Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 189 of 259
Found at i:60664103 original size:5 final size:5
Alignment explanation
Indices: 60664095--60664124 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
60664085 TAACTAATTT
60664095 AATAA AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA
60664125 TATCTTCCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:60666942 original size:11 final size:11
Alignment explanation
Indices: 60666928--60666968 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
60666918 TTTTTTCTCT
60666928 CTATTTTGCTA
1 CTATTTTGCTA
*
60666939 CTATTTTACTA
1 CTATTTTGCTA
* *
60666950 TTATATTGCTA
1 CTATTTTGCTA
60666961 CTATTTTG
1 CTATTTTG
60666969 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:60667213 original size:12 final size:12
Alignment explanation
Indices: 60667192--60667225 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
60667182 TATATTTTTT
*
60667192 AAAATTATATAA
1 AAAATAATATAA
60667204 AAAATAATATAA
1 AAAATAATATAA
*
60667216 AAATTAATAT
1 AAAATAATAT
60667226 GGGCGAGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:60668021 original size:18 final size:18
Alignment explanation
Indices: 60667998--60668032 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
60667988 TTTTTTTGAA
60667998 GAAGAAGATAGAGAAAAT
1 GAAGAAGATAGAGAAAAT
60668016 GAAGAAGATAGAGAAAA
1 GAAGAAGATAGAGAAAA
60668033 AGTTTGGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.29, T:0.09
Consensus pattern (18 bp):
GAAGAAGATAGAGAAAAT
Found at i:60672076 original size:3 final size:3
Alignment explanation
Indices: 60672068--60672095 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
60672058 TTTCTCCTAA
60672068 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
60672096 AACGTGTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:60673178 original size:31 final size:31
Alignment explanation
Indices: 60673143--60673206 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 31
60673133 CATTACTTGA
*
60673143 ATTTAAATTAAATAATTTTAAAAG-ATATT-TT
1 ATTTAAA-T-AATAATTGTAAAAGTATATTATT
*
60673174 ATTTAAATATTAATTGTAAAAGTATATTATT
1 ATTTAAATAATAATTGTAAAAGTATATTATT
60673205 AT
1 AT
60673207 CATTTAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 12 0.41
30 6 0.21
31 11 0.38
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (31 bp):
ATTTAAATAATAATTGTAAAAGTATATTATT
Found at i:60677619 original size:6 final size:6
Alignment explanation
Indices: 60677608--60677636 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
60677598 AACAAATATT
60677608 TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
60677637 GTATAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:60677643 original size:18 final size:18
Alignment explanation
Indices: 60677608--60677643 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
60677598 AACAAATATT
*
60677608 TTTAAATTTAAATTTAAA
1 TTTAAATTTAAATATAAA
*
60677626 TTTAAATTTAAGTATAAA
1 TTTAAATTTAAATATAAA
60677644 AATATATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TTTAAATTTAAATATAAA
Found at i:60679386 original size:17 final size:17
Alignment explanation
Indices: 60679364--60679399 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
60679354 AGAAGAACCG
60679364 AGGAAAGAAGAAA-AGAA
1 AGGAAAG-AGAAAGAGAA
60679381 AGGAAAGAGAAAGAGAA
1 AGGAAAGAGAAAGAGAA
60679398 AG
1 AG
60679400 AGAGGGAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (17 bp):
AGGAAAGAGAAAGAGAA
Found at i:60679394 original size:6 final size:6
Alignment explanation
Indices: 60679366--60679402 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
60679356 AAGAACCGAG
60679366 GAAAGAA GAAA-A GAAAG- GAAAGA GAAAGA GAAAGA GA
1 GAAAG-A GAAAGA GAAAGA GAAAGA GAAAGA GAAAGA GA
60679403 GGGAAGAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 10 0.36
6 14 0.50
7 4 0.14
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (6 bp):
GAAAGA
Found at i:60680190 original size:30 final size:30
Alignment explanation
Indices: 60680155--60680222 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
60680145 TAGCCTTTGT
*
60680155 CACCACCAACTCCACTAGCCACACTTGTTC
1 CACCACCAACTCCACTAGCCACACTTGCTC
*
60680185 CACCACCTACTCCACTAGCCACACTTGCTC
1 CACCACCAACTCCACTAGCCACACTTGCTC
60680215 CACCACCA
1 CACCACCA
60680223 CTTCTTCCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.26, C:0.50, G:0.06, T:0.18
Consensus pattern (30 bp):
CACCACCAACTCCACTAGCCACACTTGCTC
Found at i:60680823 original size:25 final size:23
Alignment explanation
Indices: 60680700--60680834 Score: 78
Period size: 23 Copynumber: 5.7 Consensus size: 23
60680690 TTTTTTTTGT
* *
60680700 TATTAT-TATATTTTTTAATATTG
1 TATTATGTATATATTTT-ATATTA
* * *
60680723 TATTATATATATATTCTTTTAATA
1 TATTATGTATATATT-TTATATTA
* * *
60680747 TATTA-G-GTATATTCTAAATTCTA
1 TATTATGTATATATTTTATA-T-TA
* * *
60680770 TATTACGTATATATATTATACTA
1 TATTATGTATATATTTTATATTA
*
60680793 TTTTATGTATATATCTTTAATATTA
1 TATTATGTATATAT-TTT-ATATTA
*
60680818 TATTATTTATATATTTT
1 TATTATGTATATATTTT
60680835 TTTCTACATG
Statistics
Matches: 83, Mismatches: 21, Indels: 15
0.70 0.18 0.13
Matches are distributed among these distances:
21 2 0.02
22 6 0.07
23 27 0.33
24 21 0.25
25 27 0.33
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (23 bp):
TATTATGTATATATTTTATATTA
Found at i:60680901 original size:25 final size:25
Alignment explanation
Indices: 60680767--60680913 Score: 88
Period size: 25 Copynumber: 5.9 Consensus size: 25
60680757 ATTCTAAATT
* * *
60680767 CTATATTACGTATATA--TATTATA
1 CTATATTATGTATATATTTTTTACA
* * * *
60680790 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATTTTTTACA
* *
60680815 TTATATTATTTATATATTTTTTTCTACA
1 CTATATTATGTATATA--TTTTT-TACA
* *
60680843 TGTTATCTTATGTATATA--TTTTA-A
1 --CTATATTATGTATATATTTTTTACA
* *
60680867 TTATATTATGTATGTATTTTTTACA
1 CTATATTATGTATATATTTTTTACA
*
60680892 CTATATTATGTACATATTTTTT
1 CTATATTATGTATATATTTTTT
60680914 TTATATCTAT
Statistics
Matches: 97, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
22 14 0.14
23 14 0.14
24 6 0.06
25 40 0.41
26 3 0.03
27 4 0.04
28 2 0.02
30 14 0.14
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.58
Consensus pattern (25 bp):
CTATATTATGTATATATTTTTTACA
Found at i:60681003 original size:25 final size:24
Alignment explanation
Indices: 60680975--60681030 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
60680965 GTTATATTTT
*
60680975 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
60681000 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
60681023 CACTATTA
1 CACTATTA
60681031 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:60693989 original size:93 final size:93
Alignment explanation
Indices: 60693830--60694001 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
60693820 GCCCATAAGT
* *
60693830 GAACTCGGACTCAACTCAATGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60693895 CGAGCTCGAATGCCTAGTTACATCTCTC
66 CGAGCTCGAATGCCTAGTTACATCTCTC
* * *
60693923 GAACTCGGACTCAACTCAACGAGTTCG-GACATTCGTATCCGTAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
60693987 ACGAGTTCGGATGCC
65 ACGAGCTCGAATGCC
60694002 CAAATATCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGAATGCCTAGTTACATCTCTC
Found at i:60693997 original size:46 final size:45
Alignment explanation
Indices: 60693822--60693991 Score: 189
Period size: 46 Copynumber: 3.7 Consensus size: 45
60693812 TGTAACCCGC
* * *
60693822 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGA-CATTCGTAT
* *
60693868 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGA-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGACATTCGTA--T
* *** *
60693914 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTC-GACATTCGTAT
*
60693961 CCGTAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
60693992 TTCGGATGCC
Statistics
Matches: 102, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
44 3 0.03
46 63 0.62
47 29 0.28
48 2 0.02
49 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGACATTCGTAT
Found at i:60694016 original size:46 final size:46
Alignment explanation
Indices: 60693873--60694016 Score: 125
Period size: 46 Copynumber: 3.1 Consensus size: 46
60693863 CGCATCCATA
* * * *
60693873 AGTGAACTCGGACTCAACTCAACGAGCTCGAATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--AATATC-CT
* * ***
60693922 --CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTCGTATCCGT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAAATATCC-T
*
60693965 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAAATATCCT
60694012 AGTGA
1 AGTGA
60694017 CATGTCACTT
Statistics
Matches: 75, Mismatches: 14, Indels: 15
0.72 0.13 0.14
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
45 2 0.03
46 34 0.45
47 28 0.37
48 6 0.08
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAAATATCCT
Found at i:60696428 original size:15 final size:15
Alignment explanation
Indices: 60696389--60696459 Score: 90
Period size: 15 Copynumber: 4.7 Consensus size: 15
60696379 CAAGAAAATC
60696389 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
* *
60696404 -AGATAGAGAAACCCA
1 GA-ATAAAGAAATCCA
60696419 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
60696434 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
60696449 GGATAAAGAAA
1 GAATAAAGAAA
60696460 CCCAATATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
14 1 0.02
15 45 0.96
16 1 0.02
ACGTcount: A:0.58, C:0.13, G:0.18, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:60709464 original size:111 final size:111
Alignment explanation
Indices: 60709262--60709470 Score: 253
Period size: 111 Copynumber: 1.9 Consensus size: 111
60709252 TGTCATCCTG
* *
60709262 GGTGAAGGAAGAGCAAGTGGAGGAACCTCGACATTCCCTTGACCCTCATTCCGGTCCATGGTATG
1 GGTGAAGGAAGAGCAAGTGGAGGAACCTCGACATTCCCTTGACCCTCACTCCGGTCCATGCTATG
* ** *
60709327 CCATTCTATGTATTGTTCTACAGAAGCAGGAGTGTATGGCAACCTA
66 CCATTCGACATATTGTTCAACAGAAGCAGGAGTGTATGGCAACCTA
* *
60709373 GGTGAAGGAAGAGCAAGTGGAGGAACCTC-AGCATCTCCC-TGACCCTCACTCTGAG-CCCTGCT
1 GGTGAAGGAAGAGCAAGTGGAGGAACCTCGA-CAT-TCCCTTGACCCTCACTCCG-GTCCATGCT
* ** * *
60709435 TTGCTGTTCGACATCTTGTTCAACTGAAGCAGGAGT
63 ATGCCATTCGACATATTGTTCAACAGAAGCAGGAGT
60709471 AGCAGATGTT
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
110 1 0.01
111 76 0.93
112 5 0.06
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (111 bp):
GGTGAAGGAAGAGCAAGTGGAGGAACCTCGACATTCCCTTGACCCTCACTCCGGTCCATGCTATG
CCATTCGACATATTGTTCAACAGAAGCAGGAGTGTATGGCAACCTA
Found at i:60713998 original size:22 final size:21
Alignment explanation
Indices: 60713971--60714012 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
60713961 AATTTTAGAT
*
60713971 ATAATTTAATTATTTTATAAAA
1 ATAATTTAAATATTTT-TAAAA
60713993 ATAATTTAAATATTTTTAAA
1 ATAATTTAAATATTTTTAAA
60714013 TGCAAACTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAATTTAAATATTTTTAAAA
Found at i:60717872 original size:29 final size:27
Alignment explanation
Indices: 60717854--60717923 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
60717844 ATATTAAGTC
60717854 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
60717881 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
60717909 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
60717924 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:60717917 original size:28 final size:28
Alignment explanation
Indices: 60717854--60717951 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
60717844 ATATTAAGTC
*
60717854 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
60717881 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
60717909 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
*
60717938 CGTACACTTAGTGC
1 CGCACACTTAGTGC
60717952 CAATCTCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 22 0.35
28 23 0.37
29 18 0.29
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:60721035 original size:17 final size:17
Alignment explanation
Indices: 60721010--60721042 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
60721000 TTCATTAAAT
60721010 ATTAGTATTATTTTATC
1 ATTAGTATTATTTTATC
*
60721027 ATTATTATTATTTTAT
1 ATTAGTATTATTTTAT
60721043 ATATTAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (17 bp):
ATTAGTATTATTTTATC
Found at i:60721412 original size:18 final size:18
Alignment explanation
Indices: 60721378--60721412 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60721368 GTTACGTACG
*
60721378 TATATATTATATGTATTT
1 TATATATTATATATATTT
*
60721396 TATATATTATGTATATT
1 TATATATTATATATATT
60721413 ATTTTTTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
TATATATTATATATATTT
Found at i:60733883 original size:71 final size:70
Alignment explanation
Indices: 60733784--60733959 Score: 212
Period size: 71 Copynumber: 2.5 Consensus size: 70
60733774 CTTTCCAAGG
** *
60733784 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
60733848 TGTTTT
65 TGTTTT
* ** * *
60733854 CAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
60733919 TGTTTT
65 TGTTTT
** * *
60733925 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
60733960 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
69 30 0.33
71 59 0.65
72 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.34
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTTT
Found at i:60734115 original size:54 final size:54
Alignment explanation
Indices: 60734053--60734192 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 54
60734043 TGTTTTAATT
60734053 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATA-TTTTTCAAAAA
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATACTTTTTC-AAAA
* * * *
60734107 TCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAA
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATACTTTTTCAAAA
*
60734161 TCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCT
60734193 CAGGTCACGC
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 72 0.92
55 6 0.08
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (54 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATACTTTTTCAAAA
Found at i:60734308 original size:88 final size:87
Alignment explanation
Indices: 60734151--60734367 Score: 305
Period size: 88 Copynumber: 2.5 Consensus size: 87
60734141 TAATTTCTAC
* * *
60734151 TTTTTCAA-AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTC
1 TTTTTAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTTC
60734215 AATTTCTATTTT-CATTATT-ATG
66 AATTTCTATTTTCCA--ATTCATG
* * *
60734237 TTTTTGAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCATGCTGAGGTATTTT
1 TTTTT-AAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTT
*
60734302 CAATTTCTATTTTCCAATTCCTG
65 CAATTTCTATTTTCCAATTCATG
* *
60734325 TTTTTCAAGAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCT
1 TTTTTAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
60734368 TTCAATTTAT
Statistics
Matches: 118, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
86 5 0.04
87 41 0.35
88 70 0.59
89 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.36
Consensus pattern (87 bp):
TTTTTAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTTC
AATTTCTATTTTCCAATTCATG
Found at i:60734470 original size:54 final size:54
Alignment explanation
Indices: 60734316--60734523 Score: 221
Period size: 56 Copynumber: 3.9 Consensus size: 54
60734306 TTCTATTTTC
* * *
60734316 CAATTCCTGTTTTTCAAGAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTTT
1 CAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTT
* *
60734370 CAATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTT
1 CAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTT
* * * * *
60734426 TAATTTCTGTTTTTCAAAAAGCAACTCATATTGTGAGAGTTGAGTT-ATACCTTT
1 CAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA-GCCTTT
* **
60734480 ---TTGT-T-TTTTTCAAAAATCAATTCATATTGCGAGAGACGAGTTGA
1 CAATT-TCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
60734524 ACTCAAGATC
Statistics
Matches: 132, Mismatches: 17, Indels: 13
0.81 0.10 0.08
Matches are distributed among these distances:
50 32 0.24
51 4 0.03
52 1 0.01
53 1 0.01
54 45 0.34
56 49 0.37
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (54 bp):
CAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTT
Found at i:60734669 original size:44 final size:44
Alignment explanation
Indices: 60734558--60734652 Score: 190
Period size: 44 Copynumber: 2.2 Consensus size: 44
60734548 GAATAAAGAT
60734558 TGGAGCTAATTGAAGATGTCAGATTTTGTCTCCTGAAGTTACAG
1 TGGAGCTAATTGAAGATGTCAGATTTTGTCTCCTGAAGTTACAG
60734602 TGGAGCTAATTGAAGATGTCAGATTTTGTCTCCTGAAGTTACAG
1 TGGAGCTAATTGAAGATGTCAGATTTTGTCTCCTGAAGTTACAG
60734646 TGGAGCT
1 TGGAGCT
60734653 GATCGAGGAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (44 bp):
TGGAGCTAATTGAAGATGTCAGATTTTGTCTCCTGAAGTTACAG
Found at i:60736238 original size:17 final size:17
Alignment explanation
Indices: 60736213--60736245 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
60736203 TTCATTAAAT
60736213 ATTAGTATTATTTTATC
1 ATTAGTATTATTTTATC
*
60736230 ATTATTATTATTTTAT
1 ATTAGTATTATTTTAT
60736246 ATATTAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (17 bp):
ATTAGTATTATTTTATC
Found at i:60736615 original size:18 final size:18
Alignment explanation
Indices: 60736581--60736615 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60736571 GTTACGTACG
*
60736581 TATATATTATATGTATTT
1 TATATATTATATATATTT
*
60736599 TATATATTATGTATATT
1 TATATATTATATATATT
60736616 ATTTTTTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
TATATATTATATATATTT
Found at i:60739299 original size:9 final size:9
Alignment explanation
Indices: 60739285--60739452 Score: 54
Period size: 9 Copynumber: 17.6 Consensus size: 9
60739275 ATTTTTCGAT
60739285 TAAAAAATA
1 TAAAAAATA
*
60739294 TAAAAATTA
1 TAAAAAATA
* *
60739303 GAAGAAATA
1 TAAAAAATA
60739312 -AAAAAATA
1 TAAAAAATA
* *
60739320 TTAAATATAA
1 TAAAAAAT-A
**
60739330 TATTAAATA
1 TAAAAAATA
*
60739339 TTAAAAATA
1 TAAAAAATA
60739348 TTAAAATTAATA
1 -TAAAA--AATA
**
60739360 T-AAACTTA
1 TAAAAAATA
* *
60739368 TTAAAATTA
1 TAAAAAATA
60739377 TAAAAAATATTA
1 T-AAAAA-A-TA
60739389 TATAAAAACTTA
1 TA-AAAAA--TA
* *
60739401 TAAATATTA
1 TAAAAAATA
60739410 TAAAAAA-A
1 TAAAAAATA
*
60739418 TAAAAAAATC
1 T-AAAAAATA
*
60739428 TAATAAATTA
1 TAA-AAAATA
60739438 TAAAAAAATA
1 T-AAAAAATA
60739448 TAAAA
1 TAAAA
60739453 TTAATAAAAC
Statistics
Matches: 116, Mismatches: 28, Indels: 30
0.67 0.16 0.17
Matches are distributed among these distances:
8 12 0.10
9 52 0.45
10 28 0.24
11 8 0.07
12 16 0.14
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (9 bp):
TAAAAAATA
Found at i:60739351 original size:28 final size:27
Alignment explanation
Indices: 60739313--60739388 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 27
60739303 GAAGAAATAA
60739313 AAAAATATTAAATATAATATTAAATATT
1 AAAAATATTAAA-ATAATATTAAATATT
60739341 AAAAATATTAAAATTAATA-TAAACTTATT
1 AAAAATATTAAAA-TAATATTAAA--TATT
*
60739370 AAAATTA-TAAAA-AATATTA
1 AAAAATATTAAAATAATATTA
60739389 TATAAAAACT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
26 4 0.09
27 7 0.16
28 22 0.51
29 10 0.23
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (27 bp):
AAAAATATTAAAATAATATTAAATATT
Found at i:60739410 original size:33 final size:32
Alignment explanation
Indices: 60739353--60739482 Score: 103
Period size: 33 Copynumber: 4.0 Consensus size: 32
60739343 AAATATTAAA
*
60739353 ATTAATATAAACTTATTAAAATTATAAAAAAT
1 ATTAATAAAAACTTATTAAAATTATAAAAAAT
60739385 ATTATATAAAAACTTA-TAAATATTATAAAAAA-
1 ATTA-ATAAAAACTTATTAAA-ATTATAAAAAAT
*
60739417 A-TAA-AAAAA-TCTAAT-AAATTATAAAAAAAT
1 ATTAATAAAAACT-TATTAAAATTAT-AAAAAAT
*
60739447 ATAAAATTAATAAAACTTATTTAAAATTA-AAAAAAT
1 AT-TAA-T-A-AAAACTTAT-TAAAATTATAAAAAAT
60739483 GTGTTAGAAT
Statistics
Matches: 80, Mismatches: 3, Indels: 26
0.73 0.03 0.24
Matches are distributed among these distances:
28 6 0.08
29 15 0.19
30 3 0.04
31 2 0.03
32 11 0.14
33 21 0.26
35 1 0.01
36 13 0.16
37 2 0.03
38 6 0.08
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (32 bp):
ATTAATAAAAACTTATTAAAATTATAAAAAAT
Found at i:60739426 original size:21 final size:21
Alignment explanation
Indices: 60739378--60739448 Score: 56
Period size: 20 Copynumber: 3.4 Consensus size: 21
60739368 TTAAAATTAT
*
60739378 AAAAAATATTATATAAAAACT-
1 AAAAAATATTATA-AAAAAATA
* *
60739399 TATAAATATTATAAAAAAATA
1 AAAAAATATTATAAAAAAATA
* * **
60739420 AAAAAATCTAAT-AAATTATA
1 AAAAAATATTATAAAAAAATA
60739440 AAAAAATAT
1 AAAAAATAT
60739449 AAAATTAATA
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
20 20 0.51
21 19 0.49
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAAATATTATAAAAAAATA
Found at i:60739437 original size:28 final size:26
Alignment explanation
Indices: 60739406--60739460 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 26
60739396 ACTTATAAAT
60739406 ATTATAAAAAAATAAAAAAATCTAATAA
1 ATTATAAAAAAAT-AAAAAAT-TAATAA
*
60739434 ATTATAAAAAAATATAAAATTAATAA
1 ATTATAAAAAAATAAAAAATTAATAA
60739460 A
1 A
60739461 ACTTATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 7 0.27
27 6 0.23
28 13 0.50
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (26 bp):
ATTATAAAAAAATAAAAAATTAATAA
Found at i:60739445 original size:30 final size:30
Alignment explanation
Indices: 60739371--60739452 Score: 76
Period size: 30 Copynumber: 2.7 Consensus size: 30
60739361 AAACTTATTA
* * * *
60739371 AAATTATAAAAAATATTATATAAAAACTTAT
1 AAATTATAAAAAAAAATA-AAAAAAACTAAT
* *
60739402 AAA-TATTATAAAAAAATAAAAAAATCTAAT
1 AAATTA-TAAAAAAAAATAAAAAAAACTAAT
*
60739432 AAATTATAAAAAAATATAAAA
1 AAATTATAAAAAAAAATAAAA
60739453 TTAATAAAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
30 27 0.66
31 14 0.34
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (30 bp):
AAATTATAAAAAAAAATAAAAAAAACTAAT
Found at i:60739510 original size:15 final size:15
Alignment explanation
Indices: 60739490--60739519 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
60739480 AATGTGTTAG
60739490 AATTCTTAAAAAATA
1 AATTCTTAAAAAATA
60739505 AATTCTTAAAAAATA
1 AATTCTTAAAAAATA
60739520 TTAAAGTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (15 bp):
AATTCTTAAAAAATA
Found at i:60740029 original size:21 final size:22
Alignment explanation
Indices: 60740000--60740054 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
60739990 TAATATGTTT
* *
60740000 TATGATTTTTTTAGAATTTTAA
1 TATGATTTTTATAAAATTTTAA
60740022 TATG-TTTTTATAAAATTTTAA
1 TATGATTTTTATAAAATTTTAA
60740043 -AT-ATTTTATATA
1 TATGATTTT-TATA
60740055 TGTTTTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 6 0.21
21 19 0.66
22 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.58
Consensus pattern (22 bp):
TATGATTTTTATAAAATTTTAA
Found at i:60740040 original size:29 final size:30
Alignment explanation
Indices: 60739985--60740060 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 30
60739975 AGTTTATATC
*** *
60739985 AATTTTAATATG-TTTTATGATTTTTTTAG
1 AATTTTAATATGTTTTTATGAAAATTTTAA
60740014 AATTTTAATATGTTTTTAT-AAAATTTTAA
1 AATTTTAATATGTTTTTATGAAAATTTTAA
60740043 ATATTTTATATATGTTTT
1 A-ATTTTA-ATATGTTTT
60740061 ATTAATTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
29 19 0.47
30 12 0.30
31 9 0.22
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.61
Consensus pattern (30 bp):
AATTTTAATATGTTTTTATGAAAATTTTAA
Found at i:60744968 original size:13 final size:13
Alignment explanation
Indices: 60744947--60744993 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
60744937 AATTTAATGA
* *
60744947 TATTCTTATTTCT
1 TATTTTTATTTAT
60744960 TATTTTTATATTATT
1 TATTTTTAT-TTA-T
60744975 TATTTTTA-TTAT
1 TATTTTTATTTAT
60744987 TATTTTT
1 TATTTTT
60744994 TAAATTATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 8 0.27
13 11 0.37
14 2 0.07
15 9 0.30
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.74
Consensus pattern (13 bp):
TATTTTTATTTAT
Found at i:60744987 original size:16 final size:15
Alignment explanation
Indices: 60744959--60744991 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 15
60744949 TTCTTATTTC
60744959 TTATTTTTATATTAT
1 TTATTTTTATATTAT
60744974 TTATTTTTATTATTAT
1 TTATTTTTA-TATTAT
60744990 TT
1 TT
60744992 TTTAAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTTTTATATTAT
Found at i:60746907 original size:71 final size:70
Alignment explanation
Indices: 60746832--60746977 Score: 163
Period size: 71 Copynumber: 2.1 Consensus size: 70
60746822 TATTTTTATC
* * *
60746832 ATTTCTAATATGTATATATATTATATGTATTTTATAT-A-TTATGTATATATTTTTAATGCCATT
1 ATTTCTAATAT-TAT-TACA-TATATGTATTTTATATCACTTATGTATATATTCTTAATACCATT
60746895 AGT-TATAT
63 A-TATATAT
* * * *
60746903 ATTTCTTATATTATTCCATGTATGTATTTTATATCATCTTATGTATATATTCTTAATACTATTAT
1 ATTTCTAATATTATTACATATATGTATTTTATATCA-CTTATGTATATATTCTTAATACCATTAT
60746968 ATATAT
65 ATATAT
60746974 ATTT
1 ATTT
60746978 TATTTTATTT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
68 15 0.23
69 3 0.05
70 4 0.06
71 42 0.66
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.55
Consensus pattern (70 bp):
ATTTCTAATATTATTACATATATGTATTTTATATCACTTATGTATATATTCTTAATACCATTATA
TATAT
Found at i:60746967 original size:23 final size:22
Alignment explanation
Indices: 60746859--60746980 Score: 74
Period size: 23 Copynumber: 5.4 Consensus size: 22
60746849 ATATTATATG
60746859 TATT-TTATA-TATTATGTATA
1 TATTCTTATACTATTATGTATA
* * *
60746879 TATTTTTAATGCCATTA-GTTATA
1 TATTCTT-ATACTATTATG-TATA
* *
60746902 TATTTCTTATATTATTCCATGTATG
1 TA-TTCTTATACTATT--ATGTATA
*
60746927 TATT-TTATATCATCTTATGTATA
1 TATTCTTATA-C-TATTATGTATA
*
60746950 TATTCTTAATACTATTATATATA
1 TATTCTT-ATACTATTATGTATA
60746973 TATT-TTAT
1 TATTCTTAT
60746981 TTTATTTTTT
Statistics
Matches: 78, Mismatches: 12, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
20 4 0.05
21 4 0.05
22 5 0.06
23 43 0.55
24 9 0.12
25 12 0.15
26 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (22 bp):
TATTCTTATACTATTATGTATA
Found at i:60747020 original size:3 final size:3
Alignment explanation
Indices: 60747012--60747063 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
60747002 GTTGTGTATA
* ** * *
60747012 TAT TAT TAT TACT AAT TAT TAT TAT TGC TAG TAT TAT TAT AAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
60747058 TAT TAT
1 TAT TAT
60747064 GTTAGTGTAT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
3 37 0.95
4 2 0.05
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:60747033 original size:16 final size:15
Alignment explanation
Indices: 60747012--60747051 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
60747002 GTTGTGTATA
*
60747012 TATTATTATTACTAAT
1 TATTATTATTACT-AG
*
60747028 TATTATTATTGCTAG
1 TATTATTATTACTAG
60747043 TATTATTAT
1 TATTATTAT
60747052 AATTATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (15 bp):
TATTATTATTACTAG
Found at i:60747214 original size:23 final size:26
Alignment explanation
Indices: 60747184--60747243 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 26
60747174 CATTATTTTT
60747184 TTTA-TATATTATTCAT-ACTA-T-CA
1 TTTATTATATTATT-ATCACTATTACA
60747207 -TTATTATATTATTATCACTATTACA
1 TTTATTATATTATTATCACTATTACA
60747232 TTTATTATATTA
1 TTTATTATATTA
60747244 GTATTATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
22 5 0.16
23 13 0.41
24 1 0.03
25 2 0.06
26 11 0.34
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (26 bp):
TTTATTATATTATTATCACTATTACA
Found at i:60747228 original size:17 final size:18
Alignment explanation
Indices: 60747202--60747239 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
60747192 TTATTCATAC
* *
60747202 TATCATTATTATA-TTAT
1 TATCACTATTACATTTAT
60747219 TATCACTATTACATTTAT
1 TATCACTATTACATTTAT
60747237 TAT
1 TAT
60747240 ATTAGTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (18 bp):
TATCACTATTACATTTAT
Found at i:60749863 original size:24 final size:24
Alignment explanation
Indices: 60749831--60749877 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
60749821 GCCGGCGTCG
60749831 GCGACGGACGGCGGCCGACGGTCA
1 GCGACGGACGGCGGCCGACGGTCA
60749855 GCGACGGACGGCGGCCGACGGTC
1 GCGACGGACGGCGGCCGACGGTC
60749878 GACGGTCGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.15, C:0.34, G:0.47, T:0.04
Consensus pattern (24 bp):
GCGACGGACGGCGGCCGACGGTCA
Found at i:60755975 original size:23 final size:23
Alignment explanation
Indices: 60755949--60755993 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
60755939 TGGGTATGTG
*
60755949 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
60755972 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
60755994 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:60757594 original size:51 final size:49
Alignment explanation
Indices: 60757560--60757653 Score: 125
Period size: 49 Copynumber: 1.9 Consensus size: 49
60757550 GATCGAAGTT
* * * *
60757560 ATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACA
1 ATCAGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCAACA
* * *
60757609 ATCTGGTACACGTAGTAGCCTACACTTAGAACTACACACGTGACC
1 ATCAGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACC
60757654 TTACAATAGC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
49 38 1.00
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (49 bp):
ATCAGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCAACA
Found at i:60757652 original size:127 final size:127
Alignment explanation
Indices: 60757426--60757654 Score: 386
Period size: 127 Copynumber: 1.8 Consensus size: 127
60757416 CACTTGTAGC
* **
60757426 CGAAGCTATCTGGTACGCATAGTAGCCTGCACTAAGTACTACACATGCGACCAATTATCCGGTAC
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTAAGTACTACACATGCGACCAACAATCCGGTAC
* *
60757491 ACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACTACACACGTGAT
66 ACGTAGTAGCCTACACTTAGAACTACACACGTGACCTAACCATCTGATACTACACACGTGAT
* * *
60757553 CGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTAC
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTAAGTACTACACATGCGACCAACAATCCGGTAC
60757618 ACGTAGTAGCCTACACTTAGAACTACACACGTGACCT
66 ACGTAGTAGCCTACACTTAGAACTACACACGTGACCT
60757655 TACAATAGCT
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
127 94 1.00
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (127 bp):
CGAAGCTATCAGGTACGCATAGTAGCCTGCACTAAGTACTACACATGCGACCAACAATCCGGTAC
ACGTAGTAGCCTACACTTAGAACTACACACGTGACCTAACCATCTGATACTACACACGTGAT
Found at i:60758334 original size:30 final size:30
Alignment explanation
Indices: 60758300--60758359 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
60758290 CTTTAATACG
60758300 AACTTTGGCAAAATTATCA-TTTTGCCCCTA
1 AACTTTGGCAAAATTA-CACTTTTGCCCCTA
* * *
60758330 AACTTTTGTATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
60758360 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:60761246 original size:33 final size:33
Alignment explanation
Indices: 60761205--60761274 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
60761195 AAAAAAAAAG
60761205 AATA-CTTGAATTTAAATTCTATGAAATATAAT
1 AATATCTTGAATTTAAATTCTATGAAATATAAT
60761237 AATATCTTGAATTTAAATTCTATGAAATATAAT
1 AATATCTTGAATTTAAATTCTATGAAATATAAT
60761270 AATAT
1 AATAT
60761275 AGGGTTCAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 4 0.11
33 33 0.89
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (33 bp):
AATATCTTGAATTTAAATTCTATGAAATATAAT
Found at i:60771261 original size:26 final size:26
Alignment explanation
Indices: 60771232--60771339 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
60771222 TGGTACAAAT
60771232 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
60771258 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60771284 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
60771310 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60771336 TGAT
1 TGAT
60771340 GGGCATTTCT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:60776683 original size:20 final size:21
Alignment explanation
Indices: 60776640--60776679 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
60776630 GTTAGATGGT
*
60776640 GAAAGAGTTCTGTGTTTCCGA
1 GAAAGAATTCTGTGTTTCCGA
60776661 GAAAGAATT-TGTG-TTCCGA
1 GAAAGAATTCTGTGTTTCCGA
60776680 AGAACTCTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 4 0.22
21 8 0.44
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.33
Consensus pattern (21 bp):
GAAAGAATTCTGTGTTTCCGA
Found at i:60778363 original size:26 final size:26
Alignment explanation
Indices: 60778323--60778430 Score: 144
Period size: 26 Copynumber: 4.2 Consensus size: 26
60778313 TGGTACAAAT
*
60778323 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* * *
60778349 TAATAGTGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
60778375 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
60778401 TGATAATGGTTTAGGTAAATGCTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
60778427 TGAT
1 TGAT
60778431 GGGCATTTCA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 70 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:60778415 original size:52 final size:52
Alignment explanation
Indices: 60778323--60778430 Score: 162
Period size: 52 Copynumber: 2.1 Consensus size: 52
60778313 TGGTACAAAT
* *
60778323 TGATAATGGGTTAGGTAAATGTTCCATAATAGTGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATAATAATGGATTAGGTAAATACTCCA
* * * *
60778375 TGATAATGGGTTAGGTAAATGTTCTATGATAATGGTTTAGGTAAATGCTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATAATAATGGATTAGGTAAATACTCCA
60778427 TGAT
1 TGAT
60778431 GGGCATTTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATAATAATGGATTAGGTAAATACTCCA
Found at i:60780005 original size:22 final size:21
Alignment explanation
Indices: 60779978--60780018 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
60779968 CATGTTTGAC
* *
60779978 TGTTGTTATTTACTGCATGCCA
1 TGTTGTCATTAACTG-ATGCCA
60780000 TGTTGTCATTAACTGATGC
1 TGTTGTCATTAACTGATGC
60780019 ATGGGATTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.44
Consensus pattern (21 bp):
TGTTGTCATTAACTGATGCCA
Found at i:60786096 original size:15 final size:15
Alignment explanation
Indices: 60786076--60786108 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
60786066 TTTCTCCTCA
*
60786076 GCTGGCTTTTTCTCG
1 GCTGGCTTCTTCTCG
60786091 GCTGGCTTCTTCTCG
1 GCTGGCTTCTTCTCG
60786106 GCT
1 GCT
60786109 TTGGGTGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.30, G:0.27, T:0.42
Consensus pattern (15 bp):
GCTGGCTTCTTCTCG
Found at i:60788449 original size:154 final size:154
Alignment explanation
Indices: 60788169--60788479 Score: 559
Period size: 154 Copynumber: 2.0 Consensus size: 154
60788159 AAAAATGCAT
*
60788169 AAAAACTTTGTTGAGTTGGGAATTGATTTCTGGATGTTGAAACTCTGCTTGATCTATCGAGGATC
1 AAAAACTTTGTTGAGTTGGGAATCGATTTCTGGATGTTGAAACTCTGCTTGATCTATCGAGGATC
* * *
60788234 TACTGTACCTATGCACGAAGAAAACAAATTGTACGCTGAGTAATGAAGCTCGGAGGTATTTCTAT
66 TACTGTACCTATGCACGAAGAAAACAAATTGTACGCTAAGCAATGAAGCTCAGAGGTATTTCTAT
60788299 AATTTAAGCAATAAAATGCAAGTA
131 AATTTAAGCAATAAAATGCAAGTA
*
60788323 AAAAACTTTGTTGAGTTGGGAATCGATTTCTGGATGTTGAAACTCTGCTTGATCTATTGAGGATC
1 AAAAACTTTGTTGAGTTGGGAATCGATTTCTGGATGTTGAAACTCTGCTTGATCTATCGAGGATC
* *
60788388 TATTGTACCTATGCATGAAGAAAACAAATTGTACGCTAAGCAATGAAGCTCAGAGGTATTTCTAT
66 TACTGTACCTATGCACGAAGAAAACAAATTGTACGCTAAGCAATGAAGCTCAGAGGTATTTCTAT
60788453 AATTTAAGCAATAAAATGCAAGTA
131 AATTTAAGCAATAAAATGCAAGTA
60788477 AAA
1 AAA
60788480 TCAATTTAAA
Statistics
Matches: 150, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
154 150 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (154 bp):
AAAAACTTTGTTGAGTTGGGAATCGATTTCTGGATGTTGAAACTCTGCTTGATCTATCGAGGATC
TACTGTACCTATGCACGAAGAAAACAAATTGTACGCTAAGCAATGAAGCTCAGAGGTATTTCTAT
AATTTAAGCAATAAAATGCAAGTA
Found at i:60790139 original size:21 final size:21
Alignment explanation
Indices: 60790123--60790164 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
60790113 TCTTTGTATT
*
60790123 TTGGGCTTGTACTTTTGTTAA
1 TTGGGCTTGTAATTTTGTTAA
60790144 TTGGGCTTGTAATTTT-TTAA
1 TTGGGCTTGTAATTTTGTTAA
60790164 T
1 T
60790165 AGACTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.17, C:0.07, G:0.21, T:0.55
Consensus pattern (21 bp):
TTGGGCTTGTAATTTTGTTAA
Found at i:60791348 original size:33 final size:34
Alignment explanation
Indices: 60791289--60791353 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 34
60791279 TAAGAGTTAG
* **
60791289 AAATAGATATTATGTAAAAATCTG-AAATAAATA
1 AAATAGAAATTATGTAAAAAAATGAAAATAAATA
60791322 AAATAGAAATT-TGTAAAAAAAATGAAAATAAA
1 AAATAGAAATTATGT-AAAAAAATGAAAATAAA
60791354 ATGAATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 3 0.11
33 17 0.63
34 7 0.26
ACGTcount: A:0.63, C:0.02, G:0.09, T:0.26
Consensus pattern (34 bp):
AAATAGAAATTATGTAAAAAAATGAAAATAAATA
Found at i:60791473 original size:20 final size:20
Alignment explanation
Indices: 60791436--60791473 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
60791426 TAATAGGATA
*
60791436 GTAATAATAGTAATAATACG
1 GTAATAATAGTAAAAATACG
60791456 GTAATAA-AGTAGAAAATA
1 GTAATAATAGTA-AAAATA
60791474 ATAATGGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.55, C:0.03, G:0.16, T:0.26
Consensus pattern (20 bp):
GTAATAATAGTAAAAATACG
Found at i:60791546 original size:3 final size:3
Alignment explanation
Indices: 60791532--60791728 Score: 68
Period size: 3 Copynumber: 65.0 Consensus size: 3
60791522 AATGATATGT
* * * * *
60791532 TAA TAA TGA TAA TAA -AA TAA -AA GAA -AA TAA CAC T-A TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
60791576 AAA TAA TAA TAA TAGGT TAA TAA TAA TAG TAA TAA AAA GGTGAA -AA
1 TAA TAA TAA TAA TA--A TAA TAA TAA TAA TAA TAA TAA --T-AA TAA
* * * * * * * *
60791622 TAA TAA TAA -AA TAA TAA AAA TAC TAT TACGT TAC TAC TAC TAC TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA--A TAA TAA TAA TAA TAA
* * *
60791668 TAA TAA -AA -AA CAG TAA TAG TATA TAGA ATAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TA-A -TAA TAA TAA TAA TAA TAA
60791714 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
60791729 CACTCTCCCC
Statistics
Matches: 150, Mismatches: 28, Indels: 32
0.71 0.13 0.15
Matches are distributed among these distances:
2 15 0.10
3 122 0.81
4 4 0.03
5 7 0.05
6 2 0.01
ACGTcount: A:0.60, C:0.05, G:0.06, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:60791641 original size:20 final size:20
Alignment explanation
Indices: 60791540--60791643 Score: 66
Period size: 20 Copynumber: 5.0 Consensus size: 20
60791530 GTTAATAATG
*
60791540 ATAATAAAATAAAAGAAAATA
1 ATAATAAAATAATA-AAAATA
* * * *
60791561 ACACTATATTAATAAAAATA
1 ATAATAAAATAATAAAAATA
* *
60791581 ATAATAATAGGTTAATAATAATA
1 ATAATAA-A--ATAATAAAAATA
* * *
60791604 GTAATAAAA-AGGTGAAAATA
1 ATAATAAAATA-ATAAAAATA
60791624 ATAATAAAATAATAAAAATA
1 ATAATAAAATAATAAAAATA
60791644 CTATTACGTT
Statistics
Matches: 61, Mismatches: 17, Indels: 11
0.69 0.19 0.12
Matches are distributed among these distances:
19 1 0.02
20 31 0.51
21 11 0.18
22 1 0.02
23 17 0.28
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (20 bp):
ATAATAAAATAATAAAAATA
Found at i:60792950 original size:15 final size:15
Alignment explanation
Indices: 60792930--60792971 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
60792920 TGGCACCCAA
60792930 AGCCGAGAAGAAGCC
1 AGCCGAGAAGAAGCC
*
60792945 AGCCGAGAAAAAGCC
1 AGCCGAGAAGAAGCC
*
60792960 AGCCGAGGAGAA
1 AGCCGAGAAGAA
60792972 AAAAGCCGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.43, C:0.24, G:0.33, T:0.00
Consensus pattern (15 bp):
AGCCGAGAAGAAGCC
Found at i:60797395 original size:120 final size:120
Alignment explanation
Indices: 60797257--60798130 Score: 1475
Period size: 120 Copynumber: 7.3 Consensus size: 120
60797247 TAGAAAAAAT
* * * * *
60797257 ATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTA
1 ATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTACAGTATCATATATTATGATTTCA
* *
60797322 GTAAATTCATATAAGAATATTGAA-TATTAAGAATTTTATTAAATCATATATTTTA
66 GTAAATTAATATAAGAATATT-AATTATTAAGAATTTTATTAAATTATATATTTTA
* * *
60797377 ATTAAAATATATTTAATAATAATTAT-TTCAAATTATATTTTATAGTATCATATATTATAATTTT
1 ATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTACAGTATCATATATTATGATTTC
* * * *
60797441 AGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATCATATATCTTA
65 AGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTA
* * *
60797497 ATTAAAATATATTTAATAATAATTAT-TTCAAATTATATTTTATAGTATCATATATTATAATTTT
1 ATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTACAGTATCATATATTATGATTTC
* *
60797561 AGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTA
65 AGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTA
*
60797617 ATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCA
1 ATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTACAGTATCATATATTATGATTTCA
*
60797682 GTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTA
66 GTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTA
*
60797737 ATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCA
1 ATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTACAGTATCATATATTATGATTTCA
60797802 GTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTA
66 GTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTA
*
60797857 ATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCA
1 ATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTACAGTATCATATATTATGATTTCA
60797922 GTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTA
66 GTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTA
*
60797977 ATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCA
1 ATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTACAGTATCATATATTATGATTTCA
60798042 GTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTA
66 GTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTA
60798097 ATTAAAATATATTTAATAATAATTATGTTTAAAT
1 ATTAAAATATATTTAATAATAATTATG-TTAAAT
60798131 ATGATTAAAT
Statistics
Matches: 734, Mismatches: 16, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
119 3 0.00
120 724 0.99
121 7 0.01
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (120 bp):
ATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTACAGTATCATATATTATGATTTCA
GTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTA
Found at i:60797622 original size:18 final size:17
Alignment explanation
Indices: 60797594--60797628 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60797584 ATTATTAAGA
*
60797594 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
60797611 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
60797629 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:60797862 original size:18 final size:17
Alignment explanation
Indices: 60797834--60797868 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60797824 ATTATTAAGA
*
60797834 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
60797851 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
60797869 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:60797982 original size:18 final size:17
Alignment explanation
Indices: 60797954--60797988 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60797944 ATTATTAAGA
*
60797954 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
60797971 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
60797989 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:60798102 original size:18 final size:17
Alignment explanation
Indices: 60798074--60798108 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60798064 ATTATTAAGA
*
60798074 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
60798091 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
60798109 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:60798322 original size:44 final size:45
Alignment explanation
Indices: 60798273--60798363 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 45
60798263 ACCTCTATTC
* * *
60798273 CATTCAACCAAACACA-AGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACA-ATAGATTAGCTATTACACCTCTAATCCAATA
*
60798317 CATTCAACCAAACAATGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACAATAGATTAGCTATTACACCTCTAATCCAATA
60798362 CA
1 CA
60798364 CCTCTAATCC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 19 0.46
45 21 0.51
ACGTcount: A:0.38, C:0.29, G:0.05, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACAATAGATTAGCTATTACACCTCTAATCCAATA
Found at i:60798365 original size:16 final size:16
Alignment explanation
Indices: 60798344--60798411 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
60798334 GATTAGCTAT
60798344 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
60798360 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
60798376 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
60798392 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
60798408 TACA
1 TACA
60798412 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.37, C:0.37, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:60799244 original size:21 final size:22
Alignment explanation
Indices: 60799220--60799263 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
60799210 AAATTACGTT
*
60799220 AAAAGAAATGAAGAAG-AGAAG
1 AAAACAAATGAAGAAGCAGAAG
*
60799241 AAAACAAATGGAGAAGCAGAAG
1 AAAACAAATGAAGAAGCAGAAG
60799263 A
1 A
60799264 CAATGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.64, C:0.05, G:0.27, T:0.05
Consensus pattern (22 bp):
AAAACAAATGAAGAAGCAGAAG
Found at i:60803272 original size:26 final size:26
Alignment explanation
Indices: 60803241--60803348 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
60803231 TGAAATGCCC
* *
60803241 ATCATGAAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
60803267 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
60803293 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
60803319 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
60803345 ATCA
1 ATCA
60803349 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:60806328 original size:23 final size:22
Alignment explanation
Indices: 60806302--60806370 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 22
60806292 TGTTCATATT
*
60806302 TTATTTTTAATCTTGTTTCTAAA
1 TTATTTTTAATCATG-TTCTAAA
* *
60806325 TTATTTGT-AT-ATGTTCATAAT
1 TTATTTTTAATCATGTTC-TAAA
*
60806346 TTATTTTTAATCCTGCTTCTAAA
1 TTATTTTTAATCATG-TTCTAAA
60806369 TT
1 TT
60806371 TATCTATTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
20 3 0.08
21 12 0.33
22 4 0.11
23 14 0.39
24 3 0.08
ACGTcount: A:0.26, C:0.10, G:0.06, T:0.58
Consensus pattern (22 bp):
TTATTTTTAATCATGTTCTAAA
Found at i:60806392 original size:39 final size:39
Alignment explanation
Indices: 60806281--60806449 Score: 189
Period size: 39 Copynumber: 4.2 Consensus size: 39
60806271 AATTTCGAGC
*
60806281 CTAAATTT-TACTGTTCATATTTTATTTTTAATCTTGTTT
1 CTAAATTTAT-CTGTTCATATTTTATTTTTAATCCTGTTT
* * *
60806320 CTAAATTATTTGTATATGTTCATAATTTATTTTTAATCCTGCTT
1 CT-AA--A-TT-TATCTGTTCATATTTTATTTTTAATCCTGTTT
* *
60806364 CTAAATTTATCTATTCATATTTTATTTTTAATCCTATTT
1 CTAAATTTATCTGTTCATATTTTATTTTTAATCCTGTTT
*
60806403 CTAAATTTATCTGGTT-ATATTTTATTTTTAATCCTGGTT
1 CTAAATTTATCT-GTTCATATTTTATTTTTAATCCTGTTT
*
60806442 CAAAATTT
1 CTAAATTT
60806450 GTAATTTAAA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
39 69 0.63
40 6 0.05
41 1 0.01
42 1 0.01
43 4 0.04
44 28 0.25
45 1 0.01
ACGTcount: A:0.27, C:0.11, G:0.05, T:0.57
Consensus pattern (39 bp):
CTAAATTTATCTGTTCATATTTTATTTTTAATCCTGTTT
Found at i:60806449 original size:78 final size:79
Alignment explanation
Indices: 60806294--60806449 Score: 199
Period size: 83 Copynumber: 1.9 Consensus size: 79
60806284 AATTTTACTG
* * *
60806294 TTCATATTTTATTTTTAATCTTGTTTCTAAATTATTTGTATATGTTCATAATTTATTTTTAATCC
1 TTCATATTTTATTTTTAATCCTATTTCTAAATTATCTG----TGTTCATAATTTATTTTTAATCC
*
60806359 TGCTTCTAAATTTATCTA
62 TGCTTCAAAATTTATCTA
* *
60806377 TTCATATTTTATTTTTAATCCTATTTCTAAATTTATCTG-GTT-ATATTTTATTTTTAATCCTGG
1 TTCATATTTTATTTTTAATCCTATTTCTAAA-TTATCTGTGTTCATAATTTATTTTTAATCCTGC
60806440 TTCAAAATTT
65 TTCAAAATTT
60806450 GTAATTTAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
78 28 0.42
79 3 0.05
83 29 0.44
84 6 0.09
ACGTcount: A:0.26, C:0.11, G:0.05, T:0.58
Consensus pattern (79 bp):
TTCATATTTTATTTTTAATCCTATTTCTAAATTATCTGTGTTCATAATTTATTTTTAATCCTGCT
TCAAAATTTATCTA
Found at i:60806750 original size:5 final size:5
Alignment explanation
Indices: 60806742--60806769 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
60806732 AATAAAAATC
60806742 TATTT TATTT TATTT TATTT TATTT TAT
1 TATTT TATTT TATTT TATTT TATTT TAT
60806770 GGTTGGCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:60815214 original size:69 final size:69
Alignment explanation
Indices: 60815140--60815279 Score: 253
Period size: 69 Copynumber: 2.0 Consensus size: 69
60815130 AGTTTTAACA
60815140 AAACATATTATCTACAAATAAACATTTTATGAAAAATATTATGAATATTTTATTAAATAGATATT
1 AAACATATTATCTACAAATAAACATTTTATGAAAAATATTATGAATATTTTATTAAATAGATATT
60815205 CATC
66 CATC
* * *
60815209 AAACATATTATCTACCAATAGACATTTTATGAAAAGTATTATGAATATTTTATTAAATAGATATT
1 AAACATATTATCTACAAATAAACATTTTATGAAAAATATTATGAATATTTTATTAAATAGATATT
60815274 CATC
66 CATC
60815278 AA
1 AA
60815280 TATCAAAATA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (69 bp):
AAACATATTATCTACAAATAAACATTTTATGAAAAATATTATGAATATTTTATTAAATAGATATT
CATC
Found at i:60819823 original size:26 final size:25
Alignment explanation
Indices: 60819805--60819858 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 25
60819795 ATATAATTGT
60819805 TATTTTTATATGTAAAATATTTCAAA
1 TATTTTTATATGTAAAATATTT-AAA
60819831 TATTTTTATATGTAAAATATTTTAAA
1 TATTTTTATATGTAAAATA-TTTAAA
60819857 TA
1 TA
60819859 CACATACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 24 0.89
27 3 0.11
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (25 bp):
TATTTTTATATGTAAAATATTTAAA
Found at i:60821099 original size:30 final size:30
Alignment explanation
Indices: 60821063--60821125 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
60821053 CACTCTATTA
* * *
60821063 TTTTTTTAGTGCATTATTATCTAATATATG
1 TTTTTTTAGTACATTATCATCTAATACATG
**
60821093 TTTTTTTTTTACATTATCATCTAATACATG
1 TTTTTTTAGTACATTATCATCTAATACATG
60821123 TTT
1 TTT
60821126 AACCACCATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.10, G:0.06, T:0.59
Consensus pattern (30 bp):
TTTTTTTAGTACATTATCATCTAATACATG
Found at i:60837192 original size:15 final size:16
Alignment explanation
Indices: 60837174--60837212 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
60837164 AAAAATAAAG
60837174 AAATTAAATTATAT-T
1 AAATTAAATTATATAT
60837189 AAATT-AA-TATATAT
1 AAATTAAATTATATAT
60837203 AAATTAAATT
1 AAATTAAATT
60837213 TTAAATCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 5 0.24
14 8 0.38
15 7 0.33
16 1 0.05
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATTAAATTATATAT
Found at i:60837883 original size:12 final size:12
Alignment explanation
Indices: 60837866--60837890 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60837856 AGTAAAAAGA
60837866 AAAAAATAATTC
1 AAAAAATAATTC
60837878 AAAAAATAATTC
1 AAAAAATAATTC
60837890 A
1 A
60837891 CATTGGTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAAATAATTC
Found at i:60854082 original size:19 final size:19
Alignment explanation
Indices: 60854044--60854082 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
60854034 CTACTAATTT
*
60854044 TATGGTGCGAAAGAATATA
1 TATGGTGCGAAAGAAAATA
60854063 TATGGTGC-AAAGATAAATA
1 TATGGTGCGAAAGA-AAATA
60854082 T
1 T
60854083 TGGAGTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (19 bp):
TATGGTGCGAAAGAAAATA
Found at i:60855245 original size:3 final size:3
Alignment explanation
Indices: 60855233--60855263 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
60855223 CTTTTTATTT
60855233 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
60855264 TGTATCTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:60858713 original size:20 final size:21
Alignment explanation
Indices: 60858687--60858732 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
60858677 AGCCGGGATC
60858687 ACTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
60858708 -CTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
60858728 ACTAA
1 ACTAA
60858733 TATAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTAACTAATACTAATCTAAT
Found at i:60858726 original size:11 final size:11
Alignment explanation
Indices: 60858687--60858739 Score: 76
Period size: 11 Copynumber: 5.1 Consensus size: 11
60858677 AGCCGGGATC
60858687 ACTAA-CTAAT
1 ACTAATCTAAT
60858697 ACTAATCTAAT
1 ACTAATCTAAT
60858708 -CTAA-CTAAT
1 ACTAATCTAAT
60858717 ACTAATCTAAT
1 ACTAATCTAAT
*
60858728 ACTAATATAAT
1 ACTAATCTAAT
60858739 A
1 A
60858740 GAAAAATTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
9 5 0.13
10 13 0.33
11 21 0.54
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:60858739 original size:5 final size:6
Alignment explanation
Indices: 60858691--60858739 Score: 56
Period size: 5 Copynumber: 9.2 Consensus size: 6
60858681 GGGATCACTA
60858691 ACTAAT ACTAAT -CTAAT -CT-A- ACTAAT ACTAAT -CTAAT ACTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
60858734 A-TAAT A
1 ACTAAT A
60858740 GAAAAATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
4 3 0.08
5 18 0.46
6 18 0.46
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (6 bp):
ACTAAT
Found at i:60858752 original size:14 final size:15
Alignment explanation
Indices: 60858733--60858763 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
60858723 CTAATACTAA
60858733 TATAATAGAAAA-AT
1 TATAATAGAAAATAT
60858747 TATAATAGAAAATAT
1 TATAATAGAAAATAT
60858762 TA
1 TA
60858764 ATATAATAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
TATAATAGAAAATAT
Found at i:60858770 original size:18 final size:17
Alignment explanation
Indices: 60858725--60858775 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
60858715 ATACTAATCT
60858725 AATACTAATATAATAGAA
1 AATA-TAATATAATAGAA
60858743 AA-AT--TATAATAGAA
1 AATATAATATAATAGAA
60858757 AATATTAATATAATAGAA
1 AATA-TAATATAATAGAA
60858775 A
1 A
60858776 GAAAATAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 12 0.41
15 1 0.03
16 2 0.07
17 1 0.03
18 13 0.45
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (17 bp):
AATATAATATAATAGAA
Found at i:60869110 original size:13 final size:13
Alignment explanation
Indices: 60869092--60869120 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
60869082 TTTAGTTTAA
60869092 TTAGTTAATTAGT
1 TTAGTTAATTAGT
60869105 TTAGTTAATTAGT
1 TTAGTTAATTAGT
60869118 TTA
1 TTA
60869121 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:60876217 original size:24 final size:24
Alignment explanation
Indices: 60876185--60876230 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
60876175 AAATTCAAAC
60876185 AAAAAAAATTAAAAT-CTTAAAAAT
1 AAAAAAAA-TAAAATACTTAAAAAT
*
60876209 AAAATAAATAAAATACTTAAAA
1 AAAAAAAATAAAATACTTAAAA
60876231 CTTATTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (24 bp):
AAAAAAAATAAAATACTTAAAAAT
Found at i:60881717 original size:5 final size:5
Alignment explanation
Indices: 60881707--60881747 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
60881697 TAATTTTATA
60881707 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
60881748 TATTAAGTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:60881869 original size:30 final size:30
Alignment explanation
Indices: 60881833--60881894 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
60881823 CATCGATTTC
60881833 ACCATTTTTGGAAGCTCACTTAGGACTCAA
1 ACCATTTTTGGAAGCTCACTTAGGACTCAA
60881863 ACCATTTTTGGAAGCTCACTTAGGACTCAA
1 ACCATTTTTGGAAGCTCACTTAGGACTCAA
60881893 AC
1 AC
60881895 ATTCACTCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (30 bp):
ACCATTTTTGGAAGCTCACTTAGGACTCAA
Found at i:60885017 original size:17 final size:17
Alignment explanation
Indices: 60884977--60885024 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
60884967 AGCTACCCAG
*
60884977 TGGACCCACTTACAACC
1 TGGACCCATTTACAACC
** *
60884994 TTAACCCATTTACACCC
1 TGGACCCATTTACAACC
60885011 TGGACCCA-TTACAA
1 TGGACCCATTTACAA
60885025 TTATAACCTT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.31, C:0.38, G:0.08, T:0.23
Consensus pattern (17 bp):
TGGACCCATTTACAACC
Found at i:60886364 original size:25 final size:23
Alignment explanation
Indices: 60886333--60886383 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
60886323 CTTACTTTTA
60886333 TATTATATAT-TGTAAGATTATTT
1 TATTATATATAT-TAAGATTATTT
*
60886356 TATTATATATATTAATATTA-TT
1 TATTATATATATTAAGATTATTT
60886378 TATTAT
1 TATTAT
60886384 CTATTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 8 0.31
23 17 0.65
24 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (23 bp):
TATTATATATATTAAGATTATTT
Found at i:60886695 original size:12 final size:12
Alignment explanation
Indices: 60886642--60886697 Score: 51
Period size: 12 Copynumber: 4.3 Consensus size: 12
60886632 GTTATGTATA
60886642 TCATATATATTA-
1 TCAT-TATATTAT
60886654 TCTATTATATTAT
1 TC-ATTATATTAT
*
60886667 TTATGTTTATATTAT
1 TCA---TTATATTAT
60886682 TCATTATATTAT
1 TCATTATATTAT
60886694 TCAT
1 TCAT
60886698 AATTTTAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 23 0.62
13 3 0.08
15 11 0.30
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (12 bp):
TCATTATATTAT
Found at i:60891341 original size:18 final size:18
Alignment explanation
Indices: 60891314--60891406 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
60891304 TACGACCGTT
60891314 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
60891332 TACGGCACTATTCATGTA
1 TACGGTACTATTCACGTA
*
60891350 TATGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
60891368 TATGGTACTATTCATGTA
1 TACGGTACTATTCACGTA
*
60891386 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
60891404 TAC
1 TAC
60891407 AGTAGTAGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:60891364 original size:36 final size:36
Alignment explanation
Indices: 60891314--60891406 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
60891304 TACGACCGTT
60891314 TACGGTACTATTCACGTATACGGCACTATTCATGTA
1 TACGGTACTATTCACGTATACGGCACTATTCATGTA
* * *
60891350 TATGGTACTATTCACGTATATGGTACTATTCATGTA
1 TACGGTACTATTCACGTATACGGCACTATTCATGTA
*
60891386 TACGGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
60891407 AGTAGTAGGG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGCACTATTCATGTA
Found at i:60896367 original size:18 final size:20
Alignment explanation
Indices: 60896344--60896383 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
60896334 CTTTCCTCAA
*
60896344 AAGAAAT-AGAA-TTTTATT
1 AAGAAATAAGAAGTTTGATT
60896362 AAGAAATAAGAAGTTTGATT
1 AAGAAATAAGAAGTTTGATT
60896382 AA
1 AA
60896384 CTAAAAATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 4 0.21
20 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.33
Consensus pattern (20 bp):
AAGAAATAAGAAGTTTGATT
Found at i:60899605 original size:25 final size:25
Alignment explanation
Indices: 60899564--60899613 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
60899554 TAATAATAAA
* *
60899564 TAAATATATTAATTTATTTTTATAT
1 TAAATAAATTAATTTATTTATATAT
60899589 TAAATAAATATAA-TTATTTATATAT
1 TAAATAAAT-TAATTTATTTATATAT
60899614 GTAATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TAAATAAATTAATTTATTTATATAT
Found at i:60899624 original size:29 final size:30
Alignment explanation
Indices: 60899556--60899630 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 30
60899546 TTTTAATTTA
* *
60899556 ATAATAAATAAATAT-ATTAATTTATTTTT
1 ATAATAAATAAATATAATTAATTTATATAT
*
60899585 ATATTAAATAAATATAATT-ATTTATATAT
1 ATAATAAATAAATATAATTAATTTATATAT
* *
60899614 GTAATATATAAATATAA
1 ATAATAAATAAATATAA
60899631 AATGATATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 36 0.92
30 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (30 bp):
ATAATAAATAAATATAATTAATTTATATAT
Found at i:60904196 original size:47 final size:47
Alignment explanation
Indices: 60904127--60904220 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
60904117 AAGACAACAG
* *
60904127 AATGTATGAATTATTTAATAAAATGAGTAGGAGCTGTGGCATGTCCA
1 AATGTATGAAGTATTTAATAAAATGAGTAGGAGATGTGGCATGTCCA
60904174 AATGTATGAAGTATTTAATAAAATGAGTAGGAGATGTGGCATGTCCA
1 AATGTATGAAGTATTTAATAAAATGAGTAGGAGATGTGGCATGTCCA
60904221 TCAAACTTCC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.31
Consensus pattern (47 bp):
AATGTATGAAGTATTTAATAAAATGAGTAGGAGATGTGGCATGTCCA
Found at i:60908300 original size:17 final size:17
Alignment explanation
Indices: 60908280--60908353 Score: 53
Period size: 17 Copynumber: 4.4 Consensus size: 17
60908270 AAATTTTTTG
*
60908280 AAAATTTAAAAAATTAA
1 AAAATATAAAAAATTAA
*
60908297 AAAATATATAAAATTAA
1 AAAATATAAAAAATTAA
**** *
60908314 TTTTTAAAAAAAATTAA
1 AAAATATAAAAAATTAA
*
60908331 AAAGTAT--AAAATTATA
1 AAAATATAAAAAATTA-A
60908347 AAAATAT
1 AAAATAT
60908354 TGAACCACCG
Statistics
Matches: 42, Mismatches: 14, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
15 7 0.17
16 7 0.17
17 28 0.67
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (17 bp):
AAAATATAAAAAATTAA
Found at i:60909764 original size:73 final size:74
Alignment explanation
Indices: 60909641--60909994 Score: 430
Period size: 73 Copynumber: 4.8 Consensus size: 74
60909631 AACATGTGAA
* *
60909641 CTGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATTTTTTGACAA-CAGAAATTGAAATTACC
1 CTGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATACC
**
60909704 TCGGCGTGTC
65 TCAACGTGTC
* *
60909714 CCGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAAGCAGAAATTGAAAATACCT
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATACCT
60909778 CAACGTGTC
66 CAACGTGTC
* ** *
60909787 TTGAGGCTCAACTCACATCTCTCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACC
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT-TTGAAAAGCAGAAATTGAAAATACC
*
60909852 TCAATGTGTC
65 TCAACGTGTC
* ** * * * *
60909862 TTGAGGCTCAACTCACCTCTCGTAATATGAATTGATTTTTTTGACAA-CAGAAATTGAAATTACC
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTTGAAAAGCAGAAATTGAAAATACC
*
60909926 TCAGCGTGTC
65 TCAACGTGTC
* * * * *
60909936 CTGAGGCTCAACTCATTTCTTGCAATATGAGCTGA-TTTTGGAAAAGTAGAATTTGAAAA
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAA
60909995 GCATAAATTG
Statistics
Matches: 242, Mismatches: 33, Indels: 12
0.84 0.11 0.04
Matches are distributed among these distances:
72 19 0.08
73 94 0.39
74 54 0.22
75 71 0.29
76 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (74 bp):
CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATACCT
CAACGTGTC
Found at i:60910599 original size:74 final size:74
Alignment explanation
Indices: 60910464--60910953 Score: 553
Period size: 74 Copynumber: 6.5 Consensus size: 74
60910454 ACGTGAGCCA
* * ** ** * *
60910464 AGGCTCAACTCATCTTTCGCAATATGAGTTGATTTTTTTTAAAGTAGAATTTGAAAA-TACCTCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAAAATTACCTCA
* *
60910528 GCGTGCCCCG
65 GCGTGTCCTG
*
60910538 AGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATT-AAAATTACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTGAAAATTACCTCA
*
60910602 GCGTGTCTTG
65 GCGTGTCCTG
*
60910612 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGGAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-A-A--AA-T---
* *
60910677 AATACCTCAACGTGTCTTG
58 --TACCTCAGCGTGTCCTG
*
60910696 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAA-TACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAAATTACCTC
** *
60910760 AATGTGTCTTG
64 AGCGTGTCCTG
* *
60910771 AGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTG-ACAACAGAAATTG-AAATTACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAATTACCTC
60910834 AGCGTGTCCTG
64 AGCGTGTCCTG
* * *
60910845 AGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAATAAAAATTG-AAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATTACCTCAG
60910908 CGTGTCCTG
66 CGTGTCCTG
**
60910917 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
60910954 TTTTTAAGAT
Statistics
Matches: 365, Mismatches: 32, Indels: 39
0.84 0.07 0.09
Matches are distributed among these distances:
71 5 0.01
72 60 0.16
73 28 0.08
74 143 0.39
75 51 0.14
76 5 0.01
78 2 0.01
79 1 0.00
82 2 0.01
84 49 0.13
85 4 0.01
86 15 0.04
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (74 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATTACCTCAG
CGTGTCCTG
Found at i:60910642 original size:233 final size:230
Alignment explanation
Indices: 60910268--60910886 Score: 703
Period size: 233 Copynumber: 2.7 Consensus size: 230
60910258 AAAACATAAA
* * * * * * * * *
60910268 TTGAAAAACAGAAATGGAAAATACATCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGA
1 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGCCCCGAGACTCAACTCACCTCTCGCAATATGA
* ** * * * * *
60910333 GTTGGTTTTTGCCAAACAGTAATTGAAAA-TACCTCATCGTGCCCCGAGGCTCAACTCACCTCTT
66 GTTGATTTTTGAAAAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTA
* *
60910397 GCAATATGAGTTGATTTAGAAAACAGACATAAA-AACAGAAATTGAAAGTGA-CTCAACACGTGA
130 GCAATATGAGTTGATTTTGAAAA-A-ACATAAATAACAGAAATTGAAAAT-ACCTC-A-ACGTG-
* *
60910460 GC-CAAGGCTCAACTCATCTTTCGCAATATGAGTTGATTTT-
189 GCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTC
** * * **
60910500 TTTTAAAGTAGAATTTGAAAATACCTCGGCGTGCCCCGAGACTCAACTCACCTCTCGCAATATGA
1 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGCCCCGAGACTCAACTCACCTCTCGCAATATGA
* *
60910565 GTTGATTTTTGAAAAAACAGAAATTAAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTC
66 GTTGATTTTTG-AAAAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTA
* *
60910630 GCAATATGAGTTGATTTTTG-AAAAACATAAATTGAACAGGAATTGAAAATACCTCAACGTGTCT
130 GCAATATGAGTTGA-TTTTGAAAAAACATAAA-T-AACAGAAATTGAAAATACCTCAACGTGGCT
**
60910694 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTC
192 CAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTC
* * ** * *
60910733 TTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAA
1 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGCCCCGAGACTCAACTCACCTCTCGCAATATGA
* *
60910798 GTTGATTTTTTTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
66 GTTGA--TTTTTGAAAAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
60910862 AGCAATATGAGTTGATTTTGAAAAA
129 AGCAATATGAGTTGATTTTGAAAAA
60910887 TAAAAATTGA
Statistics
Matches: 329, Mismatches: 46, Indels: 23
0.83 0.12 0.06
Matches are distributed among these distances:
231 8 0.02
232 111 0.34
233 183 0.56
234 21 0.06
235 6 0.02
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (230 bp):
TTGAAAAGCAGAAATTGAAAATACCTCAACGTGCCCCGAGACTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAG
CAATATGAGTTGATTTTGAAAAAACATAAATAACAGAAATTGAAAATACCTCAACGTGGCTCAAG
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTC
Found at i:60910793 original size:75 final size:73
Alignment explanation
Indices: 60910664--60910954 Score: 397
Period size: 75 Copynumber: 4.0 Consensus size: 73
60910654 ACATAAATTG
* *
60910664 AACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
60910729 TTTCTTGAA
66 TTT-TTGAA
* * *
60910738 AAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA
1 AA-CAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
60910803 TTTTTTTGAC
65 -TTTTTTGAA
* * *
60910813 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
60910877 -TTTTGAAA
66 TTTTTG-AA
* * * * **
60910885 AATAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
60910950 TTTTT
66 TTTTT
60910955 TTTTAAGATG
Statistics
Matches: 196, Mismatches: 16, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
71 5 0.03
72 60 0.31
74 62 0.32
75 65 0.33
76 4 0.02
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (73 bp):
AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTGAA
Found at i:60918246 original size:11 final size:11
Alignment explanation
Indices: 60918232--60918272 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
60918222 TGTTTTCTCT
60918232 CTATTTTGCTA
1 CTATTTTGCTA
*
60918243 CTATTTTACTA
1 CTATTTTGCTA
* *
60918254 TTATGTTGCTA
1 CTATTTTGCTA
60918265 CTATTTTG
1 CTATTTTG
60918273 TTATTATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:60918343 original size:30 final size:31
Alignment explanation
Indices: 60918309--60918372 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
60918299 ACTTATTTTA
60918309 TTGTTAATTTTGTT-ATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTAATTATTTTAAAGGCAT
* *
60918339 TTGTTAATTTTTTTAATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTAATTATTTTAAAGGCAT
60918370 TTG
1 TTG
60918373 CTTATTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.58
Consensus pattern (31 bp):
TTGTTAATTTTGTTAATTATTTTAAAGGCAT
Found at i:60918987 original size:30 final size:30
Alignment explanation
Indices: 60918951--60919019 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
60918941 GGTTTCATTT
60918951 CAGTCACTCAAC-T-TTAGAAAAATGACAAAA
1 CAGTCACT-AACGTATTA-AAAAATGACAAAA
*
60918981 CAGTCACTAACGTTATTAAAAAATGACAAAT
1 CAGTCACTAACG-TATTAAAAAATGACAAAA
60919012 CAGTCACT
1 CAGTCACT
60919020 TATTATCATT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
29 3 0.09
30 8 0.23
31 21 0.60
32 3 0.09
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.23
Consensus pattern (30 bp):
CAGTCACTAACGTATTAAAAAATGACAAAA
Found at i:60921239 original size:23 final size:21
Alignment explanation
Indices: 60921185--60921249 Score: 58
Period size: 23 Copynumber: 2.9 Consensus size: 21
60921175 ACGACGAAAT
60921185 TTAATTATAATTTTTTTATAAAA
1 TTAATTATAA-TTTTTTAT-AAA
* * *
60921208 TAAAATATAAGTTTTTTATATA
1 TTAATTATAA-TTTTTTATAAA
60921230 TTAATTTATAATTTTATTAT
1 TTAA-TTATAATTTT-TTAT
60921250 TTTTGAAGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 9 0.26
23 25 0.74
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TTAATTATAATTTTTTATAAA
Found at i:60921330 original size:15 final size:15
Alignment explanation
Indices: 60921310--60921341 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
60921300 TAATTTTACT
60921310 ATATATTAATCTATA
1 ATATATTAATCTATA
*
60921325 ATATATTAATTTATA
1 ATATATTAATCTATA
60921340 AT
1 AT
60921342 TTTTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATATTAATCTATA
Found at i:60928152 original size:29 final size:27
Alignment explanation
Indices: 60928110--60928348 Score: 137
Period size: 27 Copynumber: 8.9 Consensus size: 27
60928100 AAACATATGT
*
60928110 AAAAGTTTGAAATAAATAATATATGAAA
1 AAAAGTTTAAAATAAATAATATAT-AAA
60928138 AAAAGGTTTAAAATAAATAATATATAAA
1 AAAA-GTTTAAAATAAATAATATATAAA
* *
60928166 AAGAA-ATTAAAATAGATAATATATAAA
1 AA-AAGTTTAAAATAAATAATATATAAA
*
60928193 ATAA-TTT--AA-AAATAATATATAACA
1 AAAAGTTTAAAATAAATAATATATAA-A
*
60928217 AAACAGTTTCAAAT--ATACA-ATAT--A
1 AAA-AGTTTAAAATAAATA-ATATATAAA
*** * * *
60928241 AATTTTTTTAAATAAGTAACATAT-AA
1 AAAAGTTTAAAATAAATAATATATAAA
* *
60928267 AACAGTTTAAACTAAATAATATATAAAATAGA
1 AAAAGTTTAAAATAAATAATATAT---A-A-A
*
60928299 TAAAAGTTTGAAATAAATAATATAT--A
1 -AAAAGTTTAAAATAAATAATATATAAA
*
60928325 AAAAGTTT-AAATATATAATATATA
1 AAAAGTTTAAAATAAATAATATATA
60928349 NNNNNNNNNN
Statistics
Matches: 167, Mismatches: 23, Indels: 45
0.71 0.10 0.19
Matches are distributed among these distances:
23 19 0.11
24 23 0.14
25 15 0.09
26 26 0.16
27 28 0.17
28 12 0.07
29 21 0.13
31 1 0.01
32 1 0.01
33 21 0.13
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (27 bp):
AAAAGTTTAAAATAAATAATATATAAA
Found at i:60928166 original size:26 final size:25
Alignment explanation
Indices: 60928091--60928348 Score: 123
Period size: 26 Copynumber: 9.7 Consensus size: 25
60928081 AAATAAAATA
* * *
60928091 TAAAATAAAAAACATATGTAAAAGTT
1 TAAAATAAATAATATAT-AAAAAGTT
*
60928117 TGAAATAAATAATATATGAAAAAAAGGTT
1 TAAAATAAATAATATAT---AAAAA-GTT
*
60928146 TAAAATAAATAATATATAAAAAGAAAT
1 TAAAATAAATAATATATAAAAAG--TT
* *
60928173 TAAAATAGATAATATATAAAATAATT
1 TAAAATAAATAATATATAAAA-AGTT
*
60928199 TAAAA-ATAAT-ATATAACAAAACAGTT
1 TAAAATA-AATAATAT-ATAAAA-AGTT
* ***
60928225 TCAAAT--ATACA-ATATAAATTTTT
1 TAAAATAAATA-ATATATAAAAAGTT
* * *
60928248 TTAAATAAGTAACATATAAAACAGTT
1 TAAAATAAATAATATATAAAA-AGTT
*
60928274 TAAACTAAATAATATATAAAATAGATAAAAGTT
1 TAAAATAAAT-A-ATAT---AT--A-AAAAGTT
*
60928307 TGAAATAAATAATATATAAAAAGTT
1 TAAAATAAATAATATATAAAAAGTT
*
60928332 T-AAATATATAATATATA
1 TAAAATAAATAATATATA
60928349 NNNNNNNNNN
Statistics
Matches: 178, Mismatches: 31, Indels: 48
0.69 0.12 0.19
Matches are distributed among these distances:
23 7 0.04
24 22 0.12
25 25 0.14
26 50 0.28
27 22 0.12
28 10 0.06
29 19 0.11
31 6 0.03
32 1 0.01
33 13 0.07
34 3 0.02
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (25 bp):
TAAAATAAATAATATATAAAAAGTT
Found at i:60928194 original size:16 final size:16
Alignment explanation
Indices: 60928146--60928195 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
60928136 AAAAAAGGTT
*
60928146 TAAAATAAATAATATA
1 TAAAATAGATAATATA
60928162 TAAAA-AG--AA-AT-
1 TAAAATAGATAATATA
60928173 TAAAATAGATAATATA
1 TAAAATAGATAATATA
60928189 TAAAATA
1 TAAAATA
60928196 ATTTAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 10
0.72 0.03 0.26
Matches are distributed among these distances:
11 5 0.18
12 4 0.14
13 2 0.07
14 2 0.07
15 3 0.11
16 12 0.43
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (16 bp):
TAAAATAGATAATATA
Found at i:60928211 original size:23 final size:24
Alignment explanation
Indices: 60928152--60928214 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 24
60928142 GGTTTAAAAT
60928152 AAATAATATATAAAAAGAAATTAAA
1 AAATAATATAT-AAAAGAAATTAAA
* *
60928177 ATAGATAATATATAAAA-TAATTTAA
1 A-A-ATAATATATAAAAGAAATTAAA
60928202 AAATAATATATAA
1 AAATAATATATAA
60928215 CAAAACAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 11 0.32
24 1 0.03
25 8 0.24
26 5 0.15
27 9 0.26
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (24 bp):
AAATAATATATAAAAGAAATTAAA
Found at i:60928325 original size:24 final size:23
Alignment explanation
Indices: 60928293--60928348 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 23
60928283 TAATATATAA
*
60928293 AATAGATAAAAGTTTGAAATAAAT
1 AATATATAAAAGTTT-AAATAAAT
*
60928317 AATATATAAAAAGTTTAAATATAT
1 AATATAT-AAAAGTTTAAATAAAT
60928341 AATATATA
1 AATATATA
60928349 NNNNNNNNNN
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 1 0.03
24 20 0.69
25 8 0.28
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (23 bp):
AATATATAAAAGTTTAAATAAAT
Done.