Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 317 of 325
Found at i:99962856 original size:67 final size:67
Alignment explanation
Indices: 99962783--99963212 Score: 447
Period size: 67 Copynumber: 6.4 Consensus size: 67
99962773 GTTGTTGTAT
* * *
99962783 TCGAGCTAGGGTTTTACACATTATACCCCATGTTTAATGTCCTGGTGGACTCTCTATGTTGCCAT
1 TCGAGCTATGGTCTTACACATCATACCCCATGTTTAATGTCCTGGTGGACTCTCTATGTTGCCAT
99962848 AG
66 AG
* * * * * *
99962850 TTGAGCTATGGTCTTACACATCAAACCCTATGTTTAATGTCCTGGCAGGA-TCTCTATTTTGTCA
1 TCGAGCTATGGTCTTACACATCATACCCCATGTTTAATGTCCTGG-TGGACTCTCTATGTTGCCA
99962914 TAG
65 TAG
* * * * * *** * * *
99962917 CCGAGCTA-GGCTCTTACACACCATACCCTATGTTTAATAAT-CTAGAATACTTTCTTTGTTACC
1 TCGAGCTATGG-TCTTACACATCATACCCCATGTTTAAT-GTCCTGGTGGACTCTCTATGTTGCC
99962980 ATAG
64 ATAG
* * * * *
99962984 TCGAGCTATGGTATTACACATCATACCCCATTTTTAATGTACTGGTAGACTCACTATGTTGCCAT
1 TCGAGCTATGGTCTTACACATCATACCCCATGTTTAATGTCCTGGTGGACTCTCTATGTTGCCAT
99963049 A-
66 AG
* * * * * *
99963050 ACGAAGCTAGGGTCTTACACATTATACCCCATGTTTAATGTCATGGTGGACTCTCAATGTTGTCA
1 TCG-AGCTATGGTCTTACACATCATACCCCATGTTTAATGTCCTGGTGGACTCTCTATGTTGCCA
99963115 TAG
65 TAG
* * * * *
99963118 TCGAGTTATGGTCTTACACACCATACCTCATGTTTAATGTCCT-ATGGACTCTCTATGTTGTCAT
1 TCGAGCTATGGTCTTACACATCATACCCCATGTTTAATGTCCTGGTGGACTCTCTATGTTGCCAT
99963182 AG
66 AG
* *
99963184 TCGAGCTATGGTCTTATACATTATACCCC
1 TCGAGCTATGGTCTTACACATCATACCCC
99963213 TTTACAGCCC
Statistics
Matches: 295, Mismatches: 60, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
66 52 0.18
67 235 0.80
68 8 0.03
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (67 bp):
TCGAGCTATGGTCTTACACATCATACCCCATGTTTAATGTCCTGGTGGACTCTCTATGTTGCCAT
AG
Found at i:99963115 original size:201 final size:201
Alignment explanation
Indices: 99962783--99963155 Score: 511
Period size: 201 Copynumber: 1.9 Consensus size: 201
99962773 GTTGTTGTAT
* * * * *
99962783 TCGAGCTAGGGTTTTACACATTATACCCCATGTTTAATGTCCTGGTGGACTCTCTATGTTGCCAT
1 TCGAGCTAGGGTATTACACATCATACCCCATGTTTAATGTACTGGTAGACTCACTATGTTGCCAT
** * * * * *
99962848 AGTTGAGCTATGGTCTTACACATCAAACCCTATGTTTAATGTCCTGGCAGGATCTCTATTTTGTC
66 AGACGAGCTAGGGTCTTACACATCAAACCCCATGTTTAATGTCATGGCAGGATCTCAATGTTGTC
99962913 ATAGCCGAGCTA-GGCTCTTACACACCATACC-CTATGTTTAATAATCTAGAATACTTTCTTTGT
131 ATAGCCGAGCTATGG-TCTTACACACCATACCTC-ATGTTTAATAATCTAGAATACTTTCTTTGT
99962976 TACCATAG
194 TACCATAG
* *
99962984 TCGAGCTATGGTATTACACATCATACCCCATTTTTAATGTACTGGTAGACTCACTATGTTGCCAT
1 TCGAGCTAGGGTATTACACATCATACCCCATGTTTAATGTACTGGTAGACTCACTATGTTGCCAT
* * *
99963049 A-ACGAAGCTAGGGTCTTACACATTATACCCCATGTTTAATGTCATGG-TGGACTCTCAATGTTG
66 AGACG-AGCTAGGGTCTTACACATCAAACCCCATGTTTAATGTCATGGCAGGA-TCTCAATGTTG
* *
99963112 TCATAGTCGAGTTATGGTCTTACACACCATACCTCATGTTTAAT
129 TCATAGCCGAGCTATGGTCTTACACACCATACCTCATGTTTAAT
99963156 GTCCTATGGA
Statistics
Matches: 149, Mismatches: 19, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
200 4 0.03
201 142 0.95
202 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (201 bp):
TCGAGCTAGGGTATTACACATCATACCCCATGTTTAATGTACTGGTAGACTCACTATGTTGCCAT
AGACGAGCTAGGGTCTTACACATCAAACCCCATGTTTAATGTCATGGCAGGATCTCAATGTTGTC
ATAGCCGAGCTATGGTCTTACACACCATACCTCATGTTTAATAATCTAGAATACTTTCTTTGTTA
CCATAG
Found at i:99968163 original size:104 final size:104
Alignment explanation
Indices: 99967983--99968190 Score: 391
Period size: 104 Copynumber: 2.0 Consensus size: 104
99967973 TGAAAAGTGG
*
99967983 CACCTTCATGGTCTTCAGGGTGTGCTTGGTTGAATAGAAAAGTGGAAAGAAAATGTTAAATTCTA
1 CACCTACATGGTCTTCAGGGTGTGCTTGGTTGAATAGAAAAGTGGAAAGAAAATGTTAAATTCTA
99968048 CCATTAGTCCCATTACTTATGAAAA-TTGTGATTTAGTCA
66 CCATTAGTCCCATTACTTAT-AAAAGTTGTGATTTAGTCA
99968087 CACCTACATGGTCTTCAGGGTGTGCTTGGTTGAATAGAAAAGTGGAAAGAAAATGTTAAATTCTA
1 CACCTACATGGTCTTCAGGGTGTGCTTGGTTGAATAGAAAAGTGGAAAGAAAATGTTAAATTCTA
99968152 CCATTAGTCCCATTACTTATAAAAGTTGTGATTTAGTCA
66 CCATTAGTCCCATTACTTATAAAAGTTGTGATTTAGTCA
99968191 TTGTACTTTA
Statistics
Matches: 102, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
103 4 0.04
104 98 0.96
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.33
Consensus pattern (104 bp):
CACCTACATGGTCTTCAGGGTGTGCTTGGTTGAATAGAAAAGTGGAAAGAAAATGTTAAATTCTA
CCATTAGTCCCATTACTTATAAAAGTTGTGATTTAGTCA
Found at i:99975576 original size:18 final size:16
Alignment explanation
Indices: 99975553--99975597 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
99975543 TCTTTCATTG
99975553 AATCCCTAACAATCTTCA
1 AATCCCT-A-AATCTTCA
99975571 AATCCCTAAATCTTC-
1 AATCCCTAAATCTTCA
*
99975586 AATACCTAAATC
1 AATCCCTAAATC
99975598 GTTAGCATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 11 0.42
16 7 0.27
17 1 0.04
18 7 0.27
ACGTcount: A:0.40, C:0.31, G:0.00, T:0.29
Consensus pattern (16 bp):
AATCCCTAAATCTTCA
Found at i:99975991 original size:117 final size:117
Alignment explanation
Indices: 99975783--99975993 Score: 323
Period size: 117 Copynumber: 1.8 Consensus size: 117
99975773 TTTGATTTGT
* * * * * *
99975783 TGGTTATTTGTGATTTAGTATTGCAATTTGAGTGCGACAATGTAGGGTTTGTTTTGTCAATTTTT
1 TGGTTAATTGTGATTTAGTATTGCAATTTCAATGCCAAAATGTAGGGTTTGTTTTGTCAATTTGT
* *
99975848 GATGCGATAATGGTCTCGATGTTGTTGATAAAACTGTTGTAAAATTTGTAGA
66 GATGCGATAATGGTCCCGATGATGTTGATAAAACTGTTGTAAAATTTGTAGA
* *
99975900 TGGTTAATTGTGATTTATTATTGCAATTTCAATGCCAAAATGTAGGGTTTGTTTTGTCGATTTGT
1 TGGTTAATTGTGATTTAGTATTGCAATTTCAATGCCAAAATGTAGGGTTTGTTTTGTCAATTTGT
*
99975965 GATGCGATAGTGGTCCCGATGATGTTGAT
66 GATGCGATAATGGTCCCGATGATGTTGAT
99975994 TTCTGTTACC
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
117 83 1.00
ACGTcount: A:0.24, C:0.08, G:0.25, T:0.43
Consensus pattern (117 bp):
TGGTTAATTGTGATTTAGTATTGCAATTTCAATGCCAAAATGTAGGGTTTGTTTTGTCAATTTGT
GATGCGATAATGGTCCCGATGATGTTGATAAAACTGTTGTAAAATTTGTAGA
Found at i:99979862 original size:51 final size:51
Alignment explanation
Indices: 99979786--99979936 Score: 248
Period size: 51 Copynumber: 3.0 Consensus size: 51
99979776 GTGCAGCAGT
*
99979786 AACATTATCCAGTCCATCTGATGTTGCAAAATCACCAGCATATTCATTAGC
1 AACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATTAGC
* * *
99979837 AACATTATCCACTCCATCTGATGTTGCAAAATCACCAACATATTTATCAGC
1 AACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATTAGC
* *
99979888 AACATTATCCACTCCATCTGACGCTGCAAAATCACCAGCATATTCATTA
1 AACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATTA
99979937 CCAGCAACTT
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 91 1.00
ACGTcount: A:0.34, C:0.28, G:0.09, T:0.28
Consensus pattern (51 bp):
AACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATTAGC
Found at i:99980099 original size:33 final size:33
Alignment explanation
Indices: 99980062--99980131 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
99980052 TATCAGCTTG
*
99980062 TACCTCTCCTACATCACCCTTC-CCACCAGATTC
1 TACCTCTCCTAAATCA-CCTTCACCACCAGATTC
* * * *
99980095 TACCTTTTCTAAATCATCTTCACCATCAGATTC
1 TACCTCTCCTAAATCACCTTCACCACCAGATTC
99980128 TACC
1 TACC
99980132 CCTTCATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 4 0.13
33 27 0.87
ACGTcount: A:0.24, C:0.40, G:0.03, T:0.33
Consensus pattern (33 bp):
TACCTCTCCTAAATCACCTTCACCACCAGATTC
Found at i:99980882 original size:117 final size:117
Alignment explanation
Indices: 99980751--99980961 Score: 341
Period size: 117 Copynumber: 1.8 Consensus size: 117
99980741 GGTAACAGAA
* * * * * *
99980751 ATCAACATCGTCGGGACCACTATCGCATCACAAATCGACAAAACAAACCCTATATTTTTGCACTG
1 ATCAACAACATCGGGACCACTATCGCATCAAAAATCGACAAAACAAACCCTACATTGTTGCACTC
* *
99980816 AAATTGCAATAATAAATTACAATTAACCATCTACAATTTTTACAATAGTTTT
66 AAATTGCAATAATAAATCACAAATAACCATCTACAATTTTTACAATAGTTTT
99980868 ATCAACAACATCGGGACCACTATCGCATCAAAAATCGACAAAACAAACCCTACATTGTTGCACTC
1 ATCAACAACATCGGGACCACTATCGCATCAAAAATCGACAAAACAAACCCTACATTGTTGCACTC
*
99980933 AAATTGCAATACTAAATCACAAATAACCA
66 AAATTGCAATAATAAATCACAAATAACCA
99980962 ACAAATCAAA
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
117 85 1.00
ACGTcount: A:0.42, C:0.25, G:0.09, T:0.25
Consensus pattern (117 bp):
ATCAACAACATCGGGACCACTATCGCATCAAAAATCGACAAAACAAACCCTACATTGTTGCACTC
AAATTGCAATAATAAATCACAAATAACCATCTACAATTTTTACAATAGTTTT
Found at i:99981189 original size:18 final size:16
Alignment explanation
Indices: 99981147--99981192 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
99981137 AAATGCTAAC
*
99981147 GATTTAGGTATTTGAA
1 GATTTAGGGATTTGAA
99981163 GATTTAGGGATTTGAA
1 GATTTAGGGATTTGAA
99981179 GATTGTTAGGGATT
1 GA-T-TTAGGGATT
99981193 CAATGAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 17 0.63
17 1 0.04
18 9 0.33
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.41
Consensus pattern (16 bp):
GATTTAGGGATTTGAA
Found at i:99995323 original size:18 final size:19
Alignment explanation
Indices: 99995276--99995325 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
99995266 TAGTCTGTTT
99995276 AAACAA-AAGTTTAACATAG
1 AAACAATAA-TTTAACATAG
* *
99995295 TAACCATAATTTAACATA-
1 AAACAATAATTTAACATAG
99995313 AAACAATAATTTA
1 AAACAATAATTTA
99995326 CTCCTTCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 11 0.42
19 13 0.50
20 2 0.08
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.28
Consensus pattern (19 bp):
AAACAATAATTTAACATAG
Found at i:99998988 original size:2 final size:2
Alignment explanation
Indices: 99998981--99999014 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
99998971 ATAATAATAC
* *
99998981 TA TA TA TA AA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
99999015 ATAGAAATAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:99999253 original size:3 final size:3
Alignment explanation
Indices: 99999245--99999298 Score: 56
Period size: 3 Copynumber: 17.0 Consensus size: 3
99999235 AATAGGGGTG
*
99999245 ATA ATA ATA ATA ATA ATA ATA ATA CA-A ACA ATA ATA CATA TATA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA -ATA -ATA
99999293 ATA ATA
1 ATA ATA
99999299 GTAGTCAGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 1 0.02
3 34 0.74
4 11 0.24
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:99999386 original size:3 final size:3
Alignment explanation
Indices: 99999373--99999466 Score: 65
Period size: 3 Copynumber: 31.3 Consensus size: 3
99999363 GAGGGCATAT
99999373 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
99999417 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA A-A ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
99999460 AAA ATA A
1 ATA ATA A
99999467 AACAAAGCTC
Statistics
Matches: 73, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
2 11 0.15
3 51 0.70
4 9 0.12
5 2 0.03
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:99999397 original size:12 final size:12
Alignment explanation
Indices: 99999373--99999456 Score: 75
Period size: 12 Copynumber: 6.8 Consensus size: 12
99999363 GAGGGCATAT
99999373 ATAATAT-AATA
1 ATAATATAAATA
99999384 ATAATATAAATA
1 ATAATATAAATA
99999396 ATAATATATACATGA
1 ATAATATA-A-AT-A
99999411 GA-AATA-ATAATA
1 -ATAATATA-AATA
99999423 ATAATATAAATA
1 ATAATATAAATA
* *
99999435 ATAGTAAAAATA
1 ATAATATAAATA
*
99999447 ATAAAATAAA
1 ATAATATAAA
99999457 ATAAAAATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
11 8 0.13
12 38 0.62
13 4 0.07
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:99999417 original size:21 final size:18
Alignment explanation
Indices: 99999378--99999437 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
99999368 CATATATAAT
*
99999378 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
99999396 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
99999417 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
99999435 ATA
1 ATA
99999438 GTAAAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 15 0.41
19 5 0.14
20 5 0.14
21 12 0.32
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:99999917 original size:22 final size:22
Alignment explanation
Indices: 99999846--99999917 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
99999836 AATTTTTTAA
*
99999846 TGGAGTGGTTTAGTAGGGTGGT
1 TGGAGTGGTTTAGTAGAGTGGT
*
99999868 TGGGGTGGTTTAGT-GAAGTGGT
1 TGGAGTGGTTTAGTAG-AGTGGT
* * *
99999890 TAGAGTGATTTAGTAGAGTTGT
1 TGGAGTGGTTTAGTAGAGTGGT
99999912 TGGAGT
1 TGGAGT
99999918 AGTTAGAGTG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
21 1 0.02
22 39 0.95
23 1 0.02
ACGTcount: A:0.18, C:0.00, G:0.44, T:0.38
Consensus pattern (22 bp):
TGGAGTGGTTTAGTAGAGTGGT
Found at i:100002043 original size:2 final size:2
Alignment explanation
Indices: 100002031--100002065 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
100002021 CTTCTGGAGG
* *
100002031 GA GA GA AA GA GA GA GA AA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
100002066 GATCAGAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
GA
Found at i:100002046 original size:10 final size:10
Alignment explanation
Indices: 100002031--100002065 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
100002021 CTTCTGGAGG
100002031 GAGAGAAAGA
1 GAGAGAAAGA
100002041 GAGAGAAAGA
1 GAGAGAAAGA
*
100002051 GAGAGAGAGA
1 GAGAGAAAGA
100002061 GAGAG
1 GAGAG
100002066 GATCAGAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (10 bp):
GAGAGAAAGA
Found at i:100003239 original size:49 final size:49
Alignment explanation
Indices: 100003162--100003259 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
100003152 TGTTTCTGCT
*
100003162 TAGTGCTCGGATCTGAACAAACATCAACATTAGGAAGCAAGAACAAGTA
1 TAGTGCTCGGATCTGAACAAACAACAACATTAGGAAGCAAGAACAAGTA
100003211 TAGTGCTCGGATCTGAACAAACAACAACATTAGGAAGCAAGAACAAGTA
1 TAGTGCTCGGATCTGAACAAACAACAACATTAGGAAGCAAGAACAAGTA
100003260 CTACATGATA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.17
Consensus pattern (49 bp):
TAGTGCTCGGATCTGAACAAACAACAACATTAGGAAGCAAGAACAAGTA
Found at i:100005612 original size:14 final size:14
Alignment explanation
Indices: 100005593--100005622 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
100005583 ATGAACTATT
100005593 AAATGTACCAATAG
1 AAATGTACCAATAG
100005607 AAATGTACCAATAG
1 AAATGTACCAATAG
100005621 AA
1 AA
100005623 GCAGAGAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.20
Consensus pattern (14 bp):
AAATGTACCAATAG
Found at i:100010378 original size:16 final size:17
Alignment explanation
Indices: 100010346--100010378 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
100010336 AATTTCAAAG
100010346 ATAGAATCCAGACACTTT
1 ATAGAATCCA-ACACTTT
100010364 ATAGAATCC-ACACTT
1 ATAGAATCCAACACTT
100010379 CAATACACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.27
Consensus pattern (17 bp):
ATAGAATCCAACACTTT
Found at i:100016577 original size:20 final size:20
Alignment explanation
Indices: 100016545--100016597 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
100016535 TTGGGGGTTT
*
100016545 GGGAGAAAT-AAAATTTTTGA
1 GGGA-AAATAAAAATTTTGGA
*
100016565 GGGAAAGTAAAAATTTTGGA
1 GGGAAAATAAAAATTTTGGA
100016585 GGGAAAATAAAAA
1 GGGAAAATAAAAA
100016598 GAAAAAGGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.51, C:0.00, G:0.26, T:0.23
Consensus pattern (20 bp):
GGGAAAATAAAAATTTTGGA
Found at i:100018134 original size:22 final size:21
Alignment explanation
Indices: 100018105--100018146 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
100018095 ATCCACAAAA
100018105 ATATAACTGTTTGAATCTAGC
1 ATATAACTGTTTGAATCTAGC
100018126 ATATGAACTGTTTGAATCTAG
1 ATAT-AACTGTTTGAATCTAG
100018147 TGGTTGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (21 bp):
ATATAACTGTTTGAATCTAGC
Found at i:100020970 original size:21 final size:22
Alignment explanation
Indices: 100020946--100020987 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
100020936 TTAAAGTTAA
*
100020946 AAATTTTTAAAAAT-TTAAAAC
1 AAATTATTAAAAATATTAAAAC
*
100020967 AAATTATTAAAATTATTAAAA
1 AAATTATTAAAAATATTAAAA
100020988 GATATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
AAATTATTAAAAATATTAAAAC
Found at i:100020980 original size:30 final size:29
Alignment explanation
Indices: 100020945--100021024 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 29
100020935 TTTAAAGTTA
100020945 AAAATTTTTAAAAATTTAAAACA-AATTATT
1 AAAATTTTTAAAAATTTAAAA-ATAATT-TT
* *
100020975 AAAATTATTAAAAGATATAAAAATAATTTT
1 AAAATTTTTAAAA-ATTTAAAAATAATTTT
** *
100021005 AATTTTTTTAAAAAATTAAA
1 AAAATTTTTAAAAATTTAAA
100021025 TAATTGCTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
29 5 0.12
30 25 0.61
31 11 0.27
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (29 bp):
AAAATTTTTAAAAATTTAAAAATAATTTT
Found at i:100021877 original size:21 final size:21
Alignment explanation
Indices: 100021825--100021888 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
100021815 GCTGGTTTCG
* *
100021825 CCTCAGTTTCCGCAGGCTTCA
1 CCTCGGTTTCGGCAGGCTTCA
*
100021846 CCTCGGTTTCGGCTGGCTTCA
1 CCTCGGTTTCGGCAGGCTTCA
*
100021867 CCTTGGTTTCGGCCAGAGCTTC
1 CCTCGGTTTCGG-CAG-GCTTC
100021889 TGCTTCCCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
21 29 0.81
22 2 0.06
23 5 0.14
ACGTcount: A:0.09, C:0.34, G:0.25, T:0.31
Consensus pattern (21 bp):
CCTCGGTTTCGGCAGGCTTCA
Found at i:100029186 original size:68 final size:65
Alignment explanation
Indices: 100029076--100029499 Score: 209
Period size: 68 Copynumber: 6.2 Consensus size: 65
100029066 CTTATTAGGA
* * * ** *
100029076 ACTTAGCTTTTCAAAATTTTCCACCTT-TTCAAGTCACATACTTATTAAAGTACTTTGCCTTCAT
1 ACTTAGCTTTTCAAAACTTTCAACCTTCTT-GAGTTGCATACTTCTTAAAGTACTTT-CCTTCA-
*
100029140 ATGT
63 A-GC
* * * *
100029144 ACTTAGCTTTTCAAAGCTTTCAACCTTCTTTG-GTTAG-GTACTTCTTAAAATACATTATCTTTT
1 ACTTAGCTTTTCAAAACTTTCAACCTTC-TTGAGTT-GCATACTTCTTAAAGTAC-TT-TC-CTT
100029207 CAAGC
61 CAAGC
* *
100029212 ACTTATCTTTTCAAAACTTTCAACCTTCTTGAGTTGCATACTTCTTAAAGTACTTTACCTTCTCG
1 ACTTAGCTTTTCAAAACTTTCAACCTTCTTGAGTTGCATACTTCTTAAAGTACTTT-CC-T-TCA
*
100029277 GGC
63 AGC
* * * * ** * *
100029280 ACTTAGTTTTTCAAACCTTTCATCCTT-TTCAGGTTGCATGTTTCTTAAAGTGCTTCACCTTCTC
1 ACTTAGCTTTTCAAAACTTTCAACCTTCTTGA-GTTGCATACTTCTTAAAGTACTT-TCC-T-TC
*
100029344 AAAC
62 AAGC
* * ** * ** *
100029348 ACCTAACTTTTCAAAGTTTTCAACCTTATCAAGTTGTGA-ACTTCTTAAAGTACTTTGCCTT-AT
1 ACTTAGCTTTTCAAAACTTTCAACCTTCTTGAGTTG-CATACTTCTTAAAGTACTTT-CCTTCA-
*
100029411 TAGGGT
63 -A--GC
* * *
100029417 A-TTAGCTTTTCAAAACTTTCAACCTT-TTTAGTTTCCATACGTT-TTAAAGTACCTTACCTTTA
1 ACTTAGCTTTTCAAAACTTTCAACCTTCTTGAG-TTGCATAC-TTCTTAAAGTA-CTTTCC-TT-
100029479 CAAGC
61 CAAGC
*
100029484 ACTTAACATTTTCAAA
1 ACTTAGC-TTTTCAAA
100029500 TGTCCTTAAT
Statistics
Matches: 271, Mismatches: 56, Indels: 57
0.71 0.15 0.15
Matches are distributed among these distances:
65 1 0.00
66 2 0.01
67 19 0.07
68 217 0.80
69 24 0.09
70 7 0.03
71 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (65 bp):
ACTTAGCTTTTCAAAACTTTCAACCTTCTTGAGTTGCATACTTCTTAAAGTACTTTCCTTCAAGC
Found at i:100029476 original size:136 final size:136
Alignment explanation
Indices: 100029076--100029499 Score: 380
Period size: 136 Copynumber: 3.1 Consensus size: 136
100029066 CTTATTAGGA
* * * * ** *
100029076 ACTTAGCTTTTCAAAATTTTCCACCTTTTCAAGTCACATACTTATTAAAGTACTTTGCCTTCATA
1 ACTTAACTTTTCAAAACTTTCAACCTTATCAAGTTGCATACTTCTTAAAGTACTTTGCCTT-ATA
* * ** * *
100029141 -TGTACTTAGCTTTTCAAAGCTTTCAACCTTCTTT-GGTTAGGTAC-TTCTTAAAATACATTATC
65 GGGTACTTAGCTTTTCAAAACTTTCAACCTT-TTTAGGTTACATACGTTCTTAAAGTACCTTA-C
*
100029203 TTTTCAAGC
128 CTTTCAAGC
* * ** * * *
100029212 ACTTATCTTTTCAAAACTTTCAACCTTCTTGAGTTGCATACTTCTTAAAGTACTTTACCTTCTCG
1 ACTTAACTTTTCAAAACTTTCAACCTTATCAAGTTGCATACTTCTTAAAGTACTTTGCCTTATAG
* * * * * * *
100029277 GGCACTTAGTTTTTCAAACCTTTCATCCTTTTCAGGTTGCAT--GTTTCTTAAAGT-GCTTCACC
66 GGTACTTAGCTTTTCAAAACTTTCAACCTTTTTAGGTTACATACG-TTCTTAAAGTACCTT-ACC
*
100029339 TTCTCAAAC
129 TT-TCAAGC
* ** *
100029348 ACCTAACTTTTCAAAGTTTTCAACCTTATCAAGTTGTGA-ACTTCTTAAAGTACTTTGCCTTATT
1 ACTTAACTTTTCAAAACTTTCAACCTTATCAAGTTG-CATACTTCTTAAAGTACTTTGCCTTA-T
* *
100029412 AGGGTA-TTAGCTTTTCAAAACTTTCAACCTTTTTAGTTTCCATACGTT-TTAAAGTACCTTACC
64 AGGGTACTTAGCTTTTCAAAACTTTCAACCTTTTTAGGTTACATACGTTCTTAAAGTACCTTACC
100029475 TTTACAAGC
129 TTT-CAAGC
100029484 ACTTAACATTTTCAAA
1 ACTTAAC-TTTTCAAA
100029500 TGTCCTTAAT
Statistics
Matches: 228, Mismatches: 47, Indels: 25
0.76 0.16 0.08
Matches are distributed among these distances:
135 9 0.04
136 199 0.87
137 19 0.08
138 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (136 bp):
ACTTAACTTTTCAAAACTTTCAACCTTATCAAGTTGCATACTTCTTAAAGTACTTTGCCTTATAG
GGTACTTAGCTTTTCAAAACTTTCAACCTTTTTAGGTTACATACGTTCTTAAAGTACCTTACCTT
TCAAGC
Found at i:100031923 original size:59 final size:60
Alignment explanation
Indices: 100031822--100031934 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 60
100031812 GTGGATAAAT
* *
100031822 ACTAAAAGTCATCATTGTCGAGTAACCCAATATGACAAAATAAAAAAGT-TCAAACAAAC
1 ACTAAAAGTCATCATTGTCGAGCAACCCAAGATGACAAAATAAAAAAGTATCAAACAAAC
* ** * * *
100031881 ACTAAAAGTCATCATTGTTGAGCAACCCGGGATGATAGAATAAAATAGTATCAA
1 ACTAAAAGTCATCATTGTCGAGCAACCCAAGATGACAAAATAAAAAAGTATCAA
100031935 TTCCTAAAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
59 41 0.91
60 4 0.09
ACGTcount: A:0.47, C:0.17, G:0.14, T:0.22
Consensus pattern (60 bp):
ACTAAAAGTCATCATTGTCGAGCAACCCAAGATGACAAAATAAAAAAGTATCAAACAAAC
Found at i:100037452 original size:52 final size:51
Alignment explanation
Indices: 100037332--100037454 Score: 160
Period size: 50 Copynumber: 2.4 Consensus size: 51
100037322 GCAATTAATA
*
100037332 AAGTCATGCATTATGTAACT-CTCATGTAAGTTAAGTTTGCATCACAAATT
1 AAGTCATGCATTATGTAACTCCTCACGTAAGTTAAGTTTGCATCACAAATT
* * * *
100037382 ATGACATGCATTATGTAACTCCT-ACGTTAGTTAAAGTTTGCATCATTAAATT
1 AAGTCATGCATTATGTAACTCCTCACGTAAGTT-AAGTTTGCATCA-CAAATT
*
100037434 AAGTCATGCATTAAGTAACTC
1 AAGTCATGCATTATGTAACTC
100037455 ATTTGTTCAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
50 25 0.40
51 14 0.23
52 23 0.37
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (51 bp):
AAGTCATGCATTATGTAACTCCTCACGTAAGTTAAGTTTGCATCACAAATT
Found at i:100047711 original size:19 final size:18
Alignment explanation
Indices: 100047689--100047749 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
100047679 AACAATAATA
*
100047689 GAAAATTATTAAAATATAT
1 GAAAATTATTAAAAT-TAC
100047708 G-AAATCTATATAAAATTAC
1 GAAAAT-TAT-TAAAATTAC
* *
100047727 AAAAATTATAAAAATTAC
1 GAAAATTATTAAAATTAC
100047745 -AAAAT
1 GAAAAT
100047750 AAAAAAGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
17 5 0.14
18 12 0.33
19 9 0.25
20 10 0.28
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (18 bp):
GAAAATTATTAAAATTAC
Found at i:100047731 original size:9 final size:9
Alignment explanation
Indices: 100047719--100047748 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
100047709 AAATCTATAT
100047719 AAAATTACA
1 AAAATTACA
*
100047728 AAAATTATA
1 AAAATTACA
100047737 AAAATTACA
1 AAAATTACA
100047746 AAA
1 AAA
100047749 TAAAAAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAATTACA
Found at i:100047742 original size:18 final size:20
Alignment explanation
Indices: 100047709--100047748 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
100047699 AAAATATATG
100047709 AAATCTATATAAAATTACAA
1 AAATCTATATAAAATTACAA
100047729 AAAT-TATA-AAAATTACAA
1 AAATCTATATAAAATTACAA
100047747 AA
1 AA
100047749 TAAAAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 12 0.60
19 4 0.20
20 4 0.20
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (20 bp):
AAATCTATATAAAATTACAA
Found at i:100047804 original size:29 final size:28
Alignment explanation
Indices: 100047761--100047838 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 28
100047751 AAAAAGAAAT
*
100047761 TTATTAAAAATTAATAGAGAAATATAA-ATA
1 TTATT-AAAA-TAAT-GAAAAATATAACATA
* *
100047791 TTATATAAAATAATGAAAAATGTAACCTA
1 TTAT-TAAAATAATGAAAAATATAACATA
*
100047820 TTATTAAAATTAT-AAAAAT
1 TTATTAAAATAATGAAAAAT
100047839 TGTAGGCATA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
27 6 0.14
28 17 0.40
29 10 0.24
30 8 0.19
31 1 0.02
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.35
Consensus pattern (28 bp):
TTATTAAAATAATGAAAAATATAACATA
Found at i:100048349 original size:15 final size:15
Alignment explanation
Indices: 100048331--100048378 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
100048321 TGTTTAAGGT
100048331 TTTTGAGTTTGGAGA
1 TTTTGAGTTTGGAGA
* *
100048346 TTTTGGGTTAGG-GA
1 TTTTGAGTTTGGAGA
* *
100048360 TTTTGATTTTGGAAA
1 TTTTGAGTTTGGAGA
100048375 TTTT
1 TTTT
100048379 TATTTAAGGT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (15 bp):
TTTTGAGTTTGGAGA
Found at i:100048395 original size:30 final size:30
Alignment explanation
Indices: 100048323--100048401 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 30
100048313 TCGGTTTATG
* * *
100048323 TTTAAGGT-TTTTGAGTTTGGAGATTTTGG
1 TTTAAGGTATTTTGATTTTGGAAATTTTGA
* * *
100048352 GTT-AGGGATTTTGATTTTGGAAATTTTTA
1 TTTAAGGTATTTTGATTTTGGAAATTTTGA
100048381 TTTAAGGTATTTTGATTTTGG
1 TTTAAGGTATTTTGATTTTGG
100048402 GGATTTTTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
28 3 0.08
29 21 0.52
30 16 0.40
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (30 bp):
TTTAAGGTATTTTGATTTTGGAAATTTTGA
Found at i:100048407 original size:15 final size:15
Alignment explanation
Indices: 100048356--100048408 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
100048346 TTTTGGGTTA
100048356 GGGATTTTGATTTTG
1 GGGATTTTGATTTTG
** * **
100048371 GAAATTTTTATTTAA
1 GGGATTTTGATTTTG
*
100048386 GGTATTTTGATTTTG
1 GGGATTTTGATTTTG
100048401 GGGATTTT
1 GGGATTTT
100048409 TTGTTTATTG
Statistics
Matches: 27, Mismatches: 11, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.21, C:0.00, G:0.25, T:0.55
Consensus pattern (15 bp):
GGGATTTTGATTTTG
Found at i:100048408 original size:30 final size:30
Alignment explanation
Indices: 100048323--100048409 Score: 97
Period size: 30 Copynumber: 3.0 Consensus size: 30
100048313 TCGGTTTATG
* **
100048323 TTTAAGGT-TTTTGAGTTTGGAGATTTTGG
1 TTTAAGGTATTTTGATTTTGGAGATTTTTA
* * *
100048352 GTT-AGGGATTTTGATTTTGGAAATTTTTA
1 TTTAAGGTATTTTGATTTTGGAGATTTTTA
*
100048381 TTTAAGGTATTTTGATTTTGGGGATTTTT
1 TTTAAGGTATTTTGATTTTGGAGATTTTT
100048410 TGTTTATTGT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
28 3 0.07
29 21 0.46
30 22 0.48
ACGTcount: A:0.20, C:0.00, G:0.26, T:0.54
Consensus pattern (30 bp):
TTTAAGGTATTTTGATTTTGGAGATTTTTA
Found at i:100049399 original size:57 final size:57
Alignment explanation
Indices: 100049323--100049575 Score: 272
Period size: 57 Copynumber: 4.4 Consensus size: 57
100049313 GAGGTTATTA
* * * * ** * *
100049323 GCAGTAAATGTGGTGAGGGTGTTGAGGGTTTAAATGGGGAGGGTGTTGAGGTTGCTG
1 GCAGTCAAGGTGGTGAGGGTGGTGAAGGTTTAGGTGGGAAGGGTGTTGAAGTTGCTG
* * * * * *
100049380 GTAGTGAAGGTGGTAAGGGTGGTGAAGATTTAGGTGGGAAGGGTGTTGATGTTGTTG
1 GCAGTCAAGGTGGTGAGGGTGGTGAAGGTTTAGGTGGGAAGGGTGTTGAAGTTGCTG
* *
100049437 GCAGTCAATGTGGTGAGGGTGTTGAAGGTTTAGGTGGGAAGGGTGTTGAAGTTGCTG
1 GCAGTCAAGGTGGTGAGGGTGGTGAAGGTTTAGGTGGGAAGGGTGTTGAAGTTGCTG
* * * * * *
100049494 GCAGTCAAGGCGGTGAGGGTGGTGAAGGTTTAGGTAGGAAGGTTGTTGAGGTTGTTA
1 GCAGTCAAGGTGGTGAGGGTGGTGAAGGTTTAGGTGGGAAGGGTGTTGAAGTTGCTG
* * * *
100049551 GCAGCCAAGGTAGTAAAGGTGGTGA
1 GCAGTCAAGGTGGTGAGGGTGGTGA
100049576 GGGTGTTAAA
Statistics
Matches: 163, Mismatches: 33, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
57 163 1.00
ACGTcount: A:0.21, C:0.04, G:0.46, T:0.28
Consensus pattern (57 bp):
GCAGTCAAGGTGGTGAGGGTGGTGAAGGTTTAGGTGGGAAGGGTGTTGAAGTTGCTG
Found at i:100049513 original size:114 final size:114
Alignment explanation
Indices: 100049309--100049554 Score: 348
Period size: 114 Copynumber: 2.2 Consensus size: 114
100049299 GTAATGAAGT
* * * *
100049309 TGTTGAGGTTATTAGCAGTAAATGTGGTGAGGGTGTTGAGGGTTTAAATGGGGAGGGTGTTGAGG
1 TGTTGAGGTTGTTAGCAGTAAATGTGGTGAGGGTGTTGAAGGTTTAAATGGGAAGGGTGTTGAAG
* * * *
100049374 TTGCTGGTAGTGAAGGTGGTAAGGGTGGTGAAGATTTAGGTGGGAAGGG
66 TTGCTGGCAGTCAAGGCGGTAAGGGTGGTGAAGATTTAGGTAGGAAGGG
* * * **
100049423 TGTTGATGTTGTTGGCAGTCAATGTGGTGAGGGTGTTGAAGGTTTAGGTGGGAAGGGTGTTGAAG
1 TGTTGAGGTTGTTAGCAGTAAATGTGGTGAGGGTGTTGAAGGTTTAAATGGGAAGGGTGTTGAAG
* * *
100049488 TTGCTGGCAGTCAAGGCGGTGAGGGTGGTGAAGGTTTAGGTAGGAAGGT
66 TTGCTGGCAGTCAAGGCGGTAAGGGTGGTGAAGATTTAGGTAGGAAGGG
100049537 TGTTGAGGTTGTTAGCAG
1 TGTTGAGGTTGTTAGCAG
100049555 CCAAGGTAGT
Statistics
Matches: 114, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
114 114 1.00
ACGTcount: A:0.20, C:0.04, G:0.46, T:0.30
Consensus pattern (114 bp):
TGTTGAGGTTGTTAGCAGTAAATGTGGTGAGGGTGTTGAAGGTTTAAATGGGAAGGGTGTTGAAG
TTGCTGGCAGTCAAGGCGGTAAGGGTGGTGAAGATTTAGGTAGGAAGGG
Found at i:100050917 original size:31 final size:31
Alignment explanation
Indices: 100050882--100050969 Score: 158
Period size: 31 Copynumber: 2.8 Consensus size: 31
100050872 TAAATAATGT
* *
100050882 TATTTATTTTGTACCAATTTATTACTGGTGC
1 TATTTATTTTGCACCAATTTATTACTGATGC
100050913 TATTTATTTTGCACCAATTTATTACTGATGC
1 TATTTATTTTGCACCAATTTATTACTGATGC
100050944 TATTTATTTTGCACCAATTTATTACT
1 TATTTATTTTGCACCAATTTATTACT
100050970 AATGTTTTAC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 55 1.00
ACGTcount: A:0.25, C:0.15, G:0.09, T:0.51
Consensus pattern (31 bp):
TATTTATTTTGCACCAATTTATTACTGATGC
Found at i:100050934 original size:15 final size:15
Alignment explanation
Indices: 100050914--100050966 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
100050904 TACTGGTGCT
100050914 ATTTATTTTGCACCA
1 ATTTATTTTGCACCA
* * *
100050929 ATTTATTACTG-ATGCT
1 ATTTATT-TTGCA-CCA
100050945 ATTTATTTTGCACCA
1 ATTTATTTTGCACCA
100050960 ATTTATT
1 ATTTATT
100050967 ACTAATGTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
15 18 0.62
16 11 0.38
ACGTcount: A:0.26, C:0.15, G:0.08, T:0.51
Consensus pattern (15 bp):
ATTTATTTTGCACCA
Found at i:100051998 original size:9 final size:9
Alignment explanation
Indices: 100051988--100052037 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
100051978 ATAATTAAGT
*
100051988 TAATTCGGT
1 TAATTCGGG
*
100051997 TAATTTGGG
1 TAATTCGGG
100052006 TAATTCGGG
1 TAATTCGGG
*
100052015 TAATTTGGG
1 TAATTCGGG
*
100052024 TAATTCGGT
1 TAATTCGGG
100052033 TAATT
1 TAATT
100052038 TTGTTAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.24, C:0.06, G:0.26, T:0.44
Consensus pattern (9 bp):
TAATTCGGG
Found at i:100052046 original size:18 final size:18
Alignment explanation
Indices: 100051988--100052038 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
100051978 ATAATTAAGT
100051988 TAATTCGGTTAATTTGGG
1 TAATTCGGTTAATTTGGG
*
100052006 TAATTCGGGTAATTTGGG
1 TAATTCGGTTAATTTGGG
100052024 TAATTCGGTTAATTT
1 TAATTCGGTTAATTT
100052039 TGTTAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.24, C:0.06, G:0.25, T:0.45
Consensus pattern (18 bp):
TAATTCGGTTAATTTGGG
Found at i:100052839 original size:161 final size:161
Alignment explanation
Indices: 100052520--100052835 Score: 406
Period size: 161 Copynumber: 2.0 Consensus size: 161
100052510 GGTGAAGGTC
* * * * * *
100052520 ACAACAGAAGATCATGCCTTCAACCTAACACAACTGGATCAGAGGTATATCGTAAACACTTTTTC
1 ACAACAAAAGACCATGCATTCAACCTAACACAACTGGATCACAAGTATATCATAAACACTTTTTC
** * *
100052585 ACTATCAAGTTCCAAAATATTTAAATCTAATTTGGAATTGTGATTATTTATTGTCTCAGTTTGGT
66 ACTATCAAGTTCCAAAATATTTAAATCTAATTTGGAATTGTGATTATTTATTCCCTCAATCTGGT
**
100052650 CTGAGTACAAGAACTAGAAGCTAAAAAAAGA
131 AAGAGTACAAGAACTAGAAGCTAAAAAAAGA
* *
100052681 ACAACAAAAGACCATGCATTCAACCTAACACAACTGGATCACAAGTATATCATAAACATTTTTTT
1 ACAACAAAAGACCATGCATTCAACCTAACACAACTGGATCACAAGTATATCATAAACACTTTTTC
* * * * **
100052746 ACTGTCAAGTTTCAAAGTATTTAAATCTAGTTTGGGGTTGTGA-T-TTT-TTCCCTCAATCTGGT
66 ACTATCAAGTTCCAAAATATTTAAATCTAATTTGGAATTGTGATTATTTATTCCCTCAATCTGGT
**
100052808 AAGAGTATTAGAACTAGAAG-TAAAAAAA
131 AAGAGTACAAGAACTAGAAGCTAAAAAAA
100052836 AAAAAGATGG
Statistics
Matches: 133, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
157 8 0.06
158 27 0.20
159 3 0.02
160 1 0.01
161 94 0.71
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (161 bp):
ACAACAAAAGACCATGCATTCAACCTAACACAACTGGATCACAAGTATATCATAAACACTTTTTC
ACTATCAAGTTCCAAAATATTTAAATCTAATTTGGAATTGTGATTATTTATTCCCTCAATCTGGT
AAGAGTACAAGAACTAGAAGCTAAAAAAAGA
Found at i:100053914 original size:66 final size:67
Alignment explanation
Indices: 100053834--100053961 Score: 190
Period size: 66 Copynumber: 1.9 Consensus size: 67
100053824 TCTAGTTGAC
* **
100053834 ACAAAAATCAAAC-AACTAAAAAAATC-CCTAATTTTTTATGAAGTCTAAAACAAATTGGCTAAC
1 ACAAAAATCAAACAAACT-AAAAAATCTCC-AATTTCTTATGAACCCTAAAACAAATTGGCTAAC
100053897 CGAT
64 CGAT
100053901 ACAAAAA-CAAACAAACTAAAAAATCTCCAATTTCTTATGAACCCTAAAACAAATTGGCTAA
1 ACAAAAATCAAACAAACTAAAAAATCTCCAATTTCTTATGAACCCTAAAACAAATTGGCTAA
100053962 ATATGTGCTT
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
66 43 0.77
67 13 0.23
ACGTcount: A:0.51, C:0.20, G:0.06, T:0.23
Consensus pattern (67 bp):
ACAAAAATCAAACAAACTAAAAAATCTCCAATTTCTTATGAACCCTAAAACAAATTGGCTAACCG
AT
Found at i:100071162 original size:22 final size:23
Alignment explanation
Indices: 100071128--100071176 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
100071118 TACTAACATG
*
100071128 TATATATACTATATATTTTTAT-
1 TATATATACTATACATTTTTATA
100071150 TATAT-TACGTATACATTTTTATA
1 TATATATAC-TATACATTTTTATA
100071173 TATA
1 TATA
100071177 CGCCATGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 3 0.12
22 17 0.71
23 4 0.17
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (23 bp):
TATATATACTATACATTTTTATA
Found at i:100076172 original size:22 final size:22
Alignment explanation
Indices: 100076147--100076188 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
100076137 AAATTTTTTT
*
100076147 TTTTACTTTTTCTATATTTAAA
1 TTTTACTTTTTATATATTTAAA
* *
100076169 TTTTAGTTTTTATATTTTTA
1 TTTTACTTTTTATATATTTA
100076189 TTTTAGAAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTACTTTTTATATATTTAAA
Found at i:100076186 original size:29 final size:29
Alignment explanation
Indices: 100076122--100076225 Score: 72
Period size: 29 Copynumber: 3.6 Consensus size: 29
100076112 ATTTCATTTC
* **
100076122 ATTTTCTGAATATTAAAATTTTTTTTTTTACT
1 ATTTTCT--ATATTTAAATTTTAGTTTTTA-T
100076154 -TTTTCTATATTTAAATTTTAGTTTTTAT
1 ATTTTCTATATTTAAATTTTAGTTTTTAT
**
100076182 ATTTT-TAT-TTTAGAAAGTTAGTCTTTT-T
1 ATTTTCTATATTTA-AATTTTAGT-TTTTAT
* *
100076210 ATTTTTTAAATTTAAA
1 ATTTTCTATATTTAAA
100076226 AAATTCAGAT
Statistics
Matches: 61, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
27 4 0.07
28 17 0.28
29 30 0.49
30 4 0.07
31 6 0.10
ACGTcount: A:0.29, C:0.04, G:0.05, T:0.62
Consensus pattern (29 bp):
ATTTTCTATATTTAAATTTTAGTTTTTAT
Found at i:100076191 original size:20 final size:21
Alignment explanation
Indices: 100076154--100076194 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
100076144 TTTTTTTACT
100076154 TTTTCTATATTTAAATTTTAG
1 TTTTCTATATTTAAATTTTAG
**
100076175 TTTT-TATATTTTTATTTTAG
1 TTTTCTATATTTAAATTTTAG
100076195 AAAGTTAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTTCTATATTTAAATTTTAG
Found at i:100077863 original size:13 final size:13
Alignment explanation
Indices: 100077831--100077954 Score: 146
Period size: 13 Copynumber: 10.5 Consensus size: 13
100077821 ATATCTTTAT
100077831 TCCACTAAACCAC
1 TCCACTAAACCAC
100077844 T-C-C--AACCAC
1 TCCACTAAACCAC
100077853 TCCACTAAACCAC
1 TCCACTAAACCAC
100077866 TCCACTAAACCAC
1 TCCACTAAACCAC
*
100077879 TACACTAAACCAC
1 TCCACTAAACCAC
100077892 TCCACTAAACCAC
1 TCCACTAAACCAC
100077905 -CC-C--AACCAC
1 TCCACTAAACCAC
*
100077914 TCTACTAAACCAC
1 TCCACTAAACCAC
100077927 TCCACTAAACCA-
1 TCCACTAAACCAC
100077939 -CC-CT-AACCAC
1 TCCACTAAACCAC
100077949 TCCACT
1 TCCACT
100077955 TGCCTACAAA
Statistics
Matches: 96, Mismatches: 4, Indels: 23
0.78 0.03 0.19
Matches are distributed among these distances:
9 18 0.19
10 4 0.04
11 8 0.08
12 5 0.05
13 61 0.64
ACGTcount: A:0.37, C:0.48, G:0.00, T:0.15
Consensus pattern (13 bp):
TCCACTAAACCAC
Found at i:100077922 original size:61 final size:57
Alignment explanation
Indices: 100077831--100077954 Score: 194
Period size: 61 Copynumber: 2.1 Consensus size: 57
100077821 ATATCTTTAT
*
100077831 TCCACTAAACCACTCCAACCACTCCACTAAACCACTCCACTAAACCACTACACTAAACCAC
1 TCCACTAAACCACCCCAACCACTCCACTAAACCACTCCACTAAACCAC--C-CT-AACCAC
*
100077892 TCCACTAAACCACCCCAACCACTCTACTAAACCACTCCACTAAACCACCCTAACCAC
1 TCCACTAAACCACCCCAACCACTCCACTAAACCACTCCACTAAACCACCCTAACCAC
100077949 TCCACT
1 TCCACT
100077955 TGCCTACAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
57 12 0.20
58 2 0.03
59 1 0.02
61 46 0.75
ACGTcount: A:0.37, C:0.48, G:0.00, T:0.15
Consensus pattern (57 bp):
TCCACTAAACCACCCCAACCACTCCACTAAACCACTCCACTAAACCACCCTAACCAC
Found at i:100078358 original size:3 final size:3
Alignment explanation
Indices: 100078347--100078429 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
100078337 TTTTATTTTT
* *
100078347 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
100078391 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA T
100078430 ATATGCCCTA
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 49 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:100078430 original size:27 final size:27
Alignment explanation
Indices: 100078353--100078433 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
100078343 TTTTTTATTT
100078353 TATTATT-TTTACTATTATTTATATTAT-
1 TATTATTATTTA-TATTA-TTATATTATA
* * *
100078380 TATTATTA-TTAT-TTCTCAT-GTATA
1 TATTATTATTTATATTATTATATTATA
100078404 TATTATTATTTATATTATTATATTATA
1 TATTATTATTTATATTATTATATTATA
100078431 TAT
1 TAT
100078434 GCCCTATCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
23 3 0.07
24 11 0.26
25 6 0.14
26 6 0.14
27 17 0.40
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (27 bp):
TATTATTATTTATATTATTATATTATA
Found at i:100084180 original size:39 final size:39
Alignment explanation
Indices: 100084101--100084256 Score: 251
Period size: 39 Copynumber: 4.0 Consensus size: 39
100084091 CGAGACTTTA
* * * * *
100084101 AGCCCGGATGTAATACCAGCA-TAAAGCCTTCAGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
100084139 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
*
100084178 AGCCCGGGTATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
100084217 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
100084256 A
1 A
100084257 CGAATGCCTT
Statistics
Matches: 110, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
38 19 0.17
39 91 0.83
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
Found at i:100084261 original size:19 final size:19
Alignment explanation
Indices: 100084237--100084275 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
100084227 TAACACCAGC
*
100084237 ACGAATGCCTTCGGGACTT
1 ACGAATGCCTTCAGGACTT
100084256 ACGAATGCCTTCAGGACTT
1 ACGAATGCCTTCAGGACTT
100084275 A
1 A
100084276 GCCCGGATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (19 bp):
ACGAATGCCTTCAGGACTT
Found at i:100084288 original size:58 final size:58
Alignment explanation
Indices: 100084198--100084314 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
100084188 TAACACCAGC
*
100084198 ACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 ACGAATGCCTTCAGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
100084256 ACGAATGCCTTCAGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 ACGAATGCCTTCAGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
100084314 A
1 A
100084315 GCCCGGATAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (58 bp):
ACGAATGCCTTCAGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
Found at i:100084312 original size:39 final size:39
Alignment explanation
Indices: 100084256--100084364 Score: 191
Period size: 39 Copynumber: 2.8 Consensus size: 39
100084246 TTCGGGACTT
*
100084256 ACGAATGCCTTCAGGACTTAGCCCGGATATAACACCAGC
1 ACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGC
100084295 ACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGC
1 ACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGC
* *
100084334 ACGAATGCCTTTGGGAATTAGCCCGGATATA
1 ACGAATGCCTTCGGGACTTAGCCCGGATATA
100084365 TATCTCACAC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (39 bp):
ACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGC
Found at i:100084325 original size:97 final size:97
Alignment explanation
Indices: 100084159--100084349 Score: 355
Period size: 97 Copynumber: 2.0 Consensus size: 97
100084149 TAACACCAGC
* *
100084159 ACGAATGCCTTCGGGACTTAGCCCGGGTATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
1 ACGAATGCCTTCAGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
100084224 ATATAACACCAGCACGAATGCCTTCGGGACTT
66 ATATAACACCAGCACGAATGCCTTCGGGACTT
100084256 ACGAATGCCTTCAGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
1 ACGAATGCCTTCAGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
*
100084321 ATATAACACCAGCACGAATGCCTTTGGGA
66 ATATAACACCAGCACGAATGCCTTCGGGA
100084350 ATTAGCCCGG
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 91 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.19
Consensus pattern (97 bp):
ACGAATGCCTTCAGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
ATATAACACCAGCACGAATGCCTTCGGGACTT
Found at i:100087538 original size:19 final size:19
Alignment explanation
Indices: 100087514--100087556 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
100087504 CATATTTTAA
*
100087514 TTTCTAGTGTATCCTTACT
1 TTTCTAATGTATCCTTACT
100087533 TTTCTAATGTATCCTTACT
1 TTTCTAATGTATCCTTACT
100087552 TTTCT
1 TTTCT
100087557 TTCCTTCTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.16, C:0.21, G:0.07, T:0.56
Consensus pattern (19 bp):
TTTCTAATGTATCCTTACT
Found at i:100089240 original size:15 final size:16
Alignment explanation
Indices: 100089217--100089248 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
100089207 TTTCCTATTA
100089217 TTTATTATATTATTTT
1 TTTATTATATTATTTT
100089233 TTTA-TATATTATTTT
1 TTTATTATATTATTTT
100089248 T
1 T
100089249 ATACTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTATTATATTATTTT
Found at i:100089257 original size:15 final size:14
Alignment explanation
Indices: 100089212--100089259 Score: 64
Period size: 13 Copynumber: 3.4 Consensus size: 14
100089202 GTGATTTTCC
100089212 TATTATTTATTATAT
1 TATTATTT-TTATAT
100089227 TATT-TTTTTATA-
1 TATTATTTTTATAT
100089239 TATTATTTTTATACT
1 TATTATTTTTATA-T
100089254 TATTAT
1 TATTAT
100089260 ATCATTTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 4 0.13
13 13 0.43
14 3 0.10
15 10 0.33
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (14 bp):
TATTATTTTTATAT
Found at i:100089260 original size:20 final size:17
Alignment explanation
Indices: 100089217--100089267 Score: 52
Period size: 20 Copynumber: 2.9 Consensus size: 17
100089207 TTTCCTATTA
100089217 TTTATTATATTA-TTTT
1 TTTATTATATTATTTTT
100089233 TTTA-TATATTATTTTT
1 TTTATTATATTATTTTT
*
100089249 ATACTTATTATATCATTTT
1 -T--TTATTATATTATTTT
100089268 CATTATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 7 0.24
16 8 0.28
17 1 0.03
19 3 0.10
20 10 0.34
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTATTATATTATTTTT
Found at i:100091326 original size:24 final size:24
Alignment explanation
Indices: 100091297--100091349 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
100091287 CTTTATTGTT
100091297 ATTATT-AGAAAATTTTCTATCTAA
1 ATTATTCAGAAAA-TTTCTATCTAA
*
100091321 ATTATTCGGAAAATTTCTATCTAA
1 ATTATTCAGAAAATTTCTATCTAA
*
100091345 GTTAT
1 ATTAT
100091350 CACTTGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (24 bp):
ATTATTCAGAAAATTTCTATCTAA
Found at i:100092374 original size:37 final size:37
Alignment explanation
Indices: 100092333--100092408 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
100092323 TATGAGTCAT
100092333 TAATTTTACAAATAATTTATATTAATTACTTAAAAGG
1 TAATTTTACAAATAATTTATATTAATTACTTAAAAGG
100092370 TAATTTTACAAATAATTTATATTAATTACTTAAAAGG
1 TAATTTTACAAATAATTTATATTAATTACTTAAAAGG
100092407 TA
1 TA
100092409 TTTAAGGTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (37 bp):
TAATTTTACAAATAATTTATATTAATTACTTAAAAGG
Found at i:100095924 original size:171 final size:171
Alignment explanation
Indices: 100095626--100095961 Score: 557
Period size: 171 Copynumber: 2.0 Consensus size: 171
100095616 ATGATTTTCC
* * * * *
100095626 TTTGCTATGGGAGATGCAAACTTTTGACCTGAGGATGTAGGATCTAGAGAAGCAGGAGAAAGGGA
1 TTTGCCATGGGAGATACAAACTTCTGACCTGAGGATGGAGGATCTAGAGAAGCAGGAGAAAAGGA
* * *
100095691 GCTGCTACAATTACGATCCTGTAACTGATCCATCTCACCATGTGAAGGTGGCACATGATCATGGG
66 GCTACTACAATTACGATCCTGTAACTGATCCATCCCACCATGTGAAGGTGGCACAGGATCATGGG
*
100095756 ATTGAGTTTTGGGTAATTCTTTGGAGCAGCAAATACAAACT
131 ATTGAGTTTTGGGTAATTCTTTGGAGAAGCAAATACAAACT
100095797 TTTGCCATGGGAGATACAAACTTCTGACCTGAGGATGGAGGATCTAGAGAAGCAGGAGAAAAGGA
1 TTTGCCATGGGAGATACAAACTTCTGACCTGAGGATGGAGGATCTAGAGAAGCAGGAGAAAAGGA
* *
100095862 GCTACTACAATTAC-ATTCCTGTAACTGATCCATCCCATCATGTGAAGGTGGGACAGGATCATGG
66 GCTACTACAATTACGA-TCCTGTAACTGATCCATCCCACCATGTGAAGGTGGCACAGGATCATGG
100095926 GATTGAGTTTTGGGTAATTCTTTGGAGAAGCAAATA
130 GATTGAGTTTTGGGTAATTCTTTGGAGAAGCAAATA
100095962 TGTTCCCTCT
Statistics
Matches: 153, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
170 1 0.01
171 152 0.99
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (171 bp):
TTTGCCATGGGAGATACAAACTTCTGACCTGAGGATGGAGGATCTAGAGAAGCAGGAGAAAAGGA
GCTACTACAATTACGATCCTGTAACTGATCCATCCCACCATGTGAAGGTGGCACAGGATCATGGG
ATTGAGTTTTGGGTAATTCTTTGGAGAAGCAAATACAAACT
Found at i:100102806 original size:17 final size:17
Alignment explanation
Indices: 100102784--100102833 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
100102774 ATTGGGATTG
100102784 AATTAAGAAAATT-ATTT
1 AATTAAG-AAATTAATTT
100102801 AATTAAGAAATTAATTT
1 AATTAAGAAATTAATTT
* **
100102818 AGTTAATTAATTAATT
1 AATTAAGAAATTAATT
100102834 AATGTTTTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 5 0.17
17 24 0.83
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
AATTAAGAAATTAATTT
Found at i:100104997 original size:27 final size:27
Alignment explanation
Indices: 100104965--100105035 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
100104955 AGAGTTCGAT
* *
100104965 ACAAAGGTTATTCTTTTAAAGTTCACT
1 ACAAAGGTTATTCTTTCAAAGTTCACC
* * *
100104992 ATAAAGGCTATTCTTTCAAAGTTCGCC
1 ACAAAGGTTATTCTTTCAAAGTTCACC
*
100105019 ACAAAAGTTATTCTTTC
1 ACAAAGGTTATTCTTTC
100105036 CTAACGTGTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.38
Consensus pattern (27 bp):
ACAAAGGTTATTCTTTCAAAGTTCACC
Found at i:100106475 original size:31 final size:31
Alignment explanation
Indices: 100106439--100106501 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
100106429 TCAGAATTTA
100106439 TGTTTTATATTGAATACTAAGAGTTAAAACT
1 TGTTTTATATTGAATACTAAGAGTTAAAACT
*
100106470 TGTTTTATATTGAATACTAAGAGTTGAAACT
1 TGTTTTATATTGAATACTAAGAGTTAAAACT
100106501 T
1 T
100106502 ACTTATAGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (31 bp):
TGTTTTATATTGAATACTAAGAGTTAAAACT
Found at i:100107022 original size:6 final size:6
Alignment explanation
Indices: 100107005--100107045 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
100106995 TATGTGTACC
*
100107005 GTTACT GCTACT GTTACT GTTACT GTTACT GTTACT GTTAC
1 GTTACT GTTACT GTTACT GTTACT GTTACT GTTACT GTTAC
100107046 CCTTACGGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (6 bp):
GTTACT
Found at i:100107051 original size:18 final size:18
Alignment explanation
Indices: 100107013--100107051 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
100107003 CCGTTACTGC
**
100107013 TACTGTTACTGTTACTGT
1 TACTGTTACTGTTACCCT
100107031 TACTGTTACTGTTACCCT
1 TACTGTTACTGTTACCCT
100107049 TAC
1 TAC
100107052 GGTGTATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.23, G:0.13, T:0.46
Consensus pattern (18 bp):
TACTGTTACTGTTACCCT
Found at i:100109949 original size:93 final size:93
Alignment explanation
Indices: 100109837--100110008 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
100109827 CGCCCATAAG
* *
100109837 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
100109902 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
100109930 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
100109995 ACGAGCTCGGATGC
66 ACGAGCTCGGATGC
100110009 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:100110005 original size:46 final size:46
Alignment explanation
Indices: 100109830--100110005 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
100109820 TGTAACCCGC
* *
100109830 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
100109876 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
100109926 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
100109969 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
100110006 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:100113779 original size:15 final size:15
Alignment explanation
Indices: 100113759--100113794 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
100113749 ATAATAATAT
100113759 TATTTTTTAAAAAAA
1 TATTTTTTAAAAAAA
*
100113774 TATTTTTTAAAATAA
1 TATTTTTTAAAAAAA
100113789 T-TTTTT
1 TATTTTT
100113795 AATTAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTTTTTAAAAAAA
Found at i:100117332 original size:72 final size:72
Alignment explanation
Indices: 100117250--100117394 Score: 281
Period size: 72 Copynumber: 2.0 Consensus size: 72
100117240 ACTCGAAATG
*
100117250 ATTTTGCATACAATATATATATAAATATAAAAAACCAAAATTACCTCCTAAATAATTATAACTTA
1 ATTTTACATACAATATATATATAAATATAAAAAACCAAAATTACCTCCTAAATAATTATAACTTA
100117315 CTTTTTA
66 CTTTTTA
100117322 ATTTTACATACAATATATATATAAATATAAAAAACCAAAATTACCTCCTAAATAATTATAACTTA
1 ATTTTACATACAATATATATATAAATATAAAAAACCAAAATTACCTCCTAAATAATTATAACTTA
100117387 CTTTTTA
66 CTTTTTA
100117394 A
1 A
100117395 AATTAAAATA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (72 bp):
ATTTTACATACAATATATATATAAATATAAAAAACCAAAATTACCTCCTAAATAATTATAACTTA
CTTTTTA
Found at i:100122984 original size:22 final size:21
Alignment explanation
Indices: 100122944--100122984 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
100122934 AATAAGGGAC
*
100122944 ATTATGTATGTTTAATGAAGA
1 ATTATGTATGATTAATGAAGA
*
100122965 ATTATGTTATGATTATTGAA
1 ATTATG-TATGATTAATGAA
100122985 ATGTTTTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (21 bp):
ATTATGTATGATTAATGAAGA
Found at i:100124885 original size:3 final size:3
Alignment explanation
Indices: 100124877--100124912 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
100124867 TATGGCAGCA
100124877 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
100124913 TTAAGAAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:100128836 original size:25 final size:24
Alignment explanation
Indices: 100128803--100128851 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
100128793 GGATGGATTC
100128803 TTATTTTATTTAAT-ATTAATATAA
1 TTATTTTATTTAATGA-TAATATAA
100128827 TTATATTTATTTAATGATAATATAA
1 TTAT-TTTATTTAATGATAATATAA
100128852 ATATCAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.17
25 18 0.78
26 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTATTTTATTTAATGATAATATAA
Found at i:100135300 original size:290 final size:277
Alignment explanation
Indices: 100134775--100135317 Score: 680
Period size: 277 Copynumber: 1.9 Consensus size: 277
100134765 ATCAATTCAG
* *
100134775 TAAAACACTTAAATAATAGTAAGTATAGATGATGTACAATTGATGGAAATTAGAGTGTGCATAAT
1 TAAAACACTTAAATAATAGTAAGTATAGATGA-GTACAATTGATGGAAATTAAAATGTGCATAAT
* ** * *
100134840 AAAATAAGAATGTATAAGAATATTAAAATAAAGTTTTAGTTGAGTGGTAAATTAAAAGTTTTACT
65 AAAATAAAAACATATAAAAATATCAAAATAAAGTTTTAGTTGAGTGGTAAATTAAAAGTTTTACT
* *
100134905 GAAGCAATCAACATGGCGTAATTTTATTCATTTTTAAATGAAAAAGACTAAAATATCCTCGAATA
130 GAAGCAATCAACATGGCGTAATTTTATTCATTTTTAAATGAAAAAAACTAAAATACCCTCGAATA
* ** *
100134970 ATATAACTTTTTTAATTAAGAGAAGGCATTTTCATAATTTAACAATTGAGTTGGTGACACGGTTG
195 ATATAACTTTATTAATTAAGAGAAGGCATTCCCATAATTTAACAACTGAGTTGGTGACACGGTTG
100135035 AGGGTGACACAAACCCAA
260 AGGGTGACACAAACCCAA
*
100135053 TAAAACACTTAAATAATAGTAAGTATAGAT-A-TACAATTGAT-GAATGTGATAAAATGTGCATA
1 TAAAACACTTAAATAATAGTAAGTATAGATGAGTACAATTGATGGAA-AT--TAAAATGTGCATA
*
100135115 ATAAAATAAAAACATATAAAAATATCAAAATAAAGTTTTAGTTGAGTGGTAAATTAAACGTTTTA
63 ATAAAATAAAAACATATAAAAATATCAAAATAAAGTTTTAGTTGAGTGGTAAATTAAAAGTTTTA
* * ** *
100135180 TTGATGCAATCAACATGAGTCACCATATGTAAATTTTTATTGGTTTTTTTAAATGAAAAAAATTA
128 CTGAAGCAATCAACATG-G----C----GT-AA-TTTTATT--CATTTTTAAATGAAAAAAACTA
* * * *
100135245 AAGTACCCTCGAATAATATGACTTTATTAATT-AGAGGAGAGCATTCCCGTAATTTAACAACTGA
180 AAATACCCTCGAATAATATAACTTTATTAATTAAGAGAAG-GCATTCCCATAATTTAACAACTGA
100135309 GTTGGTGAC
244 GTTGGTGAC
100135318 TCGATTGGGG
Statistics
Matches: 224, Mismatches: 24, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
274 3 0.01
275 11 0.05
277 86 0.38
278 31 0.14
282 1 0.00
286 2 0.01
287 2 0.01
288 7 0.03
289 6 0.03
290 75 0.33
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (277 bp):
TAAAACACTTAAATAATAGTAAGTATAGATGAGTACAATTGATGGAAATTAAAATGTGCATAATA
AAATAAAAACATATAAAAATATCAAAATAAAGTTTTAGTTGAGTGGTAAATTAAAAGTTTTACTG
AAGCAATCAACATGGCGTAATTTTATTCATTTTTAAATGAAAAAAACTAAAATACCCTCGAATAA
TATAACTTTATTAATTAAGAGAAGGCATTCCCATAATTTAACAACTGAGTTGGTGACACGGTTGA
GGGTGACACAAACCCAA
Found at i:100135408 original size:22 final size:20
Alignment explanation
Indices: 100135385--100135423 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
100135375 TTTTATGATA
*
100135385 AAATATATTATTATATATTTT
1 AAATATATT-TAATATATTTT
100135406 AAATATATTTAATATATT
1 AAATATATTTAATATATT
100135424 ATGGTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
AAATATATTTAATATATTTT
Found at i:100136665 original size:29 final size:29
Alignment explanation
Indices: 100136603--100136675 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
100136593 ATTTAGTAAT
* *
100136603 AATAAAATTAT-ATTTTATTTTTTAAAAAA
1 AATAAAAATATAATTAT-TTTTTTAAAAAA
* *
100136632 AATAAAAATTTAATTATTTTTTTAAAAAT
1 AATAAAAATATAATTATTTTTTTAAAAAA
* *
100136661 TATAAAGATATAATT
1 AATAAAAATATAATT
100136676 TATTAAAATA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 32 0.89
30 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (29 bp):
AATAAAAATATAATTATTTTTTTAAAAAA
Found at i:100137712 original size:21 final size:21
Alignment explanation
Indices: 100137668--100137716 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
100137658 AAATGATAAA
* *
100137668 AAAAAATTGATTTAATCCGAT
1 AAAAATTTGATTTAATCAGAT
**
100137689 AAAAATTTGATTTAATCATTT
1 AAAAATTTGATTTAATCAGAT
100137710 AAAAATT
1 AAAAATT
100137717 ATAAATATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (21 bp):
AAAAATTTGATTTAATCAGAT
Found at i:100141037 original size:20 final size:21
Alignment explanation
Indices: 100141012--100141064 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
100141002 CAAAGATAAA
100141012 AAAGTATCGATACCCTTA-AC
1 AAAGTATCGATACCCTTAGAC
* *
100141032 AAAGTATCTATA-CCTTAGTC
1 AAAGTATCGATACCCTTAGAC
100141052 AAAGTATCGATAC
1 AAAGTATCGATAC
100141065 TATTTTACAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (21 bp):
AAAGTATCGATACCCTTAGAC
Found at i:100142600 original size:18 final size:19
Alignment explanation
Indices: 100142579--100142617 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
100142569 AATTTTAATG
*
100142579 TAATATTTTTTAATAT-TT
1 TAATAATTTTTAATATATT
100142597 TAATAATTTTTAATATATT
1 TAATAATTTTTAATATATT
100142616 TA
1 TA
100142618 TGTCATGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TAATAATTTTTAATATATT
Found at i:100145141 original size:18 final size:18
Alignment explanation
Indices: 100145110--100145148 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
100145100 AAAATAAATA
* *
100145110 TTATTTATTCAATTAATT
1 TTATTGATTAAATTAATT
100145128 TTATTGATTAAATTAATT
1 TTATTGATTAAATTAATT
100145146 TTA
1 TTA
100145149 CATTTTTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (18 bp):
TTATTGATTAAATTAATT
Found at i:100147491 original size:27 final size:27
Alignment explanation
Indices: 100147453--100147507 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
100147443 ATATATAAAG
100147453 TATAATAATAAAATTAGTCCTTAATCT
1 TATAATAATAAAATTAGTCCTTAATCT
100147480 TATAATAATAAAATTAGTCCTTAATCT
1 TATAATAATAAAATTAGTCCTTAATCT
100147507 T
1 T
100147508 TACATATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.42
Consensus pattern (27 bp):
TATAATAATAAAATTAGTCCTTAATCT
Found at i:100147882 original size:9 final size:9
Alignment explanation
Indices: 100147840--100147906 Score: 55
Period size: 11 Copynumber: 6.7 Consensus size: 9
100147830 ATAATTATAA
100147840 AATTTTTAT
1 AATTTTTAT
100147849 AACTTTTTTAT
1 AA--TTTTTAT
100147860 AATTTGTGTTTAT
1 AA--T-T-TTTAT
100147873 AATTTTTAT
1 AATTTTTAT
100147882 AATTTTTTAAT
1 AA-TTTTT-AT
100147893 AATTTTTA-
1 AATTTTTAT
100147901 AATTTT
1 AATTTT
100147907 AAAAGGCCTT
Statistics
Matches: 51, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
8 6 0.12
9 10 0.20
10 11 0.22
11 16 0.31
12 1 0.02
13 7 0.14
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.64
Consensus pattern (9 bp):
AATTTTTAT
Found at i:100147894 original size:11 final size:10
Alignment explanation
Indices: 100147842--100147899 Score: 64
Period size: 11 Copynumber: 5.4 Consensus size: 10
100147832 AATTATAAAA
100147842 TTTTTATAACT
1 TTTTTATAA-T
100147853 TTTTTATAATT
1 TTTTTATAA-T
100147864 TGTGTTTATAA-
1 T-T-TTTATAAT
100147875 TTTTTATAAT
1 TTTTTATAAT
100147885 TTTTTAATAAT
1 TTTTT-ATAAT
100147896 TTTT
1 TTTT
100147900 AAATTTTAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
9 7 0.17
10 6 0.14
11 21 0.50
12 1 0.02
13 7 0.17
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:100147896 original size:20 final size:21
Alignment explanation
Indices: 100147853--100147906 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
100147843 TTTTATAACT
*
100147853 TTTTTATAATTTGTGTTTATAA
1 TTTTTATAATTT-TGTTAATAA
100147875 TTTTTATAATTTT-TTAATAA
1 TTTTTATAATTTTGTTAATAA
100147895 TTTTTA-AATTTT
1 TTTTTATAATTTT
100147907 AAAAGGCCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 6 0.19
20 12 0.39
21 1 0.03
22 12 0.39
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTTTATAATTTTGTTAATAA
Found at i:100155308 original size:5 final size:5
Alignment explanation
Indices: 100155298--100155324 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
100155288 TAAAAGGCCT
100155298 TTATA TTATA TTATA TTATA TTATA TT
1 TTATA TTATA TTATA TTATA TTATA TT
100155325 CATTCTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:100172866 original size:13 final size:13
Alignment explanation
Indices: 100172848--100172875 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
100172838 TATAATCATT
100172848 TTATTATTAATAA
1 TTATTATTAATAA
100172861 TTATTATTAATAA
1 TTATTATTAATAA
100172874 TT
1 TT
100172876 TCTTAATTCA
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTATTATTAATAA
Found at i:100173655 original size:12 final size:12
Alignment explanation
Indices: 100173638--100173670 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
100173628 TGGCTTGCTC
100173638 ATATTAATTTTT
1 ATATTAATTTTT
100173650 ATATT-ATTTTT
1 ATATTAATTTTT
100173661 ATA-TAATTTT
1 ATATTAATTTT
100173671 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:100173838 original size:30 final size:29
Alignment explanation
Indices: 100173795--100173851 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
100173785 CTTAATAAGC
100173795 AAATGCCTCTAAAATAATAACAAAATTAGT
1 AAATGCCTCTAAAATAATAA-AAAATTAGT
* *
100173825 AAATGTCTTTAAAATAATAAAAAATTA
1 AAATGCCTCTAAAATAATAAAAAATTA
100173852 ACAATAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (29 bp):
AAATGCCTCTAAAATAATAAAAAATTAGT
Found at i:100179212 original size:22 final size:22
Alignment explanation
Indices: 100179187--100179230 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
100179177 TTGATAGGAG
100179187 ATGAAAAGATATAATGGATGTT
1 ATGAAAAGATATAATGGATGTT
100179209 ATGAAAAGATATAATGGATGTT
1 ATGAAAAGATATAATGGATGTT
100179231 TTGTACAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
ATGAAAAGATATAATGGATGTT
Found at i:100180835 original size:27 final size:28
Alignment explanation
Indices: 100180802--100180878 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 28
100180792 TATACCTTAT
*
100180802 TTATTTTGAAATTATTTATATATCTT-C
1 TTATTTTGAAATTATTTATATATATTAC
* *
100180829 TTATTTT-AAACT-TTTATATATATTAT
1 TTATTTTGAAATTATTTATATATATTAC
*
100180855 TTATTTTG-GATTATTTATATATAT
1 TTATTTTGAAATTATTTATATATAT
100180879 ATTTTTTCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
25 11 0.26
26 13 0.31
27 18 0.43
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (28 bp):
TTATTTTGAAATTATTTATATATATTAC
Found at i:100180873 original size:25 final size:26
Alignment explanation
Indices: 100180799--100180882 Score: 91
Period size: 26 Copynumber: 3.2 Consensus size: 26
100180789 TATTATACCT
*
100180799 TATTTATTTTGAAATTATTTATATATC
1 TATTTATTTTG-AATTATTTATATATA
* *
100180826 T-TCTTATTTTAAACT-TTTATATATA
1 TAT-TTATTTTGAATTATTTATATATA
*
100180851 TTATTTATTTTGGATTATTTATATATA
1 -TATTTATTTTGAATTATTTATATATA
100180878 TATTT
1 TATTT
100180883 TTTCTATTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
25 9 0.19
26 19 0.40
27 19 0.40
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (26 bp):
TATTTATTTTGAATTATTTATATATA
Found at i:100180980 original size:24 final size:24
Alignment explanation
Indices: 100180898--100180986 Score: 79
Period size: 24 Copynumber: 3.5 Consensus size: 24
100180888 ATTTAAACTG
* *
100180898 TTTTTATATATTATTTATTTCAAAT
1 TTTTTTTATATTATTTATTT-TAAT
*
100180923 TTCTCTTTTACATATTATTTATTTTAAA
1 TT-T-TTTT--ATATTATTTATTTTAAT
**
100180951 CCTTTTTATATTATTTATTTTAATT
1 TTTTTTTATATTATTTATTTTAA-T
100180976 TTTTTTTATAT
1 TTTTTTTATAT
100180987 ATTACCATTA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
24 16 0.31
25 11 0.22
26 5 0.10
27 4 0.08
28 2 0.04
29 13 0.25
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTTTTTATATTATTTATTTTAAT
Found at i:100185624 original size:3 final size:3
Alignment explanation
Indices: 100185613--100185976 Score: 119
Period size: 3 Copynumber: 120.0 Consensus size: 3
100185603 AACGTAATAA
* * * * *
100185613 TAT TTT TAT TAT T-T TAT TAT TAT TTT TACCT TTT TAT TAC TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA--T TAT TAT TAT TAT TAT
* * * * *
100185659 TAT TAACC TAC TAT TTT TAT TTT TAT TAT TA- TAG TAT TAT TAT TAT
1 TAT T-A-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
100185705 TTT TA- TAT TGT TAT TAT TAT TAG CACG TA- TAT TAT TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT T-AT
* * * *
100185750 GCAT TAT TGT TAT TTT CTAT T-T TAT TAT TACT T-T TAT TAC TAT T-T
1 -TAT TAT TAT TAT TAT -TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
*
100185795 T-T CTAT TAT TAT TAT T-T TCAT TACT TCCAT TAT TAT TAT TAT CAT
1 TAT -TAT TAT TAT TAT TAT T-AT TA-T T--AT TAT TAT TAT TAT TAT
* * * * *
100185840 TAT TTT CTAT TAT CAT TAA TA- TGT TGT T-T GT-T TAT TAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * * * * * * *
100185884 TAT TAT TTT TAA CAC TAT TAT CAT TAT TA- TATT TACT TTT TTT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TA-T TAT TAT TAT
* * * *
100185930 TAT TAT TAC CAT TA- TAT ATAT T-T TAT TAT TAT TAC TAT TAT TTT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
100185974 TAT
1 TAT
100185977 GATCCGTCCT
Statistics
Matches: 269, Mismatches: 61, Indels: 62
0.69 0.16 0.16
Matches are distributed among these distances:
2 26 0.10
3 211 0.78
4 26 0.10
5 5 0.02
6 1 0.00
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:100185638 original size:20 final size:20
Alignment explanation
Indices: 100185613--100185973 Score: 88
Period size: 20 Copynumber: 17.8 Consensus size: 20
100185603 AACGTAATAA
*
100185613 TATTTTTATTATTTTATTAT
1 TATTATTATTATTTTATTAT
* * *
100185633 TATTTTTACCT-TTTTATTAC
1 TATTATTA-TTATTTTATTAT
* *** *
100185653 TAATATTATTAACCTACTAT
1 TATTATTATTATTTTATTAT
* * *
100185673 TTTTATTTTTATTATTA-TAG
1 TATTATTATTATT-TTATTAT
100185693 TATTATTATTATTTT-TATAT
1 TATTATTATTATTTTAT-TAT
* **
100185713 TGTTATTATTATTAGCACGTATAT
1 TATTATTATTATT-TTA--T-TAT
* **
100185737 TATTATTATTAATGCATTAT
1 TATTATTATTATTTTATTAT
* *
100185757 TGTTATTTTCTATTTTATTAT
1 TATTATTAT-TATTTTATTAT
*
100185778 TACTT-TTATTACTATTT-TT-C
1 TA-TTATTATTA-T-TTTATTAT
100185798 TATTATTATTATTTTCATTACT
1 TATTATTATTATTTT-ATTA-T
*
100185820 TCCATTATTATTA--TTATCAT
1 T--ATTATTATTATTTTATTAT
* * *
100185840 TATT-TT-CTATTATCATTAA
1 TATTATTATTATT-TTATTAT
* *
100185859 TA-TGTTGTT-TGTTTATTAT
1 TATTATTATTAT-TTTATTAT
** *
100185878 TATTATTATTATTTTTAACAC
1 TATTATTATTA-TTTTATTAT
* *
100185899 TATTATCATTATTATATTTACT
1 TATTATTATTATTTTA-TTA-T
* *
100185921 T-TT-TT-TTAATATTATTAC
1 TATTATTATT-ATTTTATTAT
*
100185939 CATTA-TATATATTTTATTAT
1 TATTATTAT-TATTTTATTAT
*
100185959 TATTACTATTATTTT
1 TATTATTATTATTTT
100185974 TATGATCCGT
Statistics
Matches: 244, Mismatches: 60, Indels: 74
0.65 0.16 0.20
Matches are distributed among these distances:
16 2 0.01
17 2 0.01
18 7 0.03
19 30 0.12
20 120 0.49
21 44 0.18
22 10 0.04
23 3 0.01
24 26 0.11
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.62
Consensus pattern (20 bp):
TATTATTATTATTTTATTAT
Found at i:100185803 original size:29 final size:30
Alignment explanation
Indices: 100185762--100185819 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 30
100185752 ATTATTGTTA
100185762 TTTTCTATTTTATTATTACTTTT-ATTACTAT
1 TTTTCTA-TTTATTATTA-TTTTCATTACTAT
100185793 TTTTCTA-TTATTATTATTTTCATTACT
1 TTTTCTATTTATTATTATTTTCATTACT
100185820 TCCATTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 4 0.15
29 15 0.58
31 7 0.27
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.67
Consensus pattern (30 bp):
TTTTCTATTTATTATTATTTTCATTACTAT
Found at i:100186321 original size:125 final size:128
Alignment explanation
Indices: 100186163--100186401 Score: 333
Period size: 125 Copynumber: 1.9 Consensus size: 128
100186153 CGATACTTGA
* * * * *
100186163 AAATTCGAGAAATCGTGTCCTAATGTACTGGGTTTTGATTTTTCGTTTGATCTAAGTAACCT-AT
1 AAATTCGAGAAATCGTGCCCTAACGTACAGGGTTTTGATTTTTCGTTTGATCTAAAT-ACCTGAA
* *
100186227 TATCC-TTTT-AAATTAAAATATATGAGTTTTAAATAAAATA-AAGGCAATATTCCGTATTTAG
65 TATCCTTTTTAAAATTAAAATACATGAGCTTTAAATAAAATAGAAGGCAATATTCCGTATTTAG
* * *
100186288 AAATTCGAGTAGTCGTGCCCTAACGTACAGGGTTTTGATTTTTCGTTTGATCTAAATATCTGAAT
1 AAATTCGAGAAATCGTGCCCTAACGTACAGGGTTTTGATTTTTCGTTTGATCTAAATACCTGAAT
* *
100186353 ATCCTTTTTAAAATTTAAATACATGAGCTTTAAATGAAATAGAAGGCAA
66 ATCCTTTTTAAAATTAAAATACATGAGCTTTAAATAAAATAGAAGGCAA
100186402 GCTCATACTC
Statistics
Matches: 98, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
124 3 0.03
125 57 0.58
126 4 0.04
127 27 0.28
128 7 0.07
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.38
Consensus pattern (128 bp):
AAATTCGAGAAATCGTGCCCTAACGTACAGGGTTTTGATTTTTCGTTTGATCTAAATACCTGAAT
ATCCTTTTTAAAATTAAAATACATGAGCTTTAAATAAAATAGAAGGCAATATTCCGTATTTAG
Found at i:100187064 original size:18 final size:20
Alignment explanation
Indices: 100187022--100187058 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
100187012 ATATTTTATG
*
100187022 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATAAGATATAT
100187041 ATTATTTTAATAAGATAT
1 ATTATTTTAATAAGATAT
100187059 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATAAGATATAT
Found at i:100189272 original size:46 final size:46
Alignment explanation
Indices: 100189220--100189538 Score: 444
Period size: 46 Copynumber: 7.0 Consensus size: 46
100189210 ATTGTGCTCT
100189220 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
100189266 CTGATATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
100189312 CTAATATGAAACGTGTAAAACCATGGTTGAAAGATACCATGGC-AC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
100189357 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
100189403 CTAATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
100189449 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
100189495 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
100189539 TCATGTCAAA
Statistics
Matches: 246, Mismatches: 25, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
45 42 0.17
46 204 0.83
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:100189394 original size:91 final size:91
Alignment explanation
Indices: 100189223--100189492 Score: 459
Period size: 91 Copynumber: 2.9 Consensus size: 91
100189213 GTGCTCTCTG
*
100189223 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACC
1 ATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGC-ACCTGATATGAAATGTGTAAGACC
*
100189288 ATGGTTGAAAAATACCATGGCAGCCTA
65 ATGGTTGAAAGATACCATGGCAGCCTA
*
100189315 ATATGAAACGTGTAAAACCATGGTTGAAAGATACCATGGCACCTGATATGAAATGTGTAAGACCA
1 ATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCACCTGATATGAAATGTGTAAGACCA
100189380 TGGTTGAAAGATACCATGGCAGCCTA
66 TGGTTGAAAGATACCATGGCAGCCTA
* * **
100189406 ATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACC
1 ATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCA-CCTGATATGAAATGTGTAAGACC
100189471 ATGGTTGAAAGATACCATGGCA
65 ATGGTTGAAAGATACCATGGCA
100189493 ACATGACAGA
Statistics
Matches: 169, Mismatches: 8, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
91 90 0.53
92 79 0.47
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.23
Consensus pattern (91 bp):
ATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCACCTGATATGAAATGTGTAAGACCA
TGGTTGAAAGATACCATGGCAGCCTA
Found at i:100189472 original size:137 final size:138
Alignment explanation
Indices: 100189220--100189538 Score: 462
Period size: 137 Copynumber: 2.3 Consensus size: 138
100189210 ATTGTGCTCT
* *
100189220 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAACGTGTAAG
* **
100189285 ACCATGGTTGAAAAATACCATGGCAGCCTAATATGAAACGTGTAAAACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAAATACCATGGCAGCCTAACATGAAACGAATAAAACCATGGTTGAAAGATACC
100189350 ATGGC-AC
131 ATGGCAAC
*
100189357 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAATATGAAACGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAACGTGTAAG
* * * * *
100189422 ACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAAATACCATGGCAGCCTAACATGAAACGAATAAAACCATGGTTGAAAGATACC
100189487 ATGGCAAC
131 ATGGCAAC
* * * * * *
100189495 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
100189539 TCATGTCAAA
Statistics
Matches: 163, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
137 125 0.77
138 38 0.23
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.22
Consensus pattern (138 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAACGTGTAAG
ACCATGGTTGAAAAATACCATGGCAGCCTAACATGAAACGAATAAAACCATGGTTGAAAGATACC
ATGGCAAC
Found at i:100189561 original size:183 final size:182
Alignment explanation
Indices: 100189223--100189561 Score: 423
Period size: 183 Copynumber: 1.9 Consensus size: 182
100189213 GTGCTCTCTG
* * **
100189223 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACC
1 ATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACC
* * * * * *
100189288 ATGGTTGAAAAATACCATGGCAGCCTAATATGAAACGTGTAAAACCATGGTTGAAAGATACCATG
66 ATGGTTGAAAAATACCATGGCAACATAACATGAAACGAGTAAAACCATAGTTGAAAGACACCATG
* ***
100189353 GCACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTA
131 GCACATGATA-GAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGCCTA
* *
100189406 ATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACC
1 ATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACC
* * * * *
100189471 ATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTAT
66 ATGGTTGAAAAATACCATGGCAACATAACATG-AAACGAGTAAAACCATAGTTGAAAGACACCAT
100189535 GGCATCATG-TCA-AAGATAAATAAGACC
130 GGCA-CATGAT-AGAA-ATAAATAAGACC
100189562 GTGGATGGGA
Statistics
Matches: 131, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
182 3 0.02
183 124 0.95
184 4 0.03
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.22
Consensus pattern (182 bp):
ATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACC
ATGGTTGAAAAATACCATGGCAACATAACATGAAACGAGTAAAACCATAGTTGAAAGACACCATG
GCACATGATAGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGCCTA
Found at i:100193200 original size:25 final size:25
Alignment explanation
Indices: 100193166--100193216 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
100193156 AAATTCGACA
*
100193166 TTAATTAAAAAAATAAAAGTTAAAT
1 TTAACTAAAAAAATAAAAGTTAAAT
*
100193191 TTAACTAAAAAAATAAAGGTTAAAT
1 TTAACTAAAAAAATAAAAGTTAAAT
100193216 T
1 T
100193217 AATGAAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (25 bp):
TTAACTAAAAAAATAAAAGTTAAAT
Found at i:100195863 original size:13 final size:11
Alignment explanation
Indices: 100195836--100195878 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
100195826 AGTTAAAAAT
100195836 TATTTTATTAA
1 TATTTTATTAA
100195847 TATTTTACTTAA
1 TATTTTA-TTAA
*
100195859 -ATATTTATTAT
1 TAT-TTTATTAA
100195870 TATTTTATT
1 TATTTTATT
100195879 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:100197614 original size:30 final size:30
Alignment explanation
Indices: 100197578--100197722 Score: 186
Period size: 30 Copynumber: 4.8 Consensus size: 30
100197568 ACTTTTCTCA
*
100197578 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* *
100197608 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
100197638 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
** *
100197668 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-CTCCACCACCAACTCC
*
100197698 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-CTCCACCACCA
100197723 CTTGTACCTA
Statistics
Matches: 102, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
29 3 0.03
30 99 0.97
ACGTcount: A:0.27, C:0.48, G:0.04, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:100198373 original size:75 final size:72
Alignment explanation
Indices: 100198294--100198435 Score: 178
Period size: 75 Copynumber: 1.9 Consensus size: 72
100198284 ATATTACGTA
* *
100198294 TATATATATTATACTAT-TTATGTATATATCTTTAATACTATATATTATATATATATTTTTACAT
1 TATATATATTA-ACTATATTATGTATATATCTTTAACAC--TATATTATATACATATTTTTA-AT
*
100198358 GTTATCTTATG
62 ATTATCTTATG
* * * *
100198369 TATATATCTTAACTATATTATGTATGTATTTTTAACACTATATTATGTACATATTTTTAATATTA
1 TATATATATTAACTATATTATGTATATATCTTTAACACTATATTATATACATATTTTTAATATTA
100198434 TC
66 TC
100198436 ACGTATTTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
72 7 0.12
73 19 0.32
74 5 0.08
75 28 0.47
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.54
Consensus pattern (72 bp):
TATATATATTAACTATATTATGTATATATCTTTAACACTATATTATATACATATTTTTAATATTA
TCTTATG
Found at i:100198374 original size:26 final size:27
Alignment explanation
Indices: 100198283--100198430 Score: 88
Period size: 25 Copynumber: 5.9 Consensus size: 27
100198273 TTTTAAATTC
* *
100198283 TATATTACGTATATATATATT-ATAC--
1 TATATTATGTATATATCT-TTAATACTA
100198308 TAT-TTATGTATATATCTTTAATACTA
1 TATATTATGTATATATCTTTAATACTA
* * *
100198334 TATATTATATATATATTTTTACAT-GT-
1 TATATTATGTATATATCTTTA-ATACTA
*
100198360 TATCTTATGTATATATC-TT-A-AC--
1 TATATTATGTATATATCTTTAATACTA
* * *
100198382 TATATTATGTATGTATTTTTAACAC--
1 TATATTATGTATATATCTTTAATACTA
* *
100198407 TATATTATGTACATATTTTTAATA
1 TATATTATGTATATATCTTTAATA
100198431 TTATCACGTA
Statistics
Matches: 99, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
22 14 0.14
23 5 0.05
24 17 0.17
25 28 0.28
26 17 0.17
27 16 0.16
28 2 0.02
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (27 bp):
TATATTATGTATATATCTTTAATACTA
Found at i:100198390 original size:22 final size:24
Alignment explanation
Indices: 100198217--100198422 Score: 81
Period size: 24 Copynumber: 8.6 Consensus size: 24
100198207 CTTTTTTTGT
* * *
100198217 TATTAT-TATATTTCTTAATATTA
1 TATTATGTATATATCTTAACACTA
* *
100198240 TATTATATATAT-TCTTTTA-A-TA
1 TATTATGTATATATC-TTAACACTA
*
100198262 TATTAGGTATAT-T-TTAA-ATTCTA
1 TATTATGTATATATCTTAACA--CTA
* * * *
100198285 TATTACGTATATATATATTATACTA
1 TATTATGTATATATCT-TAACACTA
*
100198310 T-TTATGTATATATCTTTAATACTATA
1 TATTATGTATATATC-TTAACAC--TA
* * * *
100198336 TATTATATATATATTTTTACATGTTA
1 TATTATGTATATATCTTAACA--CTA
*
100198362 TCTTATGTATATATCTT-A-ACTA
1 TATTATGTATATATCTTAACACTA
* *
100198384 TATTATGTATGTATTTTTAACACTA
1 TATTATGTATATA-TCTTAACACTA
*
100198409 TATTATGTACATAT
1 TATTATGTATATAT
100198423 TTTTAATATT
Statistics
Matches: 142, Mismatches: 23, Indels: 35
0.71 0.12 0.17
Matches are distributed among these distances:
20 4 0.03
22 26 0.18
23 25 0.18
24 28 0.20
25 22 0.15
26 25 0.18
27 12 0.08
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (24 bp):
TATTATGTATATATCTTAACACTA
Found at i:100198600 original size:16 final size:15
Alignment explanation
Indices: 100198576--100198623 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
100198566 TATTAATTAT
*
100198576 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
100198592 TATTTTAATATTTTA
1 TATTTTAATATTTTA
100198607 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
100198623 T
1 T
100198624 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:100198611 original size:7 final size:8
Alignment explanation
Indices: 100198576--100198627 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
100198566 TATTAATTAT
*
100198576 TATTCTAA
1 TATTTTAA
*
100198584 TATTTTGA
1 TATTTTAA
100198592 TATTTTAA
1 TATTTTAA
100198600 TATTTT-A
1 TATTTTAA
100198607 TATTTTATA
1 TATTTTA-A
*
100198616 TATTTTAT
1 TATTTTAA
100198624 TATT
1 TATT
100198628 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:100210727 original size:25 final size:25
Alignment explanation
Indices: 100210699--100210746 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
100210689 CGTGATAATA
**
100210699 TAAAAATATGTACATAATATAGTGT
1 TAAAAATACATACATAATATAGTGT
100210724 TAAAAATACATACATAATATAGT
1 TAAAAATACATACATAATATAGT
100210747 TAAGATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.33
Consensus pattern (25 bp):
TAAAAATACATACATAATATAGTGT
Found at i:100210761 original size:22 final size:24
Alignment explanation
Indices: 100210699--100210808 Score: 79
Period size: 22 Copynumber: 4.7 Consensus size: 24
100210689 CGTGATAATA
*
100210699 TAAAAATATGTACATAATATAGTGT
1 TAAAAATATATACATAATATAG-GT
*
100210724 TAAAAATACATACATAATATA-GT
1 TAAAAATATATACATAATATAGGT
* **
100210747 T-AAGATATATACATAAGTA-ACAT
1 TAAAAATATATACATAA-TATAGGT
* *
100210770 GT-AAAATATATATAT-AT-TAGTT
1 -TAAAAATATATACATAATATAGGT
*
100210792 TAAAGATATATACATAA
1 TAAAAATATATACATAA
100210809 AATATAATAT
Statistics
Matches: 68, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
21 1 0.01
22 28 0.41
23 8 0.12
24 12 0.18
25 19 0.28
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (24 bp):
TAAAAATATATACATAATATAGGT
Found at i:100210863 original size:22 final size:23
Alignment explanation
Indices: 100210838--100210894 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 23
100210828 ATAGAATTAA
* *
100210838 AATATACCTAATATATTA-AAAG
1 AATATACATAATATAATATAAAG
* *
100210860 AATATATATAATATAATATTAAG
1 AATATACATAATATAATATAAAG
100210883 AATATA-ATAATA
1 AATATACATAATA
100210895 ACAAAAAAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 21 0.70
23 9 0.30
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (23 bp):
AATATACATAATATAATATAAAG
Found at i:100211442 original size:28 final size:28
Alignment explanation
Indices: 100211411--100211501 Score: 134
Period size: 28 Copynumber: 3.3 Consensus size: 28
100211401 TAAGGAGCAA
*
100211411 GTGTGGCTAGTGGATTGTGGTGGAGAAG
1 GTGTGGCTAGTGGATTGTGGTGGAAAAG
*
100211439 GTGTGGCTAGT-GAGTG-GGTGGAAAAG
1 GTGTGGCTAGTGGATTGTGGTGGAAAAG
100211465 G-GTGGCTAGTGGATTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGATT-GTGGTGGAAAAG
100211493 GTGTGGCTA
1 GTGTGGCTA
100211502 TTGAGAAAAG
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
25 9 0.16
26 13 0.23
27 5 0.09
28 22 0.39
29 7 0.12
ACGTcount: A:0.20, C:0.04, G:0.49, T:0.26
Consensus pattern (28 bp):
GTGTGGCTAGTGGATTGTGGTGGAAAAG
Found at i:100213191 original size:13 final size:11
Alignment explanation
Indices: 100213164--100213205 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 11
100213154 ACCTTTTCTA
100213164 AATAAAA-A-T
1 AATAAAATATT
100213173 AATAAAATATTT
1 AATAAAATA-TT
100213185 AAGTAAAATATT
1 AA-TAAAATATT
100213197 AATAAAATA
1 AATAAAATA
100213206 ATTTTTACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 7 0.24
10 1 0.03
11 7 0.24
12 7 0.24
13 7 0.24
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (11 bp):
AATAAAATATT
Found at i:100215766 original size:23 final size:24
Alignment explanation
Indices: 100215732--100215779 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
100215722 CATCTTCATT
*
100215732 AATTTAACCTTTATTTTTTAGTTA
1 AATTTAACCTTTATTTTTTAATTA
100215756 AATTTAA-CTTTATTTTTTAATTA
1 AATTTAACCTTTATTTTTTAATTA
100215779 A
1 A
100215780 TGTCGAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.58
Consensus pattern (24 bp):
AATTTAACCTTTATTTTTTAATTA
Done.