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 176 of 259
Found at i:57280198 original size:21 final size:19
Alignment explanation
Indices: 57280174--57280212 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
57280164 TAAAATCAAG
57280174 ATTTTCATTATATTAATCTCA
1 ATTTTCATT-T-TTAATCTCA
*
57280195 ATTTTTATTTTTAATCTC
1 ATTTTCATTTTTAATCTC
57280213 TTTTAGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 1 0.06
21 8 0.47
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTTCATTTTTAATCTCA
Found at i:57283796 original size:3 final size:3
Alignment explanation
Indices: 57283790--57283822 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
57283780 CATCAATTTG
57283790 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
57283823 TTAGCTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:57290775 original size:36 final size:35
Alignment explanation
Indices: 57290702--57290773 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 35
57290692 TTAAAAAACG
* *
57290702 ATAATAAATATATTATAAAATATAAATACATTAAA
1 ATAATAAAAATATTATAAAATATAAAGACATTAAA
* *
57290737 ATAATAAAAATATATATTAAATATTAAGACGATTAAA
1 ATAATAAAAATAT-TATAAAATATAAAGAC-ATTAAA
57290774 TAGTTCAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 12 0.39
36 13 0.42
37 6 0.19
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (35 bp):
ATAATAAAAATATTATAAAATATAAAGACATTAAA
Found at i:57293588 original size:3 final size:3
Alignment explanation
Indices: 57293580--57293621 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
57293570 TTCTATCCCC
57293580 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
57293622 GTTTATTGTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:57295599 original size:42 final size:43
Alignment explanation
Indices: 57295499--57295655 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
57295489 TGAGATATCG
* * *
57295499 TGTAAGACCGTGTCTAGGACA-CAGGCCTCGAT-TTGAGATTTACA
1 TGTAAGACCCTGTCTGGGACATC-GGCATCGATATTGA-A-TTACA
* * * *
57295543 TGTAAGATCATGTCTGGGACATCGGCATC-ATATCTG-ATTTCG
1 TGTAAGACCCTGTCTGGGACATCGGCATCGATAT-TGAATTACA
**
57295585 TGTAAGACCCTGTCTGGGACAAAGGCATCGATATTGAATTACA
1 TGTAAGACCCTGTCTGGGACATCGGCATCGATATTGAATTACA
* *
57295628 TGTAAGACCAC-GTCCGGGACGTCGGCAT
1 TGTAAGACC-CTGTCTGGGACATCGGCAT
57295656 TTTATGAGCA
Statistics
Matches: 91, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
42 30 0.33
43 33 0.36
44 25 0.27
45 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (43 bp):
TGTAAGACCCTGTCTGGGACATCGGCATCGATATTGAATTACA
Found at i:57295647 original size:43 final size:43
Alignment explanation
Indices: 57295499--57295647 Score: 126
Period size: 42 Copynumber: 3.5 Consensus size: 43
57295489 TGAGATATCG
** * * *
57295499 TGTAAGACCGTGTCTAGGACACAGGCCTCGAT-TTGAGATTTACA
1 TGTAAGACCACGTCTGGGACAAAGGCATCGATATTGA-A-TTACA
* * ** * *
57295543 TGTAAGATCATGTCTGGGACATCGGCATC-ATATCTG-ATTTCG
1 TGTAAGACCACGTCTGGGACAAAGGCATCGATAT-TGAATTACA
57295585 TGTAAGACC-CTGTCTGGGACAAAGGCATCGATATTGAATTACA
1 TGTAAGACCAC-GTCTGGGACAAAGGCATCGATATTGAATTACA
*
57295628 TGTAAGACCACGTCCGGGAC
1 TGTAAGACCACGTCTGGGAC
57295648 GTCGGCATTT
Statistics
Matches: 84, Mismatches: 15, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
42 29 0.35
43 28 0.33
44 25 0.30
45 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.27
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACAAAGGCATCGATATTGAATTACA
Found at i:57297446 original size:23 final size:23
Alignment explanation
Indices: 57297420--57297464 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
57297410 GACCCTGTGA
57297420 TATGTTAACTATACCCATAACTC
1 TATGTTAACTATACCCATAACTC
*
57297443 TATGTTAACTGTACCCATAACT
1 TATGTTAACTATACCCATAACT
57297465 TTATCCGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.36
Consensus pattern (23 bp):
TATGTTAACTATACCCATAACTC
Found at i:57300478 original size:20 final size:20
Alignment explanation
Indices: 57300455--57300497 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
57300445 TTTTTTTTCA
*
57300455 TTTACATTAG-TTTTATAATT
1 TTTA-ATTAGATTTTAGAATT
*
57300475 TTTAATTTGATTTTAGAATT
1 TTTAATTAGATTTTAGAATT
57300495 TTT
1 TTT
57300498 TGTAAAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (20 bp):
TTTAATTAGATTTTAGAATT
Found at i:57304089 original size:21 final size:22
Alignment explanation
Indices: 57304065--57304112 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
57304055 ATAATATGTT
*
57304065 ATATTTTACATATTAT-AT-TAA
1 ATATTATA-ATATTATAATGTAA
57304086 ATA-TATAATATTATAATGTAA
1 ATATTATAATATTATAATGTAA
57304107 ATATTA
1 ATATTA
57304113 AAAATATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 7 0.30
20 5 0.22
21 9 0.39
22 2 0.09
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
ATATTATAATATTATAATGTAA
Found at i:57305071 original size:29 final size:29
Alignment explanation
Indices: 57305009--57305071 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
57304999 ATGAATTTTA
* **
57305009 AAAAATAGAAAGACTAAATTCCTAAAAAT
1 AAAAATACAAAGACTAAATTCCTAAATTT
*
57305038 AAAAATACAAAGACTAAATT-TTAAATTT
1 AAAAATACAAAGACTAAATTCCTAAATTT
57305066 ACAAAA
1 A-AAAA
57305072 AGCATCATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.24
Consensus pattern (29 bp):
AAAAATACAAAGACTAAATTCCTAAATTT
Found at i:57307136 original size:29 final size:30
Alignment explanation
Indices: 57307094--57307155 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
57307084 ACTTAACAAG
*
57307094 CAAATGCCTCTAAAATAATAA-AAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAACTAA
* *
57307123 CAAATGTCTTTAAAATAATAACAAAACTAA
1 CAAATGCCTCTAAAATAATAACAAAACTAA
57307153 CAA
1 CAA
57307156 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAACTAA
Found at i:57316598 original size:51 final size:51
Alignment explanation
Indices: 57316543--57316643 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
57316533 GATGAAGAAA
*
57316543 AAGAAAAGAAAGAGGCAAAGGGTGATGATGGATCTTTAGTGATTAATTCAG
1 AAGAAAAGAAAGAAGCAAAGGGTGATGATGGATCTTTAGTGATTAATTCAG
57316594 AAGAAAAGAAAGAAGCAAAGGGTGATGATGGATCTTTAGTGATTAATTCA
1 AAGAAAAGAAAGAAGCAAAGGGTGATGATGGATCTTTAGTGATTAATTCA
57316644 TCCATTGTTG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.43, C:0.06, G:0.28, T:0.24
Consensus pattern (51 bp):
AAGAAAAGAAAGAAGCAAAGGGTGATGATGGATCTTTAGTGATTAATTCAG
Found at i:57317706 original size:15 final size:16
Alignment explanation
Indices: 57317680--57317712 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
57317670 ATTAAAAGTT
57317680 TTTTGAATTTGGGTTA
1 TTTTGAATTTGGGTTA
*
57317696 TTTTG-ATTTGGTTTA
1 TTTTGAATTTGGGTTA
57317711 TT
1 TT
57317713 ATAAGTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.15, C:0.00, G:0.21, T:0.64
Consensus pattern (16 bp):
TTTTGAATTTGGGTTA
Found at i:57335995 original size:9 final size:10
Alignment explanation
Indices: 57335971--57336004 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
57335961 AATTATTATT
57335971 TATTTTATAA
1 TATTTTATAA
57335981 TATTTTA-AA
1 TATTTTATAA
*
57335990 TGTTTTATAA
1 TATTTTATAA
57336000 TATTT
1 TATTT
57336005 ACTAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (10 bp):
TATTTTATAA
Found at i:57336098 original size:10 final size:10
Alignment explanation
Indices: 57336068--57336174 Score: 51
Period size: 10 Copynumber: 10.3 Consensus size: 10
57336058 TTGAATAAAT
*
57336068 AAATATTTTA
1 AAATATTATA
*
57336078 AAACATT-TA
1 AAATATTATA
57336087 AAATATTATA
1 AAATATTATA
*
57336097 AAATA-AATAA
1 AAATATTAT-A
*
57336107 TAAATAATTTTA
1 -AAAT-ATTATA
*
57336119 AAA-ATTCAAA
1 AAATATT-ATA
*
57336129 AAAAATTGAATAAA
1 AAATATT--AT--A
57336143 AAATATTATA
1 AAATATTATA
*
57336153 AAACATT-TA
1 AAATATTATA
57336162 AAATATTATA
1 AAATATTATA
57336172 AAA
1 AAA
57336175 AATAATAAAT
Statistics
Matches: 74, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
9 21 0.28
10 30 0.41
11 10 0.14
12 5 0.07
13 1 0.01
14 7 0.09
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.34
Consensus pattern (10 bp):
AAATATTATA
Found at i:57336119 original size:32 final size:32
Alignment explanation
Indices: 57336082--57336181 Score: 82
Period size: 34 Copynumber: 3.0 Consensus size: 32
57336072 ATTTTAAAAC
57336082 ATTTAAAATATTATAAAATAAATAATAAATAAT
1 ATTTAAAA-ATTATAAAATAAATAATAAATAAT
*
57336115 -TTTAAAAATTCA-AAAA-AAATTGAATAAAAAAT
1 ATTTAAAAATT-ATAAAATAAA-T-AATAAATAAT
* *
57336147 ATTATAAAACATT-TAAAATATTATAAAAAATAAT
1 ATT-TAAAA-ATTATAAAATA-AATAATAAATAAT
57336181 A
1 A
57336182 AATAATTTTA
Statistics
Matches: 54, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
30 3 0.06
31 8 0.15
32 17 0.31
33 2 0.04
34 18 0.33
35 5 0.09
36 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (32 bp):
ATTTAAAAATTATAAAATAAATAATAAATAAT
Found at i:57336153 original size:12 final size:12
Alignment explanation
Indices: 57336086--57336233 Score: 58
Period size: 12 Copynumber: 13.2 Consensus size: 12
57336076 TAAAACATTT
57336086 AAAATATTATAA
1 AAAATATTATAA
*
57336098 AATAA-ATAATAA
1 AA-AATATTATAA
*
57336110 ATAAT-TT-T-A
1 AAAATATTATAA
*
57336119 AAAAT-TCA-AA
1 AAAATATTATAA
57336129 AAAA-ATTGAATAA
1 AAAATATT--ATAA
57336142 AAAATATTAT--
1 AAAATATTATAA
*
57336152 AAAACATT-T--
1 AAAATATTATAA
57336161 AAAATATTATAA
1 AAAATATTATAA
57336173 AAAATA--ATAA
1 AAAATATTATAA
* * *
57336183 ATAATTTTAAAA
1 AAAATATTATAA
57336195 AAAAT-TTA-AA
1 AAAATATTATAA
*
57336205 AAAATGTTTGAATAA
1 AAAAT-ATT--ATAA
57336220 AAAATATTATAA
1 AAAATATTATAA
57336232 AA
1 AA
57336234 CATTTAAAAT
Statistics
Matches: 104, Mismatches: 13, Indels: 38
0.67 0.08 0.25
Matches are distributed among these distances:
9 14 0.13
10 30 0.29
11 6 0.06
12 33 0.32
13 8 0.08
14 6 0.06
15 7 0.07
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (12 bp):
AAAATATTATAA
Found at i:57336166 original size:19 final size:19
Alignment explanation
Indices: 57336142--57336254 Score: 75
Period size: 19 Copynumber: 5.8 Consensus size: 19
57336132 AATTGAATAA
57336142 AAAATATTATAAAACATTT
1 AAAATATTATAAAACATTT
* *
57336161 AAAATATTATAAAAAATAATA
1 AAAATATTATAAAACAT--TT
* * *
57336182 AATAATTTTAAAAAAAATTT
1 AA-AATATTATAAAACATTT
* * * *** **
57336202 AAAAAAATGTTTGA-ATAA
1 AAAATATTATAAAACATTT
57336220 AAAATATTATAAAACATTT
1 AAAATATTATAAAACATTT
57336239 AAAATATTATAAAACA
1 AAAATATTATAAAACA
57336255 AATAATAAAT
Statistics
Matches: 67, Mismatches: 23, Indels: 8
0.68 0.23 0.08
Matches are distributed among these distances:
18 10 0.15
19 38 0.57
20 3 0.04
21 3 0.04
22 13 0.19
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATATTATAAAACATTT
Found at i:57336243 original size:78 final size:79
Alignment explanation
Indices: 57336050--57336275 Score: 331
Period size: 78 Copynumber: 2.9 Consensus size: 79
57336040 TAATTTTTTT
* * *
57336050 AAAAACGTTTGAATAAATAAATATTTTAAAACATTTAAAATATTATAAAATAAATAATAAATAAT
1 AAAAAAGTTTGAATAAA-AAATATTATAAAACATTTAAAATATTATAAAACAAATAATAAATAAT
57336115 TTT---AAAAATTCA
65 TTTAAAAAAAATTCA
*
57336127 AAAAAA-ATTGAATAAAAAATATTATAAAACATTTAAAATATTAT-AAA-AAATAATAAATAATT
1 AAAAAAGTTTGAATAAAAAATATTATAAAACATTTAAAATATTATAAAACAAATAATAAATAATT
*
57336189 TTAAAAAAAATTTA
66 TTAAAAAAAATTCA
*
57336203 AAAAAATGTTTGAATAAAAAATATTATAAAACATTTAAAATATTATAAAACAAATAATAAAT-AC
1 AAAAAA-GTTTGAATAAAAAATATTATAAAACATTTAAAATATTATAAAACAAATAATAAATAAT
57336267 TTTAAAAAA
65 TTTAAAAAA
57336276 TAAATAATAA
Statistics
Matches: 136, Mismatches: 6, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
73 17 0.12
74 3 0.02
75 27 0.20
76 23 0.17
77 5 0.04
78 37 0.27
79 13 0.10
80 11 0.08
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.32
Consensus pattern (79 bp):
AAAAAAGTTTGAATAAAAAATATTATAAAACATTTAAAATATTATAAAACAAATAATAAATAATT
TTAAAAAAAATTCA
Found at i:57336251 original size:10 final size:10
Alignment explanation
Indices: 57336220--57336252 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
57336210 GTTTGAATAA
57336220 AAAATATTAT
1 AAAATATTAT
*
57336230 AAAACATT-T
1 AAAATATTAT
57336239 AAAATATTAT
1 AAAATATTAT
57336249 AAAA
1 AAAA
57336253 CAAATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATATTAT
Found at i:57336356 original size:29 final size:30
Alignment explanation
Indices: 57336311--57336370 Score: 113
Period size: 29 Copynumber: 2.0 Consensus size: 30
57336301 AGAAAAAGGA
57336311 CAAAGAATCTGATAGCGCCAAATTGTTTGG
1 CAAAGAATCTGATAGCGCCAAATTGTTTGG
57336341 CAAAGAAT-TGATAGCGCCAAATTGTTTGG
1 CAAAGAATCTGATAGCGCCAAATTGTTTGG
57336370 C
1 C
57336371 TCTACCAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (30 bp):
CAAAGAATCTGATAGCGCCAAATTGTTTGG
Found at i:57342797 original size:135 final size:138
Alignment explanation
Indices: 57342610--57342881 Score: 388
Period size: 135 Copynumber: 2.0 Consensus size: 138
57342600 GATATGAAAT
* * *
57342610 AGCAGCAGCTCGACCATACCATCAGCCTATATAGAATCATTTAGAATGCAATGCTTTTAAGTATT
1 AGCAGCAGATCGACCATACCATCAGCCTATATAGAATCATGTAGAATGCAATGCTTATAAGTATT
* *
57342675 AACCACACTACGATTGCAAGTTTC-AAACCAGTCAAGTTTTAGTTTCGATTTATGCTTTTTGTAG
66 AACCACACTACGATTGCAAGTTTCTAAACCAGTCAAGTCTTAGTTCCGATTTATGCTTTTTGTAG
57342739 GTCATAGC
131 GTCATAGC
* **
57342747 AGCAGCAGATCGTCCATACCATCAG-C-ATATAGAATTGTGTAGAATGCAATGCTTATAAGTATT
1 AGCAGCAGATCGACCATACCATCAGCCTATATAGAATCATGTAGAATGCAATGCTTATAAGTATT
* *** *
57342810 AACCACACTACGATTGCAAGTTTCTGTAAACTAGTTGTGTCTTAGTTCCGGTTTATGCTTTTTGT
66 AACCACACTACGATTGCAAGTTTC--TAAACCAGTCAAGTCTTAGTTCCGATTTATGCTTTTTGT
57342875 AGGTCAT
129 AGGTCAT
57342882 TCGATGAAGA
Statistics
Matches: 119, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
135 57 0.48
136 1 0.01
137 23 0.19
138 38 0.32
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (138 bp):
AGCAGCAGATCGACCATACCATCAGCCTATATAGAATCATGTAGAATGCAATGCTTATAAGTATT
AACCACACTACGATTGCAAGTTTCTAAACCAGTCAAGTCTTAGTTCCGATTTATGCTTTTTGTAG
GTCATAGC
Found at i:57356547 original size:46 final size:46
Alignment explanation
Indices: 57356467--57356732 Score: 325
Period size: 46 Copynumber: 6.0 Consensus size: 46
57356457 TTTGACATGA
* * * * * *
57356467 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* * *** *
57356513 TACCATGGTATCTTTCAACCATGGTATTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
57356559 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
57356605 TGCCATGGTATCTTTCAACCATAGTCTTACATATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
57356651 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
57356689 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
57356733 AGAGCACACT
Statistics
Matches: 190, Mismatches: 21, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
38 32 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 2 0.01
45 5 0.03
46 145 0.76
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:57356702 original size:38 final size:38
Alignment explanation
Indices: 57356646--57356721 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
57356636 TATTTCATAT
57356646 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
57356684 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
57356722 TTTCATATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (38 bp):
CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:57362456 original size:18 final size:18
Alignment explanation
Indices: 57362433--57362473 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
57362423 TAAACTCTAA
57362433 TTAATTTA-AATAAAACT
1 TTAATTTATAATAAAACT
*
57362450 CTTAA-TTATACTAAAACT
1 -TTAATTTATAATAAAACT
57362468 TTAATT
1 TTAATT
57362474 AATCTAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATTTATAATAAAACT
Found at i:57363017 original size:23 final size:23
Alignment explanation
Indices: 57362991--57363035 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
57362981 ATTATCATTC
57362991 ATCATAAACATACTCTACAACTT
1 ATCATAAACATACTCTACAACTT
57363014 ATCATAAACATACTCTACAACT
1 ATCATAAACATACTCTACAACT
57363036 GAGTTAGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (23 bp):
ATCATAAACATACTCTACAACTT
Found at i:57363503 original size:31 final size:31
Alignment explanation
Indices: 57363454--57363528 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
57363444 AAAAAAAGTT
* *
57363454 AACAATTTAGTAAATTAAAT-AAAACTTTTTG
1 AACAATTTAATAAATTAAATGAAAA-TTTTTA
** *
57363485 AACAATTTAATATCTTAAATGATAATTTTTA
1 AACAATTTAATAAATTAAATGAAAATTTTTA
*
57363516 AATAATTTAATAA
1 AACAATTTAATAA
57363529 CTATTTTATA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 33 0.92
32 3 0.08
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.41
Consensus pattern (31 bp):
AACAATTTAATAAATTAAATGAAAATTTTTA
Found at i:57363590 original size:10 final size:10
Alignment explanation
Indices: 57363575--57363599 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
57363565 GAATATATTG
57363575 AAAAAAATAA
1 AAAAAAATAA
57363585 AAAAAAATAA
1 AAAAAAATAA
57363595 AAAAA
1 AAAAA
57363600 GTTCAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:57370550 original size:10 final size:10
Alignment explanation
Indices: 57370537--57370650 Score: 61
Period size: 10 Copynumber: 12.0 Consensus size: 10
57370527 GGCTTATAAC
57370537 TTTTTATATA
1 TTTTTATATA
57370547 TTTTTAGT-T-
1 TTTTTA-TATA
57370556 TGTTTTATA-A
1 T-TTTTATATA
57370566 -TTTTACTAT-
1 TTTTTA-TATA
57370575 TTTTTATAATA
1 TTTTTAT-ATA
*
57370586 TTTTGTA-ATT
1 TTTT-TATATA
* *
57370596 TTTTTTTACA
1 TTTTTATATA
*
57370606 TTTTTA-ACA
1 TTTTTATATA
*
57370615 TTTTTAAATA
1 TTTTTATATA
57370625 -TTTT-TATA
1 TTTTTATATA
57370633 TTTTTATA-A
1 TTTTTATATA
57370642 -TTTTATATA
1 TTTTTATATA
57370651 AATATATCTA
Statistics
Matches: 82, Mismatches: 7, Indels: 31
0.68 0.06 0.26
Matches are distributed among these distances:
8 15 0.18
9 25 0.30
10 35 0.43
11 5 0.06
12 2 0.02
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (10 bp):
TTTTTATATA
Found at i:57370633 original size:8 final size:8
Alignment explanation
Indices: 57370598--57370649 Score: 50
Period size: 8 Copynumber: 6.1 Consensus size: 8
57370588 TTGTAATTTT
*
57370598 TTTTTACA
1 TTTTTATA
*
57370606 TTTTTAACA
1 TTTTT-ATA
57370615 TTTTTAAATA
1 TTTTT--ATA
57370625 TTTTTATA
1 TTTTTATA
57370633 TTTTTATA
1 TTTTTATA
*
57370641 ATTTTATA
1 TTTTTATA
57370649 T
1 T
57370650 AAATATATCT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
8 23 0.59
9 8 0.21
10 8 0.21
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTTTATA
Found at i:57374746 original size:20 final size:21
Alignment explanation
Indices: 57374708--57374746 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
57374698 AAAAATTATT
*
57374708 TAAAATTTATATTATTTTTCA
1 TAAAATTTATATAATTTTTCA
57374729 TAAAATTTA-ATAATTTTT
1 TAAAATTTATATAATTTTT
57374747 ATATATTTTT
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:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (21 bp):
TAAAATTTATATAATTTTTCA
Found at i:57374757 original size:31 final size:29
Alignment explanation
Indices: 57374705--57374768 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 29
57374695 TTAAAAAATT
57374705 ATTTAAAATTTATATTATTTTTCATA-AA
1 ATTTAAAATTTATATTATTTTTCATACAA
* *
57374733 ATTTAATAATTTTTATATATTTTTTCCTACAA
1 ATTTAA-AATTTATAT-TA-TTTTTCATACAA
57374765 ATTT
1 ATTT
57374769 TTACATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 6 0.20
29 8 0.27
30 2 0.07
31 8 0.27
32 6 0.20
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (29 bp):
ATTTAAAATTTATATTATTTTTCATACAA
Found at i:57375107 original size:16 final size:16
Alignment explanation
Indices: 57375086--57375118 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
57375076 AAGAATTAAG
57375086 AATTATATTTGTATAT
1 AATTATATTTGTATAT
*
57375102 AATTATATTTTTATAT
1 AATTATATTTGTATAT
57375118 A
1 A
57375119 TATACATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
AATTATATTTGTATAT
Found at i:57378475 original size:21 final size:21
Alignment explanation
Indices: 57378451--57378514 Score: 110
Period size: 21 Copynumber: 3.0 Consensus size: 21
57378441 TTCGATGCTT
*
57378451 CTGAGAGATCTGAGGAATTGC
1 CTGAGAGATCCGAGGAATTGC
57378472 CTGAGAGATCCGAGGAATTGC
1 CTGAGAGATCCGAGGAATTGC
*
57378493 CTGAGAGATCCAAGGAATTGC
1 CTGAGAGATCCGAGGAATTGC
57378514 C
1 C
57378515 AAGGAGATCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.30, C:0.19, G:0.31, T:0.20
Consensus pattern (21 bp):
CTGAGAGATCCGAGGAATTGC
Found at i:57382084 original size:9 final size:9
Alignment explanation
Indices: 57382061--57382159 Score: 76
Period size: 10 Copynumber: 10.7 Consensus size: 9
57382051 AATATGGCAA
57382061 AAAAATTAT
1 AAAAATTAT
57382070 AAAAAATTATT
1 -AAAAATTA-T
*
57382081 AAAAATCAT
1 AAAAATTAT
57382090 AAAAATTATT
1 AAAAATTA-T
*
57382100 AAAATTTAGT
1 AAAAATTA-T
*
57382110 AAAAAATA-
1 AAAAATTAT
57382118 AAAAATT-T
1 AAAAATTAT
* *
57382126 TAAATTTAT
1 AAAAATTAT
*
57382135 AAAAATTAGA
1 AAAAATTA-T
*
57382145 AAAAAATAT
1 AAAAATTAT
57382154 AAAAAT
1 AAAAAT
57382160 CGTAAAAAAA
Statistics
Matches: 69, Mismatches: 15, Indels: 11
0.73 0.16 0.12
Matches are distributed among these distances:
8 11 0.16
9 20 0.29
10 37 0.54
11 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:57382093 original size:19 final size:20
Alignment explanation
Indices: 57382061--57382103 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
57382051 AATATGGCAA
*
57382061 AAAAATTATAAAAAATTATT
1 AAAAATCATAAAAAATTATT
57382081 AAAAATCAT-AAAAATTATT
1 AAAAATCATAAAAAATTATT
57382100 AAAA
1 AAAA
57382104 TTTAGTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAATCATAAAAAATTATT
Found at i:57382103 original size:29 final size:28
Alignment explanation
Indices: 57382060--57382129 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
57382050 AAATATGGCA
* *
57382060 AAAAAATTATAAAAAATTA-TTAAAAAT
1 AAAAAATTATTAAAAATTAGTAAAAAAT
*
57382087 CATAAAAATTATTAAAATTTAGTAAAAAAT
1 -A-AAAAATTATTAAAAATTAGTAAAAAAT
57382117 AAAAAATT-TTAAA
1 AAAAAATTATTAAA
57382130 TTTATAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 5 0.14
28 8 0.22
29 17 0.46
30 7 0.19
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (28 bp):
AAAAAATTATTAAAAATTAGTAAAAAAT
Found at i:57382154 original size:19 final size:19
Alignment explanation
Indices: 57382132--57382172 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
57382122 ATTTTAAATT
57382132 TATAAAAAT-TAGAAAAAAA
1 TATAAAAATCTA-AAAAAAA
57382151 TATAAAAATCGTAAAAAAAA
1 TATAAAAATC-TAAAAAAAA
57382171 TA
1 TA
57382173 AGGACAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 9 0.45
20 9 0.45
21 2 0.10
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (19 bp):
TATAAAAATCTAAAAAAAA
Found at i:57382922 original size:24 final size:24
Alignment explanation
Indices: 57382895--57382940 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
57382885 ATAAGTTGTT
*
57382895 TATATTTAAAAAATATTAAACATA
1 TATAATTAAAAAATATTAAACATA
**
57382919 TATAATTATTAAATATTAAACA
1 TATAATTAAAAAATATTAAACA
57382941 AATAACACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (24 bp):
TATAATTAAAAAATATTAAACATA
Found at i:57399105 original size:18 final size:18
Alignment explanation
Indices: 57399048--57399113 Score: 52
Period size: 17 Copynumber: 3.8 Consensus size: 18
57399038 ATTGTGGTTG
*
57399048 AATTAGTTTA-TAATTTAT
1 AATTA-TTTATTAATTTTT
*
57399066 AATTATTT-TT--TTGTT
1 AATTATTTATTAATTTTT
*
57399081 AA-AATTTATTAATTTTT
1 AATTATTTATTAATTTTT
57399098 AATTATTTATTTAATT
1 AATTATTTA-TTAATT
57399114 ATTATTGGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 11
0.70 0.09 0.21
Matches are distributed among these distances:
14 4 0.11
15 7 0.19
17 10 0.27
18 10 0.27
19 6 0.16
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
AATTATTTATTAATTTTT
Found at i:57399304 original size:15 final size:16
Alignment explanation
Indices: 57399281--57399310 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57399271 GGTTGAATCG
57399281 AATT-TTTTTATTTTA
1 AATTGTTTTTATTTTA
57399296 AATTGTTTTTATTTT
1 AATTGTTTTTATTTT
57399311 TAAAATTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (16 bp):
AATTGTTTTTATTTTA
Found at i:57403492 original size:63 final size:61
Alignment explanation
Indices: 57403392--57403509 Score: 157
Period size: 63 Copynumber: 1.9 Consensus size: 61
57403382 ATCCATGTAT
* * * *
57403392 GAGAGCGTTAACGATTGAAACCATCAATGGTGAGGAAGAGTAAGTCATGAAGTGATATTGG
1 GAGAGCGGTAACGATTGAAACCATCAATGGGGAGGAAGAATAAATCATGAAGTGATATTGG
*
57403453 GAGAGCGGTAACGAATTCGAAACCGTTC-ATGGGGAGGAAGAATAAATCATGAAGTGA
1 GAGAGCGGTAACG-ATT-GAAACC-ATCAATGGGGAGGAAGAATAAATCATGAAGTGA
57403510 GATAATGGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
61 12 0.24
62 3 0.06
63 32 0.65
64 2 0.04
ACGTcount: A:0.37, C:0.11, G:0.31, T:0.20
Consensus pattern (61 bp):
GAGAGCGGTAACGATTGAAACCATCAATGGGGAGGAAGAATAAATCATGAAGTGATATTGG
Found at i:57404240 original size:15 final size:16
Alignment explanation
Indices: 57404210--57404240 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
57404200 GGCATTATCA
57404210 TATTTGCCTGCAGCTT
1 TATTTGCCTGCAGCTT
57404226 TATTTGCCT-CAGCTT
1 TATTTGCCTGCAGCTT
57404241 CAATAAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.13, C:0.26, G:0.16, T:0.45
Consensus pattern (16 bp):
TATTTGCCTGCAGCTT
Found at i:57409530 original size:13 final size:13
Alignment explanation
Indices: 57409512--57409550 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
57409502 ATGTGAAGAA
57409512 TATTATTTAAAAT
1 TATTATTTAAAAT
*
57409525 TATTATTTAAATTT
1 TATTATTTAAA-AT
57409539 TATTA-TTAAAAT
1 TATTATTTAAAAT
57409551 AAAAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 1 0.04
13 16 0.70
14 6 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTATTTAAAAT
Found at i:57409543 original size:14 final size:14
Alignment explanation
Indices: 57409512--57409551 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
57409502 ATGTGAAGAA
57409512 TATTATTTAAA-AT
1 TATTATTTAAATAT
*
57409525 TATTATTTAAATTT
1 TATTATTTAAATAT
*
57409539 TATTATTAAAATA
1 TATTATTTAAATA
57409552 AAAATAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTATTTAAATAT
Found at i:57409596 original size:20 final size:22
Alignment explanation
Indices: 57409569--57409615 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
57409559 AAAATTAAAT
57409569 ATTT-TATTAAATA-A-TAATA
1 ATTTATATTAAATATATTAATA
57409588 ATTTATATTAAATATATTAATA
1 ATTTATATTAAATATATTAATA
*
57409610 AGTTAT
1 ATTTAT
57409616 TATATGACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 9 0.38
21 1 0.04
22 10 0.42
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTTATATTAAATATATTAATA
Found at i:57409618 original size:25 final size:21
Alignment explanation
Indices: 57409566--57409620 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 21
57409556 TAAAAAATTA
*
57409566 AATATTTTATTAAATAATAAT
1 AATATTATATTAAATAATAAT
57409587 AAT-TTATATTAAATATATTAAT
1 AATATTATATTAAATA-A-TAAT
57409609 AAGTTATTATAT
1 AA--TATTATAT
57409621 GACTAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 11 0.39
21 4 0.14
22 6 0.21
24 1 0.04
25 6 0.21
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AATATTATATTAAATAATAAT
Found at i:57409686 original size:13 final size:14
Alignment explanation
Indices: 57409666--57409697 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
57409656 AATATTGAAA
57409666 AATA-TAATATTTT
1 AATATTAATATTTT
57409679 -ATATTAATATTTT
1 AATATTAATATTTT
57409692 AATATT
1 AATATT
57409698 TTTAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 9 0.53
14 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATATTAATATTTT
Found at i:57413843 original size:20 final size:20
Alignment explanation
Indices: 57413818--57413861 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
57413808 GGTTACTTAT
*
57413818 AAATA-TGTAAAACTTAAAAA
1 AAATATTGTAAAA-TGAAAAA
57413838 AAATATTGTAAAATGAAAAA
1 AAATATTGTAAAATGAAAAA
57413858 AAAT
1 AAAT
57413862 TGTTTGGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (20 bp):
AAATATTGTAAAATGAAAAA
Found at i:57419957 original size:29 final size:29
Alignment explanation
Indices: 57419921--57419979 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
57419911 CAAGAACAAG
57419921 AATAAATCCAAAAGCCCAAAAACTTTACA
1 AATAAATCCAAAAGCCCAAAAACTTTACA
57419950 AATAAATCCAAAAGCCCAAAAACTTTACA
1 AATAAATCCAAAAGCCCAAAAACTTTACA
57419979 A
1 A
57419980 TGGCCCGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.56, C:0.24, G:0.03, T:0.17
Consensus pattern (29 bp):
AATAAATCCAAAAGCCCAAAAACTTTACA
Found at i:57430119 original size:10 final size:10
Alignment explanation
Indices: 57430104--57430134 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
57430094 ATTAATACTG
57430104 TATTTGACAA
1 TATTTGACAA
57430114 TATTTGACAA
1 TATTTGACAA
57430124 TATTTGACAA
1 TATTTGACAA
57430134 T
1 T
57430135 TCAATGGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.42
Consensus pattern (10 bp):
TATTTGACAA
Found at i:57434685 original size:41 final size:41
Alignment explanation
Indices: 57434629--57434706 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
57434619 ATTTAATTAA
**
57434629 TTTTTAAAATTTAAAAATT-TCAAAAAATATATAAAAACTAT
1 TTTTTAAAAAATAAAAATTATCAAAAAATAT-TAAAAACTAT
**
57434670 TTTTTAAAAAATAAAAATTATTTAAAAATATTAAAAA
1 TTTTTAAAAAATAAAAATTATCAAAAAATATTAAAAA
57434707 ATTTAATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 23 0.72
42 9 0.28
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (41 bp):
TTTTTAAAAAATAAAAATTATCAAAAAATATTAAAAACTAT
Found at i:57434706 original size:21 final size:21
Alignment explanation
Indices: 57434651--57434709 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 21
57434641 AAAAATTTCA
*
57434651 AAAAATATATAAAAACTATTTTTT
1 AAAAATAT-TAAAAA--ATTATTT
57434675 AAAAA-A-T-AAAAATTATTT
1 AAAAATATTAAAAAATTATTT
57434693 AAAAATATTAAAAAATT
1 AAAAATATTAAAAAATT
57434710 TAATATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
18 11 0.35
19 1 0.03
20 5 0.16
21 8 0.26
23 1 0.03
24 5 0.16
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAAATATTAAAAAATTATTT
Found at i:57434720 original size:27 final size:25
Alignment explanation
Indices: 57434672--57434731 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
57434662 AAAACTATTT
57434672 TTTAAAAAATAAAAATTATTTAAAAA
1 TTTAAAAAATAAAAATTATTT-AAAA
* *
57434698 TATTAAAAAATTTAATATT-TTTAAAA
1 T-TTAAAAAA-TAAAAATTATTTAAAA
57434724 TTTAAAAA
1 TTTAAAAA
57434732 TTAATTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 7 0.23
26 6 0.20
27 11 0.37
28 6 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
TTTAAAAAATAAAAATTATTTAAAA
Found at i:57437030 original size:20 final size:20
Alignment explanation
Indices: 57437002--57437044 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
57436992 AAAATGGTTT
* *
57437002 AAACTTTTTTAACTCAATTG
1 AAACATTTTTAAATCAATTG
*
57437022 AAACATTTTTAAATCGATTG
1 AAACATTTTTAAATCAATTG
57437042 AAA
1 AAA
57437045 AATTGTTCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.40
Consensus pattern (20 bp):
AAACATTTTTAAATCAATTG
Found at i:57437839 original size:41 final size:36
Alignment explanation
Indices: 57437758--57437883 Score: 119
Period size: 36 Copynumber: 3.3 Consensus size: 36
57437748 ATACACATTG
* * *
57437758 GCGGCGTTTTTCCGAAACGCCACTAAAAGCTAAACTATA
1 GCGGCGTTTTT---AAACGCCACTAAAAGCTGATCAATA
*
57437797 GCGGCGTTTTTGCCAAAAACGCCACTAAGAA-CTGGTCAATA
1 GCGGCGTTTTT-----AAACGCCACTAA-AAGCTGATCAATA
*
57437838 GCGGCATTTTTAAACGCCACTAAAAGCTGATCAATA
1 GCGGCGTTTTTAAACGCCACTAAAAGCTGATCAATA
57437874 GCGGCGTTTT
1 GCGGCGTTTT
57437884 AATCTCAAAC
Statistics
Matches: 74, Mismatches: 9, Indels: 11
0.79 0.10 0.12
Matches are distributed among these distances:
35 2 0.03
36 30 0.41
39 11 0.15
41 29 0.39
42 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (36 bp):
GCGGCGTTTTTAAACGCCACTAAAAGCTGATCAATA
Found at i:57438007 original size:41 final size:40
Alignment explanation
Indices: 57437905--57438016 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 40
57437895 CCACTAAATT
* *
57437905 GCGGCGTTTTTGTCCCAAACACCACAAAAAACTGATCAATT
1 GCGGCGTTTTTGT-CCAAACGCCACAAAAAACTGATCAATA
* * * *
57437946 GTGGCGTTTTTATCCAAAACGCCACTAAAAACTGATTAATA
1 GCGGCGTTTTTGTCC-AAACGCCACAAAAAACTGATCAATA
*
57437987 GCGGCGTTTTTGGTCCAAACGCCGCAAAAA
1 GCGGCGTTTTT-GTCCAAACGCCACAAAAA
57438017 GTTTAGCAGG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
40 2 0.03
41 54 0.92
42 3 0.05
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (40 bp):
GCGGCGTTTTTGTCCAAACGCCACAAAAAACTGATCAATA
Found at i:57438359 original size:28 final size:28
Alignment explanation
Indices: 57438299--57438374 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
57438289 TGGCTTTCTG
* *
57438299 TAAACCCTTAAATCTTAAACATTAAACCC
1 TAAACCC-TAAATCTTAAACATTAAAACA
*
57438328 TAAACCCTAAATTTTAAATCA-TAAAACA
1 TAAACCCTAAATCTTAAA-CATTAAAACA
*
57438356 TAAACACT-AATCTATAAAC
1 TAAACCCTAAATCT-TAAAC
57438375 TCCAAAACCC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 5 0.12
28 26 0.65
29 9 0.22
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (28 bp):
TAAACCCTAAATCTTAAACATTAAAACA
Found at i:57440324 original size:14 final size:15
Alignment explanation
Indices: 57440305--57440334 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
57440295 TGTGTTTATA
57440305 TAAATACAT-AATTC
1 TAAATACATAAATTC
57440319 TAAATACATAAATTC
1 TAAATACATAAATTC
57440334 T
1 T
57440335 GAAGTTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAATACATAAATTC
Found at i:57444419 original size:24 final size:24
Alignment explanation
Indices: 57444392--57444459 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
57444382 ATTATTATTG
*
57444392 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
57444416 AAATATTATTC-TCCGTTTTATTAC
1 AAATATTA-TCGTCCGTTTTATCAC
57444440 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
57444460 CCATTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:57444680 original size:15 final size:15
Alignment explanation
Indices: 57444636--57444691 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
57444626 AACGACATGT
57444636 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
57444652 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
57444665 ATATTATTTAATTAA
1 ATATTATTTAATTAA
57444680 ATATTATTTAAT
1 ATATTATTTAAT
57444692 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:57444808 original size:9 final size:9
Alignment explanation
Indices: 57444796--57445011 Score: 125
Period size: 9 Copynumber: 23.6 Consensus size: 9
57444786 TATTTGATAT
*
57444796 CATAATTTA
1 CATAACTTA
57444805 CATAACTTA
1 CATAACTTA
* *
57444814 TATAACATA
1 CATAACTTA
*
57444823 TATAACTTA
1 CATAACTTA
57444832 CATAACTTA
1 CATAACTTA
* *
57444841 TATAACATA
1 CATAACTTA
57444850 CATAACTTA
1 CATAACTTA
*
57444859 TATAACTTA
1 CATAACTTA
*
57444868 TATAACTTA
1 CATAACTTA
* *
57444877 GATAA-ATA
1 CATAACTTA
*
57444885 TATAACTTA
1 CATAACTTA
57444894 CATAACTTA
1 CATAACTTA
57444903 CATAATACTTA
1 CAT-A-ACTTA
*
57444914 -ATATATTTTATA
1 CATA-A--CT-TA
*
57444926 TCATAATTTA
1 -CATAACTTA
57444936 CATAACTTA
1 CATAACTTA
*
57444945 TATAACTTA
1 CATAACTTA
* *
57444954 GATAA-ATA
1 CATAACTTA
* *
57444962 TATAATTTA
1 CATAACTTA
*
57444971 CATAA-ATA
1 CATAACTTA
* * *
57444979 TATATCATA
1 CATAACTTA
*
57444988 TCATAAATTA
1 -CATAACTTA
57444998 CATAACTTA
1 CATAACTTA
57445007 CATAA
1 CATAA
57445012 TACTTAAATA
Statistics
Matches: 165, Mismatches: 31, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
8 17 0.10
9 124 0.75
10 10 0.06
11 8 0.05
12 2 0.01
13 1 0.01
14 3 0.02
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (9 bp):
CATAACTTA
Found at i:57444818 original size:18 final size:18
Alignment explanation
Indices: 57444797--57445011 Score: 141
Period size: 18 Copynumber: 11.7 Consensus size: 18
57444787 ATTTGATATC
*
57444797 ATAATTTACATAACTTAT
1 ATAACTTACATAACTTAT
* * *
57444815 ATAACATATATAACTTAC
1 ATAACTTACATAACTTAT
* * *
57444833 ATAACTTATATAACATAC
1 ATAACTTACATAACTTAT
*
57444851 ATAACTTATATAACTTAT
1 ATAACTTACATAACTTAT
* *
57444869 ATAACTTAGATAA-ATAT
1 ATAACTTACATAACTTAT
*
57444886 ATAACTTACATAACTTAC
1 ATAACTTACATAACTTAT
*
57444904 ATAATACTTA-ATATATTTTATAT
1 AT-A-ACTTACATA-A--CT-TAT
*
57444927 CATAATTTACATAACTTAT
1 -ATAACTTACATAACTTAT
* *
57444946 ATAACTTAGATAA-ATAT
1 ATAACTTACATAACTTAT
* *
57444963 ATAATTTACATAA-ATAT
1 ATAACTTACATAACTTAT
* * * *
57444980 ATATCATATCATAAATTAC
1 ATAACTTA-CATAACTTAT
57444999 ATAACTTACATAA
1 ATAACTTACATAA
57445012 TACTTAAATA
Statistics
Matches: 157, Mismatches: 29, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
17 38 0.24
18 83 0.53
19 15 0.10
20 7 0.04
22 6 0.04
23 6 0.04
24 2 0.01
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (18 bp):
ATAACTTACATAACTTAT
Found at i:57444947 original size:104 final size:105
Alignment explanation
Indices: 57444812--57445035 Score: 285
Period size: 104 Copynumber: 2.2 Consensus size: 105
57444802 TTACATAACT
* * * *
57444812 TATATAACATAT-ATAACTTACATAACTTATATAACATACATAACTTATATAACTTATATAACTT
1 TATATATCATATCATAACTTACATAACTTATATAACATACATAA-ATATATAACTTACATAA-AT
*
57444876 AGATA-AATAT-ATAACTTACATAACTTACATAATACTT-AA
64 AGATATAATATCATAAATTACATAACTTACATAATACTTAAA
* * * * * * *
57444915 TATATTTTATATCATAATTTACATAACTTATATAACTTAGATAAATATATAATTTACATAAATAT
1 TATATATCATATCATAACTTACATAACTTATATAACATACATAAATATATAACTTACATAAATAG
*
57444980 ATATCATATCATAAATTACATAACTTACATAATACTTAAA
66 ATATAATATCATAAATTACATAACTTACATAATACTTAAA
57445020 TATATATCATATCATA
1 TATATATCATATCATA
57445036 CATAACTAGT
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
102 5 0.05
103 27 0.26
104 54 0.53
105 16 0.16
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (105 bp):
TATATATCATATCATAACTTACATAACTTATATAACATACATAAATATATAACTTACATAAATAG
ATATAATATCATAAATTACATAACTTACATAATACTTAAA
Found at i:57444948 original size:62 final size:62
Alignment explanation
Indices: 57444805--57445004 Score: 153
Period size: 62 Copynumber: 3.3 Consensus size: 62
57444795 TCATAATTTA
* * * * * * * *
57444805 CATAACTTATATAAC-ATATATAACTTACATAACTTATATAACATACATAACTTATATAACTTAT
1 CATAAATTACATAACTATATATAACTTACATAA-ATACATAA-TTACATAA-ATATATATCATAT
* * * * * *
57444869 -ATAACTTAGATAA--ATATATAACTTACATAACTTACATAA-TAC-TTAATATATTTTATAT
1 CATAAATTACATAACTATATATAACTTACATAA-ATACATAATTACATAAATATATATCATAT
* * *
57444927 CATAATTTACATAACT-TATATAACTTAGATAAATATATAATTTACATAAATATATATCATAT
1 CATAAATTACATAACTATATATAACTTACATAAATACATAA-TTACATAAATATATATCATAT
57444989 CATAAATTACATAACT
1 CATAAATTACATAACT
57445005 TACATAATAC
Statistics
Matches: 113, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
58 8 0.07
59 19 0.17
60 18 0.16
61 3 0.03
62 53 0.47
63 12 0.11
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.39
Consensus pattern (62 bp):
CATAAATTACATAACTATATATAACTTACATAAATACATAATTACATAAATATATATCATAT
Found at i:57450693 original size:21 final size:21
Alignment explanation
Indices: 57450660--57450710 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
57450650 ACAACTTAGA
*
57450660 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
57450681 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
57450702 GCAGAGGCA
1 GCAGAGGCA
57450711 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:57451011 original size:31 final size:31
Alignment explanation
Indices: 57450965--57451031 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
57450955 TGGTTGTATT
* *
57450965 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
57450996 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
57451027 TTTTA
1 TTTTA
57451032 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:57451130 original size:43 final size:42
Alignment explanation
Indices: 57451106--57451225 Score: 186
Period size: 43 Copynumber: 2.8 Consensus size: 42
57451096 GTAAAAAAAG
*
57451106 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCG-TTTTCCCACAAA
* * *
57451149 TGCTGCTAAAAGCCTTGACCTTTAGCGGCACTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGC-GTTTTCCCACAAA
57451192 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTT
57451226 TTTCCAATAA
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 4 0.06
43 65 0.94
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (42 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTCCCACAAA
Found at i:57457876 original size:17 final size:19
Alignment explanation
Indices: 57457849--57457886 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
57457839 AAAGTATCAC
57457849 TTTCATATCAA-TTAAGTG
1 TTTCATATCAACTTAAGTG
57457867 TTTC-TATCAACTTAAGTG
1 TTTCATATCAACTTAAGTG
57457885 TT
1 TT
57457887 AAATACTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (19 bp):
TTTCATATCAACTTAAGTG
Found at i:57461344 original size:31 final size:31
Alignment explanation
Indices: 57461279--57461345 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
57461269 AATTTAACTG
* * * *
57461279 GTGACCAAAAAAGAAATATTCGAATAGTTAA
1 GTGACCAAAAAAGAAAAAGTCAAATAATTAA
* *
57461310 GTGATCAAAAAAGAAAAAGTCAAATAATTGA
1 GTGACCAAAAAAGAAAAAGTCAAATAATTAA
57461341 GTGAC
1 GTGAC
57461346 TATTTTATCA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.52, C:0.09, G:0.18, T:0.21
Consensus pattern (31 bp):
GTGACCAAAAAAGAAAAAGTCAAATAATTAA
Found at i:57478149 original size:18 final size:17
Alignment explanation
Indices: 57478116--57478154 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
57478106 TTGTATAAAT
57478116 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
57478134 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
57478151 TGTG
1 TGTG
57478155 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:57478411 original size:23 final size:23
Alignment explanation
Indices: 57478381--57478477 Score: 142
Period size: 23 Copynumber: 4.3 Consensus size: 23
57478371 GTGTTATTGA
57478381 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
* *
57478404 TCAATGGTAGCTTTGGCTACA-T
1 TCAGTGGTAGCTTCGGCTACATT
* *
57478426 CCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
*
57478449 TCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
57478472 TCAGTG
1 TCAGTG
57478478 TGGCACTTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
22 19 0.29
23 47 0.71
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.32
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:57478446 original size:45 final size:45
Alignment explanation
Indices: 57478382--57478470 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
57478372 TGTTATTGAT
* *
57478382 CAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAATGGTAGCTTCGGCTACATC
*
57478427 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAATGGTAGCTTCGGCTACAT
57478471 ATCAGTGTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAATGGTAGCTTCGGCTACATC
Found at i:57501958 original size:18 final size:17
Alignment explanation
Indices: 57501925--57501963 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
57501915 TTGTATAAAT
57501925 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
57501943 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
57501960 TGTG
1 TGTG
57501964 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:57502220 original size:23 final size:23
Alignment explanation
Indices: 57502190--57502286 Score: 142
Period size: 23 Copynumber: 4.3 Consensus size: 23
57502180 GTGTTATTGA
57502190 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
* *
57502213 TCAATGGTAGCTTTGGCTACA-T
1 TCAGTGGTAGCTTCGGCTACATT
* *
57502235 CCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
*
57502258 TCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
57502281 TCAGTG
1 TCAGTG
57502287 TGGCACTTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
22 19 0.29
23 47 0.71
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.32
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:57502255 original size:45 final size:45
Alignment explanation
Indices: 57502191--57502279 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
57502181 TGTTATTGAT
* *
57502191 CAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAATGGTAGCTTCGGCTACATC
*
57502236 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAATGGTAGCTTCGGCTACAT
57502280 ATCAGTGTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAATGGTAGCTTCGGCTACATC
Found at i:57504586 original size:592 final size:592
Alignment explanation
Indices: 57503457--57504617 Score: 2079
Period size: 592 Copynumber: 2.0 Consensus size: 592
57503447 GGGTGTTACA
*
57503457 AAAAATTCAAATTGCTATGTGGAAATTCCTAAAACATTTTTTGCCTACAAGGTCAAGTTTATACA
1 AAAAATTCAAATTGCTATGTGGAAATTCCTAAAACATTTTTTGCCTACAAGATCAAGTTTATACA
57503522 ATAAGCGTATTACAAATGATCCTTTGTGTCTTAGATGTTATCAAGCTATTAAGGATATGAATTAT
66 ATAAGCGTATTACAAATGATCCTTTGTGTCTTAGATGTTATCAAGCTATTAAGGATATGAATTAT
*
57503587 GTCCTACGATACTGTGTTTTTGCAAAGGATGTGTGGTTAGCTTTACATTATGTTAGCTCAGGAAA
131 ATCCTACGATACTGTGTTTTTGCAAAGGATGTGTGGTTAGCTTTACATTATGTTAGCTCAGGAAA
* * *
57503652 TAATGAACATATCAACTTTCATTAATGGCTATCATGGATGTTTGAAAATCATTCTATGAATAAAA
196 TAATGAACAGATCAACTTTCATGAATGGCTATCATGAATGTTTGAAAATCATTCTATGAATAAAA
*
57503717 GAACTGAGATTGCAGTTGTGTTGTAGGCTATCTGGTATGCTAGAAATAAGATGCTATATAAGGGT
261 GAACTGAGATTGCAGTTGTGTTGTAGGCTATCTGGTATGCTAGAAATAAGATGCTACATAAGGGT
* * *
57503782 ACAAATGAGAAGATAGAGGATTTGGTTGCTTTTGTCTGAGGTTACTATGCGAAGATTAATGCGCT
326 ACAAACGAGAAGATAGAGGATTTGGTTGCTTTTGTCTGAGGTTACTATGCAAAGATTAAAGCGCT
* *
57503847 GGCTGAAAGTATATATTTGTCTCCTCCACCTCAAATTGTTCGCTAATGCCTTCTGTCGACATCTC
391 GGCTGAAAGTATATATTTGTCGCCTCCACCTCAAATTGTTCGCTAATCCCTTCTGTCGACATCTC
* * * * * *
57503912 TTGTCAAGATAAAAGTTGATGTTAGCTTTTCTCTTGCATAGAGAAAGGCATGTTCAAGAGTAATC
456 TTATCAAGATAAAAATTGATGCTAGCTTTTCCCTTGCATAAAAAAAGGCATGTTCAAGAGTAATC
*
57503977 ATTTGGGACGGACATGGACAAATTATGGGGGTGTTATAGTATCTAATACGCATGAATGCTCTCTT
521 ATTTGGGACGAACATGGACAAATTATGGGGGTGTTATAGTATCTAATACGCATGAATGCTCTCTT
57504042 GCCCTCT
586 GCCCTCT
** *
57504049 AAAAATTTGAATTGGTATGTGGAAATTCCTAAAACATTTTTTGCCTACAAGATCAAGTTTATACA
1 AAAAATTCAAATTGCTATGTGGAAATTCCTAAAACATTTTTTGCCTACAAGATCAAGTTTATACA
*
57504114 ATAAGCGTATTGCAAATGATCCTTTGTGTCTTAGATGTTATCAAGCTATTAAGGATATGAATTAT
66 ATAAGCGTATTACAAATGATCCTTTGTGTCTTAGATGTTATCAAGCTATTAAGGATATGAATTAT
57504179 ATCCTACGATACTGTGTTTTTGCAAAGGATGTGTGGTTAGCTTTACATTATGTTAGCTCAGGAAA
131 ATCCTACGATACTGTGTTTTTGCAAAGGATGTGTGGTTAGCTTTACATTATGTTAGCTCAGGAAA
*
57504244 TAATGAACAGATCAACTTTCATGAATGGCTATCATGAATGTTTGAAAATTATTCTATGAATAAAA
196 TAATGAACAGATCAACTTTCATGAATGGCTATCATGAATGTTTGAAAATCATTCTATGAATAAAA
* *
57504309 GAATTGAGATTGCAGTTGTGTTGTAGGCTATCTGGTATGCTAGAAATAAGCTGCTACATAAGGGT
261 GAACTGAGATTGCAGTTGTGTTGTAGGCTATCTGGTATGCTAGAAATAAGATGCTACATAAGGGT
* *
57504374 ACAAACGAGAGGGTAGAGGATTTGGTTGCTTTTGTCTGAGGTTACTATGCAAAGATTAAAGCGCT
326 ACAAACGAGAAGATAGAGGATTTGGTTGCTTTTGTCTGAGGTTACTATGCAAAGATTAAAGCGCT
57504439 GGCTGAAAGTATATATTTGTCGCCTCCACCTCAAATTGTTCGCTAATCCCTTCTGTCGACATCTC
391 GGCTGAAAGTATATATTTGTCGCCTCCACCTCAAATTGTTCGCTAATCCCTTCTGTCGACATCTC
57504504 TTATCAAGATAAAAATTGATGCTAGCTTTTCCCTTGCATAAAAAAAGGCATGTTCAAGAGTAATC
456 TTATCAAGATAAAAATTGATGCTAGCTTTTCCCTTGCATAAAAAAAGGCATGTTCAAGAGTAATC
57504569 ATTTGGGACGAACATGGACAAATTATGGGGGTGTTATAGTATCTAATAC
521 ATTTGGGACGAACATGGACAAATTATGGGGGTGTTATAGTATCTAATAC
57504618 AAACGTGATT
Statistics
Matches: 542, Mismatches: 27, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
592 542 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (592 bp):
AAAAATTCAAATTGCTATGTGGAAATTCCTAAAACATTTTTTGCCTACAAGATCAAGTTTATACA
ATAAGCGTATTACAAATGATCCTTTGTGTCTTAGATGTTATCAAGCTATTAAGGATATGAATTAT
ATCCTACGATACTGTGTTTTTGCAAAGGATGTGTGGTTAGCTTTACATTATGTTAGCTCAGGAAA
TAATGAACAGATCAACTTTCATGAATGGCTATCATGAATGTTTGAAAATCATTCTATGAATAAAA
GAACTGAGATTGCAGTTGTGTTGTAGGCTATCTGGTATGCTAGAAATAAGATGCTACATAAGGGT
ACAAACGAGAAGATAGAGGATTTGGTTGCTTTTGTCTGAGGTTACTATGCAAAGATTAAAGCGCT
GGCTGAAAGTATATATTTGTCGCCTCCACCTCAAATTGTTCGCTAATCCCTTCTGTCGACATCTC
TTATCAAGATAAAAATTGATGCTAGCTTTTCCCTTGCATAAAAAAAGGCATGTTCAAGAGTAATC
ATTTGGGACGAACATGGACAAATTATGGGGGTGTTATAGTATCTAATACGCATGAATGCTCTCTT
GCCCTCT
Found at i:57517535 original size:20 final size:20
Alignment explanation
Indices: 57517510--57517548 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
57517500 AAAGCTGGCC
57517510 ACATGTTTAAGCATAATCAT
1 ACATGTTTAAGCATAATCAT
57517530 ACATGTTTAAGCATAATCA
1 ACATGTTTAAGCATAATCA
57517549 CATAATATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.33
Consensus pattern (20 bp):
ACATGTTTAAGCATAATCAT
Found at i:57522297 original size:21 final size:22
Alignment explanation
Indices: 57522273--57522318 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
57522263 AAAGTTAAAT
57522273 TTTATTATTAACAAAT-TTTAG
1 TTTATTATTAACAAATATTTAG
**
57522294 TTTATTATTAATTAATATTTAG
1 TTTATTATTAACAAATATTTAG
57522316 TTT
1 TTT
57522319 TAAGTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (22 bp):
TTTATTATTAACAAATATTTAG
Found at i:57522489 original size:13 final size:13
Alignment explanation
Indices: 57522473--57522521 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
57522463 TTAAATTGAA
57522473 TATTTTAAATTTT
1 TATTTTAAATTTT
*
57522486 TATTTTGAAATAAATT
1 TATTTT-AAAT--TTT
*
57522502 TACTTTAAATTTT
1 TATTTTAAATTTT
57522515 TATTTTA
1 TATTTTA
57522522 TTCTAATTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 14 0.48
14 4 0.14
15 4 0.14
16 7 0.24
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (13 bp):
TATTTTAAATTTT
Found at i:57524626 original size:20 final size:20
Alignment explanation
Indices: 57524598--57524637 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
57524588 ATATATCTTG
* *
57524598 ATTTTATTTTATTCTAATCA
1 ATTTGATTTGATTCTAATCA
*
57524618 ATTTGATTTGATTTTAATCA
1 ATTTGATTTGATTCTAATCA
57524638 GATTGACTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.57
Consensus pattern (20 bp):
ATTTGATTTGATTCTAATCA
Found at i:57525133 original size:20 final size:21
Alignment explanation
Indices: 57525091--57525147 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
57525081 TGAATTTTAA
*
57525091 ATATAAATATTTATTTTATTTT
1 ATATAAATATTT-GTTTATTTT
57525113 ATATAAATATTTGTTTA-TTT
1 ATATAAATATTTGTTTATTTT
**
57525133 ATATTCATATTTGTT
1 ATATAAATATTTGTT
57525148 CGCTATCGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 16 0.50
21 4 0.12
22 12 0.38
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (21 bp):
ATATAAATATTTGTTTATTTT
Found at i:57525516 original size:87 final size:86
Alignment explanation
Indices: 57525262--57525512 Score: 310
Period size: 87 Copynumber: 2.9 Consensus size: 86
57525252 TGAAATAAAA
* * * * * * * *
57525262 ATTAAAATTGAATAAAATCTATTTTGGGATTTATTCCCGCTGTTCAACAGATTTTATTCTATTTT
1 ATTAAAATTAAATAAAATCTGTTTTGAGATTTATTCCCTCTGTTTAATA-ATTTTATTCCAATTT
* *
57525327 TTATTTTATTTCCAAAATAAGT
65 TGATTTTATTTCCAAAACAAGT
*
57525349 ATTAAAATTAAATAAAATCTG-TTTCAGGATTTATTCCCGTC-GTTTAACTAATTTTATTCCAAT
1 ATTAAAATTAAATAAAATCTGTTTTGA-GATTTATTCCC-TCTGTTTAA-TAATTTTATTCCAAT
* *
57525412 TTTGATTTTGTTTCCAAAACGAGT
63 TTTGATTTTATTTCCAAAACAAGT
*
57525436 ATTAAAATTAAATAAAATCTGTTTTGAGATTTATTCTCTCTGTTTAATGAATTTTATTCCAATTT
1 ATTAAAATTAAATAAAATCTGTTTTGAGATTTATTCCCTCTGTTTAAT-AATTTTATTCCAATTT
57525501 TGATTTT-TTTCC
65 TGATTTTATTTCC
57525513 CAAATGAGAA
Statistics
Matches: 143, Mismatches: 15, Indels: 13
0.84 0.09 0.08
Matches are distributed among these distances:
86 11 0.08
87 126 0.88
88 6 0.04
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.47
Consensus pattern (86 bp):
ATTAAAATTAAATAAAATCTGTTTTGAGATTTATTCCCTCTGTTTAATAATTTTATTCCAATTTT
GATTTTATTTCCAAAACAAGT
Found at i:57525844 original size:91 final size:95
Alignment explanation
Indices: 57525663--57525848 Score: 218
Period size: 91 Copynumber: 2.0 Consensus size: 95
57525653 CTCATTTTGA
* * * *
57525663 AAATAAAATAAAAAATGGAATGAAATCTATTGAAGGACAGTAATAAATTCCGGAACAGATTTTAT
1 AAATAAAAT-AAAAATGGAATGAAATCCATTGAAGGACAGGAATAAATCCCGAAACAGATTTTAT
* * *
57525728 TTAACTTTAATTCTTGTTTGGAAATAAAATG
65 TCAACTTTAATTCTTATTTGCAAATAAAATG
* *
57525759 AAATAAAAT-AAAAT-GAATGAAATCCGTTGAA-G-CAGGAATAAATCCCGAAATAGATTTTATT
1 AAATAAAATAAAAATGGAATGAAATCCATTGAAGGACAGGAATAAATCCCGAAACAGATTTTATT
* * * *
57525820 CAATTTTTATTTTTATTTTCAAATAAAAT
66 CAACTTTAATTCTTATTTGCAAATAAAAT
57525849 ACAATTCGTT
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
91 47 0.61
92 1 0.01
93 15 0.19
94 5 0.06
96 9 0.12
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (95 bp):
AAATAAAATAAAAATGGAATGAAATCCATTGAAGGACAGGAATAAATCCCGAAACAGATTTTATT
CAACTTTAATTCTTATTTGCAAATAAAATG
Found at i:57527151 original size:20 final size:20
Alignment explanation
Indices: 57527114--57527152 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
57527104 ATAGGGACTA
* * *
57527114 TATTAAATTAGTCTATTTAT
1 TATTAAATGAATCAATTTAT
57527134 TATTAAATGAATCAATTTA
1 TATTAAATGAATCAATTTA
57527153 GTCCTTTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (20 bp):
TATTAAATGAATCAATTTAT
Found at i:57527501 original size:58 final size:58
Alignment explanation
Indices: 57527439--57527557 Score: 211
Period size: 58 Copynumber: 2.1 Consensus size: 58
57527429 TATAATATAG
* *
57527439 GGATCTCCCAAGTACTTAATAATAAAGGGGTCTGTTTGTTTCATTGAAAGTAACTTTT
1 GGATCTCCCAAGTACTTAATAATAAAGGGATCTGTTTGTTTCACTGAAAGTAACTTTT
*
57527497 GGATCTCCCAAGTACTTAATAATAAAGGGATCTGTTTGTTTCACTGAAAGTAGCTTTT
1 GGATCTCCCAAGTACTTAATAATAAAGGGATCTGTTTGTTTCACTGAAAGTAACTTTT
57527555 GGA
1 GGA
57527558 AAATGATTTA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.36
Consensus pattern (58 bp):
GGATCTCCCAAGTACTTAATAATAAAGGGATCTGTTTGTTTCACTGAAAGTAACTTTT
Found at i:57531596 original size:3 final size:3
Alignment explanation
Indices: 57531588--57531625 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
57531578 TAATATGTAA
57531588 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
57531626 ATAAATAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:57531790 original size:3 final size:3
Alignment explanation
Indices: 57531782--57531944 Score: 82
Period size: 3 Copynumber: 53.0 Consensus size: 3
57531772 TATATGAATA
* * *
57531782 AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AGTT AAGT AGAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA-T A-AT AAT
* * * * * * *
57531830 AAT AAT AGT ACATT AAC AAG ACA- AAT AAT -AT AAT AAC AGT GAT AGT
1 AAT AAT AAT A-A-T AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * **
57531876 ATT AA- AGAA AAT AAT AAT ACT AAT AAT AGT AAT AA- ATAT AAT GGT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
57531921 AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
57531945 CATCTAAACT
Statistics
Matches: 120, Mismatches: 28, Indels: 24
0.70 0.16 0.14
Matches are distributed among these distances:
2 5 0.04
3 103 0.86
4 9 0.08
5 3 0.03
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:57532432 original size:30 final size:30
Alignment explanation
Indices: 57532396--57532510 Score: 185
Period size: 30 Copynumber: 3.8 Consensus size: 30
57532386 ACTTTTCTTA
*
57532396 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
57532426 ACTAGCCACACCTTTTCCACCACTAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
57532456 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
57532486 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
57532511 CTTGTACCTA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 77 1.00
ACGTcount: A:0.25, C:0.49, G:0.03, T:0.23
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:57532461 original size:60 final size:60
Alignment explanation
Indices: 57532396--57532508 Score: 208
Period size: 60 Copynumber: 1.9 Consensus size: 60
57532386 ACTTTTCTTA
*
57532396 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACTAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACTAACTCC
*
57532456 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCAC
1 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCAC
57532509 CACTTGTACC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.25, C:0.49, G:0.04, T:0.23
Consensus pattern (60 bp):
ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACTAACTCC
Found at i:57533035 original size:23 final size:23
Alignment explanation
Indices: 57532998--57533127 Score: 74
Period size: 23 Copynumber: 5.5 Consensus size: 23
57532988 CCTTTTTTGC
57532998 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
57533021 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
57533043 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* *
57533066 TATTACGTATATATATTTTATACTATTT
1 TATTA--TATATAT-TCTTA-A-TATTA
57533094 TATT-TATATA-TCTTTAATATTA
1 TATTATATATATTC-TTAATATTA
*
57533116 TATTATTTATAT
1 TATTATATATAT
57533128 ATATATATTT
Statistics
Matches: 81, Mismatches: 12, Indels: 27
0.68 0.10 0.22
Matches are distributed among these distances:
21 3 0.04
22 23 0.28
23 25 0.31
24 7 0.09
25 11 0.14
26 1 0.01
27 3 0.04
28 6 0.07
29 1 0.01
30 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:57533091 original size:25 final size:25
Alignment explanation
Indices: 57533015--57533213 Score: 95
Period size: 25 Copynumber: 7.8 Consensus size: 25
57533005 ATATTTCTTA
* * *
57533015 ATATTATATTATATATATTCTTTTAAT
1 ATATTAT-GTATATATATT-TTATACT
* ** *
57533042 ATATTAGGTATAT-T-TTAAATTCT
1 ATATTATGTATATATATTTTATACT
*
57533065 ATATTACGTATATATATTTTATACT
1 ATATTATGTATATATATTTTATACT
* * * * *
57533090 ATTTTATTTATATATCTTTAATATT
1 ATATTATGTATATATATTTTATACT
* *
57533115 ATATTATTTATATATATATATTTCTAC-
1 ATATTA--TGTATATATAT-TTTATACT
* * *
57533142 ATGTTATCTTATGTATATATCTTA-ACT
1 ATATTAT-GTA--TATATATTTTATACT
*
57533169 ATATTATGTATATAT-TTTTAACACT
1 ATATTATGTATATATATTTT-ATACT
*
57533194 ATATTATGTACATAT-TTTTA
1 ATATTATGTATATATATTTTA
57533214 ATATTATCAC
Statistics
Matches: 130, Mismatches: 31, Indels: 25
0.70 0.17 0.13
Matches are distributed among these distances:
23 17 0.13
24 10 0.08
25 53 0.41
26 11 0.08
27 28 0.22
28 11 0.08
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.55
Consensus pattern (25 bp):
ATATTATGTATATATATTTTATACT
Found at i:57533352 original size:16 final size:16
Alignment explanation
Indices: 57533333--57533413 Score: 69
Period size: 16 Copynumber: 4.8 Consensus size: 16
57533323 ATTTCTATTT
57533333 TATTTT-TTATTTTCAA
1 TATTTTATTATTTT-AA
57533349 TATTAATTATTATTATTCTAA
1 TATT--TTATTA-T-TT-TAA
57533370 TATTTTGA-TATTTTAA
1 TATTTT-ATTATTTTAA
57533386 TATTTTA-TATTTTATA
1 TATTTTATTATTTTA-A
57533402 TATTTTATTATT
1 TATTTTATTATT
57533414 CACATCATTG
Statistics
Matches: 56, Mismatches: 0, Indels: 17
0.77 0.00 0.23
Matches are distributed among these distances:
15 8 0.14
16 21 0.38
17 6 0.11
18 3 0.05
19 7 0.12
20 2 0.04
21 8 0.14
22 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.65
Consensus pattern (16 bp):
TATTTTATTATTTTAA
Found at i:57533397 original size:7 final size:8
Alignment explanation
Indices: 57533362--57533413 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
57533352 TAATTATTAT
*
57533362 TATTCTAA
1 TATTTTAA
*
57533370 TATTTTGA
1 TATTTTAA
57533378 TATTTTAA
1 TATTTTAA
57533386 TATTTT-A
1 TATTTTAA
57533393 TATTTTATA
1 TATTTTA-A
*
57533402 TATTTTAT
1 TATTTTAA
57533410 TATT
1 TATT
57533414 CACATCATTG
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:57541838 original size:71 final size:70
Alignment explanation
Indices: 57541716--57541891 Score: 221
Period size: 71 Copynumber: 2.5 Consensus size: 70
57541706 CTTTCCAAGG
** *
57541716 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
*
57541780 TTTTTT
65 TGTTTT
** *
57541786 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
57541851 TGTTTT
65 TGTTTT
** * *
57541857 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
57541892 TTTAATTTTT
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
69 31 0.33
71 60 0.65
72 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTTT
Found at i:57542023 original size:75 final size:74
Alignment explanation
Indices: 57541909--57542247 Score: 441
Period size: 75 Copynumber: 4.5 Consensus size: 74
57541899 TTTGTTTTTC
*
57541909 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
57541974 GTTGTTAAAA
66 GTT-TTAAAA
**
57541984 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
57542049 GTTTT--CA
66 GTTTTAAAA
* * ** * * * * *
57542056 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACAGGTTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
57542121 GTTTTCAAAAA
66 GTTTT--AAAA
* * *
57542132 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
57542196 TCTGTTTTTAAAA
63 TCTG-TTTTAAAA
*
57542209 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
57542248 ATTACACACT
Statistics
Matches: 234, Mismatches: 21, Indels: 15
0.87 0.08 0.06
Matches are distributed among these distances:
72 64 0.27
74 2 0.01
75 66 0.28
76 35 0.15
77 39 0.17
78 24 0.10
79 4 0.02
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTAAAA
Found at i:57542106 original size:72 final size:72
Alignment explanation
Indices: 57541895--57542247 Score: 395
Period size: 72 Copynumber: 4.7 Consensus size: 72
57541885 TAAGCCTTTT
* *
57541895 AATTTTTGTTTTTC-AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
57541959 GTAATTTC
65 GTAATTTC
* **
57541967 AATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTG
1 AATTTCTGTT-TT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
57542032 AGGTAATTTC
63 AGGTAATTTC
* * ** * * *
57542042 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACAGGTTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
*
57542107 TATTTTC
66 TAATTTC
* * *
57542114 AATTTTTGTTTTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACAT
1 AATTTCTGTTTTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACAC
*
57542178 GCTGAGGTATTTTC
59 GCTGAGGTAATTTC
* *
57542192 AATTTCTGTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AATTTCTG-TTTT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
57542248 ATTACACACT
Statistics
Matches: 243, Mismatches: 23, Indels: 24
0.84 0.08 0.08
Matches are distributed among these distances:
71 2 0.01
72 74 0.30
74 2 0.01
75 66 0.27
76 35 0.14
77 36 0.15
78 24 0.10
79 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (72 bp):
AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTC
Found at i:57542318 original size:210 final size:205
Alignment explanation
Indices: 57542059--57542447 Score: 521
Period size: 210 Copynumber: 1.9 Consensus size: 205
57542049 GTTTTCAAAA
* * * * *
57542059 TTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACAGGTTGAGGTATTTTCAATTTTTGTT
1 TTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
* * ** * *
57542124 -TTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTA
66 GTT-AAAAAAAAATAAACTCATATTGCGAGAAATGAGTTGAACCTCAGG---ACACGCTGAGGTA
* **
57542187 TTTTCAATTTCTGTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTA
127 ATTTCAATTTCTGTTTTT---AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCTTCAGATTA
57542252 CACACTGTGGTATTTTT
189 CACACTGTGGTATTTTT
* ** *
57542269 TTCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
1 TTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
57542334 GTTAAAAAAAAATAAACTCATATTGCGAGAAATGAGTTGAACCTCAGGACACGCTGAGGTAATTT
66 GTTAAAAAAAAATAAACTCATATTGCGAGAAATGAGTTGAACCTCAGGACACGCTGAGGTAATTT
* *
57542399 CAATTTCTGTTTTTAAAATTCAACTTATATTGCGAGAAATGAGTTGAGC
131 CAATTTCTGTTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
57542448 CTCAAGACAC
Statistics
Matches: 157, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
205 31 0.20
208 29 0.18
210 93 0.59
211 4 0.03
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (205 bp):
TTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
GTTAAAAAAAAATAAACTCATATTGCGAGAAATGAGTTGAACCTCAGGACACGCTGAGGTAATTT
CAATTTCTGTTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCTTCAGATTACACACTG
TGGTATTTTT
Found at i:57542398 original size:76 final size:76
Alignment explanation
Indices: 57542270--57542608 Score: 420
Period size: 78 Copynumber: 4.5 Consensus size: 76
57542260 GGTATTTTTT
*
57542270 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT-
57542335 TT-AAAAAAAAA
65 TTAAAAAAAAAA
* ** *
57542346 TAAACTCATATTGCGAGAAATGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
* *
57542411 T----TAAAAT
66 TAAAAAAAAAA
* ** * * *
57542418 TCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
57542483 TCAAAAAAAAAAA
66 T--AAAAAAAAAA
* * * *
57542496 TCAACTTATATTACGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATTTCTG
57542560 TTTTAAAAAAAAAA
63 TTTTAAAAAAAAAA
*
57542574 TCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
57542609 ATTACACACT
Statistics
Matches: 229, Mismatches: 24, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
72 64 0.28
75 2 0.01
76 59 0.26
77 1 0.00
78 74 0.32
79 1 0.00
80 28 0.12
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (76 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
TAAAAAAAAAA
Found at i:57542431 original size:358 final size:357
Alignment explanation
Indices: 57541716--57542694 Score: 1462
Period size: 358 Copynumber: 2.8 Consensus size: 357
57541706 CTTTCCAAGG
* * *
57541716 AAAA-TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
* * * * * *
57541780 TTTTTTC-----AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGG--GACACGCCGAGG
66 TGTTTTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGG
* * * ** *
57541838 TATTTTTAGTTTATG-TTTT-----AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTT----
131 TATTTTCAATTTCTGTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGA
* * * **
57541893 TT--A-ATTTTTGT-TTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACG
195 TTACACACTGTGGTATTTT---TTTCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACG
* *
57541954 CTGAGGTAATTTCAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
257 CTGAGGTAATTTCAATTTCTGTTGTTAAAAAAAATAAACTCATATTGCGAGAAATGAGTTGAACC
57542019 TCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTC
322 TCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTC
*
57542055 AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACAGGTTGAGGTATTTTCAATTTT
1 AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
57542120 TGTTTTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGG
66 TGTTTTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGG
57542185 TATTTTCAATTTCTGTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
131 TATTTTCAATTTCTGTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
57542250 TACACACTGTGGTATTTTTTTCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGA
196 TACACACTGTGGTATTTTTTTCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGA
57542315 GGTAATTTCAATTTCTGTTGTTAAAAAAAAATAAACTCATATTGCGAGAAATGAGTTGAACCTCA
261 GGTAATTTCAATTTCTGTTGTT-AAAAAAAATAAACTCATATTGCGAGAAATGAGTTGAACCTCA
*
57542380 GGACACGCTGAGGTAATTTCAATTTCTGTTTTT
325 GGACACGCTGAGGTAATTTCAATTTCTGTTTTC
*
57542413 AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
*
57542478 TGTTTTCAAAAAAAAAAATCAACTTATATTACGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGA
66 TGTTTTC--AAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGA
*
57542543 GGTATTTTCAATTTCTGTTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCA
129 GGTATTTTCAATTTCTGTTTT-TAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCA
* * *
57542608 GATTACACACTGTGGTATTTTTTTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
193 GATTACACACTGTGGTATTTTTTTCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGC
57542673 TGAGGTAATTTCAATTTCTGTT
258 TGAGGTAATTTCAATTTCTGTT
57542695 TGTCAAGAAT
Statistics
Matches: 583, Mismatches: 31, Indels: 30
0.91 0.05 0.05
Matches are distributed among these distances:
339 4 0.01
340 62 0.11
345 37 0.06
347 21 0.04
348 4 0.01
352 3 0.01
353 29 0.05
356 2 0.00
357 67 0.11
358 143 0.25
359 5 0.01
360 80 0.14
361 126 0.22
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (357 bp):
AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
TGTTTTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGG
TATTTTCAATTTCTGTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
TACACACTGTGGTATTTTTTTCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGA
GGTAATTTCAATTTCTGTTGTTAAAAAAAATAAACTCATATTGCGAGAAATGAGTTGAACCTCAG
GACACGCTGAGGTAATTTCAATTTCTGTTTTC
Found at i:57542843 original size:72 final size:73
Alignment explanation
Indices: 57542762--57542903 Score: 223
Period size: 72 Copynumber: 2.0 Consensus size: 73
57542752 TCAAAATCAG
* * * *
57542762 CTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTG-TGTTTT
1 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGCATTTTCAATTTTCGTTGTTTT
57542826 AATTTCAA
66 AATTTCAA
* *
57542834 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGCATTTTCAATTTTCGTTTTTTT
1 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGCATTTTCAATTTTCGTTGTTTT
57542899 AATTT
66 AATTT
57542904 ATGTTTAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 53 0.84
73 10 0.16
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (73 bp):
CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGCATTTTCAATTTTCGTTGTTTT
AATTTCAA
Found at i:57543015 original size:71 final size:72
Alignment explanation
Indices: 57542899--57543122 Score: 252
Period size: 73 Copynumber: 3.1 Consensus size: 72
57542889 TCGTTTTTTT
* * * *
57542899 AATTTATGTTTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA-AGACGCTGAGG
1 AATTTATGTTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGG
57542963 TAATTTC
66 TAATTTC
* ** *
57542970 AATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTATGTTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACGCTGAG
** *
57543035 GTGGTTTT
65 GTAATTTC
* * * **
57543043 AATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTG
1 AATTTATGTTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CAGACACGCTG
*
57543108 AGGTATTTTC
63 AGGTAATTTC
57543118 AATTT
1 AATTT
57543123 CTGGTTTTCA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
71 48 0.38
73 57 0.45
74 1 0.01
75 20 0.16
76 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (72 bp):
AATTTATGTTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGG
TAATTTC
Found at i:57543073 original size:73 final size:71
Alignment explanation
Indices: 57542895--57543093 Score: 263
Period size: 73 Copynumber: 2.8 Consensus size: 71
57542885 ATTTTCGTTT
* * *
57542895 TTTTAATTTATGTTTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACGCTG
1 TTTTAATTTATGTTTATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCTG
57542960 AGGTAA
66 AGGTAA
* * * *
57542966 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTAATTTATGTTTATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--ACACGC
**
57543031 TGAGGTGG
64 TGAGGTAA
* * * *
57543039 TTTTAATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCT
1 TTTTAATTTATGTTTATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
57543094 TGGCTCACAC
Statistics
Matches: 109, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
71 51 0.47
73 58 0.53
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.33
Consensus pattern (71 bp):
TTTTAATTTATGTTTATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCTG
AGGTAA
Found at i:57543132 original size:14 final size:14
Alignment explanation
Indices: 57543113--57543147 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
57543103 CGCTGAGGTA
57543113 TTTTCAATTTCTGG
1 TTTTCAATTTCTGG
*
57543127 TTTTCAATTTCTGT
1 TTTTCAATTTCTGG
57543141 TTTTCAA
1 TTTTCAA
57543148 AAATCGACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.09, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGG
Found at i:57543191 original size:162 final size:161
Alignment explanation
Indices: 57542966--57543572 Score: 607
Period size: 162 Copynumber: 3.8 Consensus size: 161
57542956 GCTGAGGTAA
* *
57542966 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* * *
57543031 TGAGGTGGTTTTAATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTG
66 TGAGGTGATTTTAATTTATGTTCATAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
57543096 GCTCACACGCTGAGGTATTTTCAATTTCTGGT
131 GCTCACACGCTGAGGTATTTTCAATTTCT-GT
* *
57543128 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* * * ** * *
57543193 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
66 TGAGGTGATTTTAATTTATGTTCATAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
* *
57543258 GCTCACATGCTGAGGTCTTTTCAATTTCTGT
131 GCTCACACGCTGAGGTATTTTCAATTTCTGT
* ***
57543289 TCTTTAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 T-TTCAATTTCTGTT--T-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* * * ** * **
57543354 ACGCTGAGGTAATTTCAATTTCTGTT--TTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAG
62 ACGCTGAGGTGATTTTAATTTATGTTCATAAAAAATT-AACTCATATTGCGAGAGGTGAGTTGAG
** *
57543417 CC-T--CAAGACACGTTGAGGTATTTTCAATTTCTGT
126 CCTTGGC-TCACACGCTGAGGTATTTTCAATTTCTGT
*** * *
57543451 TTTCAA---------AAAAAAAATTAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACA
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACA
* * * * *
57543506 TGCTGAGGT-ATTTTCAATTTCTGTTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
63 CGCTGAGGTGATTTT-AATTTATG---TTCATAAAAAATTAACTCATATTGCGAGAGGTGAGTTG
57543570 AGC
124 AGC
57543573 TTCAGATTAC
Statistics
Matches: 385, Mismatches: 45, Indels: 37
0.82 0.10 0.08
Matches are distributed among these distances:
148 2 0.01
149 39 0.10
150 4 0.01
151 19 0.05
154 2 0.01
155 25 0.06
156 5 0.01
161 8 0.02
162 180 0.47
163 7 0.02
164 27 0.07
165 67 0.17
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (161 bp):
TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTGATTTTAATTTATGTTCATAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
GCTCACACGCTGAGGTATTTTCAATTTCTGT
Found at i:57543247 original size:73 final size:72
Alignment explanation
Indices: 57543127--57543289 Score: 236
Period size: 73 Copynumber: 2.2 Consensus size: 72
57543117 CAATTTCTGG
**
57543127 TTTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACG
1 TTTTCAATTTCTG-TTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACG
57543192 CTGAGGTA
65 CTGAGGTA
* *
57543200 ATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACA
1 TTTTCAATTTCTGTTT-TCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACA
* *
57543265 TGCTGAGGTC
63 CGCTGAGGTA
57543275 TTTTCAATTTCTGTT
1 TTTTCAATTTCTGTT
57543290 CTTTAATTTC
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
72 3 0.04
73 52 0.65
75 25 0.31
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (72 bp):
TTTTCAATTTCTGTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
TGAGGTA
Found at i:57543572 original size:78 final size:76
Alignment explanation
Indices: 57543294--57543577 Score: 353
Period size: 72 Copynumber: 3.8 Consensus size: 76
57543284 TCTGTTCTTT
**
57543294 AATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
1 AATTTCTGTTTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
*
57543359 GAGGTAATTTC
66 GAGGTATTTTC
* * * ** * *
57543370 AATTTCTG-TTTT---CAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
1 AATTTCTGTTTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
57543431 GAGGTATTTTC
66 GAGGTATTTTC
* * *
57543442 AATTTCTGTTTTCAAAAAAAAAATTAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACA
1 AATTTCTGTTTT-TAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACA
*
57543506 TGCTGAGGTATTTTC
62 CGCTGAGGTATTTTC
* *
57543521 AATTTCTGTTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AATTTCTGTTTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
57543578 ATTACACACT
Statistics
Matches: 175, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
72 60 0.34
73 3 0.02
75 2 0.01
76 9 0.05
77 34 0.19
78 38 0.22
79 29 0.17
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (76 bp):
AATTTCTGTTTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTATTTTC
Found at i:57543728 original size:969 final size:968
Alignment explanation
Indices: 57541891--57544273 Score: 3726
Period size: 970 Copynumber: 2.5 Consensus size: 968
57541881 GAGTTAAGCC
** *
57541891 TTTT-AATTTTTGT-TTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTTTTGTGTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* *
57541954 CTGAGGTAATTTCAA-TTTC----------TGT-TG-TTAAAAAAAATCAACTCATATTGCGAGA
65 CTGAGGTATTTTCAATTTTCGTTTTTTTAATTTATGTTTAAAAAAAATCAACTCATATTGCGAGA
* * * * *
57542006 AATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT-TCAAAATTCAACTTATA
130 AGTGAGTTGAGCCTCA--AGACGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATA
** * * * * * *
57542070 TTGCGAGAAATGAGTTGAGCCTCAAGACAGGTTGAGGT-ATTTTCAATTTTTGTTTTCAAAAAAA
193 TTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTT-AATTTATG--TTC-ATAAAA
* * * * * * *
57542134 AATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTTCT
254 AATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTTCT
* * * * **
57542199 -GTTTTTAA-----------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTA
319 GGTTTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGA
* * *
57542252 CACACTGTGG-----T--A-TT-T-TTT-TC-------AACTCATATTGCTAGAGGTGAGTTGAG
382 CACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAG
*
57542299 CCTCAGG---ACACGCTGAGG-----TAA----T-TTC--AATTTCTGTTGTTAAAAAAAAATAA
447 CCTC-GGCTCACATGCTGAGGTCTTTTAATTTCTGTTCTTAATTTCTGTTGTTAAAAAAAAATAA
*
57542349 ACTCATATTGCGAGAAATGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTTA
511 ACTCATATTGCGAGAAATGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCA
57542414 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
576 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
57542479 GTTTTCAAAAAAAAAAATCAACTTATATTACGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAG
641 GTTTTCAAAAAAAAAAATCAACTTATATTACGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAG
57542544 GTATTTTCAATTTCTGTTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
706 GTATTTTCAATTTCTGTTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
57542609 ATTACACACTGTGGTATTTTTTTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
771 ATTACACACTGTGGTATTTTTTTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
57542674 GAGGTAATTTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTT
836 GAGGTAATTTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTT
57542739 AATTTCTACTTTTTCAAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAG
901 AATTTCTACTTTTTCAAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAG
57542804 GTA
966 GTA
57542807 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
57542872 TGAGGCATTTTCAATTTTCGTTTTTTTAATTTATGTTTAAAAAAAATCAACTCATATTGCGAGAA
66 TGAGGTATTTTCAATTTTCGTTTTTTTAATTTATGTTTAAAAAAAATCAACTCATATTGCGAGAA
57542937 GTGAGTTGAGCCTCAAGACGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTG
131 GTGAGTTGAGCCTCAAGACGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTG
57543002 CGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTATGTTCATAAAAAATTAGC
196 CGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTATGTTCATAAAAAATTAGC
57543067 TCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTTCTGGTTTTC
261 TCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTTCTGGTTTTC
57543132 AATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAG
326 AATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAG
57543197 GTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTC
391 GTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTC
*
57543262 ACATGCTGAGGTCTTTTCAATTTCTGTTCTTTAATTTCTGTTCG-TAAAAAAAAATCAACTCATA
456 ACATGCTGAGGTCTTTT-AATTTCTGTTC-TTAATTTCTGTT-GTTAAAAAAAAATAAACTCATA
** *
57543326 TTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCA
518 TTGCGAGAAATGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCA
57543391 ACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTC-
583 ACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCA
* *
57543455 AAAAAAAAAATTAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTT
648 AAAAAAAAAATCAACTTATATTACGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTT
**
57543520 CAATTTCTGTTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACAC
713 CAATTTCTGTTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACAC
57543585 ACTGTGGTATTTTTTTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAA
778 ACTGTGGTATTTTTTTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAA
*
57543650 TTTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGTTTGAACCTTTTAATTTCT
843 TTTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCT
57543715 ACTTTTTCAAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTA
908 ACTTTTTCAAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTA
57543776 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
57543841 TGAGGTATTTTCGATTTTCGTTTTTTTAATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGA
66 TGAGGTATTTTCAATTTTCGTTTTTTTAATTTATGTTT-AAAAAAAATCAACTCATATTGCGAGA
57543906 AGTGAGTTGAGCCTCAAGACGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATT
130 AGTGAGTTGAGCCTCAAGACGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATT
57543971 GCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTATGTTCATAAAAAATTAG
195 GCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTATGTTCATAAAAAATTAG
57544036 CTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTTCTGGTTTT
260 CTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTTCTGGTTTT
57544101 CAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
325 CAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
*
57544166 GGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCT
390 GGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCT
57544231 CACATGCTGAGGTCTTTTTAATTTCTGCTT-TTCAATTTCTGTT
455 CACATGCTGAGGTC-TTTTAATTTCTG-TTCTT-AATTTCTGTT
57544274 TTTTCAATTT
Statistics
Matches: 1349, Mismatches: 49, Indels: 84
0.91 0.03 0.06
Matches are distributed among these distances:
916 4 0.00
917 64 0.05
918 8 0.01
926 63 0.05
927 10 0.01
928 29 0.02
929 57 0.04
930 47 0.03
936 9 0.01
937 1 0.00
938 36 0.03
941 1 0.00
943 1 0.00
944 2 0.00
945 1 0.00
946 3 0.00
947 2 0.00
953 2 0.00
954 30 0.02
956 10 0.01
961 1 0.00
962 2 0.00
966 1 0.00
967 3 0.00
969 419 0.31
970 536 0.40
971 7 0.01
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (968 bp):
TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTATTTTCAATTTTCGTTTTTTTAATTTATGTTTAAAAAAAATCAACTCATATTGCGAGAA
GTGAGTTGAGCCTCAAGACGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTG
CGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTATGTTCATAAAAAATTAGC
TCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTTCTGGTTTTC
AATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAG
GTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTC
ACATGCTGAGGTCTTTTAATTTCTGTTCTTAATTTCTGTTGTTAAAAAAAAATAAACTCATATTG
CGAGAAATGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACT
TATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAAA
AAAAAAATCAACTTATATTACGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAA
TTTCTGTTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACACACT
GTGGTATTTTTTTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTT
CAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
TTTTCAAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTA
Found at i:57543812 original size:72 final size:73
Alignment explanation
Indices: 57543731--57543872 Score: 223
Period size: 72 Copynumber: 2.0 Consensus size: 73
57543721 TCAAAATCAG
* * *
57543731 CTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTG-TGTTTT
1 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTGTTTT
57543795 AATTTCAA
66 AATTTCAA
* * *
57543803 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCGATTTTCGTTTTTTT
1 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTGTTTT
57543868 AATTT
66 AATTT
57543873 ATGTTTCAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 53 0.84
73 10 0.16
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.39
Consensus pattern (73 bp):
CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTGTTTT
AATTTCAA
Found at i:57543985 original size:71 final size:72
Alignment explanation
Indices: 57543868--57544092 Score: 254
Period size: 73 Copynumber: 3.1 Consensus size: 72
57543858 TCGTTTTTTT
* * *
57543868 AATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA-AGACGCTGAG
1 AATTTATG-TTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAG
57543932 GTAATTTC
65 GTAATTTC
* ** *
57543940 AATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTATGTTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACGCTGAG
** *
57544005 GTGGTTTT
65 GTAATTTC
* * * **
57544013 AATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTG
1 AATTTATGTTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CAGACACGCTG
*
57544078 AGGTATTTTC
63 AGGTAATTTC
57544088 AATTT
1 AATTT
57544093 CTGGTTTTCA
Statistics
Matches: 126, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
71 40 0.32
72 7 0.06
73 57 0.45
74 1 0.01
75 20 0.16
76 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (72 bp):
AATTTATGTTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGG
TAATTTC
Found at i:57544043 original size:73 final size:71
Alignment explanation
Indices: 57543864--57544063 Score: 256
Period size: 73 Copynumber: 2.8 Consensus size: 71
57543854 ATTTTCGTTT
* * *
57543864 TTTTAATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACGCT
1 TTTTAATTTATG-TTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCT
57543929 GAGGTAA
65 GAGGTAA
* * ** *
57543936 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTAATTTATGTTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--ACACGC
**
57544001 TGAGGTGG
64 TGAGGTAA
* * *
57544009 TTTTAATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCT
1 TTTTAATTTATGTTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
57544064 TGGCTCACAC
Statistics
Matches: 108, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
71 40 0.37
72 10 0.09
73 58 0.54
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (71 bp):
TTTTAATTTATGTTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCTG
AGGTAA
Found at i:57544102 original size:14 final size:14
Alignment explanation
Indices: 57544083--57544117 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
57544073 CGCTGAGGTA
57544083 TTTTCAATTTCTGG
1 TTTTCAATTTCTGG
*
57544097 TTTTCAATTTCTGT
1 TTTTCAATTTCTGG
57544111 TTTTCAA
1 TTTTCAA
57544118 AAATCGACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.09, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGG
Found at i:57544153 original size:162 final size:162
Alignment explanation
Indices: 57543936--57544276 Score: 511
Period size: 162 Copynumber: 2.1 Consensus size: 162
57543926 GCTGAGGTAA
* *
57543936 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
** * * *
57544001 TGAGGTGGTTTTAATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTG
66 TGAGGTAATTTCAATTTATGTTCATAAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCG
*
57544066 GCTCACACGCTGAGGTATTTTCAATTTCTGGT
131 GCTCACACGCTGAGGTATTTTCAATTTCTGCT
* *
57544098 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* ** * * *
57544163 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCG
66 TGAGGTAATTTCAATTTATGTTCATAAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCG
* * *
57544228 GCTCACATGCTGAGGTCTTTTTAATTTCTGCT
131 GCTCACACGCTGAGGTATTTTCAATTTCTGCT
57544260 TTTCAATTTCTGTTTTT
1 TTTCAATTTCTGTTTTT
57544277 TCAATTTATA
Statistics
Matches: 160, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
162 160 1.00
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.38
Consensus pattern (162 bp):
TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAATTTCAATTTATGTTCATAAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCG
GCTCACACGCTGAGGTATTTTCAATTTCTGCT
Found at i:57544267 original size:14 final size:15
Alignment explanation
Indices: 57544242--57544283 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
57544232 ACATGCTGAG
*
57544242 GTCTTTTTAATTTCT
1 GTCTTTTCAATTTCT
57544257 G-CTTTTCAATTTCT
1 GTCTTTTCAATTTCT
*
57544271 GTTTTTTCAATTT
1 GTCTTTTCAATTT
57544284 ATATTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (15 bp):
GTCTTTTCAATTTCT
Found at i:57544279 original size:15 final size:14
Alignment explanation
Indices: 57544245--57544294 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
57544235 TGCTGAGGTC
57544245 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
*
57544258 CTTTTCAATTTCTG
1 TTTTTCAATTTCTG
* *
57544272 TTTTTTCAATTTATA
1 -TTTTTCAATTTCTG
57544287 TTTTTCAA
1 TTTTTCAA
57544295 AAATCAACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 11 0.35
ACGTcount: A:0.20, C:0.12, G:0.04, T:0.64
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:57545080 original size:30 final size:30
Alignment explanation
Indices: 57545044--57545216 Score: 283
Period size: 30 Copynumber: 5.8 Consensus size: 30
57545034 TTTTCTCAAT
*
57545044 TAGCCACTCCTTTTCCACCACCAACTCCAC
1 TAGCCACACCTTTTCCACCACCAACTCCAC
57545074 TAGCCACACCTTTTCCACCACCAACTCCAC
1 TAGCCACACCTTTTCCACCACCAACTCCAC
** *
57545104 TAGCCATTCTTTTTCCACCACCAACTCCAC
1 TAGCCACACCTTTTCCACCACCAACTCCAC
57545134 TAGCCACACCTTTTCCACCACCAACTCCAC
1 TAGCCACACCTTTTCCACCACCAACTCCAC
* *
57545164 TAGCCACTCTTTTTCCACCACCAACTCCAC
1 TAGCCACACCTTTTCCACCACCAACTCCAC
*
57545194 TAGCCACACCTTCTCCACCACCA
1 TAGCCACACCTTTTCCACCACCA
57545217 CTTGTACCTA
Statistics
Matches: 131, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 131 1.00
ACGTcount: A:0.25, C:0.49, G:0.03, T:0.23
Consensus pattern (30 bp):
TAGCCACACCTTTTCCACCACCAACTCCAC
Found at i:57545118 original size:60 final size:60
Alignment explanation
Indices: 57545044--57545216 Score: 319
Period size: 60 Copynumber: 2.9 Consensus size: 60
57545034 TTTTCTCAAT
*
57545044 TAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCAC
1 TAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCAC
*
57545104 TAGCCATTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCAC
1 TAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCAC
*
57545164 TAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCA
1 TAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCA
57545217 CTTGTACCTA
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 109 1.00
ACGTcount: A:0.25, C:0.49, G:0.03, T:0.23
Consensus pattern (60 bp):
TAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCAC
Found at i:57545808 original size:25 final size:25
Alignment explanation
Indices: 57545780--57545923 Score: 87
Period size: 25 Copynumber: 5.6 Consensus size: 25
57545770 ATATTACGTA
* *
57545780 TATATATATTTTATACTATTTTATT
1 TATATATATTTAATACTATATTATT
* *
57545805 TATATATCTTTAATATTATATTATT
1 TATATATATTTAATACTATATTATT
* * *
57545830 TATATATATATT-TTTCTACATGTTATCT
1 TATATATAT-TTAATACT--ATATTAT-T
*
57545858 TATGTATATATCTT-A-ACTATATTATG
1 TA--TATATAT-TTAATACTATATTATT
* * *
57545884 TATATATTTTTAACACTATATTATG
1 TATATATATTTAATACTATATTATT
* *
57545909 TACATATTTTTAATA
1 TATATATATTTAATA
57545924 TTATCACGTA
Statistics
Matches: 94, Mismatches: 17, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
23 2 0.02
24 7 0.07
25 55 0.59
26 4 0.04
27 12 0.13
28 3 0.03
29 2 0.02
30 9 0.10
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATT
Found at i:57546096 original size:16 final size:15
Alignment explanation
Indices: 57546072--57546119 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
57546062 TAATTATCAT
*
57546072 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
57546088 TATTTTAATATTTTA
1 TATTTTAATATTTTA
57546103 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
57546119 T
1 T
57546120 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:57546107 original size:7 final size:8
Alignment explanation
Indices: 57546072--57546123 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
57546062 TAATTATCAT
*
57546072 TATTCTAA
1 TATTTTAA
*
57546080 TATTTTGA
1 TATTTTAA
57546088 TATTTTAA
1 TATTTTAA
57546096 TATTTT-A
1 TATTTTAA
57546103 TATTTTATA
1 TATTTTA-A
*
57546112 TATTTTAT
1 TATTTTAA
57546120 TATT
1 TATT
57546124 CACATCATTG
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
Done.