Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008721.1 Hibiscus syriacus cultivar Beakdansim tig00111779_pilon, whole genome shotgun sequence
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: 2464137
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 12
Found at i:589765 original size:34 final size:34
Alignment explanation
Indices: 589717--589789 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
589707 AACAAAAATG
*
589717 ATAATTATGTTATTTACCAATATTAAATTACTTT
1 ATAATTATGCTATTTACCAATATTAAATTACTTT
* *
589751 ATAATTATGCTATTTACCTATATTAAATTGCTTT
1 ATAATTATGCTATTTACCAATATTAAATTACTTT
589785 ATAAT
1 ATAAT
589790 CATCTACAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.49
Consensus pattern (34 bp):
ATAATTATGCTATTTACCAATATTAAATTACTTT
Found at i:589813 original size:204 final size:205
Alignment explanation
Indices: 589461--589871 Score: 806
Period size: 204 Copynumber: 2.0 Consensus size: 205
589451 AAAAAGTGAT
589461 CAAATATTATATTTTTTAAATTTAATAAAAAATACAAAATTTAACAAAAATGATAATTATGTTAT
1 CAAATATTATATTTTTTAAATTTAATAAAAAATA-AAAATTTAACAAAAATGATAATTATGTTAT
589526 TTACCAATATTAAATTACTTTATAATTATGCTATTTACCTATATTAAATTGCTTTATAATCATCT
65 TTACCAATATTAAATTACTTTATAATTATGCTATTTACCTATATTAAATTGCTTTATAATCATCT
589591 ACAAATAATAATTAATATTTGCATTATAAAATGTATTTGTATATTATTTTTTGTGGTGATCTCCA
130 ACAAATAATAATTAATATTTGCATTATAAAATGTATTTGTATATTATTTTTTGTGGTGATCTCCA
589656 AACCTAACCGA
195 AACCTAACCGA
589667 CAAATATTATATTTTTTAAATTTAATAAAAAAT-AAAATTTAACAAAAATGATAATTATGTTATT
1 CAAATATTATATTTTTTAAATTTAATAAAAAATAAAAATTTAACAAAAATGATAATTATGTTATT
589731 TACCAATATTAAATTACTTTATAATTATGCTATTTACCTATATTAAATTGCTTTATAATCATCTA
66 TACCAATATTAAATTACTTTATAATTATGCTATTTACCTATATTAAATTGCTTTATAATCATCTA
589796 CAAATAATAATTAATATTTGCATTATAAAATGTATTTGTATATTATTTTTTGTGGTGATCTCCAA
131 CAAATAATAATTAATATTTGCATTATAAAATGTATTTGTATATTATTTTTTGTGGTGATCTCCAA
589861 ACCTAACCGA
196 ACCTAACCGA
589871 C
1 C
589872 TTGAAGGCAT
Statistics
Matches: 205, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
204 172 0.84
206 33 0.16
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (205 bp):
CAAATATTATATTTTTTAAATTTAATAAAAAATAAAAATTTAACAAAAATGATAATTATGTTATT
TACCAATATTAAATTACTTTATAATTATGCTATTTACCTATATTAAATTGCTTTATAATCATCTA
CAAATAATAATTAATATTTGCATTATAAAATGTATTTGTATATTATTTTTTGTGGTGATCTCCAA
ACCTAACCGA
Found at i:596880 original size:128 final size:128
Alignment explanation
Indices: 596653--597158 Score: 951
Period size: 128 Copynumber: 4.0 Consensus size: 128
596643 ATCCCATTCG
596653 ATCATTACCTATTATTTCTCAGGGGACTTGAAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTT
1 ATCATTACCTATTATTTCTCAGGGGACTTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTT
*
596717 TGTCAGAGAATATGTTATCATTGACCTATTATGTCACTCATGTCCCTCGGGGACACTATTCAT
66 TGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTATTCAT
596780 ATCATTACCTATTATTTCTCAGGGGACTTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTT
1 ATCATTACCTATTATTTCTCAGGGGACTTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTT
*
596845 TGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACGCTATTCAT
66 TGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTATTCAT
*
596908 ATCATTACCTATTATTTCTCAAGGGACTTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTT
1 ATCATTACCTATTATTTCTCAGGGGACTTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTT
596973 TGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTATTCAT
66 TGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTATTCAT
* * *
597036 ATCATTACCTATTATTTCTCAGAGGACTTGAAGGCGCGTTCCCGGGGGCTCGCGTTCCATTATTT
1 ATCATTACCTATTATTTCTCAGGGGACTTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTT
597101 TGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTA
66 TGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTA
597159 GATGGATTGT
Statistics
Matches: 370, Mismatches: 8, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
127 43 0.12
128 327 0.88
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (128 bp):
ATCATTACCTATTATTTCTCAGGGGACTTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTT
TGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTATTCAT
Found at i:597599 original size:34 final size:34
Alignment explanation
Indices: 597561--597661 Score: 130
Period size: 34 Copynumber: 3.0 Consensus size: 34
597551 AAATTTAATG
** *
597561 TTAAATTTCAAATACTATAATTTATATTTTAAAT
1 TTAAATTTTGAATAATATAATTTATATTTTAAAT
* * * *
597595 TTAAATTTTGAATAATATTATTTTTATTTTTATT
1 TTAAATTTTGAATAATATAATTTATATTTTAAAT
*
597629 TTAAATTTTGAATAATATAATTTGTATTTTAAA
1 TTAAATTTTGAATAATATAATTTATATTTTAAA
597662 AACATTTATC
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (34 bp):
TTAAATTTTGAATAATATAATTTATATTTTAAAT
Found at i:598211 original size:21 final size:20
Alignment explanation
Indices: 598184--598358 Score: 233
Period size: 21 Copynumber: 8.3 Consensus size: 20
598174 GGTATAAAAC
598184 CCTGCGGGCTAGGAATGTAA
1 CCTGCGGGCTAGGAATGTAA
598204 CCTGGCGGGCTAGGAATGTAA
1 CCT-GCGGGCTAGGAATGTAA
*
598225 CCATGCGGGCTCGGAATGTAA
1 CC-TGCGGGCTAGGAATGTAA
*
598246 CCTGGCGGGCTAGGAATATAA
1 CCT-GCGGGCTAGGAATGTAA
*
598267 CCCTGCGGGCTCGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
598288 CCTGGCGGGCTAGGAATGTAA
1 CCT-GCGGGCTAGGAATGTAA
*
598309 CCCTGCGGGCTCGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
*
598330 CCCTGCGGGCTCGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
598351 CCCTGCGG
1 -CCTGCGG
598359 AGATGGCATA
Statistics
Matches: 142, Mismatches: 7, Indels: 11
0.89 0.04 0.07
Matches are distributed among these distances:
20 7 0.05
21 128 0.90
22 7 0.05
ACGTcount: A:0.22, C:0.25, G:0.35, T:0.19
Consensus pattern (20 bp):
CCTGCGGGCTAGGAATGTAA
Found at i:598245 original size:42 final size:42
Alignment explanation
Indices: 598181--598358 Score: 304
Period size: 42 Copynumber: 4.2 Consensus size: 42
598171 TATGGTATAA
*
598181 AACCCTGCGGGCTAGGAATGTAACCTGGCGGGCTAGGAATGT
1 AACCCTGCGGGCTCGGAATGTAACCTGGCGGGCTAGGAATGT
* *
598223 AACCATGCGGGCTCGGAATGTAACCTGGCGGGCTAGGAATAT
1 AACCCTGCGGGCTCGGAATGTAACCTGGCGGGCTAGGAATGT
598265 AACCCTGCGGGCTCGGAATGTAACCTGGCGGGCTAGGAATGT
1 AACCCTGCGGGCTCGGAATGTAACCTGGCGGGCTAGGAATGT
*
598307 AACCCTGCGGGCTCGGAATGTAACCCT-GCGGGCTCGGAATGT
1 AACCCTGCGGGCTCGGAATGTAA-CCTGGCGGGCTAGGAATGT
598349 AACCCTGCGG
1 AACCCTGCGG
598359 AGATGGCATA
Statistics
Matches: 129, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
42 126 0.98
43 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.34, T:0.19
Consensus pattern (42 bp):
AACCCTGCGGGCTCGGAATGTAACCTGGCGGGCTAGGAATGT
Found at i:598286 original size:63 final size:62
Alignment explanation
Indices: 598181--598358 Score: 261
Period size: 63 Copynumber: 2.8 Consensus size: 62
598171 TATGGTATAA
* *
598181 AACCCTGCGGGCTAGGAATGTAA-CCTGGCGGGCTAGGAATGTAACCATGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGTAACCCT-GCGGGCTCGGAATGTAACC-TGCGGGCTAGGAATGT
*
598244 AA-CCTGGCGGGCTAGGAATATAACCCTGCGGGCTCGGAATGTAACCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGTAACCCTGCGGGCTCGGAATGTAACCT-GCGGGCTAGGAATGT
*
598307 AACCCTGCGGGCTCGGAATGTAACCCTGCGGGCTCGGAATGTAACCCTGCGG
1 AACCCTGCGGGCTAGGAATGTAACCCTGCGGGCTCGGAATGTAA-CCTGCGG
598359 AGATGGCATA
Statistics
Matches: 105, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
62 4 0.04
63 92 0.88
64 9 0.09
ACGTcount: A:0.22, C:0.25, G:0.34, T:0.19
Consensus pattern (62 bp):
AACCCTGCGGGCTAGGAATGTAACCCTGCGGGCTCGGAATGTAACCTGCGGGCTAGGAATGT
Found at i:600206 original size:31 final size:33
Alignment explanation
Indices: 600141--600220 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 33
600131 TTAATAAATT
* *
600141 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTACATAAATATTA-TTTAA
*
600175 TAAAAAAATAATATTTACATAAATA-TA-TTAA
1 TAAAAAAATAATAATTACATAAATATTATTTAA
*
600206 TATAAAATATAATAA
1 TA-AAAAAATAATAA
600221 CTATTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 6 0.15
32 10 0.25
33 2 0.05
34 22 0.55
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
TAAAAAAATAATAATTACATAAATATTATTTAA
Found at i:608599 original size:20 final size:20
Alignment explanation
Indices: 608576--608613 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
608566 ATCAGTCCCT
*
608576 AAATTATGGTATCATTCTGC
1 AAATTATGATATCATTCTGC
608596 AAATTATGATATCATTCT
1 AAATTATGATATCATTCT
608614 ATATTGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (20 bp):
AAATTATGATATCATTCTGC
Found at i:621264 original size:6 final size:6
Alignment explanation
Indices: 621253--621316 Score: 83
Period size: 6 Copynumber: 10.7 Consensus size: 6
621243 ATGGCTCGGC
* * * *
621253 TCGTGG TCGTGG TCGAGG TCGAGG TCGAGG TCGTGA TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
*
621301 TCGTGT TCGTGG TCGT
1 TCGTGG TCGTGG TCGT
621317 AGTAATACAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.06, C:0.17, G:0.45, T:0.31
Consensus pattern (6 bp):
TCGTGG
Found at i:621618 original size:22 final size:22
Alignment explanation
Indices: 621593--621647 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
621583 ACAGGAGTTA
* *
621593 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
621615 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
621637 CGGGAGTTATA
1 CAGGAGTTATA
621648 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:630785 original size:20 final size:20
Alignment explanation
Indices: 630760--630797 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
630750 CTCAATATTA
630760 TTTTTAT-TTTAATTTAATCC
1 TTTTTATATTT-ATTTAATCC
630780 TTTTTATATTTATTTAAT
1 TTTTTATATTTATTTAAT
630798 TAATACTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTATATTTATTTAATCC
Found at i:630812 original size:25 final size:27
Alignment explanation
Indices: 630755--630813 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 27
630745 TTGCCCTCAA
*
630755 TATTAT-T-TTTATTTTAATTTAATCC
1 TATTATATATTTATTTTAATTTAATAC
*
630780 T-TTTTATATTTA-TTTAA-TTAATAC
1 TATTATATATTTATTTTAATTTAATAC
630804 TATTATATAT
1 TATTATATAT
630814 ATATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 10 0.36
25 14 0.50
26 4 0.14
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (27 bp):
TATTATATATTTATTTTAATTTAATAC
Found at i:630987 original size:17 final size:18
Alignment explanation
Indices: 630960--631032 Score: 53
Period size: 17 Copynumber: 3.9 Consensus size: 18
630950 ATTATTTTCG
630960 TTTACTTTATTTTATTTA
1 TTTACTTTATTTTATTTA
*
630978 TTTA-TTTATTTGT-TTTT
1 TTTACTTTATTT-TATTTA
*
630995 TTTATGTTTATTTTATGTTTA
1 TTTA-CTTTATTTTA--TTTA
631016 TGTTTA-TTTATTTTATT
1 --TTTACTTTATTTTATT
631033 ATTCTTCCCC
Statistics
Matches: 45, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
17 14 0.31
18 6 0.13
19 9 0.20
21 12 0.27
23 4 0.09
ACGTcount: A:0.18, C:0.01, G:0.05, T:0.75
Consensus pattern (18 bp):
TTTACTTTATTTTATTTA
Found at i:631225 original size:10 final size:10
Alignment explanation
Indices: 631196--631241 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
631186 TTTTTTATTA
631196 TTATTTTT-T
1 TTATTTTTCT
631205 TT-TTATTTCT
1 TTATT-TTTCT
631215 TTATTTTTCT
1 TTATTTTTCT
*
631225 TTGTTTTTCTT
1 TTATTTTTC-T
631236 TTATTT
1 TTATTT
631242 GATTTGTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
8 2 0.06
9 5 0.16
10 16 0.52
11 8 0.26
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.83
Consensus pattern (10 bp):
TTATTTTTCT
Found at i:631291 original size:20 final size:19
Alignment explanation
Indices: 631268--631311 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
631258 TTAGTTAACT
*
631268 TATTTGGTTTTTATATTTTA
1 TATTTGGTATTTAT-TTTTA
* *
631288 TATTTTGTATTTATTTTTT
1 TATTTGGTATTTATTTTTA
631307 TATTT
1 TATTT
631312 CGGGACTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.75
Consensus pattern (19 bp):
TATTTGGTATTTATTTTTA
Found at i:636710 original size:23 final size:23
Alignment explanation
Indices: 636642--636702 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
636632 CAAGCTTATA
*
636642 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
** *
636665 CAGAACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
636688 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
636703 TTTATACGAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:647068 original size:23 final size:23
Alignment explanation
Indices: 647037--647090 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
647027 GGAATCAATA
647037 CCCCC-TTGAA-GGGGAACTGATT
1 CCCCCTTTGAATGGGG-ACTGATT
647059 CCCCCTTTGAATGGGGACTGATT
1 CCCCCTTTGAATGGGGACTGATT
*
647082 CCTCCTTTG
1 CCCCCTTTG
647091 GGGAATCGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 5 0.17
23 20 0.69
24 4 0.14
ACGTcount: A:0.17, C:0.30, G:0.24, T:0.30
Consensus pattern (23 bp):
CCCCCTTTGAATGGGGACTGATT
Found at i:651932 original size:93 final size:93
Alignment explanation
Indices: 651813--651997 Score: 298
Period size: 93 Copynumber: 2.0 Consensus size: 93
651803 TATATATATA
* * * * *
651813 CAATAAATCTTTAGTTGTCCCTCTAAAACAATTGGTTAAATGCCCCGACTTTATGGATAAGATTC
1 CAATAAAGCTTGAGCTGTCCCTCTAAAACAATTGATTAAACGCCCCGACTTTATGGATAAGATTC
651878 AGCTAGCCTGATAAAGGTGATTATAATG
66 AGCTAGCCTGATAAAGGTGATTATAATG
* *
651906 CAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGATTAAACGCCCCGACTTTATGGATAATATTC
1 CAATAAAGCTTGAGCTGTCCCTCTAAAACAATTGATTAAACGCCCCGACTTTATGGATAAGATTC
*
651971 AGCTAGCCTGATAAAGGTTATTATAAT
66 AGCTAGCCTGATAAAGGTGATTATAAT
651998 AGTGAGTTGT
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 84 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (93 bp):
CAATAAAGCTTGAGCTGTCCCTCTAAAACAATTGATTAAACGCCCCGACTTTATGGATAAGATTC
AGCTAGCCTGATAAAGGTGATTATAATG
Found at i:653622 original size:31 final size:28
Alignment explanation
Indices: 653582--653653 Score: 72
Period size: 31 Copynumber: 2.5 Consensus size: 28
653572 AGGTCTCGAA
* *
653582 TAACTTAGGTAAAATGTCCATATGTTCCT
1 TAACATAGGTAAAATGTCCATATG-TCCC
* * *
653611 TAGAACATAGGTATACTGTCTATATGTCCC
1 T--AACATAGGTAAAATGTCCATATGTCCC
653641 TAACATAGGTAAA
1 TAACATAGGTAAA
653654 CCCTCGACTC
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
28 11 0.31
29 1 0.03
30 4 0.11
31 19 0.54
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (28 bp):
TAACATAGGTAAAATGTCCATATGTCCC
Found at i:655992 original size:83 final size:84
Alignment explanation
Indices: 655757--656165 Score: 441
Period size: 83 Copynumber: 4.8 Consensus size: 84
655747 TAAAGGAACT
* * * * * *
655757 ATTTACAACATAGCTCAAGGCGAGAAGGGCTATCTGCCAGCAAAACATCTTCGAGTTCAATTACA
1 ATTTACAGCATAGCTCAA-GCGAGAAGGGCTATCTGTCA-AAAAAAACCTTCGAGTTCGATTACA
* *
655822 CTCAGCTTAAGGACATATCAA
64 TTCAGCTCAAGGACATATCAA
**
655843 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAAACCTTCGAGTTCGATTACAT
1 ATTTACAGCATAGCTCAA-GCGAGAAGGGCTATCTGTCAAAAAAAACCTTCGAGTTCGATTACAT
* *
655908 TCAGCTCAAGGGCTTATCAA
65 TCAGCTCAAGGACATATCAA
* * * * * * *
655928 ATTTGCAGTATAACTC-A-CGAGAATGGTTATCTGCCAATAAAAAACCTTCGAGTTCGATTCCAT
1 ATTTACAGCATAGCTCAAGCGAGAAGGGCTATCTGTCAA-AAAAAACCTTCGAGTTCGATTACAT
*
655991 TCAGCTCAATGACATATCAA
65 TCAGCTCAAGGACATATCAA
* * * * *
656011 ATTTAAAGCATAGTTCAAGGCGAGAAGGGTTATATGTC--AACAAACCTTCGAGTTCGATTACAT
1 ATTTACAGCATAGCTCAA-GCGAGAAGGGCTATCTGTCAAAAAAAACCTTCGAGTTCGATTACAT
* *
656074 TCAGCTCAAGGGCATATTAA
65 TCAGCTCAAGGACATATCAA
* * * *
656094 ATCTACAACATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAA-CTGTCGAGTTCGATTCCA
1 ATTTACAGCATAGCTCAA-GCGAGAAGGGCTATCTGTCAAAAAAAACCT-TCGAGTTCGATTACA
656158 TTCAGCTC
64 TTCAGCTC
656166 GATGATATAT
Statistics
Matches: 270, Mismatches: 46, Indels: 15
0.82 0.14 0.05
Matches are distributed among these distances:
82 17 0.06
83 122 0.45
84 4 0.01
85 75 0.28
86 52 0.19
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (84 bp):
ATTTACAGCATAGCTCAAGCGAGAAGGGCTATCTGTCAAAAAAAACCTTCGAGTTCGATTACATT
CAGCTCAAGGACATATCAA
Found at i:656149 original size:168 final size:170
Alignment explanation
Indices: 655760--656178 Score: 553
Period size: 168 Copynumber: 2.5 Consensus size: 170
655750 AGGAACTATT
* * * * *
655760 TACAACATAGCTCAAGGCGAGAAGGGCTATCTGCCAGCAAAACATCTTCGAGTTCAATTACACTC
1 TACAACATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAA-ACCTTCGAGTTCGATTCCATTC
* * * *
655825 AGCTTAAGGACATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAAAC
65 AGCTCAATGACATATCAAATTTAAAGCATAGCTCAAGGCGAGAAGGGCTATATGTCAACCAAAAC
* *
655890 CTTCGAGTTCGATTACATTCAGCTCAAGGGCTTATCAAATT
130 CTTCGAGTTCGATTACATTCAGCTCAAGGGCATATCAAATC
* ** * * * *
655931 TGCAGTATAACTC-A--CGAGAATGGTTATCTGCCAATAAAAAACCTTCGAGTTCGATTCCATTC
1 TACAACATAGCTCAAGGCGAGAAGGGCTATCTGCCAA-CAAAAACCTTCGAGTTCGATTCCATTC
* *
655993 AGCTCAATGACATATCAAATTTAAAGCATAGTTCAAGGCGAGAAGGGTTATATGTCAA-C-AAAC
65 AGCTCAATGACATATCAAATTTAAAGCATAGCTCAAGGCGAGAAGGGCTATATGTCAACCAAAAC
*
656056 CTTCGAGTTCGATTACATTCAGCTCAAGGGCATATTAAATC
130 CTTCGAGTTCGATTACATTCAGCTCAAGGGCATATCAAATC
*
656097 TACAACATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAA-CTGTCGAGTTCGATTCCATTC
1 TACAACATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAACCT-TCGAGTTCGATTCCATTC
* *
656161 AGCTCGATGATATATCAA
65 AGCTCAATGACATATCAA
656179 CCGCATGGTA
Statistics
Matches: 212, Mismatches: 31, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
166 51 0.24
167 4 0.02
168 126 0.59
169 21 0.10
170 1 0.00
171 9 0.04
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (170 bp):
TACAACATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAACCTTCGAGTTCGATTCCATTCA
GCTCAATGACATATCAAATTTAAAGCATAGCTCAAGGCGAGAAGGGCTATATGTCAACCAAAACC
TTCGAGTTCGATTACATTCAGCTCAAGGGCATATCAAATC
Found at i:657814 original size:6 final size:6
Alignment explanation
Indices: 657796--657830 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
657786 TTACATGGTT
* *
657796 TTTTTA TTATTA TTTTTA TTCTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
657831 TTTACCTGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:657980 original size:26 final size:25
Alignment explanation
Indices: 657906--657992 Score: 70
Period size: 26 Copynumber: 3.4 Consensus size: 25
657896 CTTCTTCTTC
* *
657906 TTTTTTTATGTTTTTTATTTTCTTTG
1 TTTTTTTATATTTTTTA-TTTATTTG
* * *
657932 TTTTCTTA-ATTTAGTTAACTTATTTG
1 TTTTTTTATATTT--TTTATTTATTTG
657958 ATTTTTTTATATTTTTTATTTATTT-
1 -TTTTTTTATATTTTTTATTTATTTG
657983 TCTTTTTTAT
1 T-TTTTTTAT
657993 TTCAGGATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
24 1 0.02
25 11 0.23
26 22 0.46
27 10 0.21
28 4 0.08
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.75
Consensus pattern (25 bp):
TTTTTTTATATTTTTTATTTATTTG
Found at i:657983 original size:9 final size:8
Alignment explanation
Indices: 657850--657994 Score: 53
Period size: 9 Copynumber: 16.9 Consensus size: 8
657840 CGTGTATATA
657850 TTTATTTAT
1 TTTATTT-T
*
657859 TTTCTTTT
1 TTTATTTT
657867 TTT-TTTGT
1 TTTATTT-T
657875 TTCTA-TTT
1 TT-TATTTT
657883 TTTATTATT
1 TTTATT-TT
*
657892 ATTTCTTCTT
1 -TTTATT-TT
* *
657902 CTTCTTTT
1 TTTATTTT
657910 TTTATGTTT
1 TTTAT-TTT
657919 TTTATTTT
1 TTTATTTT
*
657927 CTTTGTTTT
1 -TTTATTTT
* *
657936 CTTAATTTAG
1 -TTTATTT-T
* *
657946 TTAACTTAT
1 TTTA-TTTT
*
657955 TTGATTTT
1 TTTATTTT
657963 TTTATATTT
1 TTTAT-TTT
657972 TTTATTTAT
1 TTTATTT-T
*
657981 TTT-CTTT
1 TTTATTTT
657988 TTTATTT
1 TTTATTT
657995 CAGGATTTTT
Statistics
Matches: 106, Mismatches: 17, Indels: 27
0.71 0.11 0.18
Matches are distributed among these distances:
7 9 0.08
8 32 0.30
9 56 0.53
10 9 0.08
ACGTcount: A:0.14, C:0.07, G:0.03, T:0.76
Consensus pattern (8 bp):
TTTATTTT
Found at i:658033 original size:41 final size:41
Alignment explanation
Indices: 657957--658035 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
657947 TAACTTATTT
* * ** *
657957 GATTTTTTTATATTTTTTATTTATTTTCTTTTTTATTTCAG
1 GATTTTTTTATAATTATTATTTATTTGATTCTTTATTTCAG
657998 GATTTTTTTATAATTATTATCTT-TTTGATTCTTTATTT
1 GATTTTTTTATAATTATTAT-TTATTTGATTCTTTATTT
658036 TACTTTATCT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 30 0.94
42 2 0.06
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.71
Consensus pattern (41 bp):
GATTTTTTTATAATTATTATTTATTTGATTCTTTATTTCAG
Found at i:658662 original size:2 final size:2
Alignment explanation
Indices: 658657--658692 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
658647 TTTATATGTG
658657 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
658693 CATGTAAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:664241 original size:51 final size:51
Alignment explanation
Indices: 664106--664232 Score: 236
Period size: 51 Copynumber: 2.5 Consensus size: 51
664096 ACAAGTATAT
* *
664106 GTGTAGCACTTAACACATACTTACACCGTTGTAAATGAATAAAATAAAAAA
1 GTGTAACATTTAACACATACTTACACCGTTGTAAATGAATAAAATAAAAAA
664157 GTGTAACATTTAACACATACTTACACCGTTGTAAATGAATAAAATAAAAAA
1 GTGTAACATTTAACACATACTTACACCGTTGTAAATGAATAAAATAAAAAA
664208 GTGTAACATTTAACACATACTTACA
1 GTGTAACATTTAACACATACTTACA
664233 TCAGTGTAAG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 74 1.00
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.28
Consensus pattern (51 bp):
GTGTAACATTTAACACATACTTACACCGTTGTAAATGAATAAAATAAAAAA
Found at i:667658 original size:19 final size:20
Alignment explanation
Indices: 667634--667673 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
667624 TTAAGGGTGA
*
667634 TAAAAAGA-CCGAAAATGTG
1 TAAAAAGATACGAAAATGTG
667653 TAAAAAGATACGAAAATGTG
1 TAAAAAGATACGAAAATGTG
667673 T
1 T
667674 TATAAAGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (20 bp):
TAAAAAGATACGAAAATGTG
Found at i:674276 original size:17 final size:17
Alignment explanation
Indices: 674254--674296 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
674244 GGTATTTTAA
674254 TAAATATAATAATATTT
1 TAAATATAATAATATTT
**
674271 TAAATATGTTTAATATTT
1 TAAATAT-AATAATATTT
674289 TAAA-ATAA
1 TAAATATAA
674297 ATAAAAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
TAAATATAATAATATTT
Found at i:674982 original size:15 final size:15
Alignment explanation
Indices: 674964--674995 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
674954 AAGATATTTT
*
674964 TTAAGAAAAATAAAG
1 TTAAAAAAAATAAAG
674979 TTAAAAAAAATAAAG
1 TTAAAAAAAATAAAG
674994 TT
1 TT
674996 CACAGGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (15 bp):
TTAAAAAAAATAAAG
Found at i:675880 original size:21 final size:20
Alignment explanation
Indices: 675794--675951 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
675784 AAATGACCAA
**
675794 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
675813 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
675833 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
675853 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
675874 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
675895 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
675915 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
675936 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
675952 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:675942 original size:20 final size:20
Alignment explanation
Indices: 675918--676167 Score: 261
Period size: 20 Copynumber: 12.5 Consensus size: 20
675908 CGATTTTCCA
** *
675918 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGAATCCGT
*
675938 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGCGAATC-CGT
*
675958 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
*
675978 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
**
675998 AAATCGCAACGC-ATATGGGT
1 AAATCGCAACGCGA-ATCCGT
* *
676018 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
676038 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
676058 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
676078 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
676098 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
676118 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
676138 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
*
676158 AAATCACAAC
1 AAATCGCAAC
676168 ACTGAAATTT
Statistics
Matches: 198, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
20 197 0.99
21 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGAATCCGT
Found at i:676886 original size:24 final size:23
Alignment explanation
Indices: 676847--676892 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
676837 AAATTTGGTC
676847 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGA-TTTGATA
676871 TTGGTCAATA-CACGGATTTGAT
1 TTGGTCAATATC-CGGATTTGAT
676893 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (23 bp):
TTGGTCAATATCCGGATTTGATA
Found at i:677080 original size:12 final size:12
Alignment explanation
Indices: 677063--677087 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
677053 TCATAATCCT
677063 GAAGAAGAAAAA
1 GAAGAAGAAAAA
677075 GAAGAAGAAAAA
1 GAAGAAGAAAAA
677087 G
1 G
677088 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:679440 original size:52 final size:52
Alignment explanation
Indices: 679384--679499 Score: 216
Period size: 52 Copynumber: 2.2 Consensus size: 52
679374 GAAATGAAAA
679384 TCGCATTGCGATTCTCTCG-TGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
679436 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
679488 TCGCATTGCGAT
1 TCGCATTGCGAT
679500 AGTCAATTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
52 49 0.78
53 14 0.22
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:679442 original size:19 final size:19
Alignment explanation
Indices: 679403--679499 Score: 141
Period size: 19 Copynumber: 5.3 Consensus size: 19
679393 GATTCTCTCG
679403 TGCGATTTTCATTTCCGCAT
1 TGCGATTTTCATTT-CGCAT
679423 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCAT
*
679442 TGCGA--TTC-TCTCG--T
1 TGCGATTTTCATTTCGCAT
679456 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCAT
679475 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCAT
679494 TGCGAT
1 TGCGAT
679500 AGTCAATTTT
Statistics
Matches: 70, Mismatches: 2, Indels: 11
0.84 0.02 0.13
Matches are distributed among these distances:
14 6 0.09
16 7 0.10
17 7 0.10
19 36 0.51
20 14 0.20
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCAT
Found at i:679595 original size:14 final size:14
Alignment explanation
Indices: 679576--679629 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
679566 CGGAAATGAA
679576 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
679590 AATCGCAATGCGAAATG
1 AATCGCAA--CGAGA-G
679607 AAATCGCAACGAGAG
1 -AATCGCAACGAGAG
679622 AATCGCAA
1 AATCGCAA
679630 TGCGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 8 0.24
17 1 0.03
18 8 0.24
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:679616 original size:32 final size:33
Alignment explanation
Indices: 679558--679648 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
679548 CCATTACATT
679558 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAA
679592 TCGCAATGCGAAATG-AAATCGCAACGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
679624 TCGCAATGCGAAATGAAAATCGCAA
1 TCGCAATGCGAAATGAAAATCGCAA
679649 TGCGAAATGA
Statistics
Matches: 56, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
32 32 0.57
33 15 0.27
34 9 0.16
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
Found at i:679679 original size:52 final size:51
Alignment explanation
Indices: 679590--679699 Score: 193
Period size: 52 Copynumber: 2.1 Consensus size: 51
679580 GCAACGAGAG
679590 AATCGCAATGCGAAATGAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
* *
679641 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATG-AAATCGCAACGAGAGAATCGCAATGCGAAATGAA
679693 AATCGCA
1 AATCGCA
679700 TTGTGATTCT
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
51 17 0.30
52 39 0.70
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.15
Consensus pattern (51 bp):
AATCGCAATGCGAAATGAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:679754 original size:19 final size:19
Alignment explanation
Indices: 679712--679810 Score: 138
Period size: 19 Copynumber: 5.5 Consensus size: 19
679702 GTGATTCTCC
679712 CATTGCGATTTTCATTTCCG
1 CATTGCGATTTTCATTT-CG
679732 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
679751 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
679767 --TTGCGA-TTTCATTTCG
1 CATTGCGATTTTCATTTCG
679783 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
679802 CATTGCGAT
1 CATTGCGAT
679811 AGTCAATTTT
Statistics
Matches: 72, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
15 3 0.04
16 8 0.11
17 3 0.04
18 6 0.08
19 29 0.40
20 17 0.24
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.44
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:679804 original size:51 final size:53
Alignment explanation
Indices: 679695--679810 Score: 191
Period size: 51 Copynumber: 2.2 Consensus size: 53
679685 GAAATTAAAA
*
679695 TCGCATTGTGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
* *
679748 TCGCATTGCGATTCTCTCGTTGCGA-TTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
679799 TCGCATTGCGAT
1 TCGCATTGCGAT
679811 AGTCAATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 30 0.50
52 8 0.13
53 22 0.37
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:681936 original size:14 final size:14
Alignment explanation
Indices: 681917--681973 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
681907 GCGAAATGAA
*
681917 AATCGCAACGACAG
1 AATCGCAACGAAAG
681931 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
681948 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
681964 AATCGCAACG
1 AATCGCAACG
681974 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:681944 original size:33 final size:33
Alignment explanation
Indices: 681898--681990 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
681888 GCGAAACCAA
*
681898 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
681931 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
681964 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
681991 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:681955 original size:19 final size:19
Alignment explanation
Indices: 681861--681995 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
681851 TAGTTTACTT
* *
681861 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
681881 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
681900 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
681919 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
681933 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
681952 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
681966 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
681985 TCGCAATGCGA
1 TCGCAACGCGA
681996 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:682013 original size:19 final size:19
Alignment explanation
Indices: 681991--682119 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
681981 AAAATCGCAA
681991 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
682010 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
682024 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
682043 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
682057 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
682076 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
682095 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
682115 TGCGA
1 TGCGA
682120 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:682033 original size:33 final size:33
Alignment explanation
Indices: 681991--682082 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
681981 AAAATCGCAA
681991 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
682024 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
682057 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
682083 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:682421 original size:92 final size:93
Alignment explanation
Indices: 682163--682633 Score: 894
Period size: 92 Copynumber: 5.1 Consensus size: 93
682153 TTGAATGGAT
682163 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
682228 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
682256 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
682321 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
682349 AAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
682413 AGTTTAGCAGAATTGGCAGCAACTGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
682441 AAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
682505 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
682533 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTT-AAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
682597 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
682625 AAATTTACT
1 AAATTTACT
682634 AAGCAATCTA
Statistics
Matches: 372, Mismatches: 5, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
92 227 0.61
93 145 0.39
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:684348 original size:14 final size:14
Alignment explanation
Indices: 684329--684418 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
684319 TTGAAATGAA
684329 AATCGCAACGAGAG
1 AATCGCAACGAGAG
684343 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
684360 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
684376 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
684395 AATCGCAACGAGAG
1 AATCGCAACGAGAG
684409 AATCGCAACG
1 AATCGCAACG
684419 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.41, C:0.24, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:684366 original size:33 final size:33
Alignment explanation
Indices: 684321--684435 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
684311 TCTTTTGGTT
684321 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
684354 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
684387 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
684420 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
684436 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:684367 original size:19 final size:18
Alignment explanation
Indices: 684328--684440 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
684318 GTTGAAATGA
684328 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
684343 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
684360 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
684376 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
684393 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
684409 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
684426 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
684441 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.42, C:0.23, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:684471 original size:14 final size:14
Alignment explanation
Indices: 684452--684508 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
684442 TTTGGTTTCG
684452 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
684466 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
684485 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
684499 CGTTGCGATT
1 CGTTGCGATT
684509 GTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:684484 original size:33 final size:33
Alignment explanation
Indices: 684436--684516 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
684426 AAAATCGCAA
**
684436 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
684469 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
684502 TGCGATTGTCATTTC
1 TGCGATTTTCATTTC
684517 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.09, C:0.22, G:0.23, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:684519 original size:21 final size:21
Alignment explanation
Indices: 684493--684568 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
684483 CGCGTTGCGA
684493 TTCTCTCGTTGCGATTGTCAT
1 TTCTCTCGTTGCGATTGTCAT
**
684514 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTGTCAT
*
684534 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTGTCAT
*
684555 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
684569 CTCTTCTGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 17 0.35
21 31 0.65
ACGTcount: A:0.12, C:0.25, G:0.18, T:0.45
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTGTCAT
Found at i:684549 original size:41 final size:41
Alignment explanation
Indices: 684492--684569 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
684482 TCGCGTTGCG
*
684492 ATTCTCTCGTTGCGATTGTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTGTCATTTATCTCGTTGCGACAGTC
*
684533 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTGTCATTTATCTCGTTGCGAC
684570 TCTTCTGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.13, C:0.26, G:0.18, T:0.44
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTGTCATTTATCTCGTTGCGACAGTC
Found at i:684695 original size:33 final size:33
Alignment explanation
Indices: 684648--684720 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
684638 AATACTAACT
* *
684648 TGAAAATCGGAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
684681 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
684714 T-AAAATC
1 TGAAAATC
684721 TAAGTGAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.48, C:0.18, G:0.22, T:0.12
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:684951 original size:22 final size:22
Alignment explanation
Indices: 684899--684951 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
684889 TGGTTGTGAG
*
684899 GGATTTCGTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
684921 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
684943 GGATTTCTT
1 GGATTTCTT
684952 TGCCGTAGAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.21, C:0.13, G:0.40, T:0.26
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:685119 original size:39 final size:40
Alignment explanation
Indices: 685076--685157 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 40
685066 TACGCGTAGC
*
685076 GATTATAATGGCGCTTTA-A-ATATCGCGTTGCGATTTACG
1 GATTATAATGGCGATTTACAGAT-TCGCGTTGCGATTTACG
** * *
685115 GATTATCGTTGCGATTTACAGATTCTCGTTGCGATTTACG
1 GATTATAATGGCGATTTACAGATTCGCGTTGCGATTTACG
685155 GAT
1 GAT
685158 ACGCGTTGCG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 14 0.39
40 20 0.56
41 2 0.06
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (40 bp):
GATTATAATGGCGATTTACAGATTCGCGTTGCGATTTACG
Found at i:685126 original size:20 final size:20
Alignment explanation
Indices: 685099--685291 Score: 219
Period size: 20 Copynumber: 9.7 Consensus size: 20
685089 CTTTAAATAT
685099 CGCGTTGCGATTTACGGATTA
1 CGCGTTGCGATTTACGGA-TA
* * *
685120 -TCGTTGCGATTTACAGATT
1 CGCGTTGCGATTTACGGATA
*
685139 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
685159 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
685179 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
685199 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
685219 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
685239 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
685259 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
685279 CGCGTTGCGATTT
1 CGCGTTGCGATTT
685292 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
19 1 0.01
20 145 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:685285 original size:60 final size:60
Alignment explanation
Indices: 685098--685413 Score: 200
Period size: 60 Copynumber: 5.2 Consensus size: 60
685088 GCTTTAAATA
* * * **
685098 TCGCGTTGCGATTTACGGATTATCG--TTGCGATTTACAG-ATTCTCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGGA-TA-CGCATTGCGATTTA-TGTATTCGCGTTGCGATTTTCATAT
* * *** * * **
685158 ACGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCATAT
* * * *
685218 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCATAT
* * * * * *
685278 TCGCGTTGCGATTT-TGGAAAATCGCAATGCGAATT-TGTACTATCGCATTGCGATTTTCAATAA
1 TCGCGTTGCGATTTACGG-ATA-CGCATTGCGATTTATGTA-T-TCGCGTTGCGATTTTC-ATAT
* * ** * *
685341 TCGCGTTGCGATTT-TGGAAACTG-ATTTGCGATTCTGGGGA-TCGCGTTGCGATTTTTAT-T
1 TCGCGTTGCGATTTACGGATAC-GCA-TTGCGATT-TATGTATTCGCGTTGCGATTTTCATAT
685400 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
685414 TGTTGGTCAT
Statistics
Matches: 210, Mismatches: 34, Indels: 25
0.78 0.13 0.09
Matches are distributed among these distances:
58 2 0.01
59 18 0.09
60 115 0.55
61 27 0.13
62 25 0.12
63 21 0.10
64 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (60 bp):
TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCATAT
Found at i:685308 original size:21 final size:21
Alignment explanation
Indices: 685278--685360 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
685268 ATTTTCATAT
*
685278 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
685299 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
685320 TCGCATTGCGATTTT-CAATAA
1 TCGCATTGCGATTTTGGAA-AA
*
685341 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
685361 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:685351 original size:42 final size:43
Alignment explanation
Indices: 685258--685356 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
685248 ATTTATGTGT
* *
685258 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
685299 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAATAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
685341 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
685357 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.38
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:691021 original size:27 final size:27
Alignment explanation
Indices: 690991--691043 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
690981 CGGTGCCGAA
690991 CTCGACCGGAAGTAGGTGTAGTTGGTC
1 CTCGACCGGAAGTAGGTGTAGTTGGTC
**
691018 CTCGGGCGGAAGTAGGTGTAGTTGGT
1 CTCGACCGGAAGTAGGTGTAGTTGGT
691044 GCAGAACCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.17, C:0.15, G:0.42, T:0.26
Consensus pattern (27 bp):
CTCGACCGGAAGTAGGTGTAGTTGGTC
Found at i:691922 original size:81 final size:81
Alignment explanation
Indices: 691829--691992 Score: 301
Period size: 81 Copynumber: 2.0 Consensus size: 81
691819 CATGGCATCC
* *
691829 GAGCGACCGACCTGTGTGTATTTTGCAAAGGAATAGGTCGCCATGCAATCAACATGGGACGTGGG
1 GAGCGACCGACCTGTGTATATTTTACAAAGGAATAGGTCGCCATGCAATCAACATGGGACGTGGG
691894 AATGCATGGGGGAGGG
66 AATGCATGGGGGAGGG
*
691910 GAGCGATCGACCTGTGTATATTTTACAAAGGAATAGGTCGCCATGCAATCAACATGGGACGTGGG
1 GAGCGACCGACCTGTGTATATTTTACAAAGGAATAGGTCGCCATGCAATCAACATGGGACGTGGG
691975 AATGCATGGGGGAGGG
66 AATGCATGGGGGAGGG
691991 GA
1 GA
691993 TGCATGTTGT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.27, C:0.16, G:0.36, T:0.20
Consensus pattern (81 bp):
GAGCGACCGACCTGTGTATATTTTACAAAGGAATAGGTCGCCATGCAATCAACATGGGACGTGGG
AATGCATGGGGGAGGG
Found at i:692248 original size:27 final size:27
Alignment explanation
Indices: 692218--692273 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
692208 AATAATTCAC
692218 GGCTCAAATGGTTCACATGCATGCATT
1 GGCTCAAATGGTTCACATGCATGCATT
692245 GGCTCAAATGGTTCACATGCATGCATT
1 GGCTCAAATGGTTCACATGCATGCATT
692272 GG
1 GG
692274 GAGCTGTAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (27 bp):
GGCTCAAATGGTTCACATGCATGCATT
Found at i:692378 original size:29 final size:29
Alignment explanation
Indices: 692346--692454 Score: 175
Period size: 29 Copynumber: 3.8 Consensus size: 29
692336 ATGGGAATGG
*
692346 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCAGGACTACATGGCGACCTACAAGGT
*
692375 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCAGGACTACATGGCGACCTACAAGGT
692404 CGCCAGGACTACATGGCGACCTACAAGGT
1 CGCCAGGACTACATGGCGACCTACAAGGT
*
692433 CGCCTAGG-CTGCATGGCGACCT
1 CGCC-AGGACTACATGGCGACCT
692455 CTCTATTCCT
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
29 74 0.96
30 3 0.04
ACGTcount: A:0.23, C:0.32, G:0.30, T:0.15
Consensus pattern (29 bp):
CGCCAGGACTACATGGCGACCTACAAGGT
Found at i:697736 original size:11 final size:11
Alignment explanation
Indices: 697720--697745 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
697710 CTGTCTTTGT
697720 TCATCACATTC
1 TCATCACATTC
697731 TCATCACATTC
1 TCATCACATTC
697742 TCAT
1 TCAT
697746 TGAAAATGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.35, G:0.00, T:0.38
Consensus pattern (11 bp):
TCATCACATTC
Found at i:700436 original size:35 final size:35
Alignment explanation
Indices: 700361--700474 Score: 185
Period size: 35 Copynumber: 3.2 Consensus size: 35
700351 ACTCATTCCT
* *
700361 ATTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 ATTTTCAAAGAAACATTTACCAAACTTTGAAAAAC
700395 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAC
1 A-TTTTCAAAGAAACATTTACCAAACTTTGAAAAAC
700431 ATTTTCAAAGAAACATTTACCAAACTTTGAAAAAC
1 ATTTTCAAAGAAACATTTACCAAACTTTGAAAAAC
700466 AATTTTCAA
1 -ATTTTCAA
700475 TGTTGGTTGC
Statistics
Matches: 75, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
34 1 0.01
35 39 0.52
36 35 0.47
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.30
Consensus pattern (35 bp):
ATTTTCAAAGAAACATTTACCAAACTTTGAAAAAC
Found at i:701178 original size:9 final size:9
Alignment explanation
Indices: 701164--701188 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
701154 AGCATAACAA
701164 CTTCATCAT
1 CTTCATCAT
701173 CTTCATCAT
1 CTTCATCAT
701182 CTTCATC
1 CTTCATC
701189 TACAAGGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.36, G:0.00, T:0.44
Consensus pattern (9 bp):
CTTCATCAT
Found at i:703870 original size:57 final size:57
Alignment explanation
Indices: 703774--703907 Score: 182
Period size: 61 Copynumber: 2.3 Consensus size: 57
703764 TTGTGATTAT
* *
703774 CAAGAACAGACACATACGCAAACGAATAACTGCATACTT-AAA-AAAGGAAAAAAAA
1 CAAGAACAGACACATACGAAAACGAATAACTGCATACTTAAAAGAAAAGAAAAAAAA
*
703829 CAAGAACAGACACATACGAAATTACGAATAACTGTATACTTAGAAAAGAAAAGAAAAAAAA
1 CAAGAACAGACACATACGAAA--ACGAATAACTGCATACTT--AAAAGAAAAGAAAAAAAA
*
703890 CAAGAACAAACACATACG
1 CAAGAACAGACACATACG
703908 CACGAATTGT
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
55 20 0.29
57 17 0.25
60 3 0.04
61 29 0.42
ACGTcount: A:0.58, C:0.17, G:0.13, T:0.12
Consensus pattern (57 bp):
CAAGAACAGACACATACGAAAACGAATAACTGCATACTTAAAAGAAAAGAAAAAAAA
Found at i:704385 original size:21 final size:21
Alignment explanation
Indices: 704359--704398 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
704349 TATAATGTAA
* *
704359 ATTTCAGAATAATTAAATTAG
1 ATTTCAAAATAAATAAATTAG
704380 ATTTCAAAATAAATAAATT
1 ATTTCAAAATAAATAAATT
704399 TAATTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (21 bp):
ATTTCAAAATAAATAAATTAG
Found at i:704849 original size:15 final size:15
Alignment explanation
Indices: 704829--704866 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
704819 CGCCTCGACT
704829 GAGCCTCGCGCCTCA
1 GAGCCTCGCGCCTCA
*
704844 GAGCCTCACGCCTCA
1 GAGCCTCGCGCCTCA
*
704859 TAGCCTCG
1 GAGCCTCG
704867 TTGCGCCTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.16, C:0.45, G:0.24, T:0.16
Consensus pattern (15 bp):
GAGCCTCGCGCCTCA
Found at i:707714 original size:11 final size:12
Alignment explanation
Indices: 707675--707728 Score: 67
Period size: 11 Copynumber: 4.7 Consensus size: 12
707665 TCAATTAAAA
707675 CTCAATTTCAAG
1 CTCAATTTCAAG
*
707687 CTCAATTTCAAA
1 CTCAATTTCAAG
707699 CTCAA-TTCAAG
1 CTCAATTTCAAG
*
707710 TTCAA-TTCAAG
1 CTCAATTTCAAG
*
707721 CTCGATTT
1 CTCAATTT
707729 TGAGCTCATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
11 18 0.50
12 18 0.50
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.35
Consensus pattern (12 bp):
CTCAATTTCAAG
Found at i:709470 original size:15 final size:15
Alignment explanation
Indices: 709450--709491 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
709440 TAACAATAAT
709450 TTAAAAA-ATTAGTTA
1 TTAAAAATATTA-TTA
709465 TTAAAAATATTATTA
1 TTAAAAATATTATTA
*
709480 TTAAATATATTA
1 TTAAAAATATTA
709492 AATATTTGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 21 0.84
16 4 0.16
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
TTAAAAATATTATTA
Found at i:709532 original size:11 final size:11
Alignment explanation
Indices: 709516--709576 Score: 56
Period size: 11 Copynumber: 5.7 Consensus size: 11
709506 GATAAAGAAA
709516 TTTTAATATAT
1 TTTTAATATAT
709527 TTTTAA-A-AT
1 TTTTAATATAT
709536 TTTATAAT-TAT
1 TTT-TAATATAT
*** *
709547 CAATAATGTAT
1 TTTTAATATAT
709558 TTTTAATATAT
1 TTTTAATATAT
709569 TTTTAATA
1 TTTTAATA
709577 ATGTAATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
9 5 0.13
10 8 0.21
11 26 0.67
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
TTTTAATATAT
Found at i:709595 original size:25 final size:25
Alignment explanation
Indices: 709548--709595 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
709538 TATAATTATC
* * *
709548 AATAATGTATTTTTAATATATTTTT
1 AATAATGTAATTTTAAAAAATTTTT
709573 AATAATGTAATTTTAAAAAATTT
1 AATAATGTAATTTTAAAAAATTT
709596 AAAATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (25 bp):
AATAATGTAATTTTAAAAAATTTTT
Found at i:709641 original size:20 final size:20
Alignment explanation
Indices: 709616--709664 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
709606 TATAACATTT
709616 TTTTCGAGTTGCTCACGAAC
1 TTTTCGAGTTGCTCACGAAC
*
709636 TTTTCGAGTTGCTCACGAGC
1 TTTTCGAGTTGCTCACGAAC
709656 TTTTCGAGT
1 TTTTCGAGT
709665 CGAATATCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.39
Consensus pattern (20 bp):
TTTTCGAGTTGCTCACGAAC
Found at i:710861 original size:15 final size:17
Alignment explanation
Indices: 710841--710873 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
710831 ATCTCACTAA
710841 TTCAAT-TTATTT-TAT
1 TTCAATATTATTTGTAT
710856 TTCAATATTATTTGTAT
1 TTCAATATTATTTGTAT
710873 T
1 T
710874 AACTCATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 6 0.38
17 4 0.25
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (17 bp):
TTCAATATTATTTGTAT
Found at i:713193 original size:29 final size:29
Alignment explanation
Indices: 713151--713221 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 29
713141 GACATGCGAT
713151 AAATTTTAATATTTTATGCATTAACTTTG
1 AAATTTTAATATTTTATGCATTAACTTTG
713180 AAATTTTAATATTTTATGCATTAACTTTG
1 AAATTTTAATATTTTATGCATTAACTTTG
*
713209 AAATTGTAATATT
1 AAATTTTAATATT
713222 AATTATTTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.51
Consensus pattern (29 bp):
AAATTTTAATATTTTATGCATTAACTTTG
Found at i:714410 original size:21 final size:21
Alignment explanation
Indices: 714386--714470 Score: 102
Period size: 21 Copynumber: 4.1 Consensus size: 21
714376 GGAGTATTGA
*
714386 TACTCCTTTTATGGGTATCAG
1 TACTCCTTTTATGGGTATCGG
* *
714407 TACTTCTTTTATGGGTATCGA
1 TACTCCTTTTATGGGTATCGG
* *
714428 TACTCTTTTTATGAGTATCGG
1 TACTCCTTTTATGGGTATCGG
*
714449 TACTCC-CTT-TGGGTATCGG
1 TACTCCTTTTATGGGTATCGG
714468 TAC
1 TAC
714471 CTATTTTACA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
19 12 0.22
20 2 0.04
21 40 0.74
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.44
Consensus pattern (21 bp):
TACTCCTTTTATGGGTATCGG
Found at i:722708 original size:31 final size:28
Alignment explanation
Indices: 722667--722747 Score: 76
Period size: 31 Copynumber: 2.8 Consensus size: 28
722657 GAAATATATT
*
722667 TATACATTTTATTATTAATTTAATATAAAAA
1 TATATATTTTATT-TTAATTTAAT-T-AAAA
*
722698 TATATATTTTATTCTT-ATCTTAATTTAAA
1 TATATATTTTATT-TTAAT-TTAATTAAAA
*
722727 -ATATATTTTATTTTAAATTAA
1 TATATATTTTATTTTAATTTAA
722748 AAATATAGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
27 6 0.14
28 13 0.30
29 3 0.07
30 3 0.07
31 19 0.43
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (28 bp):
TATATATTTTATTTTAATTTAATTAAAA
Found at i:722737 original size:22 final size:23
Alignment explanation
Indices: 722707--722760 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
722697 ATATATATTT
*
722707 TATTCTTATCTT-AATTTAAAATA
1 TATT-TTATCTTAAATTAAAAATA
*
722730 TATTTTATTTTAAATTAAAAATA
1 TATTTTATCTTAAATTAAAAATA
*
722753 TAGTTTAT
1 TATTTTAT
722761 TATTATTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 6 0.22
23 21 0.78
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (23 bp):
TATTTTATCTTAAATTAAAAATA
Found at i:722768 original size:22 final size:22
Alignment explanation
Indices: 722712--722769 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
722702 TATTTTATTC
* * *
722712 TTATCTTAATTTAAAATATATT
1 TTATTTTAATTAAAAATATAGT
722734 TTATTTTAAATTAAAAATATAGT
1 TTATTTT-AATTAAAAATATAGT
722757 TTATTATT-ATTAA
1 TTATT-TTAATTAA
722770 GTTATAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 11 0.35
23 18 0.58
24 2 0.06
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TTATTTTAATTAAAAATATAGT
Found at i:722893 original size:29 final size:29
Alignment explanation
Indices: 722861--722919 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
722851 TAGAAACATT
*
722861 TTTTAAAGTTAAAATAATAATAAAATATA
1 TTTTAAAGTTAAAATAAGAATAAAATATA
* *
722890 TTTTGAAGTTAAAATAAGAGTAAAATATA
1 TTTTAAAGTTAAAATAAGAATAAAATATA
722919 T
1 T
722920 ATTTTTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.37
Consensus pattern (29 bp):
TTTTAAAGTTAAAATAAGAATAAAATATA
Found at i:723075 original size:29 final size:29
Alignment explanation
Indices: 723027--723106 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
723017 TATATATATA
*
723027 AAAAATATTTAAAAAATTAAGACAAAAAT
1 AAAAATATTTAAAAAATTAAAACAAAAAT
* * * *
723056 AAAAATATTTGATAAGTTAAAACAAAATT
1 AAAAATATTTAAAAAATTAAAACAAAAAT
* *
723085 AAAAGATAATTTTAAAATTTAA
1 AAAA-AT-ATTTAAAAAATTAA
723107 GATATATAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 28 0.68
30 2 0.05
31 11 0.27
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (29 bp):
AAAAATATTTAAAAAATTAAAACAAAAAT
Found at i:724382 original size:6 final size:6
Alignment explanation
Indices: 724368--724397 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
724358 ATAATAATAA
724368 TATATTT TATATT TATATT TATATT TATAT
1 TATA-TT TATATT TATATT TATATT TATAT
724398 ATTTAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:726081 original size:2 final size:2
Alignment explanation
Indices: 726039--726063 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
726029 GTACAACAAC
726039 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
726064 GAAAGATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:736190 original size:13 final size:14
Alignment explanation
Indices: 736166--736195 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
736156 TTTGTTGTTG
736166 TTTTTTCTATTTTA
1 TTTTTTCTATTTTA
736180 TTTTTTC-ATTTTA
1 TTTTTTCTATTTTA
736193 TTT
1 TTT
736196 AATATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTTCTATTTTA
Found at i:756246 original size:14 final size:15
Alignment explanation
Indices: 756224--756270 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
756214 TATAAGGTCA
*
756224 TTTTGTTATAATT-T
1 TTTTATTATAATTAT
*
756238 TTTTATTATATTTAT
1 TTTTATTATAATTAT
*
756253 TGTTTATTATGATTAT
1 T-TTTATTATAATTAT
756269 TT
1 TT
756271 GAAAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 11 0.41
15 3 0.11
16 13 0.48
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.70
Consensus pattern (15 bp):
TTTTATTATAATTAT
Found at i:759884 original size:3 final size:3
Alignment explanation
Indices: 759878--759917 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
759868 CCATCATCGC
* *
759878 CGT CGT CGT CGT CGT CAT CGT CGT CGT TGT CGT CGT CGT C
1 CGT CGT CGT CGT CGT CGT CGT CGT CGT CGT CGT CGT CGT C
759918 TTCCTGAGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.03, C:0.33, G:0.30, T:0.35
Consensus pattern (3 bp):
CGT
Found at i:761515 original size:64 final size:65
Alignment explanation
Indices: 761465--761624 Score: 277
Period size: 65 Copynumber: 2.5 Consensus size: 65
761455 TGCACTAAGA
* *
761465 GTGCATCGATGCATAAAATGCATTCGATGTTTTGA-AAAAGCCTGAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTGATAAAACCCTGAGTGCATCGATGCATGGTAT
*
761529 GTGCATCGATGCATCAAATGCATTCGATGTTTTTATAAAACCCTGAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTGATAAAACCCTGAGTGCATCGATGCATGGTAT
*
761594 GTACATCGATGCATCAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
761625 CAATTAAATC
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
64 33 0.36
65 58 0.64
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTGATAAAACCCTGAGTGCATCGATGCATGGTAT
Found at i:768171 original size:22 final size:21
Alignment explanation
Indices: 768129--768168 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
768119 GAGTTTATTT
*
768129 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
768150 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
768169 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:770231 original size:65 final size:64
Alignment explanation
Indices: 770099--770258 Score: 239
Period size: 65 Copynumber: 2.5 Consensus size: 64
770089 CAGTGCATCG
* * * *
770099 GTGCACCGATGCATAAAATGCATTCGATGTTTTGAAAAAGCATGAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAACCATGAGTGCATCGATGCATGATAT
* * *
770163 GTGCATCGATGCATCAAATGAATTCGATGTTTTTATAAAACCCTGAGTGCATCGATGCATGATAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTGA-AAAACCATGAGTGCATCGATGCATGATAT
*
770228 GTGCATTGATGCATCAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
770259 CAATTAAATC
Statistics
Matches: 86, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
64 31 0.36
65 55 0.64
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAACCATGAGTGCATCGATGCATGATAT
Found at i:770298 original size:65 final size:63
Alignment explanation
Indices: 770099--770306 Score: 222
Period size: 65 Copynumber: 3.2 Consensus size: 63
770089 CAGTGCATCG
* * * *
770099 GTGCACCGATGCATAAAATGCATTCGATGTTTTGAA-AAAGCATGAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCAATAAACCATGAGTGCATCGATGCAT-GTAT
* ** *
770163 GTGCATCGATGCATCAAATGAATTCGATGTTTTTATAAAACCCTGAGTGCATCGATGCATGATAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAT-AAACCATGAGTGCATCGATGCATG-TAT
* * * *
770228 GTGCATTGATGCATCAAATGCATTCGATG-TTCAATTAAATCATCAGTGCATCGATGCATAGTTT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAA-TAAACCATGAGTGCATCGATGCAT-GTAT
*
770292 GATGCATCGGTGCAT
1 G-TGCATCGATGCAT
770307 GCCTGTGAAA
Statistics
Matches: 121, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
63 4 0.03
64 53 0.44
65 64 0.53
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAATAAACCATGAGTGCATCGATGCATGTAT
Found at i:772360 original size:17 final size:17
Alignment explanation
Indices: 772334--772371 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
772324 AATTAAATAC
*
772334 AATA-TTAAATAATTTA
1 AATACTTAAATAAATTA
772350 AATACTTAAATAAATTA
1 AATACTTAAATAAATTA
772367 AATAC
1 AATAC
772372 AAAATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (17 bp):
AATACTTAAATAAATTA
Found at i:772376 original size:24 final size:24
Alignment explanation
Indices: 772349--772394 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
772339 TAAATAATTT
*
772349 AAATACTTAAATA-AATTAAATACA
1 AAATA-TTAAATATAATAAAATACA
772373 AAATATTAAATATAATAAAATA
1 AAATATTAAATATAATAAAATA
772395 TACCAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (24 bp):
AAATATTAAATATAATAAAATACA
Found at i:790811 original size:71 final size:72
Alignment explanation
Indices: 790684--790826 Score: 182
Period size: 71 Copynumber: 2.0 Consensus size: 72
790674 TCTTAGGTCC
* * * * * *
790684 ATAAGGAATTACCAGCTGATCAGTGTTGAACCTATATAAGGAGTTACAAGCTTGATCATAACTGA
1 ATAAGGAATTACCAGCTAATCAGTGCTGAACATATAGAAGGAATTACAAGCTTGATCAGAACTGA
790749 ACCTGCA
66 ACCTGCA
* * *
790756 ATAAGGAATTATCAGCTAAT-GGTGCTGAACATATAGAAGGAATTACCAA-TTTGATCAGAACTG
1 ATAAGGAATTACCAGCTAATCAGTGCTGAACATATAGAAGGAATTA-CAAGCTTGATCAGAACTG
790819 AACCTGCA
65 AACCTGCA
790827 GAGACTTCAT
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
71 40 0.66
72 21 0.34
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.26
Consensus pattern (72 bp):
ATAAGGAATTACCAGCTAATCAGTGCTGAACATATAGAAGGAATTACAAGCTTGATCAGAACTGA
ACCTGCA
Found at i:793525 original size:18 final size:17
Alignment explanation
Indices: 793483--793530 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
793473 CAAACTAGTT
793483 AAAGTCAACGGTCAACG
1 AAAGTCAACGGTCAACG
*
793500 ACATGTCAACGGTCATATC-
1 A-AAGTCAACGGTCA-A-CG
793519 AAAGTCAACGGT
1 AAAGTCAACGGT
793531 TTGGGTCAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.04
18 22 0.85
19 2 0.08
20 1 0.04
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.19
Consensus pattern (17 bp):
AAAGTCAACGGTCAACG
Found at i:795175 original size:68 final size:68
Alignment explanation
Indices: 795092--795229 Score: 276
Period size: 68 Copynumber: 2.0 Consensus size: 68
795082 CTTGTGCCTT
795092 CATGATCCTCTCCATGTTGGCAGTCCAACCATACTCACCAGTCACTAAACAGCAAGGAGAATCAA
1 CATGATCCTCTCCATGTTGGCAGTCCAACCATACTCACCAGTCACTAAACAGCAAGGAGAATCAA
795157 CCA
66 CCA
795160 CATGATCCTCTCCATGTTGGCAGTCCAACCATACTCACCAGTCACTAAACAGCAAGGAGAATCAA
1 CATGATCCTCTCCATGTTGGCAGTCCAACCATACTCACCAGTCACTAAACAGCAAGGAGAATCAA
795225 CCA
66 CCA
795228 CA
1 CA
795230 CAGTCGGAAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.34, C:0.33, G:0.14, T:0.19
Consensus pattern (68 bp):
CATGATCCTCTCCATGTTGGCAGTCCAACCATACTCACCAGTCACTAAACAGCAAGGAGAATCAA
CCA
Found at i:796176 original size:12 final size:13
Alignment explanation
Indices: 796159--796191 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
796149 ACCTCCTTAA
796159 TCTTCTTCTT-TT
1 TCTTCTTCTTCTT
796171 TCTTC-TCTTCTT
1 TCTTCTTCTTCTT
796183 TCTTCTTCT
1 TCTTCTTCT
796192 CCTCATCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.21
12 12 0.63
13 3 0.16
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (13 bp):
TCTTCTTCTTCTT
Found at i:796190 original size:15 final size:14
Alignment explanation
Indices: 796162--796192 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
796152 TCCTTAATCT
796162 TCTTCTTTTTCTTC
1 TCTTCTTTTTCTTC
796176 TCTTCTTTCTTCTTC
1 TCTTCTTT-TTCTTC
796191 TC
1 TC
796193 CTCATCAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (14 bp):
TCTTCTTTTTCTTC
Found at i:797800 original size:49 final size:47
Alignment explanation
Indices: 797722--797819 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 47
797712 AGACACATGG
* *
797722 GTTTTTTCACACAACCCATTCGGTTTCAAACCATTTTCATTACCCTC
1 GTTTTTTCACAAAACCCATTCGGTTTCAAACCATTTTCATGACCCTC
*
797769 GTTTATTTACACAAAACTCATTCGGTTTCAAACCATTTTCATGACCCTC
1 GTTT-TTT-CACAAAACCCATTCGGTTTCAAACCATTTTCATGACCCTC
797818 GT
1 GT
797820 CTGAAAATCA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 4 0.09
48 3 0.07
49 39 0.85
ACGTcount: A:0.26, C:0.29, G:0.08, T:0.38
Consensus pattern (47 bp):
GTTTTTTCACAAAACCCATTCGGTTTCAAACCATTTTCATGACCCTC
Found at i:799783 original size:21 final size:21
Alignment explanation
Indices: 799757--799797 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
799747 GTAAAAAAAT
*
799757 TATCTAAAACATTATTATTTC
1 TATCTAAAACATTAATATTTC
*
799778 TATCTAAAATATTAATATTT
1 TATCTAAAACATTAATATTT
799798 TTTAACATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (21 bp):
TATCTAAAACATTAATATTTC
Found at i:800327 original size:21 final size:21
Alignment explanation
Indices: 800303--800394 Score: 157
Period size: 21 Copynumber: 4.4 Consensus size: 21
800293 AAAGTGTATA
* *
800303 CATGTACCCCTGCAGTGCATC
1 CATGCACCCCGGCAGTGCATC
*
800324 CATGCACCCCTGCAGTGCATC
1 CATGCACCCCGGCAGTGCATC
800345 CATGCACCCCGGCAGTGCATC
1 CATGCACCCCGGCAGTGCATC
800366 CATGCACCCCGGCAGTGCATC
1 CATGCACCCCGGCAGTGCATC
800387 CATGCACC
1 CATGCACC
800395 TGCCACTAGT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 69 1.00
ACGTcount: A:0.20, C:0.42, G:0.21, T:0.17
Consensus pattern (21 bp):
CATGCACCCCGGCAGTGCATC
Found at i:803012 original size:21 final size:21
Alignment explanation
Indices: 802973--803011 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
802963 AAACAATTGG
802973 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
*
802994 TAACAATTGGTAT-ATTTT
1 TAACAATTGATATCATTTT
803012 TCATTAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:803277 original size:20 final size:20
Alignment explanation
Indices: 803234--803331 Score: 97
Period size: 20 Copynumber: 4.8 Consensus size: 20
803224 AGGGTGTCAA
* *
803234 AGTGCATCCATGTACCCCTGC
1 AGTGCATCCATGCA-CCCTAC
803255 AGTGCATCCATGCACCCTAC
1 AGTGCATCCATGCACCCTAC
* *
803275 AGTGCATCCATGCACCTGCAAT
1 AGTGCATCCATGCACC--CTAC
* * **
803297 AGTGCATCGATGCACCATGT
1 AGTGCATCCATGCACCCTAC
803317 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
803332 TCCATTTCGA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
20 36 0.55
21 13 0.20
22 17 0.26
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.22
Consensus pattern (20 bp):
AGTGCATCCATGCACCCTAC
Found at i:805088 original size:28 final size:28
Alignment explanation
Indices: 805048--805110 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
805038 ATTTGTCCCG
805048 TAGAACCACTATGTCCCGAAGGACCACA
1 TAGAACCACTATGTCCCGAAGGACCACA
** *
805076 TAGAA-CACATATGTCCCTTAGGACCACG
1 TAGAACCAC-TATGTCCCGAAGGACCACA
805104 TAGAACC
1 TAGAACC
805111 CTCGACTCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 3 0.10
28 26 0.87
29 1 0.03
ACGTcount: A:0.35, C:0.30, G:0.17, T:0.17
Consensus pattern (28 bp):
TAGAACCACTATGTCCCGAAGGACCACA
Found at i:812609 original size:18 final size:17
Alignment explanation
Indices: 812555--812603 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
812545 TTGAACCCCT
* *
812555 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
812573 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
812591 AGTGCATTCGATG
1 AGTGCA-TCGATG
812604 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:813720 original size:24 final size:24
Alignment explanation
Indices: 813688--813740 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
813678 AGTATTTGAG
*
813688 AGAAGTTGAGAGGATTTGGTGTGA
1 AGAAATTGAGAGGATTTGGTGTGA
*
813712 AGAAATTGAGATGATTTGGTGTGA
1 AGAAATTGAGAGGATTTGGTGTGA
813736 AGAAA
1 AGAAA
813741 ATGATTGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.28
Consensus pattern (24 bp):
AGAAATTGAGAGGATTTGGTGTGA
Found at i:814940 original size:20 final size:20
Alignment explanation
Indices: 814907--814970 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
814897 ATCCGATTTG
* *
814907 AAATAATATATTTATTAAAA
1 AAATATTATTTTTATTAAAA
814927 AAATATTATTTTTATTCAATAA
1 AAATATTATTTTTATT-AA-AA
* * * *
814949 AAACATGAGTTTAATTAAAA
1 AAATATTATTTTTATTAAAA
814969 AA
1 AA
814971 TAATATATAG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 18 0.50
21 4 0.11
22 14 0.39
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (20 bp):
AAATATTATTTTTATTAAAA
Found at i:820723 original size:2 final size:2
Alignment explanation
Indices: 820716--820746 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
820706 ACAGAAACAA
820716 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
820747 AATTGGTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:823376 original size:2 final size:2
Alignment explanation
Indices: 823369--823406 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
823359 ATTATTAATT
823369 TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
823407 AAATTAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:824472 original size:14 final size:14
Alignment explanation
Indices: 824453--824479 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
824443 GTTTAATAAA
824453 AAAATCTTTTATAT
1 AAAATCTTTTATAT
824467 AAAATCTTTTATA
1 AAAATCTTTTATA
824480 ATTTAGAGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
AAAATCTTTTATAT
Found at i:828000 original size:23 final size:23
Alignment explanation
Indices: 827968--828053 Score: 64
Period size: 23 Copynumber: 3.7 Consensus size: 23
827958 ATATATATAT
* *
827968 AATATATAAATAAATATGTTTGTG
1 AATAT-TAAATAAATATGTTCGTA
* ** * *
827992 AATGTTAAACGAACATATTCGTA
1 AATATTAAATAAATATGTTCGTA
*
828015 AATATTAAATAAATATGTTCGCA
1 AATATTAAATAAATATGTTCGTA
* * *
828038 AACACTAAATACATAT
1 AATATTAAATAAATAT
828054 ATAATATTAA
Statistics
Matches: 46, Mismatches: 16, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
23 42 0.91
24 4 0.09
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (23 bp):
AATATTAAATAAATATGTTCGTA
Found at i:828400 original size:2 final size:2
Alignment explanation
Indices: 828393--828423 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
828383 TGTCCGCGAG
828393 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
828424 TAAACAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:828449 original size:23 final size:23
Alignment explanation
Indices: 828420--828485 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 23
828410 ATATATATAT
* *
828420 ATATTAAACAAATATGTTTGTGA
1 ATATTAAACAAATATGTTCGTAA
* * * *
828443 ATGTTAAACGAACATATTCGTAA
1 ATATTAAACAAATATGTTCGTAA
*
828466 ATATTAAATAAATATGTTCG
1 ATATTAAACAAATATGTTCG
828486 CAAACACTAA
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (23 bp):
ATATTAAACAAATATGTTCGTAA
Found at i:829019 original size:180 final size:178
Alignment explanation
Indices: 828708--829086 Score: 577
Period size: 180 Copynumber: 2.1 Consensus size: 178
828698 TTTTCTAATT
* * * *
828708 TATATAA-AAATTAAATGTTTTTTAATTAAAAAAAGTTTATAATTGATTTAAATAATATATATTA
1 TATATAATATATT-AATATTTTTTAATTAAAAAAAGTTTACAATTAATTTAAATAATATATATTA
*
828772 TAAATAAATTTCAGATAATTTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATC
65 TAAATAAATTTCAGATAATTTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTAGATC
* *
828837 TTAAATTATT-ATTGGGTTTTAAAT-GTTTGGGCTTAGCCCATATGTTA
130 TTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
828884 TATATAATATATTAATATTTTTTAATTAAAAAACAGTTTACAATTAATTTAAATAATATATAATT
1 TATATAATATATTAATATTTTTTAATTAAAAAA-AGTTTACAATTAATTTAAATAATATAT-ATT
* * *
828949 ATAAAATAAAAATTTTATATAA-TTTTTTAATTAATTAATATTGATTTAGGTTTAAAATTTATTA
64 AT-AAAT--AAATTTCAGATAATTTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTA
829013 GATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
126 GATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
829066 TATATAATATATTTAATATTT
1 TATATAATATA-TTAATATTT
829087 AAAATTTAAT
Statistics
Matches: 184, Mismatches: 10, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
176 26 0.14
177 29 0.16
178 5 0.03
179 4 0.02
180 54 0.29
181 24 0.13
182 33 0.18
183 9 0.05
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (178 bp):
TATATAATATATTAATATTTTTTAATTAAAAAAAGTTTACAATTAATTTAAATAATATATATTAT
AAATAAATTTCAGATAATTTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTAGATCT
TAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
Found at i:833662 original size:4 final size:4
Alignment explanation
Indices: 833653--833731 Score: 79
Period size: 4 Copynumber: 19.8 Consensus size: 4
833643 AGCTTTCCCA
* *
833653 ACAT ACAT ACAT A-ACT ACAT ACAT ACAT ACAT ACAT ACAT GCAT ACAC
1 ACAT ACAT ACAT ACA-T ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
833701 GCAT ACAT GCAT ACAC GCAT ACAT GCAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
833732 CGCATACATG
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
3 1 0.02
4 57 0.97
5 1 0.02
ACGTcount: A:0.44, C:0.28, G:0.06, T:0.22
Consensus pattern (4 bp):
ACAT
Found at i:833697 original size:24 final size:24
Alignment explanation
Indices: 833653--833743 Score: 94
Period size: 24 Copynumber: 3.8 Consensus size: 24
833643 AGCTTTCCCA
*
833653 ACATACATACATA-ACTACATACAT
1 ACATACATACATACA-TGCATACAT
*
833677 ACATACATACATACATGCATACAC
1 ACATACATACATACATGCATACAT
* * *
833701 GCATACATGCATACACGCATACAT
1 ACATACATACATACATGCATACAT
* **
833725 GCATACACGCATACATGCA
1 ACATACATACATACATGCA
833744 CACACGCATA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
24 57 0.98
25 1 0.02
ACGTcount: A:0.43, C:0.29, G:0.08, T:0.21
Consensus pattern (24 bp):
ACATACATACATACATGCATACAT
Found at i:833698 original size:16 final size:16
Alignment explanation
Indices: 833670--834250 Score: 442
Period size: 16 Copynumber: 35.6 Consensus size: 16
833660 TACATAACTA
* **
833670 CATACATACATACATA
1 CATACATGCATACACG
833686 CATACATGCATACACG
1 CATACATGCATACACG
833702 CATACATGCATACACG
1 CATACATGCATACACG
833718 CATACATGCATACACG
1 CATACATGCATACACG
*
833734 CATACATGCACACACG
1 CATACATGCATACACG
**
833750 CATACATGCACGCACG
1 CATACATGCATACACG
**
833766 CATACATGCACGCACG
1 CATACATGCATACACG
**
833782 CATACATGCACGCACG
1 CATACATGCATACACG
**
833798 CATACATGCACGCACG
1 CATACATGCATACACG
**
833814 CATACATGCACGCACG
1 CATACATGCATACACG
**
833830 CATACATGCACGCACG
1 CATACATGCATACACG
**
833846 CATACATGCACGCACG
1 CATACATGCATACACG
**
833862 CATACATGCACGCACG
1 CATACATGCATACACG
**
833878 CATACATGCACGCACG
1 CATACATGCATACACG
* *
833894 CATACATGCACGCACACATA
1 CATACATGCA--TACAC--G
* *
833914 CATACATACATGCACG
1 CATACATGCATACACG
*
833930 CATACATGCATGCACG
1 CATACATGCATACACG
** **
833946 CACGCATGCACGCACG
1 CATACATGCATACACG
** **
833962 CACGCATGCACGCACG
1 CATACATGCATACACG
** **
833978 CACGCATGCACGCACG
1 CATACATGCATACACG
* **
833994 CATGCATGCACGCACG
1 CATACATGCATACACG
* **
834010 CATGCATGCACGCACG
1 CATACATGCATACACG
* **
834026 CATGCATGCACGCACG
1 CATACATGCATACACG
**
834042 CATACATGCACGCACG
1 CATACATGCATACACG
* *
834058 CATACATACATGCACG
1 CATACATGCATACACG
*
834074 CATACATACATGCACGCACG
1 CATACATGCAT--A--CACG
**
834094 CATACATGCACGCACG
1 CATACATGCATACACG
* *
834110 CATACATACATGCACG
1 CATACATGCATACACG
*
834126 CATACATACATGCACGCACG
1 CATACATGCAT--A--CACG
* *
834146 CATACATACATGCACG
1 CATACATGCATACACG
* *
834162 CATACATACATGCACG
1 CATACATGCATACACG
* *
834178 CATACATACATGCACG
1 CATACATGCATACACG
* *
834194 CATACATACATGCACG
1 CATACATGCATACACG
*
834210 CATACATGCATACATG
1 CATACATGCATACACG
*
834226 CATACATGCATACATG
1 CATACATGCATACACG
834242 CATACATGC
1 CATACATGC
834251 TATGCATGCA
Statistics
Matches: 523, Mismatches: 30, Indels: 24
0.91 0.05 0.04
Matches are distributed among these distances:
16 479 0.92
18 7 0.01
20 37 0.07
ACGTcount: A:0.34, C:0.35, G:0.16, T:0.15
Consensus pattern (16 bp):
CATACATGCATACACG
Done.