Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 264 of 373
Found at i:89785569 original size:41 final size:41
Alignment explanation
Indices: 89785512--89785593 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
89785502 AAAGTTAGGT
89785512 TTCATGTTCATCCCCCCACACTTAAGATGTACATTGCCCTC
1 TTCATGTTCATCCCCCCACACTTAAGATGTACATTGCCCTC
89785553 TTCATGTTCATCCCCCCACACTTAAGATGTACATTGCCCTC
1 TTCATGTTCATCCCCCCACACTTAAGATGTACATTGCCCTC
89785594 AATGTACAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.22, C:0.37, G:0.10, T:0.32
Consensus pattern (41 bp):
TTCATGTTCATCCCCCCACACTTAAGATGTACATTGCCCTC
Found at i:89785966 original size:17 final size:17
Alignment explanation
Indices: 89785944--89786008 Score: 73
Period size: 17 Copynumber: 3.9 Consensus size: 17
89785934 TATGTCTTTC
* *
89785944 AAAATAAAATTGAAATG
1 AAAATAAAAATAAAATG
89785961 AAAATAAAAATCAAAA-G
1 AAAATAAAAAT-AAAATG
89785978 AAAAATAAAAATAAAAT-
1 -AAAATAAAAATAAAATG
89785995 AAAAT-AAAATAAAA
1 AAAATAAAAATAAAA
89786009 CTAAATAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
15 9 0.21
16 5 0.12
17 15 0.35
18 14 0.33
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.17
Consensus pattern (17 bp):
AAAATAAAAATAAAATG
Found at i:89785969 original size:5 final size:5
Alignment explanation
Indices: 89785944--89786018 Score: 62
Period size: 5 Copynumber: 13.8 Consensus size: 5
89785934 TATGTCTTTC
* *
89785944 AAAAT AAAATT GAAAT GAAAAT AAAAAT CAAAAGA AAAAT AAAAAT AAAAT
1 AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAA-T AAAAT -AAAAT AAAAT
89785995 AAAAT AAAAT AAAACT -AAAT AAAA
1 AAAAT AAAAT AAAA-T AAAAT AAAA
89786019 AATAGGAGGA
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
4 1 0.02
5 30 0.52
6 27 0.47
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:89785971 original size:12 final size:11
Alignment explanation
Indices: 89785944--89786019 Score: 68
Period size: 11 Copynumber: 6.9 Consensus size: 11
89785934 TATGTCTTTC
*
89785944 AAAATAAAATT
1 AAAATAAAAAT
* *
89785955 GAAATGAAAAT
1 AAAATAAAAAT
89785966 AAAAATCAAAAGA-
1 -AAAAT-AAAA-AT
89785979 AAAATAAAAAT
1 AAAATAAAAAT
89785990 AAAAT-AAAAT
1 AAAATAAAAAT
*
89786000 AAAATAAAACT
1 AAAATAAAAAT
89786011 -AAATAAAAA
1 AAAATAAAAA
89786020 ATAGGAGGAT
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
10 19 0.36
11 21 0.40
12 9 0.17
13 3 0.06
14 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:89791414 original size:13 final size:13
Alignment explanation
Indices: 89791396--89791420 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89791386 GGTTTGTTTA
89791396 TTAAACTAATTAT
1 TTAAACTAATTAT
89791409 TTAAACTAATTA
1 TTAAACTAATTA
89791421 ACTGATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:89798967 original size:21 final size:21
Alignment explanation
Indices: 89798928--89798967 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
89798918 AATGCTTGAG
* *
89798928 ATTTTGAATGATTGTTGATGA
1 ATTTTGAAAGATTGATGATGA
*
89798949 ATTTTGAAAGCTTGATGAT
1 ATTTTGAAAGATTGATGAT
89798968 AGATATTGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.45
Consensus pattern (21 bp):
ATTTTGAAAGATTGATGATGA
Found at i:89810107 original size:21 final size:22
Alignment explanation
Indices: 89810083--89810136 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
89810073 CGGCCAGTGG
89810083 CACGAGCATGT-CCTAGTG-CCA
1 CACGAGCATGTCCCTAG-GACCA
* * *
89810104 CACGGGCGTGTCCCTTGGACCA
1 CACGAGCATGTCCCTAGGACCA
89810126 CACGAGCATGT
1 CACGAGCATGT
89810137 GAGCCTTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.20, C:0.33, G:0.28, T:0.19
Consensus pattern (22 bp):
CACGAGCATGTCCCTAGGACCA
Found at i:89811266 original size:44 final size:44
Alignment explanation
Indices: 89811121--89811471 Score: 271
Period size: 44 Copynumber: 7.8 Consensus size: 44
89811111 AGTGAGTCTC
* * *
89811121 ATCTCCCTGAAGTTGCAGTGGAGTAAACT-AAGCTACAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTT
* ** * * *
89811164 ATCTCCTTGAAGTCACAGTGGAGCAGATTGAAGATAGCGAATCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAATCTT
89811209 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTT
* * *
89811253 ATCTCCCTAAAGTTGTAGTGGAGTAGATTGAAGCTACAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTT
* * * * *
89811297 ATCTCCCTGAATTTG-AGGTAGAGTAGATTGAA-ATGACAAATCCT
1 ATCTCCCTGAAGTTGCA-GTGGAGCAGATTGAAGCT-ACAAATCTT
* * * * * *
89811341 ATAC-CTCTGAAGTTGCAGTGG-GTCGGATTACATCAATCATAGCAAGTCTC
1 AT-CTCCCTGAAGTTGCAGTGGAG-CAGA-T---TGAAGC-TA-CAAATCTT
* * * * * *
89811391 GTGTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTACGAATCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTT
* * * *
89811435 ATCTCCCTGAAGTTGCAGTAGAGTACATTGAAACTAC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC
89811472 CCCTGAAGTT
Statistics
Matches: 241, Mismatches: 51, Indels: 31
0.75 0.16 0.10
Matches are distributed among these distances:
43 26 0.11
44 138 0.57
45 43 0.18
46 4 0.02
48 3 0.01
49 2 0.01
50 25 0.10
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTT
Found at i:89811983 original size:12 final size:12
Alignment explanation
Indices: 89811950--89811985 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
89811940 AAAAAGACAA
*
89811950 CAAAAATAGAAG
1 CAAAAATAGTAG
*
89811962 CGAAAATAGTAG
1 CAAAAATAGTAG
89811974 CAAAAATAGTAG
1 CAAAAATAGTAG
89811986 ATGACAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.58, C:0.08, G:0.19, T:0.14
Consensus pattern (12 bp):
CAAAAATAGTAG
Found at i:89816572 original size:27 final size:27
Alignment explanation
Indices: 89816542--89816627 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 27
89816532 TCAACAAATG
*
89816542 TTCATGTTCAATCAATATCAACTTATT
1 TTCATGTTCAATCATTATCAACTTATT
* * ** *
89816569 TTCAT-TTTAAGCATTATTCAACAAATG
1 TTCATGTTCAATCATTA-TCAACTTATT
89816596 TTCATGTTCAATCATTATCAACTTATT
1 TTCATGTTCAATCATTATCAACTTATT
89816623 TTCAT
1 TTCAT
89816628 TTTAAGCATT
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
26 8 0.17
27 29 0.63
28 9 0.20
ACGTcount: A:0.33, C:0.17, G:0.05, T:0.45
Consensus pattern (27 bp):
TTCATGTTCAATCATTATCAACTTATT
Found at i:89816615 original size:54 final size:55
Alignment explanation
Indices: 89816528--89816642 Score: 214
Period size: 54 Copynumber: 2.1 Consensus size: 55
89816518 TAATCTCTAC
89816528 TTATTCAACAAATGTTCATGTTCAATCAATATCAACTTATTTTCATTTTAAGCA-
1 TTATTCAACAAATGTTCATGTTCAATCAATATCAACTTATTTTCATTTTAAGCAT
*
89816582 TTATTCAACAAATGTTCATGTTCAATCATTATCAACTTATTTTCATTTTAAGCAT
1 TTATTCAACAAATGTTCATGTTCAATCAATATCAACTTATTTTCATTTTAAGCAT
89816637 TTATTC
1 TTATTC
89816643 CATGGCCATG
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
54 53 0.90
55 6 0.10
ACGTcount: A:0.33, C:0.17, G:0.05, T:0.45
Consensus pattern (55 bp):
TTATTCAACAAATGTTCATGTTCAATCAATATCAACTTATTTTCATTTTAAGCAT
Found at i:89816640 original size:27 final size:26
Alignment explanation
Indices: 89816557--89816637 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 26
89816547 GTTCAATCAA
89816557 TATCAACTTATTTTCATTTTAAGCAT
1 TATCAACTTATTTTCATTTTAAGCAT
** * * *
89816583 TATTCAACAAATGTTCATGTTCAATCAT
1 TA-TCAACTTATTTTCAT-TTTAAGCAT
89816611 TATCAACTTATTTTCATTTTAAGCAT
1 TATCAACTTATTTTCATTTTAAGCAT
89816637 T
1 T
89816638 TATTCCATGG
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
26 10 0.23
27 24 0.56
28 9 0.21
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.47
Consensus pattern (26 bp):
TATCAACTTATTTTCATTTTAAGCAT
Found at i:89817249 original size:15 final size:16
Alignment explanation
Indices: 89817229--89817267 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
89817219 AATAATCGTT
89817229 TCATCAT-ATATATAG
1 TCATCATAATATATAG
*
89817244 TCATCATAAATATATAT
1 TCATCAT-AATATATAG
89817261 TCATCAT
1 TCATCAT
89817268 CATGAAGTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
17 14 0.67
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (16 bp):
TCATCATAATATATAG
Found at i:89820195 original size:83 final size:83
Alignment explanation
Indices: 89820057--89820258 Score: 298
Period size: 83 Copynumber: 2.4 Consensus size: 83
89820047 TTTTTTTCTT
* * *
89820057 TTATATTAAACATGACAAGGTTGGTGCTATATTAATCAATTTTGATTAGCTTTTCAATGGTCCAA
1 TTATATTAAACATGACAAGGTTAGTGTTATATTAATCAATTTTGATTAGATTTTCAATGGTCCAA
* *
89820122 ATTTAACCTCATTTTCCA
66 ACTCAACCTCATTTTCCA
* *
89820140 TTTTATTAAACATGACAAGGTTACTGTTATATTAATCAATTTTGATTA-ATGTTTCAATGGTCCA
1 TTATATTAAACATGACAAGGTTAGTGTTATATTAATCAATTTTGATTAGAT-TTTCAATGGTCCA
89820204 AACTCAACCTCATTTTCCA
65 AACTCAACCTCATTTTCCA
* * *
89820223 TTATGTCAAACATGACAAGATTAGTGTTATATTAAT
1 TTATATTAAACATGACAAGGTTAGTGTTATATTAAT
89820259 TAACATCAAT
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
82 1 0.01
83 105 0.99
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (83 bp):
TTATATTAAACATGACAAGGTTAGTGTTATATTAATCAATTTTGATTAGATTTTCAATGGTCCAA
ACTCAACCTCATTTTCCA
Found at i:89825122 original size:17 final size:17
Alignment explanation
Indices: 89825089--89825122 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
89825079 AAAAAGACAT
*
89825089 AAAAATATAAAATATTA
1 AAAAATATAAAACATTA
*
89825106 AAAAATATATAACATTA
1 AAAAATATAAAACATTA
89825123 CATAAATGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAATATAAAACATTA
Found at i:89825220 original size:18 final size:17
Alignment explanation
Indices: 89825187--89825221 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
89825177 TAAATAAGAT
*
89825187 ATTAAAAAATATAAAAC
1 ATTAAAAAAAATAAAAC
89825204 ATTAAAAAAAATCAAAAC
1 ATTAAAAAAAAT-AAAAC
89825222 CCAAAATCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.20
Consensus pattern (17 bp):
ATTAAAAAAAATAAAAC
Found at i:89828635 original size:58 final size:59
Alignment explanation
Indices: 89828566--89828682 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 59
89828556 ACTTATTCTT
89828566 TGGTTAAAATAATATGAAAATTATAGCTTAAAGTA-TTTTTTTATAAGAATACATACTA
1 TGGTTAAAATAATATGAAAATTATAGCTTAAAGTATTTTTTTTATAAGAATACATACTA
89828624 TGGTTAAAATAATATGAAAATTATAGCTTAAAGTATTTTTTTTATAAGAATACATACTA
1 TGGTTAAAATAATATGAAAATTATAGCTTAAAGTATTTTTTTTATAAGAATACATACTA
89828683 GATTACATAA
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 35 0.60
59 23 0.40
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.40
Consensus pattern (59 bp):
TGGTTAAAATAATATGAAAATTATAGCTTAAAGTATTTTTTTTATAAGAATACATACTA
Found at i:89835583 original size:28 final size:29
Alignment explanation
Indices: 89835542--89835597 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
89835532 CCGGGTTTTT
*
89835542 GGACACGGGCGTGT-CTAGGCCGTGTGAG
1 GGACACGGGCGTGTGCTAGGCCATGTGAG
* *
89835570 GGACACGGGTGTGTGCTTGGCCATGTGA
1 GGACACGGGCGTGTGCTAGGCCATGTGA
89835598 AAACCCCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.14, C:0.20, G:0.45, T:0.21
Consensus pattern (29 bp):
GGACACGGGCGTGTGCTAGGCCATGTGAG
Found at i:89838885 original size:16 final size:16
Alignment explanation
Indices: 89838864--89838896 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
89838854 TGTCATGTGA
89838864 TAAGTAATTGTTGAAG
1 TAAGTAATTGTTGAAG
*
89838880 TAAGTACTTGTTGAAG
1 TAAGTAATTGTTGAAG
89838896 T
1 T
89838897 GGTTGAGGGC
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:0.33, C:0.03, G:0.24, T:0.39
Consensus pattern (16 bp):
TAAGTAATTGTTGAAG
Found at i:89840496 original size:31 final size:31
Alignment explanation
Indices: 89840458--89840523 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
89840448 TTTGGGACAT
*
89840458 GCCCGTGTGGGCAGGGCGTGTGGTCACACAC
1 GCCCGTGTGGGCAAGGCGTGTGGTCACACAC
89840489 GCCCGTGTGGGCAAGGCGTGTGGTCACACAC
1 GCCCGTGTGGGCAAGGCGTGTGGTCACACAC
89840520 GCCC
1 GCCC
89840524 ATGTCCCTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.14, C:0.32, G:0.39, T:0.15
Consensus pattern (31 bp):
GCCCGTGTGGGCAAGGCGTGTGGTCACACAC
Found at i:89848206 original size:27 final size:27
Alignment explanation
Indices: 89848158--89848316 Score: 191
Period size: 27 Copynumber: 5.9 Consensus size: 27
89848148 GCGAGGCTGC
* * *
89848158 CAGATATTGTGACGGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
89848185 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
89848211 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
89848238 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
89848265 CAGATATATGTGGCAGTGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
89848292 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
89848317 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.09
27 101 0.88
28 4 0.03
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:89848317 original size:54 final size:54
Alignment explanation
Indices: 89848158--89848319 Score: 247
Period size: 54 Copynumber: 3.0 Consensus size: 54
89848148 GCGAGGCTGC
* * * * *
89848158 CAGATAT-TGTGACGGAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
89848211 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
*
89848265 CAGATATATGTGGCAGTGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
89848319 C
1 C
89848320 GCTTCCTCCA
Statistics
Matches: 101, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
53 12 0.12
54 89 0.88
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:89849949 original size:26 final size:26
Alignment explanation
Indices: 89849913--89850021 Score: 182
Period size: 26 Copynumber: 4.2 Consensus size: 26
89849903 ATGAAATGCC
*
89849913 TATCATGGAACATTTACCTAAACCAT
1 TATCATGGAACATTTACCTAACCCAT
89849939 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
* *
89849965 TATCATGGAATATTTACCTAATCCAT
1 TATCATGGAACATTTACCTAACCCAT
*
89849991 TATCATGGAACATTTGCCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
89850017 TATCA
1 TATCA
89850022 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:89858957 original size:30 final size:30
Alignment explanation
Indices: 89858923--89858982 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
89858913 TAATTTGTAA
89858923 TATCCCGAATTAGGGCCTAATCGGAATAGT
1 TATCCCGAATTAGGGCCTAATCGGAATAGT
89858953 TATCCCGAATTAGGGCCTAATCGGAATAGT
1 TATCCCGAATTAGGGCCTAATCGGAATAGT
89858983 GGTTTTGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (30 bp):
TATCCCGAATTAGGGCCTAATCGGAATAGT
Found at i:89865773 original size:17 final size:17
Alignment explanation
Indices: 89865753--89865785 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
89865743 ATAAAGAATG
89865753 TTATTAAATTATATTTT
1 TTATTAAATTATATTTT
89865770 TTATTAAATTATATTT
1 TTATTAAATTATATTT
89865786 AATAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:89866053 original size:16 final size:16
Alignment explanation
Indices: 89866032--89866071 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
89866022 TGAATTACTT
89866032 ATTACAG-CTCTATTCA
1 ATTACAGTCT-TATTCA
*
89866048 ATTACAGTCTTATTCC
1 ATTACAGTCTTATTCA
89866064 ATTACAGT
1 ATTACAGT
89866072 GAACCAAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 20 0.91
17 2 0.09
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (16 bp):
ATTACAGTCTTATTCA
Found at i:89867469 original size:19 final size:21
Alignment explanation
Indices: 89867447--89867517 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 21
89867437 TAAGATAACT
89867447 ATATAAAATATTAA-TAAA-A
1 ATATAAAATATTAATTAAATA
*
89867466 ATATTAAAT-TTAAATTTAAATA
1 ATATAAAATATT-AA-TTAAATA
89867488 ATATAAAAATATTAAATTAAAATA
1 ATAT-AAAATATT-AATT-AAATA
89867512 ATATAA
1 ATATAA
89867518 TTTTTTTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
18 2 0.05
19 10 0.23
21 4 0.09
22 5 0.12
23 8 0.19
24 14 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
ATATAAAATATTAATTAAATA
Found at i:89867502 original size:24 final size:23
Alignment explanation
Indices: 89867471--89867517 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
89867461 TAAAAATATT
*
89867471 AAATTTAAATTTAAATAATATAA
1 AAATTTAAATTAAAATAATATAA
89867494 AAATATTAAATTAAAATAATATAA
1 AAAT-TTAAATTAAAATAATATAA
89867518 TTTTTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATTTAAATTAAAATAATATAA
Found at i:89872068 original size:48 final size:47
Alignment explanation
Indices: 89871920--89872073 Score: 112
Period size: 48 Copynumber: 3.1 Consensus size: 47
89871910 TATTTTGTTA
*
89871920 GTAATTTATGATTAGGTTATAAATTGTCTGTGTTTAGCTTAGTGTTTT
1 GTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAG-TTAGTGTTTT
* * * * * ** * * * * *
89871968 GTGATTTTTTATTAATGTAAT-TTTTTTAATTATTTTATAGTTATTTTGTTT
1 GTAATTTATGATT-AGGTTATAAATTGT--TTGTGTT-TAGTTAGTGT-TTT
89872019 GTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAGTTTAGTGTTTT
1 GTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAG-TTAGTGTTTT
*
89872067 GTGATTT
1 GTAATTT
89872074 TTTATGAATC
Statistics
Matches: 73, Mismatches: 26, Indels: 14
0.65 0.23 0.12
Matches are distributed among these distances:
48 25 0.34
49 15 0.21
50 14 0.19
51 19 0.26
ACGTcount: A:0.23, C:0.01, G:0.18, T:0.58
Consensus pattern (47 bp):
GTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAGTTAGTGTTTT
Found at i:89872228 original size:103 final size:103
Alignment explanation
Indices: 89871887--89872477 Score: 763
Period size: 103 Copynumber: 5.7 Consensus size: 103
89871877 AAATTTTTTT
* * *
89871887 ATTTTTTAAAATTATTATATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTCTGTG
1 ATTTTTTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTG
* *
89871952 TTTAGCTTAGTG--TTTTGTGATTTTTTATTAATGT-A
66 TTTAGTTTAGTGTTTTTTGTGATTTTTTATGAATGTAA
* * *
89871987 ATTTTTT-TAATTATTTTATAGTTATTTTGTTTGTAATTTATGATTAGGTTATAAATTGTTTGTG
1 ATTTTTTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTG
*
89872051 TTTAGTTTAGTG--TTTTGTGATTTTTTATGAATCTAA
66 TTTAGTTTAGTGTTTTTTGTGATTTTTTATGAATGTAA
* * * * *
89872087 TTTTTTTTTATTTTTTAATTATTTTAAAGTCATTTTGTTAGTAATTTATGGTTAGATTATAAATT
1 --ATTTTTTA-----AAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATT
89872152 GTTTGTGTTTAGTTTAGTGTTTTTTGTGATTTTTTTATGAATGTAA
59 GTTTGTGTTTAGTTTAGTGTTTTTTGTGA-TTTTTTATGAATGTAA
* ** *
89872198 ATTTTTT-TAATTATTTTAAAGTTATTTTGTTAGTAATTTATGGCTAGGTTATAAATTTTTTGTG
1 ATTTTTTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTG
*
89872262 TTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGT-A
66 TTTAGTTTAGTGTTTTTTGTGATTTTTTATGAATGTAA
*
89872299 ATTTTTTAAAATTATTTTAAAGTTATTTTTGTTAGTAATTTATGGTTAGGTTATAAATTGTTTGT
1 ATTTTTTAAAATTATTTTAAAGTTA-TTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGT
* * * *
89872364 ATTTAGTTTACT-TTTTATTGTGACTTTTTATAAATGTAA
65 GTTTAGTTTAGTGTTTT-TTGTGATTTTTTATGAATGTAA
*
89872403 ATTTTTTAAAAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATT-ATT
1 ATTTTTT---AAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTT
89872467 -TGTTTAGTTTA
63 GTGTTTAGTTTA
89872478 ACGTGTAATG
Statistics
Matches: 441, Mismatches: 31, Indels: 34
0.87 0.06 0.07
Matches are distributed among these distances:
99 84 0.19
100 8 0.02
101 8 0.02
102 39 0.09
103 139 0.32
104 18 0.04
105 2 0.00
106 32 0.07
107 18 0.04
108 64 0.15
109 6 0.01
110 8 0.02
111 15 0.03
ACGTcount: A:0.27, C:0.01, G:0.14, T:0.58
Consensus pattern (103 bp):
ATTTTTTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTG
TTTAGTTTAGTGTTTTTTGTGATTTTTTATGAATGTAA
Found at i:89872492 original size:310 final size:306
Alignment explanation
Indices: 89871887--89872509 Score: 806
Period size: 310 Copynumber: 2.0 Consensus size: 306
89871877 AAATTTTTTT
* *
89871887 ATTTTTTAAAATTATTATATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTCTGTG
1 ATTTTTTAAAATTATTATAAAGTTATTTTGTTAGTAATTTATGACTAGGTTATAAATTGTCTGTG
* * *
89871952 TTTAGCTTAGTGTTTTGTGATTTTTTATTAATGTAATTTTTTTAATTATTTTATAGTTATTTTGT
66 TTTAGCTTAGTGTTTTGTGATTTTTTATGAATGTAATTTTTTAAATTATTTTAAAGTTATTTTGT
* * * *
89872017 TTGTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAGTTTAGTGTTTTGTGATTTTTTATGAA
131 TAGTAATTTATGATTAGGTTATAAATTGTTTGTATTTAGTTTAGTGTTTTGTGACTTTTTATAAA
* **** *
89872082 TCTAATTTTTTTTTATTTTTTAATTATTTTAAAGTCATTTTGTTAGTAATTTATGGTTAGATTAT
196 TCTAA-TATTTTTTA-TAAAAAATTATTTTAAAGTCATTTTGTTAGTAATTTATGATTAGATTAT
* ** * ** *
89872147 AAATTGTTTGTGTTTAGTTTAGTGTTTTTTGTGATTTTTTTATGAATGTAA
259 AAATTGATTGTGTTTAGTTTAACGTGTAATGTGA-TTTGTTAT-AATGT-A
* * * * *
89872198 ATTTTTT-TAATTATTTTAAAGTTATTTTGTTAGTAATTTATGGCTAGGTTATAAATTTTTTGTG
1 ATTTTTTAAAATTATTATAAAGTTATTTTGTTAGTAATTTATGACTAGGTTATAAATTGTCTGTG
*
89872262 TTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTAAAATTATTTTAAAGTTATTT
66 TTTAGCTTAGTG-TT-TTGTGATTTTTTATGAATGTAATTTTTT-AAATTATTTTAAAGTTA-TT
* * *
89872327 TTGTTAGTAATTTATGGTTAGGTTATAAATTGTTTGTATTTAGTTTACTTTTTATTGTGACTTTT
127 TTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTATTTAGTTTA-GTGTT-TTGTGACTTTT
* * *
89872392 TATAAATGTAA-ATTTTTTA-AAAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
190 TATAAATCTAATATTTTTTATAAAAAATTATTTTAAAGTCATTTTGTTAGTAATTTATGATTAGA
89872455 TTATAAATT-ATT-TGTTTAGTTTAACGTGTAATGTGATTTGTTATAATGTA
255 TTATAAATTGATTGTGTTTAGTTTAACGTGTAATGTGATTTGTTATAATGTA
89872505 ATTTT
1 ATTTT
89872510 ATTTGTTTTT
Statistics
Matches: 272, Mismatches: 34, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
307 6 0.02
308 5 0.02
309 7 0.03
310 80 0.29
311 11 0.04
312 73 0.27
313 15 0.06
314 53 0.19
315 3 0.01
316 19 0.07
ACGTcount: A:0.27, C:0.01, G:0.14, T:0.58
Consensus pattern (306 bp):
ATTTTTTAAAATTATTATAAAGTTATTTTGTTAGTAATTTATGACTAGGTTATAAATTGTCTGTG
TTTAGCTTAGTGTTTTGTGATTTTTTATGAATGTAATTTTTTAAATTATTTTAAAGTTATTTTGT
TAGTAATTTATGATTAGGTTATAAATTGTTTGTATTTAGTTTAGTGTTTTGTGACTTTTTATAAA
TCTAATATTTTTTATAAAAAATTATTTTAAAGTCATTTTGTTAGTAATTTATGATTAGATTATAA
ATTGATTGTGTTTAGTTTAACGTGTAATGTGATTTGTTATAATGTA
Found at i:89872505 original size:206 final size:203
Alignment explanation
Indices: 89871887--89872509 Score: 676
Period size: 207 Copynumber: 3.0 Consensus size: 203
89871877 AAATTTTTTT
* * * * * * *
89871887 ATTTTTTAAAATTATTATATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTCTGTG
1 ATTTTTT--AATTATTTTAAAGTCATTTTGTTAGTAATTTATGGTTAGATTATAAATTGTTTGTA
* * * * *
89871952 TTTAGCTTA--GTGTTTTGTGAT-TTTTTATTAATGT-AATTTTTTTAATTATTTTATAGTTATT
64 TTTAGTTTACTGTTTTTTGTGATCTTTTTATAAATGTAAATTTTTTAAATTATTTTAAAGTTATT
* * ** *
89872013 TTGTTTGTAATTTATGATTAGGTTATAAATTGT-TTGTGTTTAGTTT-A-GTGTTTTGTGATTTT
129 TTGTTAGTAATTTATGACTAGGTTATAAATT-TATTGTGTTTAGTTTAACGTGTAATGTGATTTG
*
89872075 TTATGAATCTAA
193 TTATGAATGT-A
89872087 TTTTTTTTTATTTTTTAATTATTTTAAAGTCATTTTGTTAGTAATTTATGGTTAGATTATAAATT
1 ---------ATTTTTTAATTATTTTAAAGTCATTTTGTTAGTAATTTATGGTTAGATTATAAATT
* * * * *
89872152 GTTTGTGTTTAGTTTAGTGTTTTTTGTGATTTTTTTATGAATGTAAATTTTTTTAATTATTTTAA
57 GTTTGTATTTAGTTTACTGTTTTTTGTGATCTTTTTATAAATGTAAATTTTTTAAATTATTTTAA
* * ** * *
89872217 AGTTATTTTGTTAGTAATTTATGGCTAGGTTATAAATTTTTTGTGTTTAGTTTAGTGTTTATTGT
122 AGTTATTTTGTTAGTAATTTATGACTAGGTTATAAATTTATTGTGTTTAGTTTAACGTGTAATGT
*
89872282 GATTTTTTATGAATGTA
187 GATTTGTTATGAATGTA
* *
89872299 ATTTTTTAAAATTATTTTAAAGTTATTTTTGTTAGTAATTTATGGTTAGGTTATAAATTGTTTGT
1 ATTTTTT--AATTATTTTAAAGTCA-TTTTGTTAGTAATTTATGGTTAGATTATAAATTGTTTGT
89872364 ATTTAGTTTACT-TTTTATTGTGA-CTTTTTATAAATGTAAATTTTTTAAAAAAATTATTTTAAA
63 ATTTAGTTTACTGTTTT-TTGTGATCTTTTTATAAATGTAAATTTTTT----AAATTATTTTAAA
*
89872427 GTTATTTTGTTAGTAATTTATGATTAGGTTATAAA-TTATT-TGTTTAGTTTAACGTGTAATGTG
123 GTTATTTTGTTAGTAATTTATGACTAGGTTATAAATTTATTGTGTTTAGTTTAACGTGTAATGTG
89872490 ATTTGTTAT-AATGTA
188 ATTTGTTATGAATGTA
89872505 ATTTT
1 ATTTT
89872510 ATTTGTTTTT
Statistics
Matches: 367, Mismatches: 32, Indels: 33
0.85 0.07 0.08
Matches are distributed among these distances:
203 7 0.02
205 40 0.11
206 65 0.18
207 85 0.23
208 4 0.01
209 63 0.17
210 13 0.04
211 67 0.18
212 1 0.00
213 22 0.06
ACGTcount: A:0.27, C:0.01, G:0.14, T:0.58
Consensus pattern (203 bp):
ATTTTTTAATTATTTTAAAGTCATTTTGTTAGTAATTTATGGTTAGATTATAAATTGTTTGTATT
TAGTTTACTGTTTTTTGTGATCTTTTTATAAATGTAAATTTTTTAAATTATTTTAAAGTTATTTT
GTTAGTAATTTATGACTAGGTTATAAATTTATTGTGTTTAGTTTAACGTGTAATGTGATTTGTTA
TGAATGTA
Found at i:89872567 original size:312 final size:306
Alignment explanation
Indices: 89871910--89872509 Score: 730
Period size: 312 Copynumber: 1.9 Consensus size: 306
89871900 ATTATATAGT
* *
89871910 TATTTTGTTAGTAATTTAT-GATTAGGTTATAAATTGTCTGTGTTTAGCTTAGTGTTTTGTGATT
1 TATTTTGTTA-TAATTTATGGA-AAGGTTATAAATTTTCTGTGTTTAGCTTAGTGTTTTGTGATT
* * * *
89871974 TTTTATTAATGTAATTTTTTTAATTATTTTATAGTTATTTTGTTTGTAATTTATGATTAGGTTAT
64 TTTTATGAATGTAATTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTAT
* * * * ****
89872039 AAATTGTTTGTGTTTAGTTTAGTGTTTTGTGATTTTTTATGAATCTAATTTTTTTTTATTTTTTA
129 AAATTGTTTGTATTTAGTTTAGTGTTTTGTGACTTTTTATAAATCTAA-TATTTTTTA-TAAAAA
* * *
89872104 ATTATTTTAAAGTCATTTTGTTAGTAATTTATGGTTAGATTATAAATTGTTTGTGTTTAGTTTAG
192 ATTATTTTAAAGTCATTTTGTTAGTAATTTATGATTAGATTATAAATTGATTGTGTTTAGTTTAA
* * ** * *
89872169 TGTTTTTTGTGATTTTTTTATGAATGTAAATTTTTTTAATTATTTTAAAG
257 CGTGTAATGTGATTTTTTAATGAATGTAAATTTTTTTAATTATTTGAAAG
** * *
89872219 TTATTTTGTTAGTAATTTATGGCTAGGTTATAAATTTTTTGTGTTTAGTTTAGTGTTTATTGTGA
1 -TATTTTGTTA-TAATTTATGGAAAGGTTATAAATTTTCTGTGTTTAGCTTAGTG-TT-TTGTGA
*
89872284 TTTTTTATGAATGTAATTTTTTAAAATTATTTTAAAGTTATTTTTGTTAGTAATTTATGGTTAGG
62 TTTTTTATGAATGTAATTTTTT-AAATTATTTTAAAGTTA-TTTTGTTAGTAATTTATGATTAGG
* * *
89872349 TTATAAATTGTTTGTATTTAGTTTACTTTTTATTGTGACTTTTTATAAATGTAA-ATTTTTTA-A
125 TTATAAATTGTTTGTATTTAGTTTA-GTGTT-TTGTGACTTTTTATAAATCTAATATTTTTTATA
* *
89872412 AAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATT-ATT-TGTTTAGT
188 AAAAATTATTTTAAAGTCATTTTGTTAGTAATTTATGATTAGATTATAAATTGATTGTGTTTAGT
*
89872475 TTAACGTGTAATGTGATTTGTT-AT-AATGT-AATTTT
253 TTAACGTGTAATGTGATTTTTTAATGAATGTAAATTTT
89872510 ATTTGTTTTT
Statistics
Matches: 253, Mismatches: 30, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
307 6 0.02
308 5 0.02
309 2 0.01
310 72 0.28
311 5 0.02
312 73 0.29
313 15 0.06
314 53 0.21
315 3 0.01
316 19 0.08
ACGTcount: A:0.26, C:0.01, G:0.15, T:0.58
Consensus pattern (306 bp):
TATTTTGTTATAATTTATGGAAAGGTTATAAATTTTCTGTGTTTAGCTTAGTGTTTTGTGATTTT
TTATGAATGTAATTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAA
ATTGTTTGTATTTAGTTTAGTGTTTTGTGACTTTTTATAAATCTAATATTTTTTATAAAAAATTA
TTTTAAAGTCATTTTGTTAGTAATTTATGATTAGATTATAAATTGATTGTGTTTAGTTTAACGTG
TAATGTGATTTTTTAATGAATGTAAATTTTTTTAATTATTTGAAAG
Found at i:89872871 original size:13 final size:13
Alignment explanation
Indices: 89872853--89872878 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89872843 GGACCCTCTA
89872853 GAAATTAATTATC
1 GAAATTAATTATC
89872866 GAAATTAATTATC
1 GAAATTAATTATC
89872879 TCAGATTAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
GAAATTAATTATC
Found at i:89875032 original size:40 final size:40
Alignment explanation
Indices: 89874996--89875156 Score: 198
Period size: 40 Copynumber: 4.0 Consensus size: 40
89874986 CAAAAAATAT
* * * * *
89874996 CGCTATAGATCTAGCATTAGCGGCACTTTTTGAAAAATGC
1 CGCTATAGATCGAGCATTAGCAGCGCTTTCTGAAAAACGC
* *
89875036 CACTATAGATCGAGCATTAGCAGTGCTTTCTGAAAAACGC
1 CGCTATAGATCGAGCATTAGCAGCGCTTTCTGAAAAACGC
* * * *
89875076 CGCTATAGATCGAGCAGTAG-TGACGCTTTCTAAAAAACGT
1 CGCTATAGATCGAGCATTAGCAG-CGCTTTCTGAAAAACGC
*
89875116 CGCTATAGATCGAGCATTAGCAGCGCTTTTTGAAAAACGC
1 CGCTATAGATCGAGCATTAGCAGCGCTTTCTGAAAAACGC
89875156 C
1 C
89875157 ACAAAAAAAT
Statistics
Matches: 101, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (40 bp):
CGCTATAGATCGAGCATTAGCAGCGCTTTCTGAAAAACGC
Found at i:89880392 original size:6 final size:6
Alignment explanation
Indices: 89880381--89880416 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
89880371 TATTTTACTA
*
89880381 TTATTT TTATTT TTACTT TTATTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
89880417 AAATTTTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.81
Consensus pattern (6 bp):
TTATTT
Found at i:89880396 original size:18 final size:18
Alignment explanation
Indices: 89880369--89880413 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
89880359 TTTGAGTCCC
89880369 TTTA-TTTTACTATTATT
1 TTTATTTTTACTATTATT
*
89880386 TTTATTTTTACTTTTATT
1 TTTATTTTTACTATTATT
89880404 TTTATTTTTA
1 TTTATTTTTA
89880414 TTTAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATTTTTACTATTATT
Found at i:89880422 original size:18 final size:18
Alignment explanation
Indices: 89880369--89880425 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
89880359 TTTGAGTCCC
89880369 TTTA-TTTTACTATT-ATT
1 TTTATTTTTACT-TTAATT
*
89880386 TTTATTTTTACTTTTATT
1 TTTATTTTTACTTTAATT
*
89880404 TTTATTTTTA-TTTAAAT
1 TTTATTTTTACTTTAATT
89880421 TTTAT
1 TTTAT
89880426 CGTGTCTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
17 16 0.44
18 20 0.56
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTTTACTTTAATT
Found at i:89883402 original size:40 final size:40
Alignment explanation
Indices: 89883342--89883449 Score: 180
Period size: 40 Copynumber: 2.7 Consensus size: 40
89883332 GCTTTAGTGT
89883342 CATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAG
1 CATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAG
* *
89883382 CATTAGCGACGCTTTCTGAAAAACGCCGCTATAGATCGAG
1 CATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAG
* *
89883422 CAATAGAGGCGCTTTTTGAAAAACGCCG
1 CATTAGCGGCGCTTTTTGAAAAACGCCG
89883450 AAAAAAATTC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (40 bp):
CATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAG
Found at i:89883883 original size:7 final size:7
Alignment explanation
Indices: 89883871--89883974 Score: 88
Period size: 7 Copynumber: 14.4 Consensus size: 7
89883861 TATCATTATA
89883871 GTTTAGG
1 GTTTAGG
89883878 GTTTAGG
1 GTTTAGG
89883885 GTTTAGG
1 GTTTAGG
*
89883892 GTTTATG
1 GTTTAGG
89883899 GTTTAGG
1 GTTTAGG
*
89883906 GTTTATG
1 GTTTAGG
*
89883913 GTTTAAGA
1 GTTT-AGG
89883921 G-TTAGG
1 GTTTAGG
89883927 GTTTA-G
1 GTTTAGG
89883933 GTGTTAGG
1 GT-TTAGG
*
89883941 GGTTAGTG
1 GTTTAG-G
89883949 G-TTAGGG
1 GTTTA-GG
*
89883956 GTTATGGG
1 GTT-TAGG
89883964 GTTTAAGG
1 GTTT-AGG
89883972 GTT
1 GTT
89883975 AACGGGACAG
Statistics
Matches: 79, Mismatches: 9, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
6 6 0.08
7 54 0.68
8 18 0.23
9 1 0.01
ACGTcount: A:0.16, C:0.00, G:0.41, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:89884353 original size:16 final size:16
Alignment explanation
Indices: 89884334--89884364 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
89884324 ATATTAAATA
89884334 ATTTCAAATTTTAAAG
1 ATTTCAAATTTTAAAG
89884350 ATTTCAAATTTTAAA
1 ATTTCAAATTTTAAA
89884365 TAATTTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTTCAAATTTTAAAG
Found at i:89884387 original size:16 final size:15
Alignment explanation
Indices: 89884334--89884388 Score: 57
Period size: 16 Copynumber: 3.9 Consensus size: 15
89884324 ATATTAAATA
89884334 ATTTCAAATTTTAAAG
1 ATTTCAAATTTT-AAG
89884350 ATTTCAAATTTTAA-
1 ATTTCAAATTTTAAG
89884364 A--T--AATTTTCAAG
1 ATTTCAAATTTT-AAG
89884376 ATTTCAAATTTTA
1 ATTTCAAATTTTA
89884389 TCTAATTCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
10 6 0.18
11 2 0.06
12 2 0.06
14 2 0.06
15 3 0.09
16 18 0.55
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (15 bp):
ATTTCAAATTTTAAG
Found at i:89884529 original size:16 final size:17
Alignment explanation
Indices: 89884499--89884533 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
89884489 TATATAACTG
89884499 ATTGTTTTTTAATTTAT
1 ATTGTTTTTTAATTTAT
*
89884516 ATTG-TTTTTGATTTAT
1 ATTGTTTTTTAATTTAT
89884532 AT
1 AT
89884534 ATTAAATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.69
Consensus pattern (17 bp):
ATTGTTTTTTAATTTAT
Found at i:89884536 original size:18 final size:17
Alignment explanation
Indices: 89884499--89884533 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
89884489 TATATAACTG
*
89884499 ATTGTTTTTTAATTTAT
1 ATTGTTTTTGAATTTAT
89884516 ATTGTTTTTG-ATTTAT
1 ATTGTTTTTGAATTTAT
89884532 AT
1 AT
89884534 ATTAAATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.69
Consensus pattern (17 bp):
ATTGTTTTTGAATTTAT
Found at i:89885052 original size:51 final size:52
Alignment explanation
Indices: 89884962--89885061 Score: 148
Period size: 51 Copynumber: 1.9 Consensus size: 52
89884952 CCTTTTCCCT
* *
89884962 AATCTGAAATCCCTAAAGTATTATCACCCTTTTTTCCCCAATTCGAAATTCAA
1 AATCTAAAATCCCTAAAGTA-TATCACCCTTTTTCCCCCAATTCGAAATTCAA
* *
89885015 AATCTAAAATCCCTAATGTA-ATCACCCTTTTTCCCCCAATTTGAAAT
1 AATCTAAAATCCCTAAAGTATATCACCCTTTTTCCCCCAATTCGAAAT
89885062 CCCTAAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 25 0.58
53 18 0.42
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (52 bp):
AATCTAAAATCCCTAAAGTATATCACCCTTTTTCCCCCAATTCGAAATTCAA
Found at i:89886863 original size:24 final size:24
Alignment explanation
Indices: 89886836--89886882 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
89886826 ATTATTATTG
* *
89886836 AAATATTCTCGTCCATTTTATCAC
1 AAATATTATCATCCATTTTATCAC
*
89886860 AAATATTATCATCCGTTTTATCA
1 AAATATTATCATCCATTTTATCA
89886883 TTTAAGTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.21, G:0.04, T:0.43
Consensus pattern (24 bp):
AAATATTATCATCCATTTTATCAC
Found at i:89887133 original size:14 final size:14
Alignment explanation
Indices: 89887114--89887144 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
89887104 GTGTTAGTCG
89887114 ATAATGCCATTACC
1 ATAATGCCATTACC
*
89887128 ATAATGTCATTACC
1 ATAATGCCATTACC
89887142 ATA
1 ATA
89887145 TTAAAACAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (14 bp):
ATAATGCCATTACC
Found at i:89887286 original size:15 final size:15
Alignment explanation
Indices: 89887262--89887321 Score: 68
Period size: 15 Copynumber: 4.0 Consensus size: 15
89887252 ATTTGGATTA
*
89887262 ATTTATTTAAATATT
1 ATTTAATTAAATATT
* *
89887277 GTTTAATTAAA-ATA
1 ATTTAATTAAATATT
*
89887291 ATTTATTTAAATATT
1 ATTTAATTAAATATT
89887306 ATTTAATTAAAATATT
1 ATTTAATT-AAATATT
89887322 TTTTTCCATG
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
14 11 0.31
15 18 0.50
16 7 0.19
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
ATTTAATTAAATATT
Found at i:89887295 original size:29 final size:29
Alignment explanation
Indices: 89887260--89887319 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
89887250 TAATTTGGAT
*
89887260 TAATTTATTTAAATATTGTTTAATTAAAA
1 TAATTTATTTAAATATTATTTAATTAAAA
89887289 TAATTTATTTAAATATTATTTAATTAAAA
1 TAATTTATTTAAATATTATTTAATTAAAA
89887318 TA
1 TA
89887320 TTTTTTTCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
TAATTTATTTAAATATTATTTAATTAAAA
Found at i:89887320 original size:16 final size:16
Alignment explanation
Indices: 89887270--89887321 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
89887260 TAATTTATTT
*
89887270 AAATATTGTTTAATTA
1 AAATATTATTTAATTA
*
89887286 AAATA--ATTT-ATTT
1 AAATATTATTTAATTA
89887299 AAATATTATTTAATTA
1 AAATATTATTTAATTA
89887315 AAATATT
1 AAATATT
89887322 TTTTTCCATG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 8 0.27
14 3 0.10
15 4 0.13
16 15 0.50
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
AAATATTATTTAATTA
Found at i:89887480 original size:15 final size:15
Alignment explanation
Indices: 89887455--89887509 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
89887445 ATTTGGATTA
*
89887455 ATTTACTTAAATATT
1 ATTTAATTAAATATT
* *
89887470 ATTTAACTAAA-ATA
1 ATTTAATTAAATATT
*
89887484 ATTTATTTAAATATT
1 ATTTAATTAAATATT
89887499 ATTTAATTAAA
1 ATTTAATTAAA
89887510 AAATTCATGT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
14 11 0.34
15 21 0.66
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTTAATTAAATATT
Found at i:89887487 original size:29 final size:29
Alignment explanation
Indices: 89887453--89887514 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
89887443 TAATTTGGAT
89887453 TAATTTACTTAAATATTATTTAACTAAAA
1 TAATTTACTTAAATATTATTTAACTAAAA
* *
89887482 TAATTTATTTAAATATTATTTAATTAAAA
1 TAATTTACTTAAATATTATTTAACTAAAA
89887511 -AATT
1 TAATT
89887515 CATGTGATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 4 0.13
29 27 0.87
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (29 bp):
TAATTTACTTAAATATTATTTAACTAAAA
Found at i:89887633 original size:187 final size:189
Alignment explanation
Indices: 89887163--89887681 Score: 830
Period size: 187 Copynumber: 2.7 Consensus size: 189
89887153 AGGTTCAATC
*
89887163 TTATTTT-TTATTTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTT
1 TTATTTTATTATTTCTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTT
* *
89887227 TATACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTGTTTAATTAAAATAA
66 TATACACAATTTTTTAAATTACATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAA
* *
89887292 TTTATTTAAATATTATTTAATTAAAATATTTTTTTCCATGCGATTTTCCACACCGTCAAATT
131 TTTATTTAAATATTATTTAATTAAAATA---TATTCCATGCGATTTTCCACACCATCAAATT
* *
89887354 TTATTTTTATGATTTCTTTTTCATGAAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTT
1 TTA-TTTTATTATTTCTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTT
* *
89887419 TTATACACAATTTTTTAAATTACATAATTTGGATTAATTTACTTAAATATTATTTAACTAAAATA
65 TTATACACAATTTTTTAAATTACATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATA
* *
89887484 ATTTATTTAAATATTATTTAATTAAAA-A-ATT-CATGTGATTTTCCACATCATCAAATT
130 ATTTATTTAAATATTATTTAATTAAAATATATTCCATGCGATTTTCCACACCATCAAATT
* *
89887541 TTATTTTAATTATTTCTTTTTCTTGGAACAAAGTTGACATTTCATCTTATACGGTTTTCACCTTT
1 TTATTTT-ATTATTTCTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTT
*
89887606 TTATACACAATTTTTTAAATTACATAATTTGGATTAATTTATTTAATTATTATTTAATTAAAATA
65 TTATACACAATTTTTTAAATTACATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATA
*
89887671 ATTTTTTTAAA
130 ATTTATTTAAA
89887682 GAGAAATAAT
Statistics
Matches: 306, Mismatches: 19, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
186 4 0.01
187 151 0.49
188 2 0.01
191 3 0.01
192 5 0.02
193 141 0.46
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.50
Consensus pattern (189 bp):
TTATTTTATTATTTCTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTT
TATACACAATTTTTTAAATTACATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAA
TTTATTTAAATATTATTTAATTAAAATATATTCCATGCGATTTTCCACACCATCAAATT
Found at i:89887737 original size:27 final size:27
Alignment explanation
Indices: 89887706--89887762 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
89887696 ATCTTAATGT
*
89887706 TAAATATACATCATATAATAACTTACA
1 TAAATATAAATCATATAATAACTTACA
* *
89887733 TAAATATAAATTATATCATAACTTACA
1 TAAATATAAATCATATAATAACTTACA
89887760 TAA
1 TAA
89887763 CTTATATACC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (27 bp):
TAAATATAAATCATATAATAACTTACA
Found at i:89887761 original size:9 final size:9
Alignment explanation
Indices: 89887749--89888007 Score: 77
Period size: 9 Copynumber: 30.1 Consensus size: 9
89887739 TAAATTATAT
89887749 CATAACTTA
1 CATAACTTA
89887758 CATAACTTA
1 CATAACTTA
* *
89887767 TATACCTTA
1 CATAACTTA
89887776 CATAA--TA
1 CATAACTTA
*
89887783 CATAA-ATA
1 CATAACTTA
* **
89887791 TATTCCTTA
1 CATAACTTA
89887800 CATAA--TA
1 CATAACTTA
89887807 CATAA---A
1 CATAACTTA
*
89887813 TATAACTTA
1 CATAACTTA
*
89887822 CAAAACTTA
1 CATAACTTA
89887831 CATAA--TA
1 CATAACTTA
*
89887838 CATAA-ATA
1 CATAACTTA
* * *
89887846 TATATCATA
1 CATAACTTA
89887855 TCATAACTTA
1 -CATAACTTA
*
89887865 AATAACTTA
1 CATAACTTA
89887874 CATAA--TA
1 CATAACTTA
*
89887881 CATAA-ATA
1 CATAACTTA
* * *
89887889 TATATCATA
1 CATAACTTA
89887898 TCATAACTTA
1 -CATAACTTA
*
89887908 CATACCTTA
1 CATAACTTA
*
89887917 CATAAATGTA
1 CATAACT-TA
* *
89887927 TATGA--TA
1 CATAACTTA
89887934 TCATAACTTA
1 -CATAACTTA
**
89887944 CATGCCTTA
1 CATAACTTA
*
89887953 CATAAATGT-
1 CATAACT-TA
* *
89887962 -ATATCATA
1 CATAACTTA
*
89887970 TCATAAGTTA
1 -CATAACTTA
89887980 CATAACTTA
1 CATAACTTA
*
89887989 CAAAACTTA
1 CATAACTTA
*
89887998 CTTAACTTA
1 CATAACTTA
89888007 C
1 C
89888008 GTAATACATA
Statistics
Matches: 182, Mismatches: 49, Indels: 38
0.68 0.18 0.14
Matches are distributed among these distances:
6 5 0.03
7 31 0.17
8 20 0.11
9 101 0.55
10 25 0.14
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:89887764 original size:36 final size:36
Alignment explanation
Indices: 89887723--89887990 Score: 183
Period size: 36 Copynumber: 7.3 Consensus size: 36
89887713 ACATCATATA
*
89887723 ATAACTTACATAAATATAAATTATATCATAACTTAC
1 ATAACTTACATAAATATAAATCATATCATAACTTAC
* * * **
89887759 ATAACTTATATACCTTACATAATACATAAATAT-ATTCCTTAC
1 ATAACTTACATA----A-AT-ATAAAT-CATATCATAACTTAC
* *
89887801 ATAA--TACATAAATAT-AA-CTTA-CAAAACTTAC
1 ATAACTTACATAAATATAAATCATATCATAACTTAC
* *
89887832 ATAA--TACATAAATATATATCATATCATAACTTAA
1 ATAACTTACATAAATATAAATCATATCATAACTTAC
89887866 ATAACTTACATAATACATAAATATATATCATATCATAACTTAC
1 ATAACTTACAT-A-A-AT--ATA-A-ATCATATCATAACTTAC
* * * *
89887909 ATACCTTACATAAATGTATATGATATCATAACTTAC
1 ATAACTTACATAAATATAAATCATATCATAACTTAC
** * * *
89887945 ATGCCTTACATAAATGTATATCATATCATAAGTTAC
1 ATAACTTACATAAATATAAATCATATCATAACTTAC
89887981 ATAACTTACA
1 ATAACTTACA
89887991 AAACTTACTT
Statistics
Matches: 185, Mismatches: 27, Indels: 40
0.73 0.11 0.16
Matches are distributed among these distances:
31 23 0.12
32 1 0.01
33 4 0.02
34 14 0.08
35 2 0.01
36 74 0.40
37 1 0.01
38 3 0.02
39 2 0.01
40 8 0.04
41 6 0.03
42 17 0.09
43 30 0.16
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (36 bp):
ATAACTTACATAAATATAAATCATATCATAACTTAC
Found at i:89887798 original size:24 final size:24
Alignment explanation
Indices: 89887756--89887891 Score: 97
Period size: 24 Copynumber: 5.5 Consensus size: 24
89887746 TATCATAACT
* *
89887756 TACATAACTTATATACCTTACATAA
1 TACATAA-ATATATTCCTTACATAA
89887781 TACATAAATATATTCCTTACATAA
1 TACATAAATATATTCCTTACATAA
89887805 TACATAAATATAACTTACAAAACTTACATAA
1 TACATAAATAT-A-TT-C----CTTACATAA
*
89887836 TACATAAATATATAT-CATATCAT-A
1 TACATAAATATAT-TCCTTA-CATAA
*
89887860 -ACTTAAATA-A---CTTACATAA
1 TACATAAATATATTCCTTACATAA
89887879 TACATAAATATAT
1 TACATAAATATAT
89887892 ATCATATCAT
Statistics
Matches: 92, Mismatches: 6, Indels: 29
0.72 0.05 0.23
Matches are distributed among these distances:
18 3 0.03
19 4 0.04
20 8 0.09
21 1 0.01
22 1 0.01
23 8 0.09
24 30 0.33
25 11 0.12
26 2 0.02
27 1 0.01
29 1 0.01
30 2 0.02
31 20 0.22
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (24 bp):
TACATAAATATATTCCTTACATAA
Found at i:89887809 original size:31 final size:31
Alignment explanation
Indices: 89887774--89887892 Score: 96
Period size: 31 Copynumber: 3.7 Consensus size: 31
89887764 TTATATACCT
**
89887774 TACATAATACATAAATATATTCCTTACATAA
1 TACATAATACATAAATATATAACTTACATAA
* * * *
89887805 TACATAA-ATATAACTTACAAAACTTACATAA
1 TACATAATACATAA-ATATATAACTTACATAA
* * *
89887836 TACATAAATATATATCATATCATAACTTAAATAA
1 TACAT-AATACATA-AATAT-ATAACTTACATAA
89887870 CTTACATAATACATAAATATATA
1 --TACATAATACATAAATATATA
89887893 TCATATCATA
Statistics
Matches: 68, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
30 5 0.07
31 24 0.35
32 2 0.03
33 10 0.15
34 15 0.22
35 7 0.10
36 5 0.07
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (31 bp):
TACATAATACATAAATATATAACTTACATAA
Found at i:89887862 original size:43 final size:43
Alignment explanation
Indices: 89887814--89887921 Score: 182
Period size: 43 Copynumber: 2.5 Consensus size: 43
89887804 ATACATAAAT
89887814 ATAACTTACAAAACTTACATAATACATAAATATATATCATATC
1 ATAACTTACAAAACTTACATAATACATAAATATATATCATATC
89887857 ATAACTTA-AATAACTTACATAATACATAAATATATATCATATC
1 ATAACTTACAA-AACTTACATAATACATAAATATATATCATATC
* *
89887900 ATAACTTACATACCTTACATAA
1 ATAACTTACAAAACTTACATAA
89887922 ATGTATATGA
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
42 2 0.03
43 58 0.95
44 1 0.02
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (43 bp):
ATAACTTACAAAACTTACATAATACATAAATATATATCATATC
Found at i:89887937 original size:79 final size:74
Alignment explanation
Indices: 89887796--89887957 Score: 207
Period size: 79 Copynumber: 2.1 Consensus size: 74
89887786 AAATATATTC
*
89887796 CTTACATAATACATAAATATAACTTACAAAACTTACATAATACATAAATATATATCATATCATAA
1 CTTACATAATACATAAATATAACATACAAAACTTACATAATACATAAATATATATCATATCATAA
89887861 CTTAAATAA
66 CTTAAATAA
* * * *
89887870 CTTACATAATACATAAATATATATCATATCATAACTTACATACCTTACATAAATGTATATGATAT
1 CTTACATAATACATAAATATA-A-CATA-CAAAACTTACATA--ATACATAAATATATATCATAT
* **
89887935 CATAACTTACATGC
61 CATAACTTAAATAA
89887949 CTTACATAA
1 CTTACATAA
89887958 ATGTATATCA
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
74 21 0.28
75 1 0.01
76 3 0.04
77 12 0.16
79 38 0.51
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.34
Consensus pattern (74 bp):
CTTACATAATACATAAATATAACATACAAAACTTACATAATACATAAATATATATCATATCATAA
CTTAAATAA
Found at i:89896912 original size:43 final size:42
Alignment explanation
Indices: 89896862--89897169 Score: 167
Period size: 43 Copynumber: 7.0 Consensus size: 42
89896852 TGGCATTTTT
89896862 TAGAAAAGTGCTGCTAAAGGTCACGTTCTTTAGCGGCGTTTG
1 TAGAAAAGTGCTGCTAAAGGTCACGTTCTTTAGCGGCGTTTG
* *
89896904 TATGAAAAGCGTCGCTAAAGGTCACTAAAGGTCACATTCTTTAGCGGCATCTTCG
1 TA-GAAAA--GT-GCT----G---CTAAAGGTCACGTTCTTTAGCGGCGT-TT-G
* * * * *
89896959 -AGAAAAGCGCCGCTAAATGTTATGTTCTTTAGCGGCGTTTG
1 TAGAAAAGTGCTGCTAAAGGTCACGTTCTTTAGCGGCGTTTG
* * * * *
89897000 TATGAAAAACGT-C-GCTATAGGTTACGTTATTTAGCGGCATTTT
1 TA-G-AAAA-GTGCTGCTAAAGGTCACGTTCTTTAGCGGCGTTTG
* * *
89897043 TGAGAAAAGCGCCT-CTAAAGGTCATGTTCTTTAGCGGCATTTG
1 T-AGAAAAGTG-CTGCTAAAGGTCACGTTCTTTAGCGGCGTTTG
* * * * * *
89897086 TATAAAAATCACTGCTAAAGGTCACATTCTTTAGCAGCGCTTTC
1 TAGAAAAGT-GCTGCTAAAGGTCACGTTCTTTAGCGGCG-TTTG
* * * * *
89897130 TA-AAAAATGCCGCTAAAAGTCATGTTCTTTAGTGGCGTTT
1 TAGAAAAGTGCTGCTAAAGGTCACGTTCTTTAGCGGCGTTT
89897170 TTTTTATAAA
Statistics
Matches: 204, Mismatches: 38, Indels: 49
0.70 0.13 0.17
Matches are distributed among these distances:
41 5 0.02
42 38 0.19
43 106 0.52
44 11 0.05
45 3 0.01
46 4 0.02
50 3 0.01
51 1 0.00
53 29 0.14
54 3 0.01
55 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (42 bp):
TAGAAAAGTGCTGCTAAAGGTCACGTTCTTTAGCGGCGTTTG
Found at i:89896964 original size:53 final size:53
Alignment explanation
Indices: 89896875--89896975 Score: 143
Period size: 53 Copynumber: 1.9 Consensus size: 53
89896865 AAAAGTGCTG
* * *
89896875 CTAAAGGTCACGTTCTTTAGCGGCGTTTGTATGAAAAGCGTCGCTAAAGGTCA
1 CTAAAGGTCACATTCTTTAGCGGCATTTGTATGAAAAGCGCCGCTAAAGGTCA
89896928 CTAAAGGTCACATTCTTTAGCGGCATCTTCG-A-GAAAAGCGCCGCTAAA
1 CTAAAGGTCACATTCTTTAGCGGCAT-TT-GTATGAAAAGCGCCGCTAAA
89896976 TGTTATGTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
53 39 0.91
54 3 0.07
55 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (53 bp):
CTAAAGGTCACATTCTTTAGCGGCATTTGTATGAAAAGCGCCGCTAAAGGTCA
Found at i:89897119 original size:86 final size:86
Alignment explanation
Indices: 89896928--89897161 Score: 262
Period size: 86 Copynumber: 2.7 Consensus size: 86
89896918 CTAAAGGTCA
* *
89896928 CTAAAGGTCACATTCTTTAGCGGCATCTTCGAGAAAAGCGCCGCTAAATGTTATGTTCTTTAGCG
1 CTAAAGGTCACATTCTTTAGCGGCATCTTCGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCG
* *
89896993 GCGTTTGTATGAAAAACGTCG
66 GCATTTGTATGAAAAACCTCG
* * * * * * *
89897014 CTATAGGTTACGTTATTTAGCGGCATTTTTGAGAAAAGCGCCTCTAAAGGTCATGTTCTTTAGCG
1 CTAAAGGTCACATTCTTTAGCGGCATCTTCGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCG
89897079 GCATTTGTAT-AAAAATCACT-G
66 GCATTTGTATGAAAAA-C-CTCG
* ** *
89897100 CTAAAGGTCACATTCTTTAGCAGCGC-T-TTCTA-AAAAATGCCGCTAAAAGTCATGTTCTTTAG
1 CTAAAGGTCACATTCTTTAGC-G-GCATCTTCGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAG
89897162 TGGCGTTTTT
Statistics
Matches: 123, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
85 31 0.25
86 87 0.71
87 3 0.02
88 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (86 bp):
CTAAAGGTCACATTCTTTAGCGGCATCTTCGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCG
GCATTTGTATGAAAAACCTCG
Found at i:89899284 original size:40 final size:40
Alignment explanation
Indices: 89899237--89899318 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
89899227 CCCAACACAC
*
89899237 TATATGGGGAAAAAATCGACCCACCCATCCCTACACACCA
1 TATATGGGGAAAAAACCGACCCACCCATCCCTACACACCA
* * * ** *
89899277 TATATGGGGATACAACCGTCTTATCCATCCCTACACACCA
1 TATATGGGGAAAAAACCGACCCACCCATCCCTACACACCA
89899317 TA
1 TA
89899319 AGGTACCGCA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.34, C:0.33, G:0.12, T:0.21
Consensus pattern (40 bp):
TATATGGGGAAAAAACCGACCCACCCATCCCTACACACCA
Found at i:89899762 original size:17 final size:18
Alignment explanation
Indices: 89899723--89899765 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
89899713 AACCCAGATT
* *
89899723 CCCACATGCCTGTGTGGG
1 CCCACACGCCTGTGTGAG
89899741 CCCACACGCCTGTGT-AG
1 CCCACACGCCTGTGTGAG
89899758 CCCACACG
1 CCCACACG
89899766 GCCCATTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.16, C:0.42, G:0.26, T:0.16
Consensus pattern (18 bp):
CCCACACGCCTGTGTGAG
Found at i:89902756 original size:114 final size:113
Alignment explanation
Indices: 89902553--89902805 Score: 298
Period size: 114 Copynumber: 2.3 Consensus size: 113
89902543 TTTATAATAG
* * *
89902553 TTACTAACAAAATAACTTTCAAATAAATTAAAAAAATTAAAAGATTACATTCATAACCTAATAAA
1 TTACTAACAAAATAACTTTAAAATAAATTAAAAAAATTAAAAAATTACATTCATAACCTAACAAA
89902618 TCACAATAAACTATAAACCTTAAACAAACAATTAACCTAATCACAAAAC
66 TCACAATAAACTATAAA-CTTAAACAAACAATTAACCTAATCACAAAAC
89902667 TTACTGAA-AAAATAACTTTAAAATAAA-T-AAAAAATTAGTAAAAATTTACATTCATAACCTAA
1 TTACT-AACAAAATAACTTTAAAATAAATTAAAAAAATTA--AAAAA-TTACATTCATAACCTAA
* *
89902729 CAAATCACAATAAAAC-ATTAAA-TTAAACAAATAATT----T-AT-A-ATAA-
62 CAAATCACAAT-AAACTA-TAAACTTAAACAAACAATTAACCTAATCACAAAAC
*
89902773 TAACTAACAAAATAACTTTAAAATAAATTAAAA
1 TTACTAACAAAATAACTTTAAAATAAATTAAAA
89902806 TCAACATAAA
Statistics
Matches: 124, Mismatches: 6, Indels: 24
0.81 0.04 0.16
Matches are distributed among these distances:
105 2 0.02
106 23 0.19
107 4 0.03
108 4 0.03
109 2 0.02
110 1 0.01
112 9 0.07
113 1 0.01
114 40 0.32
115 30 0.24
116 8 0.06
ACGTcount: A:0.58, C:0.13, G:0.01, T:0.27
Consensus pattern (113 bp):
TTACTAACAAAATAACTTTAAAATAAATTAAAAAAATTAAAAAATTACATTCATAACCTAACAAA
TCACAATAAACTATAAACTTAAACAAACAATTAACCTAATCACAAAAC
Found at i:89902805 original size:10 final size:11
Alignment explanation
Indices: 89902781--89902826 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
89902771 AATAACTAAC
*
89902781 AAAATAACTTT
1 AAAATAACATT
89902792 AAAATAA-ATT
1 AAAATAACATT
89902802 AAAATCAACA-T
1 AAAAT-AACATT
*
89902813 AAAATAACAAT
1 AAAATAACATT
89902824 AAA
1 AAA
89902827 CAAACTACAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
10 11 0.35
11 19 0.61
12 1 0.03
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATAACATT
Found at i:89903258 original size:19 final size:22
Alignment explanation
Indices: 89903213--89903257 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
89903203 CATCACTAAT
89903213 AAAATAATATTTTTTAAAATAA
1 AAAATAATATTTTTTAAAATAA
89903235 AAAATAAT-TTTTTTAAAA-AA
1 AAAATAATATTTTTTAAAATAA
89903255 AAA
1 AAA
89903258 TTTGTGGTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAATAATATTTTTTAAAATAA
Found at i:89903350 original size:28 final size:28
Alignment explanation
Indices: 89903291--89903375 Score: 100
Period size: 29 Copynumber: 3.0 Consensus size: 28
89903281 GGCACCATCG
89903291 CTACTGACATA-ACATTTTCGTATTTAATC
1 CTACTGACATACA-ATTTT-GTATTTAATC
*
89903320 CTACTGGCATACAATTTTGTATTTAATC
1 CTACTGACATACAATTTTGTATTTAATC
* * *
89903348 CTATTGACATTTCATTTTTGTATTTAAT
1 CTACTGACA-TACAATTTTGTATTTAAT
89903376 TTTTTTTACA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
28 17 0.35
29 31 0.63
30 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.08, T:0.47
Consensus pattern (28 bp):
CTACTGACATACAATTTTGTATTTAATC
Found at i:89904493 original size:22 final size:22
Alignment explanation
Indices: 89904452--89904493 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
89904442 TTCACCCTAT
*
89904452 CAAGCTTTAGTGTCGCGACACC
1 CAAGCTTTAGTGTCACGACACC
* *
89904474 CAAGCTTTGGTGTCATGACA
1 CAAGCTTTAGTGTCACGACA
89904494 TCCTTAACAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (22 bp):
CAAGCTTTAGTGTCACGACACC
Found at i:89910297 original size:34 final size:34
Alignment explanation
Indices: 89910216--89910348 Score: 115
Period size: 34 Copynumber: 3.9 Consensus size: 34
89910206 AAGCATGGAT
* * * * *
89910216 TTGCTACCATACTAATTTGTTATAAGAATG-TCTA
1 TTGCTACCATATTGATCTATTATAAGCATGCT-TA
* *
89910250 TTACTATCATATTGATCTATTATAAGCATGCTTA
1 TTGCTACCATATTGATCTATTATAAGCATGCTTA
** * * *
89910284 TTGCTACTGTATTGATTTGTTATAAGCATGTTTA
1 TTGCTACCATATTGATCTATTATAAGCATGCTTA
* * *
89910318 TTGCTACCATATTAAACTACTATAAGCATGC
1 TTGCTACCATATTGATCTATTATAAGCATGC
89910349 CATATTGCAT
Statistics
Matches: 76, Mismatches: 22, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
34 75 0.99
35 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (34 bp):
TTGCTACCATATTGATCTATTATAAGCATGCTTA
Found at i:89911922 original size:45 final size:45
Alignment explanation
Indices: 89911852--89911973 Score: 113
Period size: 45 Copynumber: 2.7 Consensus size: 45
89911842 TTATGAGTAG
* * ** * * *
89911852 TTTATCTGCACCGATAAGTATTTTATCCACATCATATTAGTAGCT
1 TTTATCAGCACCAATAAGTGGTTTATCCACACCATATTAGCAACT
* *
89911897 TTTATCTA-CACCAATGAA-TGGTTTATCAACACCGTATTAGCAACT
1 TTTATC-AGCACCAAT-AAGTGGTTTATCCACACCATATTAGCAACT
* *
89911942 TTTTTCAGCACGAATAAGTGGTTTATCCACAC
1 TTTATCAGCACCAATAAGTGGTTTATCCACAC
89911974 ATTACTAGCA
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
44 3 0.05
45 56 0.92
46 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (45 bp):
TTTATCAGCACCAATAAGTGGTTTATCCACACCATATTAGCAACT
Found at i:89913525 original size:26 final size:27
Alignment explanation
Indices: 89913491--89913579 Score: 121
Period size: 26 Copynumber: 3.3 Consensus size: 27
89913481 ATATGAACAA
*
89913491 AATTCTCTCTATG-TTTTTCTTTTCAAG
1 AATT-TCTCTATGAGTTTTCTTTTCAAG
89913518 AATTTCTC-ATGAGTTTTCTTTTCAAG
1 AATTTCTCTATGAGTTTTCTTTTCAAG
*
89913544 AATTTCTCT-TGAGTTTTCTTTTAGAAG
1 AATTTCTCTATGAGTTTTCTTTT-CAAG
89913571 AATTTCTCT
1 AATTTCTCT
89913580 TGGAGAGGAA
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
25 3 0.05
26 38 0.67
27 16 0.28
ACGTcount: A:0.21, C:0.16, G:0.10, T:0.53
Consensus pattern (27 bp):
AATTTCTCTATGAGTTTTCTTTTCAAG
Found at i:89913579 original size:27 final size:26
Alignment explanation
Indices: 89913505--89913581 Score: 127
Period size: 26 Copynumber: 2.9 Consensus size: 26
89913495 CTCTCTATGT
*
89913505 TTTTCTTTTCAAGAATTTCTCATGAG
1 TTTTCTTTTCAAGAATTTCTCTTGAG
89913531 TTTTCTTTTCAAGAATTTCTCTTGAG
1 TTTTCTTTTCAAGAATTTCTCTTGAG
*
89913557 TTTTCTTTTAGAAGAATTTCTCTTG
1 TTTTCTTTT-CAAGAATTTCTCTTG
89913582 GAGAGGAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
26 34 0.71
27 14 0.29
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.53
Consensus pattern (26 bp):
TTTTCTTTTCAAGAATTTCTCTTGAG
Found at i:89916280 original size:20 final size:20
Alignment explanation
Indices: 89916255--89916307 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 20
89916245 AAATATATTT
*
89916255 TTTTGAATTTTTTATAAA-TA
1 TTTTGAATTTTTGA-AAATTA
89916275 TTTTGAA-TTTTGAAAATTA
1 TTTTGAATTTTTGAAAATTA
89916294 TTTTGTAATTTTTG
1 TTTTG-AATTTTTG
89916308 TTGAGAGAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 3 0.10
19 12 0.41
20 9 0.31
21 5 0.17
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.60
Consensus pattern (20 bp):
TTTTGAATTTTTGAAAATTA
Found at i:89916285 original size:19 final size:19
Alignment explanation
Indices: 89916255--89916306 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
89916245 AAATATATTT
89916255 TTTTGAATTTTTTATAAA-TA
1 TTTTGAA-TTTTTA-AAATTA
*
89916275 TTTTGAATTTTGAAAATTA
1 TTTTGAATTTTTAAAATTA
89916294 TTTTGTAATTTTT
1 TTTTG-AATTTTT
89916307 GTTGAGAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 3 0.11
19 12 0.43
20 13 0.46
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (19 bp):
TTTTGAATTTTTAAAATTA
Found at i:89921932 original size:107 final size:108
Alignment explanation
Indices: 89921745--89921961 Score: 418
Period size: 107 Copynumber: 2.0 Consensus size: 108
89921735 AACCTTAAAA
89921745 TTGTTAATACAAAAACTCCGGTAAGGAAAAAACTCGAACACACGATCGGAACTCGAAAAGAAAAA
1 TTGTTAATACAAAAACTCCGGTAAGGAAAAAACTCGAACACACGATCGGAACTCGAAAAGAAAAA
89921810 GAAGAAATAGGACAGGCTCCAAGGCGTGTATCAAGCCACTATC
66 GAAGAAATAGGACAGGCTCCAAGGCGTGTATCAAGCCACTATC
*
89921853 TTGTTAGTAC-AAAACTCCGGTAAGGAAAAAACTCGAACACACGATCGGAACTCGAAAAGAAAAA
1 TTGTTAATACAAAAACTCCGGTAAGGAAAAAACTCGAACACACGATCGGAACTCGAAAAGAAAAA
89921917 GAAGAAATAGGACAGGCTCCAAGGCGTGTATCAAGCCACTATC
66 GAAGAAATAGGACAGGCTCCAAGGCGTGTATCAAGCCACTATC
89921960 TT
1 TT
89921962 TAAGGTTATA
Statistics
Matches: 108, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
107 99 0.92
108 9 0.08
ACGTcount: A:0.42, C:0.20, G:0.21, T:0.17
Consensus pattern (108 bp):
TTGTTAATACAAAAACTCCGGTAAGGAAAAAACTCGAACACACGATCGGAACTCGAAAAGAAAAA
GAAGAAATAGGACAGGCTCCAAGGCGTGTATCAAGCCACTATC
Found at i:89924202 original size:53 final size:53
Alignment explanation
Indices: 89924122--89924232 Score: 195
Period size: 53 Copynumber: 2.1 Consensus size: 53
89924112 AAAACAAATG
89924122 TAAATATGCCATCATTCTTCTATCTTTTTCTTTTTTAAAAAAAAAATAGATGT
1 TAAATATGCCATCATTCTTCTATCTTTTTCTTTTTTAAAAAAAAAATAGATGT
* * *
89924175 TAAATATGCCATCATTCTTTTATCTTTTTCTTTTTTTAAAAAAAATTAGATGT
1 TAAATATGCCATCATTCTTCTATCTTTTTCTTTTTTAAAAAAAAAATAGATGT
89924228 TAAAT
1 TAAAT
89924233 GTAAGTTTAC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.48
Consensus pattern (53 bp):
TAAATATGCCATCATTCTTCTATCTTTTTCTTTTTTAAAAAAAAAATAGATGT
Found at i:89928818 original size:22 final size:23
Alignment explanation
Indices: 89928791--89928833 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
89928781 ATTAAACTTA
89928791 AAATTTAAAATATA-AAAAAATT
1 AAATTTAAAATATACAAAAAATT
*
89928813 AAATTTCAAATATACAAAAAA
1 AAATTTAAAATATACAAAAAA
89928834 AAATAAGTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (23 bp):
AAATTTAAAATATACAAAAAATT
Found at i:89946654 original size:31 final size:30
Alignment explanation
Indices: 89946610--89946678 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 30
89946600 GAATTATTCA
89946610 AAAGTTT-TCATTTAAGTCACTAAACTGTT
1 AAAGTTTCTCATTTAAGTCACTAAACTGTT
*
89946639 CGAAAGTTTCT-ATTTAAGTCACTAGACTGTT
1 --AAAGTTTCTCATTTAAGTCACTAAACTGTT
89946670 AAAGTTTCT
1 AAAGTTTCT
89946679 TTTTTCTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
29 9 0.25
31 26 0.72
32 1 0.03
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (30 bp):
AAAGTTTCTCATTTAAGTCACTAAACTGTT
Found at i:89952393 original size:25 final size:26
Alignment explanation
Indices: 89952365--89952420 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
89952355 TTCTTGTTTA
* *
89952365 GCTCGA-ATAAGCGTCCTGTTACATG
1 GCTCGATATAAGCATCCTGATACATG
* *
89952390 GCTC-ATATGAGCATCCTGATATATG
1 GCTCGATATAAGCATCCTGATACATG
89952415 GCTCGA
1 GCTCGA
89952421 GAGTGTGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 1 0.04
25 23 0.92
26 1 0.04
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (26 bp):
GCTCGATATAAGCATCCTGATACATG
Found at i:89959856 original size:32 final size:32
Alignment explanation
Indices: 89959815--89959876 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
89959805 GCCATGGTAG
* *
89959815 GGGTCGTAGAGTGGCTCGAGCTGAGTCTTTAA
1 GGGTCGTAGAGAGGCTCGAGCTAAGTCTTTAA
89959847 GGGTCGTAGAGAGGCTCGAGCTAAGTCTTT
1 GGGTCGTAGAGAGGCTCGAGCTAAGTCTTT
89959877 CGTATCTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.19, C:0.16, G:0.37, T:0.27
Consensus pattern (32 bp):
GGGTCGTAGAGAGGCTCGAGCTAAGTCTTTAA
Found at i:89965793 original size:40 final size:40
Alignment explanation
Indices: 89965732--89965807 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
89965722 CGGTATTCTA
* *
89965732 TGGTGTGTAGGGTTAGATGGGTTGATTTTATCCCCATATT
1 TGGTGTGTAGGGATAGATGGGTCGATTTTATCCCCATATT
* *
89965772 TGGTGTGTAGGGATGGGTGGGTCGATTTTATCCCCA
1 TGGTGTGTAGGGATAGATGGGTCGATTTTATCCCCA
89965808 CATGGTGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.16, C:0.12, G:0.34, T:0.38
Consensus pattern (40 bp):
TGGTGTGTAGGGATAGATGGGTCGATTTTATCCCCATATT
Found at i:89993095 original size:42 final size:42
Alignment explanation
Indices: 89993048--89993130 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
89993038 TAATAGAGTG
89993048 AGCACTTTATAAGATCTAACTGATAACTGAATAAGGTTCTTT
1 AGCACTTTATAAGATCTAACTGATAACTGAATAAGGTTCTTT
89993090 AGCACTTTATAAGATCTAACTGATAACTGAATAAGGTTCTT
1 AGCACTTTATAAGATCTAACTGATAACTGAATAAGGTTCTT
89993131 CTTACTAGCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35
Consensus pattern (42 bp):
AGCACTTTATAAGATCTAACTGATAACTGAATAAGGTTCTTT
Found at i:89993628 original size:2 final size:2
Alignment explanation
Indices: 89993623--89993676 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
89993613 CAGTGTGTAT
* *
89993623 TG TG TG TA TA TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
89993665 TG TG TG TG TG TG
1 TG TG TG TG TG TG
89993677 AAAAAGTATT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.04, C:0.00, G:0.46, T:0.50
Consensus pattern (2 bp):
TG
Found at i:89995854 original size:43 final size:43
Alignment explanation
Indices: 89995697--89995924 Score: 176
Period size: 43 Copynumber: 5.3 Consensus size: 43
89995687 CGCTATATGT
* * * *
89995697 AACGCCGTTAAAGATCATGACATTTAGTGGCG-TTTTTAAAAA
1 AACGCCGCTAAAGATCAGGACATTTAGCGGCGCTTTTTTAAAA
* * *
89995739 AAGTGCCGCTAAA-AGTCCTGGTC-TTTAGCGGCGCTTTTTTCAAACA
1 AA-CGCCGCTAAAGA-T-CAGGACATTTAGCGGCGCTTTTTT-AAA-A
* * *
89995785 AACGCCGCTAAAGATTAGGACTTTTAGCGGTGCTTTTTTAAAA
1 AACGCCGCTAAAGATCAGGACATTTAGCGGCGCTTTTTTAAAA
* * * * *
89995828 AACGCCGCTAAAGACCAAGACATTTAGTGGC-ATTTTTAAAAA
1 AACGCCGCTAAAGATCAGGACATTTAGCGGCGCTTTTTTAAAA
* * * * *
89995870 AAGCGTCGCTAAAAATCGGGACCTTTAGCGGCGCTTTTATAAAA
1 AA-CGCCGCTAAAGATCAGGACATTTAGCGGCGCTTTTTTAAAA
* *
89995914 AATGCCACTAA
1 AACGCCGCTAA
89995925 TTTGCCCAGT
Statistics
Matches: 143, Mismatches: 33, Indels: 19
0.73 0.17 0.10
Matches are distributed among these distances:
42 14 0.10
43 72 0.50
44 24 0.17
45 29 0.20
46 4 0.03
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (43 bp):
AACGCCGCTAAAGATCAGGACATTTAGCGGCGCTTTTTTAAAA
Found at i:89998782 original size:38 final size:38
Alignment explanation
Indices: 89998740--89998816 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
89998730 ATTTTCGTGA
89998740 GCGTGAACGAGATCTTAAGACTTGTTTGTACTCACTAT
1 GCGTGAACGAGATCTTAAGACTTGTTTGTACTCACTAT
89998778 GCGTGAACGAGATCTTAAGACTTGTTTGTACTCACTAT
1 GCGTGAACGAGATCTTAAGACTTGTTTGTACTCACTAT
89998816 G
1 G
89998817 TTAAAAACAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (38 bp):
GCGTGAACGAGATCTTAAGACTTGTTTGTACTCACTAT
Found at i:90001845 original size:9 final size:9
Alignment explanation
Indices: 90001831--90001997 Score: 154
Period size: 9 Copynumber: 17.6 Consensus size: 9
90001821 ATGTATTAGT
90001831 TAAGTTATG
1 TAAGTTATG
90001840 TAAGTTGTTATG
1 TAA---GTTATG
*
90001852 TACGTTATG
1 TAAGTTATG
*
90001861 TGAGTTATG
1 TAAGTTATG
*
90001870 TAAATTATG
1 TAAGTTATG
90001879 TAAGTTATG
1 TAAGTTATG
*
90001888 TGAGTTATG
1 TAAGTTATG
90001897 TAAGTTGTTATG
1 TAA---GTTATG
*
90001909 TAAATTATG
1 TAAGTTATG
90001918 TAAGTTATG
1 TAAGTTATG
*
90001927 TGAGTTATG
1 TAAGTTATG
90001936 TAAGTTGTTATG
1 TAA---GTTATG
*
90001948 TAAATTATG
1 TAAGTTATG
*
90001957 TAAGTTATA
1 TAAGTTATG
*
90001966 TGAGTTATG
1 TAAGTTATG
90001975 TAAGTTATG
1 TAAGTTATG
* *
90001984 TAATTTATT
1 TAAGTTATG
90001993 TAAGT
1 TAAGT
90001998 AATGATCAAT
Statistics
Matches: 128, Mismatches: 21, Indels: 18
0.77 0.13 0.11
Matches are distributed among these distances:
9 102 0.80
12 26 0.20
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:90001878 original size:39 final size:40
Alignment explanation
Indices: 90001835--90001997 Score: 168
Period size: 39 Copynumber: 4.2 Consensus size: 40
90001825 ATTAGTTAAG
90001835 TTATGTAAGTTGTTATGT-ACGTTATGT-G-AGTTATGTAAA
1 TTATGTAAG-TGTTATGTGA-GTTATGTAGTAGTTATGTAAA
*
90001874 TTATGTAA--GTTATGTGAGTTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTGTTATGTGAGTTATGT-AGTAGTTATGTAAA
*
90001913 TTATGTAA--GTTATGTGAGTTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTGTTATGTGAGTTATGT-AGTAGTTATGTAAA
* *
90001952 TTATGTAA--GTTATATGAGTTATGTA--AGTTATGTAAT
1 TTATGTAAGTGTTATGTGAGTTATGTAGTAGTTATGTAAA
*
90001988 TTATTTAAGT
1 TTATGTAAGT
90001998 AATGATCAAT
Statistics
Matches: 113, Mismatches: 5, Indels: 13
0.86 0.04 0.10
Matches are distributed among these distances:
36 30 0.27
37 1 0.01
38 2 0.02
39 80 0.71
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (40 bp):
TTATGTAAGTGTTATGTGAGTTATGTAGTAGTTATGTAAA
Found at i:90001907 original size:48 final size:44
Alignment explanation
Indices: 90001846--90001985 Score: 183
Period size: 39 Copynumber: 3.4 Consensus size: 44
90001836 TATGTAAGTT
*
90001846 GTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATGTGA
1 GTTATGTAAGTTATGT-AGTTATGTAAATTATGTAAGTTATGTGA
90001891 GTTATGTAAG---T-T-GTTATGTAAATTATGTAAGTTATGTGA
1 GTTATGTAAGTTATGTAGTTATGTAAATTATGTAAGTTATGTGA
*
90001930 GTTATGTAAG---T-T-GTTATGTAAATTATGTAAGTTATATGA
1 GTTATGTAAGTTATGTAGTTATGTAAATTATGTAAGTTATGTGA
90001969 GTTATGTAAGTTATGTA
1 GTTATGTAAGTTATGTA
90001986 ATTTATTTAA
Statistics
Matches: 88, Mismatches: 2, Indels: 11
0.87 0.02 0.11
Matches are distributed among these distances:
39 75 0.85
41 1 0.01
42 2 0.02
43 1 0.01
45 9 0.10
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.46
Consensus pattern (44 bp):
GTTATGTAAGTTATGTAGTTATGTAAATTATGTAAGTTATGTGA
Found at i:90001924 original size:57 final size:57
Alignment explanation
Indices: 90001831--90001997 Score: 196
Period size: 57 Copynumber: 2.9 Consensus size: 57
90001821 ATGTATTAGT
* *
90001831 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAAGTTATG
* * * *
90001888 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTTGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAA---GTTATG
* * * *
90001948 TAAATTATGTAAGTT-ATATG--AGTTATGTAAGTTATGTAATTTATTTAAGT
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAAGT
90001998 AATGATCAAT
Statistics
Matches: 94, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
54 2 0.02
57 69 0.73
59 4 0.04
60 19 0.20
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.47
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAAGTTATG
Found at i:90001986 original size:48 final size:48
Alignment explanation
Indices: 90001831--90001986 Score: 188
Period size: 48 Copynumber: 3.2 Consensus size: 48
90001821 ATGTATTAGT
* * *
90001831 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
* * * * *
90001879 TAAGTTATGTGAGTTATGTAAGT-TGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGT-TATGTAAGTTATGTAAGTTATGTAAGTTATG
* * * *
90001927 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
90001975 TAAGTTATGTAA
1 TAAGTTATGTAA
90001987 TTTATTTAAG
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
47 4 0.04
48 81 0.91
49 4 0.04
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (48 bp):
TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
Found at i:90002581 original size:23 final size:23
Alignment explanation
Indices: 90002555--90002604 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
90002545 GTTCAAGTTT
90002555 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
90002578 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
90002601 ATTT
1 ATTT
90002605 GATTAATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (23 bp):
ATTTAAAGGGCTGCAATTCATAC
Found at i:90006301 original size:21 final size:22
Alignment explanation
Indices: 90006275--90006319 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
90006265 GGTACTTTTG
90006275 GATTTAGGGTTTAT-GGTTTAA
1 GATTTAGGGTTTATAGGTTTAA
*
90006296 GATTTAGGGTTTATAGTTTTAA
1 GATTTAGGGTTTATAGGTTTAA
90006318 GA
1 GA
90006320 CGTTTTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.47
Consensus pattern (22 bp):
GATTTAGGGTTTATAGGTTTAA
Found at i:90006541 original size:7 final size:7
Alignment explanation
Indices: 90006529--90006553 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
90006519 TATTGATTTA
90006529 AGGGGTT
1 AGGGGTT
90006536 AGGGGTT
1 AGGGGTT
90006543 AGGGGTT
1 AGGGGTT
90006550 AGGG
1 AGGG
90006554 TTTACCATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.60, T:0.24
Consensus pattern (7 bp):
AGGGGTT
Found at i:90007346 original size:155 final size:155
Alignment explanation
Indices: 90007123--90007403 Score: 379
Period size: 155 Copynumber: 1.8 Consensus size: 155
90007113 TTTCTGAGGA
* * *
90007123 AGCGCCGCTAATGCCACTGAAGCTGAAAATAAACGACGACGTTCCGTTTAATCTTTTAGCGGCGT
1 AGCGCCGCTAATGCCACTGAAGCTGAAAATAAACGACGACGTTCCGTTGAATCTTTTAGCAGCAT
* * * *
90007188 TTTTAGGAAAA-CGCCGCTATATATCGACCTATAGCGGCGCTTTCTTAAAAACACCGCTAATGTT
66 TTTTA-AAAAAGCGCCGCTATAGATCAACCTATAGCGGCGCTTCCTTAAAAACACCGCTAATGTT
90007252 GGATCTATTGCGGCTTTTTTTTTGGT
130 GGATCTATTGCGGCTTTTTTTTTGGT
* * *
90007278 AGCGCCGCTAATGCCACTGAAGCTTAGAAA-AAACGATGTCGTTCTC-TTGAATCTTTTAGCAGC
1 AGCGCCGCTAATGCCACTGAAGCTGA-AAATAAACGACGACGTTC-CGTTGAATCTTTTAGCAGC
* * * * *
90007341 ATTTTTAAAAAAGCGCCGCTATAGGTCAATCTTTAGCGGCGCTTCCTTAAAAACGCCTCTAAT
64 ATTTTTAAAAAAGCGCCGCTATAGATCAACCTATAGCGGCGCTTCCTTAAAAACACCGCTAAT
90007404 TCTCTATCTT
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
154 4 0.04
155 100 0.93
156 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (155 bp):
AGCGCCGCTAATGCCACTGAAGCTGAAAATAAACGACGACGTTCCGTTGAATCTTTTAGCAGCAT
TTTTAAAAAAGCGCCGCTATAGATCAACCTATAGCGGCGCTTCCTTAAAAACACCGCTAATGTTG
GATCTATTGCGGCTTTTTTTTTGGT
Found at i:90007435 original size:40 final size:40
Alignment explanation
Indices: 90007369--90007452 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
90007359 CTATAGGTCA
* * *
90007369 ATCTTTAGCGGCGCTTCCTTAAAAACGCCTCTAATTCTCT
1 ATCTTTAGCGGCGCTTCCTTAAAAACGCCGCTAATACTCG
* * *
90007409 ATCTTTAGCGGTGCTT-TTCTAGAAACGCCGCTAATACTCG
1 ATCTTTAGCGGCGCTTCCT-TAAAAACGCCGCTAATACTCG
90007449 ATCT
1 ATCT
90007453 ATTCGATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 1 0.03
40 36 0.97
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (40 bp):
ATCTTTAGCGGCGCTTCCTTAAAAACGCCGCTAATACTCG
Found at i:90007718 original size:46 final size:48
Alignment explanation
Indices: 90007625--90007754 Score: 194
Period size: 46 Copynumber: 2.8 Consensus size: 48
90007615 TGCCAAATAA
*
90007625 ATAGCCGAAGCTATAC-CAATCTCGCACACTAAGTGCTAATATATATAT
1 ATAGCCGAAGCTAT-CTCGATCTCGCACACTAAGTGCTAATATATATAT
*
90007673 ATAGCCGAAGCTATCTCGATCTCACACACTAAGTGC-AA-ATATATAT
1 ATAGCCGAAGCTATCTCGATCTCGCACACTAAGTGCTAATATATATAT
* *
90007719 ATAGCCGAAGCTATCTTGATTTCGCACACTAAGTGC
1 ATAGCCGAAGCTATCTCGATCTCGCACACTAAGTGC
90007755 CCATAATTAG
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
46 41 0.54
47 3 0.04
48 32 0.42
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.27
Consensus pattern (48 bp):
ATAGCCGAAGCTATCTCGATCTCGCACACTAAGTGCTAATATATATAT
Found at i:90011318 original size:40 final size:40
Alignment explanation
Indices: 90011271--90011433 Score: 181
Period size: 40 Copynumber: 4.1 Consensus size: 40
90011261 GACTAAGATT
*
90011271 CGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGACT
1 CGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGACC
* * *
90011311 CGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGACC
* * *
90011351 CGAAGGCATTTATGCTAGTGACCATATCCGGGCTAAGACC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGACC
* * **
90011391 CGAAGGC-CTTGTGTGAGTGGTTATATCC-GGCTAA-ATCC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGA-CC
90011429 CGAAG
1 CGAAG
90011434 ATACTTGGGT
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
37 1 0.01
38 13 0.12
39 15 0.14
40 77 0.73
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGACC
Found at i:90015548 original size:37 final size:37
Alignment explanation
Indices: 90015498--90015570 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
90015488 TCTCATATCT
90015498 GACCACATTATTAATCATTCGGCCACTAAACTCTTTA
1 GACCACATTATTAATCATTCGGCCACTAAACTCTTTA
*
90015535 GACCATATTATTAATCATTCGGCCACTAAACTCTTT
1 GACCACATTATTAATCATTCGGCCACTAAACTCTTT
90015571 GGTTTCACAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (37 bp):
GACCACATTATTAATCATTCGGCCACTAAACTCTTTA
Found at i:90020238 original size:21 final size:22
Alignment explanation
Indices: 90020200--90020246 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
90020190 AAAAATTACA
* *
90020200 AAAAGAATTCAAAGTAATTTTC
1 AAAAGAATTAAAAATAATTTTC
*
90020222 AAAA-AATTAAAAATAATTTTT
1 AAAAGAATTAAAAATAATTTTC
90020243 AAAA
1 AAAA
90020247 TTTAAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (22 bp):
AAAAGAATTAAAAATAATTTTC
Found at i:90020265 original size:19 final size:19
Alignment explanation
Indices: 90020223--90020274 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
90020213 GTAATTTTCA
*
90020223 AAAAATTAAAAATAATTTT
1 AAAAATTTAAAATAATTTT
*
90020242 TAAAATTTAAAAT-ATTTAT
1 AAAAATTTAAAATAATTT-T
90020261 AAAAATTCTAAAAT
1 AAAAATT-TAAAAT
90020275 TTATATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 4 0.14
19 18 0.64
20 6 0.21
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTTAAAATAATTTT
Found at i:90020292 original size:26 final size:27
Alignment explanation
Indices: 90020228--90020299 Score: 83
Period size: 26 Copynumber: 2.6 Consensus size: 27
90020218 TTTCAAAAAA
*
90020228 TTAAAAATAATTTTTAAAATTTAAAATAT
1 TTAAAAA-AA-TTCTAAAATTTAAAATAT
* * *
90020257 TTATAAAAATTCTAAAATTT-ATATTT
1 TTAAAAAAATTCTAAAATTTAAAATAT
90020283 TTAAAAAAATTCTAAAA
1 TTAAAAAAATTCTAAAA
90020300 AATAAATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
26 20 0.53
27 10 0.26
28 2 0.05
29 6 0.16
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (27 bp):
TTAAAAAAATTCTAAAATTTAAAATAT
Found at i:90036495 original size:15 final size:16
Alignment explanation
Indices: 90036466--90036499 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
90036456 AACAGAGAAG
90036466 CCAAGAATAAAGAAAT
1 CCAAGAATAAAGAAAT
90036482 CCAA-AATAAAGAAAT
1 CCAAGAATAAAGAAAT
90036497 CCA
1 CCA
90036500 TGATACCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.62, C:0.18, G:0.09, T:0.12
Consensus pattern (16 bp):
CCAAGAATAAAGAAAT
Found at i:90044614 original size:33 final size:33
Alignment explanation
Indices: 90044577--90044642 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
90044567 TATGTGAGTC
90044577 TAGCTATACATGCCATATTTAACCTGTGATAGT
1 TAGCTATACATGCCATATTTAACCTGTGATAGT
*
90044610 TAGCTATACATGTCATATTTAACCTGTGATAGT
1 TAGCTATACATGCCATATTTAACCTGTGATAGT
90044643 GTGATATCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (33 bp):
TAGCTATACATGCCATATTTAACCTGTGATAGT
Found at i:90058824 original size:40 final size:40
Alignment explanation
Indices: 90058763--90058988 Score: 226
Period size: 40 Copynumber: 5.7 Consensus size: 40
90058753 CTAACGGGGT
* * * * *
90058763 TAAGTCCCGAAGACATGTGTGCTAGTGATTAATTCCAGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* *
90058803 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* * * *
90058843 TAAGTTCCGAAGGCATTGGTGCGAGTTACTAATTCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* *
90058883 TAAGTCCCGAAGGCATTGGTGCGAATTG-CT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCG-AGTGACTAAT-TCCGGGC
* * * *
90058923 TAAGACCCGAAGGCATTTATGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGC
* *
90058963 TAAGACCCGAAGGC-CTTGTGCGAGTG
1 TAAGTCCCGAAGGCATTTGTGCGAGTG
90058989 GTTATATCCG
Statistics
Matches: 159, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
39 14 0.09
40 143 0.90
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
Found at i:90071452 original size:17 final size:17
Alignment explanation
Indices: 90071426--90071459 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
90071416 ATTTGAAAAA
* *
90071426 AAAATTAAATTAAATAT
1 AAAATAAAATAAAATAT
90071443 AAAATAAAATAAAATAT
1 AAAATAAAATAAAATAT
90071460 TGATGCATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATAAAATAAAATAT
Found at i:90072728 original size:14 final size:14
Alignment explanation
Indices: 90072709--90072736 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
90072699 TATGAAATAC
90072709 GGAATATTATTATA
1 GGAATATTATTATA
90072723 GGAATATTATTATA
1 GGAATATTATTATA
90072737 ATTTTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (14 bp):
GGAATATTATTATA
Found at i:90073731 original size:14 final size:14
Alignment explanation
Indices: 90073714--90073743 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
90073704 ACATGCATAC
90073714 ATACATACATATAT
1 ATACATACATATAT
*
90073728 ATACATATATATAT
1 ATACATACATATAT
90073742 AT
1 AT
90073744 TTACATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (14 bp):
ATACATACATATAT
Found at i:90091841 original size:48 final size:48
Alignment explanation
Indices: 90091762--90091855 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
90091752 AGGGAATTCT
* *
90091762 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
90091810 GTTGAATCCATTATTGGTG-GAAGTT-AGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCATTATTGGTGCG-AGTTGA-GCTGACTTAGGCGTTTTTA
90091856 AGCCAAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
Found at i:90092233 original size:26 final size:27
Alignment explanation
Indices: 90092143--90092241 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 27
90092133 TTAGTTTACC
* *
90092143 AAATTACTAAAAT-GCCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-AATTTGTA
* * **
90092170 AAATTACTAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTAATTTGTA
90092197 AAATTACCAAAATACCCCTAATTTGT-
1 AAATTACCAAAATACCCCTAATTTGTA
90092223 AAATTACCAAAATACCCCT
1 AAATTACCAAAATACCCCT
90092242 GGCTAACATA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
26 19 0.30
27 41 0.65
28 3 0.05
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAATTTGTA
Found at i:90092724 original size:27 final size:27
Alignment explanation
Indices: 90092694--90092825 Score: 117
Period size: 27 Copynumber: 5.0 Consensus size: 27
90092684 ATGCCCTCAA
**
90092694 TTTGTAAAATTAATAAAATACCCCTGG
1 TTTGTAAAATTACCAAAATACCCCTGG
*
90092721 TTTGTAAAACTACCAAAATACCCCTGG
1 TTTGTAAAATTACCAAAATACCCCTGG
* * *
90092748 CTTGT-AAATTACCAAAATACCTCTGA
1 TTTGTAAAATTACCAAAATACCCCTGG
* * * * *
90092774 TTTGTGAAATTATCGAAATA-CTCTCGA
1 TTTGTAAAATTACCAAAATACCCCT-GG
* *
90092801 TTTGTAAAA-TATCGAAATACCCCTG
1 TTTGTAAAATTACCAAAATACCCCTG
90092826 TAGGGTAGAA
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
26 37 0.41
27 53 0.59
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (27 bp):
TTTGTAAAATTACCAAAATACCCCTGG
Found at i:90092793 original size:80 final size:79
Alignment explanation
Indices: 90092673--90092852 Score: 177
Period size: 80 Copynumber: 2.3 Consensus size: 79
90092663 TTAGTTTACC
* * *
90092673 AAATTACCAAAATGCC-CTCAATTTGTAAAATTAATAAAATACCC-CTGGTTTGTAAAACTACCA
1 AAATTACCAAAATACCTCT-GATTTGTAAAATTAATAAAATACCCTC-GATTTGTAAAA-TACCA
***
90092736 AAATACCCCTGGCTTGT
63 AAATACCCCTGGAGGGT
* * * * *
90092753 AAATTACCAAAATACCTCTGATTTGTGAAATT-ATCGAAATACTCTCGATTTGTAAAATATCGAA
1 AAATTACCAAAATACCTCTGATTTGTAAAATTAAT-AAAATACCCTCGATTTGTAAAATACCAAA
*
90092817 ATACCCCTGTAGGGT
65 ATACCCCTGGAGGGT
*
90092832 AGAATTACCGAAATACCTCTG
1 A-AATTACCAAAATACCTCTG
90092853 TAGGTTAGAA
Statistics
Matches: 83, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
79 19 0.23
80 61 0.73
81 3 0.04
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (79 bp):
AAATTACCAAAATACCTCTGATTTGTAAAATTAATAAAATACCCTCGATTTGTAAAATACCAAAA
TACCCCTGGAGGGT
Found at i:90092853 original size:27 final size:27
Alignment explanation
Indices: 90092813--90093029 Score: 281
Period size: 27 Copynumber: 8.0 Consensus size: 27
90092803 TGTAAAATAT
90092813 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
90092840 CGAAATACCTCTGTAGGTTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
90092867 TGAAATACCTCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
90092894 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
90092921 TGAAATACCCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
90092948 CGAAATACCCTTATAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
90092975 TGAAATACCCCTGTAGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * * *
90093002 CGAGATACCCTTGTGGGGAAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
90093029 C
1 C
90093030 AGTTTGCCCC
Statistics
Matches: 165, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 165 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:90093027 original size:81 final size:81
Alignment explanation
Indices: 90092781--90093015 Score: 298
Period size: 81 Copynumber: 2.9 Consensus size: 81
90092771 TGATTTGTGA
* ** *
90092781 AATTATCGAAATACTCTCGAT-TTGTA-AAATATCGAAATACCCCTGTAGGGTAGAATTACCGAA
1 AATTATCGAAATAC-CTCTATAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAA
*
90092844 ATA-CCTCTGTAGGTTAG
65 ATACCCT-TGTAGGGTAG
* * * *
90092861 AATTATTGAAATACCTCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAA
1 AATTATCGAAATACCTCTATAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAA
*
90092926 TACCCCTGTAGGGTAG
66 TACCCTTGTAGGGTAG
* * *
90092942 AATTATCGAAATACC-CTTATAGGGTAGAAATACTGAAATACCCCTGTAGGGTAAAATTACCGAG
1 AATTATCGAAATACCTC-TATAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAA
90093006 ATACCCTTGT
65 ATACCCTTGT
90093016 GGGGAAAAAT
Statistics
Matches: 133, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
79 4 0.03
80 17 0.13
81 110 0.83
82 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (81 bp):
AATTATCGAAATACCTCTATAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAA
TACCCTTGTAGGGTAG
Found at i:90093270 original size:25 final size:25
Alignment explanation
Indices: 90093232--90093326 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
90093222 AGGAAGTGCT
*
90093232 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
90093257 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
90093282 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
90093307 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
90093327 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:90093339 original size:24 final size:25
Alignment explanation
Indices: 90093232--90093339 Score: 109
Period size: 25 Copynumber: 4.4 Consensus size: 25
90093222 AGGAAGTGCT
* *
90093232 AAAAG-GGCTATGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAGTTTATC
* *
90093256 GAAAAG-GGCTTTGCCCTAGTTTACC
1 -AAAAGAGGCTTTGCCCCAGTTTATC
90093281 GAAAAG-GGCTTTGCCCCAGTTTATC
1 -AAAAGAGGCTTTGCCCCAGTTTATC
*
90093306 AAAA-AGGGCTTTGCCCCAG-TTATT
1 AAAAGA-GGCTTTGCCCCAGTTTATC
90093330 AAAAGAGGCT
1 AAAAGAGGCT
90093340 AGGCCTCTAG
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
24 16 0.21
25 59 0.79
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTTATC
Found at i:90101652 original size:17 final size:19
Alignment explanation
Indices: 90101616--90101653 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
90101606 ACCTAACATG
90101616 AATTAAATTTAAGTCATATT
1 AATTAAATTTAAG-CATATT
90101636 AATTAAA-TTAA-CATATT
1 AATTAAATTTAAGCATATT
90101653 A
1 A
90101654 GCATCACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (19 bp):
AATTAAATTTAAGCATATT
Found at i:90107471 original size:13 final size:13
Alignment explanation
Indices: 90107434--90107465 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
90107424 AATTATTATA
90107434 ATAATATAATAAT
1 ATAATATAATAAT
90107447 ATAATATAATAAT
1 ATAATATAATAAT
*
90107460 GTAATA
1 ATAATA
90107466 ACATAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
ATAATATAATAAT
Found at i:90107492 original size:14 final size:14
Alignment explanation
Indices: 90107470--90107501 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
90107460 GTAATAACAT
*
90107470 AAAATAAAAGAAAG
1 AAAACAAAAGAAAG
90107484 AAAACAAAAGAAAG
1 AAAACAAAAGAAAG
90107498 AAAA
1 AAAA
90107502 AGAAATAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.03, G:0.12, T:0.03
Consensus pattern (14 bp):
AAAACAAAAGAAAG
Done.