCACATTGGCA
* * *
1689667 CAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1689707 AAGCCCAATA
Statistics
Matches: 192, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
87 116 0.60
91 39 0.20
92 37 0.19
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (87 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCATTGTCGCTG
GCCTTGAATCAGCACATTGGCA
Found at i:1689616 original size:39 final size:39
Alignment explanation
Indices: 1689552--1689745 Score: 192
Period size: 39 Copynumber: 4.7 Consensus size: 39
1689542 AAGACCATTG
* * *
1689552 TCGCTGGCCTTGAACCAGTACATTGGCATAAACCCAATA
1 TCGCTGGCCTTGAATCAGCACATTGGCACAAACCCAATA
* * *
1689591 TCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA-CCATTG
1 TCGCTGGCCTTGAATCAGCACATTGGCA------C---AA-ACCCAATA
* * *
1689639 TCGCTGGCCTTGAATCAGCACATTAGCACAAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACAAACCCAATA
*
1689678 TCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATA
1 TCGCTGGCCTTGAATCAGCACATTGGCACAAACCCAATA
*
1689717 TCGCTGGCCTTGAATCAGCATATTGGCAC
1 TCGCTGGCCTTGAATCAGCACATTGGCAC
1689746 CTTCATCTTT
Statistics
Matches: 131, Mismatches: 13, Indels: 22
0.79 0.08 0.13
Matches are distributed among these distances:
39 97 0.74
42 1 0.01
48 32 0.24
49 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
TCGCTGGCCTTGAATCAGCACATTGGCACAAACCCAATA
Done.