Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 139 of 345
Found at i:37960069 original size:47 final size:47
Alignment explanation
Indices: 37959906--37960117 Score: 331
Period size: 47 Copynumber: 4.5 Consensus size: 47
37959896 GCTTTATCAT
* *
37959906 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTT-A
*
37959955 ATAACTGGGGCATAAGCCC-TTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC-TTTA
*
37960001 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
37960048 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
37960095 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
37960118 TCACTTCCTC
Statistics
Matches: 154, Mismatches: 5, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
46 37 0.24
47 81 0.53
48 24 0.16
49 12 0.08
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
Found at i:37960189 original size:9 final size:9
Alignment explanation
Indices: 37960175--37960231 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
37960165 ATCTCATGTG
37960175 CATATCATA
1 CATATCATA
*
37960184 CATATCATGTG
1 CATATCA--TA
37960195 CATATCATA
1 CATATCATA
* *
37960204 CATGTCATGTG
1 CATATCA--TA
37960215 CATATCATA
1 CATATCATA
37960224 CATATCAT
1 CATATCAT
37960232 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:37960191 original size:20 final size:20
Alignment explanation
Indices: 37960163--37960233 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
37960153 GCATTTATGA
*
37960163 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
37960183 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
37960203 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
37960223 ACATATCATGT
1 ACATATCATGT
37960234 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:37960198 original size:11 final size:11
Alignment explanation
Indices: 37960168--37960222 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
37960158 TATGAACATC
37960168 TCATGTGCATA
1 TCATGTGCATA
*
37960179 TCA--TACATA
1 TCATGTGCATA
37960188 TCATGTGCATA
1 TCATGTGCATA
* *
37960199 TCA--TACATG
1 TCATGTGCATA
37960208 TCATGTGCATA
1 TCATGTGCATA
37960219 TCAT
1 TCAT
37960223 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:37960298 original size:25 final size:25
Alignment explanation
Indices: 37960270--37960317 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
37960260 ATATATAAAC
* * *
37960270 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
37960295 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
37960318 CATTTATAAG
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:37961559 original size:27 final size:27
Alignment explanation
Indices: 37961539--37961797 Score: 319
Period size: 27 Copynumber: 9.6 Consensus size: 27
37961529 AGGGTATTTT
*
37961539 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
37961566 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
37961593 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
37961620 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
37961647 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
37961674 -GATAATTATGTAAATCG-GGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
37961700 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
37961727 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
37961754 AGTAATTCTGTAAA-CTGAGGGTAAAAT
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
37961781 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
37961798 GGAGTACTTT
Statistics
Matches: 206, Mismatches: 19, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
26 23 0.11
27 181 0.88
28 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:37961742 original size:134 final size:135
Alignment explanation
Indices: 37961541--37961797 Score: 410
Period size: 134 Copynumber: 1.9 Consensus size: 135
37961531 GGTATTTTAG
* *
37961541 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAA
1 TAATTATGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAACAGTAATTCTATAA
*
37961606 ATCGAGGGTAAAATGGTAATTCTGTAAA-TCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
66 ATCGAGGGTAAAATAGTAATTCTGTAAACT-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
37961670 AAACGA
130 AAACGA
** * * *
37961676 TAATTATGTAAATCG-GGGTAAAATGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTATAA
1 TAATTATGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAACAGTAATTCTATAA
*
37961740 ATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAATGGTAATTCTGTAAATCG
66 ATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCG
37961798 GGAGTACTTT
Statistics
Matches: 112, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
134 97 0.87
135 15 0.13
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (135 bp):
TAATTATGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAACAGTAATTCTATAA
ATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAA
AACGA
Found at i:37964897 original size:93 final size:93
Alignment explanation
Indices: 37964787--37964957 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
37964777 GCCCCTAAGT
* *
37964787 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCAAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAAACTCAACTCAA
*
37964852 TGAGTTCGGATGCCTAGTAACATCTCAC
66 CGAGTTCGGATGCCTAGTAACATCTCAC
* * * **
37964880 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAAACTCAACTCAA
37964945 CGAGTTCGGATGC
66 CGAGTTCGGATGC
37964958 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAAACTCAACTCAA
CGAGTTCGGATGCCTAGTAACATCTCAC
Found at i:37964945 original size:46 final size:46
Alignment explanation
Indices: 37964782--37964954 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
37964772 AACCCGCCCC
* * * *
37964782 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTAGCATCCA
* ** * * *
37964828 TAAATGAACTCAAACTCAACTCAATGAGTTCGGATGCCTAGTAACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTAGCATCCA
* * *
37964876 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTAGCATCCA
37964921 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
37964955 TGCTCAACCA
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 2 0.02
46 57 0.57
47 26 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTAGCATCCA
Found at i:37965410 original size:30 final size:30
Alignment explanation
Indices: 37965376--37965435 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
37965366 ATTTAATACG
37965376 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
37965406 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
37965436 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:37985570 original size:20 final size:21
Alignment explanation
Indices: 37985545--37985591 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
37985535 ATATGAATAC
*
37985545 ATCATGCGCATATCATA-CAT
1 ATCATGCGCATATCATATCAA
*
37985565 ATCATGTGCATATCATATCAA
1 ATCATGCGCATATCATATCAA
37985586 ATCATG
1 ATCATG
37985592 TATATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (21 bp):
ATCATGCGCATATCATATCAA
Found at i:37987611 original size:40 final size:40
Alignment explanation
Indices: 37987547--37987735 Score: 263
Period size: 40 Copynumber: 4.7 Consensus size: 40
37987537 ATATTGGATG
* *
37987547 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
** * *
37987587 A-ATTTCGGACTAAGTCCCGAAGGCATTTTTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
37987627 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
37987667 ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTCACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
37987707 ATAATCGGGCTAAGTCCCAAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
37987736 AGCAAGTAGC
Statistics
Matches: 132, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 130 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:37987749 original size:40 final size:39
Alignment explanation
Indices: 37987547--37987758 Score: 241
Period size: 40 Copynumber: 5.3 Consensus size: 39
37987537 ATATTGGATG
* *
37987547 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACT
* * *
37987587 A-ATTTCGGACTAAGTCCCGAAGGCATTTTTGCGAGTTACT
1 ATA-ATCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACT
37987627 AT-ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAAT-CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACT
* *
37987667 ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTCACT
1 ATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACT
* * *
37987707 ATAATCGGGCTAAGTCCCAAAGGCATTTGAGCAAGTAGCT
1 ATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CT
*
37987747 AT-ATCCGGCTAA
1 ATAATCGGGCTAA
37987759 ATTTCGAAGG
Statistics
Matches: 149, Mismatches: 16, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
39 13 0.09
40 134 0.90
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (39 bp):
ATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACT
Found at i:37990625 original size:17 final size:18
Alignment explanation
Indices: 37990593--37990626 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
37990583 AAAACTTTAC
*
37990593 CAAAATCTCGAGAATCAT
1 CAAAATCTCGAAAATCAT
37990611 CAAAA-CTCGAAAATCA
1 CAAAATCTCGAAAATCA
37990627 GGATGTTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.24, G:0.09, T:0.18
Consensus pattern (18 bp):
CAAAATCTCGAAAATCAT
Found at i:37996070 original size:2 final size:2
Alignment explanation
Indices: 37996052--37996085 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
37996042 ACCTTCAAAC
* *
37996052 AT AT GT AT AT TT 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
37996086 CATTCATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
AT
Found at i:38003521 original size:2 final size:2
Alignment explanation
Indices: 38003503--38003540 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
38003493 ACCCTCAAAC
* *
38003503 AT AT GT AT AT TT 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 AT
38003541 CATTCATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
AT
Found at i:38004280 original size:24 final size:24
Alignment explanation
Indices: 38004248--38004308 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
38004238 AAACCAGCAT
* *
38004248 ACATAGTGCCAATCGATTTCGCAC
1 ACATAGTGCCAATCAATTCCGCAC
38004272 ACATAGTGCCAATCAATTCCGCAC
1 ACATAGTGCCAATCAATTCCGCAC
*
38004296 ACTTAGTGCCAAT
1 ACATAGTGCCAAT
38004309 GTTGGCTCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.25
Consensus pattern (24 bp):
ACATAGTGCCAATCAATTCCGCAC
Found at i:38006284 original size:29 final size:29
Alignment explanation
Indices: 38006171--38006281 Score: 136
Period size: 29 Copynumber: 3.9 Consensus size: 29
38006161 ACATACATGC
* *
38006171 ATATGGCCCACTT-GGCCC-AATCTCATCT
1 ATATGGCCCA-TTAGGCCCAAATCACATTT
* *
38006199 ATATGGCCCATTAGGCCCAATTCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTT
* * *
38006228 ATATGGCCCATCAGGTCCAAATCACCTTT
1 ATATGGCCCATTAGGCCCAAATCACATTT
38006257 ATATGGCCCATTAGGCCCAAATCAC
1 ATATGGCCCATTAGGCCCAAATCAC
38006282 CTTATATTCA
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
27 2 0.03
28 15 0.21
29 53 0.76
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTT
Found at i:38015114 original size:30 final size:29
Alignment explanation
Indices: 38015020--38015121 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
38015010 TATAGTGAAT
* * *
38015020 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
38015049 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
38015077 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
38015107 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
38015122 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:38020611 original size:13 final size:13
Alignment explanation
Indices: 38020593--38020626 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
38020583 GGTCAGTGGA
38020593 TGAAATGTTATAC
1 TGAAATGTTATAC
*
38020606 TGAAATGCTATAC
1 TGAAATGTTATAC
38020619 TGAAATGT
1 TGAAATGT
38020627 AATTAGGTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (13 bp):
TGAAATGTTATAC
Found at i:38038170 original size:27 final size:28
Alignment explanation
Indices: 38038105--38038173 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
38038095 AATGAGATTG
*
38038105 GCACTAAGTGTGCGAGTTTAATTGTATA
1 GCACTAAGTGTGCGAGTTGAATTGTATA
*
38038133 GCACTAAGTGTGCGAGTTGACTAT-TA-A
1 GCACTAAGTGTGCGAGTTGAAT-TGTATA
38038160 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
38038174 GACTTACTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 15 0.39
28 22 0.58
29 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTGAATTGTATA
Found at i:38038182 original size:27 final size:27
Alignment explanation
Indices: 38038105--38038183 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 27
38038095 AATGAGATTG
* * *
38038105 GCACTAAGTGTGCGAGTTTAAT-TGTATA
1 GCACTAAGTGTGCGACTTGACTAT-TA-A
*
38038133 GCACTAAGTGTGCGAGTTGACTATTAA
1 GCACTAAGTGTGCGACTTGACTATTAA
38038160 GCACTAAGTGTGCGGACTT-ACTAT
1 GCACTAAGTGTGC-GACTTGACTAT
38038184 ATATTTTCGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 19 0.41
28 26 0.57
29 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTGACTATTAA
Found at i:38049000 original size:19 final size:19
Alignment explanation
Indices: 38048953--38049003 Score: 79
Period size: 17 Copynumber: 2.8 Consensus size: 19
38048943 ATCTTCAATA
38048953 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
38048972 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
38048989 ATATGTAATCTTAGA
1 ATATGCAATCTTAGA
38049004 AGATATGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 17 0.59
19 12 0.41
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:38049007 original size:22 final size:23
Alignment explanation
Indices: 38048982--38049026 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
38048972 ATACAATCTT
38048982 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
* *
38049004 AGATATGATTTTGTAGTCTTAGA
1 AGATATGATTATGTAATCTTAGA
38049027 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:38049036 original size:22 final size:22
Alignment explanation
Indices: 38048982--38049040 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
38048972 ATACAATCTT
* * *
38048982 AGATATGATATGTAATCTTAGA
1 AGATATAATTTGTAGTCTTAGA
*
38049004 AGATATGATTTTGTAGTCTTAG-
1 AGATAT-AATTTGTAGTCTTAGA
*
38049026 AGATTTAATTTGTAG
1 AGATATAATTTGTAG
38049041 ATACCTTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
21 8 0.27
22 11 0.37
23 11 0.37
ACGTcount: A:0.34, C:0.03, G:0.20, T:0.42
Consensus pattern (22 bp):
AGATATAATTTGTAGTCTTAGA
Found at i:38051706 original size:24 final size:24
Alignment explanation
Indices: 38051673--38051719 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
38051663 TGGTTTGAGG
38051673 GATTTGAGGA-GAGATAAGGGGAGA
1 GATTTGAGGAGGAGAT-AGGGGAGA
*
38051697 GATTTTAGGAGGAGATAGGGGAG
1 GATTTGAGGAGGAGATAGGGGAG
38051720 GTTAGGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.34, C:0.00, G:0.47, T:0.19
Consensus pattern (24 bp):
GATTTGAGGAGGAGATAGGGGAGA
Found at i:38053503 original size:34 final size:33
Alignment explanation
Indices: 38053430--38053503 Score: 76
Period size: 34 Copynumber: 2.2 Consensus size: 33
38053420 CTGTATTGAA
* **
38053430 ATGGGCTAAGGCCCAAACTGATACTATTACTGT
1 ATGGGCTAAGGCCCAAACTAATACTACAACTGT
* * *
38053463 ATTGGGCTAAGGCCCACACTAATATTGCAACTGAT
1 A-TGGGCTAAGGCCCAAACTAATACTACAACTG-T
38053498 ATGGGC
1 ATGGGC
38053504 CCAGACTGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
33 1 0.03
34 30 0.91
35 2 0.06
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (33 bp):
ATGGGCTAAGGCCCAAACTAATACTACAACTGT
Found at i:38057258 original size:42 final size:42
Alignment explanation
Indices: 38057169--38057264 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
38057159 GTCCTCACCA
* * *
38057169 GTGTAACTCACTAAGAAGGGTCACACAGTCATGTCGCAGGTC
1 GTGTAACTCACTAAGAAGGGTCACACAGCCATGTCGCAAGCC
* *
38057211 GTGTAACTCACTAAGAAGGGTCACACAGCCGTGTAC-TAAGCC
1 GTGTAACTCACTAAGAAGGGTCACACAGCCATGT-CGCAAGCC
*
38057253 TTGTAACTCACT
1 GTGTAACTCACT
38057265 GACTTGAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 46 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (42 bp):
GTGTAACTCACTAAGAAGGGTCACACAGCCATGTCGCAAGCC
Found at i:38063027 original size:53 final size:53
Alignment explanation
Indices: 38062844--38063097 Score: 236
Period size: 55 Copynumber: 4.8 Consensus size: 53
38062834 ATTAGGGTTT
* * *
38062844 AAGGATACCGTGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-G-TTCATAAGGC
* * * *
38062899 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * *
38062954 AAAGG-TCCCATGTAAGACCATACCAAGACATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * *
38063007 AAGGCTACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCAT-AAGGC
* * * *
38063056 AAGGATACCACGTAAGA-CATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
38063098 GTACCCGTGT
Statistics
Matches: 170, Mismatches: 23, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
48 23 0.14
49 15 0.09
51 1 0.01
52 8 0.05
53 44 0.26
54 8 0.05
55 67 0.39
56 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:38063050 original size:108 final size:110
Alignment explanation
Indices: 38062854--38063051 Score: 285
Period size: 108 Copynumber: 1.8 Consensus size: 110
38062844 AAGGATACCG
* * *
38062854 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATACCAAGACATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
*
38062919 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
* * **
38062964 TGTAAGACCATACCAAGACATGG-CATTGGTGA-G-TTCATAAGGCAAGGCTACCATGTAAGACC
1 TGTAAGACCATACCAAGACATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
*
38063026 ATGTCAAGACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCAATGATAAGTT
38063052 TCAAAAGGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.60
109 7 0.09
110 21 0.27
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
TGTAAGACCATACCAAGACATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:38063310 original size:16 final size:16
Alignment explanation
Indices: 38063289--38063319 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38063279 ATAAATTTGA
38063289 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
38063305 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
38063320 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:38070579 original size:53 final size:53
Alignment explanation
Indices: 38070397--38070650 Score: 252
Period size: 53 Copynumber: 4.8 Consensus size: 53
38070387 ATTAGGGTTT
* * *
38070397 AAGGATACCGTGTAAGACCATGCCAAGGCATGGAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAA-G-TTCATAAGGC
* * * *
38070451 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * *
38070506 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * *
38070559 AAGGCTACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCAT-AAGGC
* * * *
38070608 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
38070651 GTACCCGTGT
Statistics
Matches: 171, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
49 39 0.23
51 1 0.01
52 8 0.05
53 44 0.26
54 36 0.21
55 39 0.23
56 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:38070602 original size:108 final size:109
Alignment explanation
Indices: 38070407--38070603 Score: 308
Period size: 108 Copynumber: 1.8 Consensus size: 109
38070397 AAGGATACCG
*
38070407 TGTAAGACCATGCCAAGGCATGGAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCAT
1 TGTAAGACCATGCCAAGGCATGGAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCAT
*
38070472 GTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 GTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
* * **
38070516 TGTAAGACCATGCCAAGGCATGGCATTGGTGA-G-TTCATAAGGCAAGGCTACCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACCA
*
38070579 TGTCAAGACATGGCAATGGTAAGTT
65 TGTCAAGACATGGCAATGATAAGTT
38070604 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
107 3 0.04
108 47 0.59
109 30 0.38
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (109 bp):
TGTAAGACCATGCCAAGGCATGGAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCAT
GTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:38070863 original size:16 final size:16
Alignment explanation
Indices: 38070842--38070872 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38070832 ATAAATTTGA
38070842 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
38070858 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
38070873 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:38072070 original size:42 final size:42
Alignment explanation
Indices: 38072010--38072101 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
38072000 TGGCCCATAG
*
38072010 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
*
38072052 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
38072094 GCCCATTT
1 GCCCATTT
38072102 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
Found at i:38072276 original size:25 final size:25
Alignment explanation
Indices: 38072248--38072342 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
38072238 CTCTTTTAAT
* *
38072248 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
38072273 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
38072298 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
38072323 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
38072343 AGCATTTCCT
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:0.25, C:0.23, G:0.25, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:38072278 original size:50 final size:49
Alignment explanation
Indices: 38072223--38072343 Score: 145
Period size: 50 Copynumber: 2.4 Consensus size: 49
38072213 TTTATCATAT
* * *
38072223 AACTGGAGGCCTAGCCTCTTTTAAT-AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGG-GGCATAGCC-CTTTTAATAAACTAGGGCAAAGCCCTTTTCGATA
* ** *
38072273 AACTGGGGCAAAGCCCTTTTCGGTAAACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCATAGCCCTTTT-AATAAACTAGGGCAAAGCCCTTTTCGATA
38072323 AACTGGGGCATAGCCCTTTTA
1 AACTGGGGCATAGCCCTTTTA
38072344 GCATTTCCTC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
48 5 0.08
49 8 0.13
50 47 0.78
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (49 bp):
AACTGGGGCATAGCCCTTTTAATAAACTAGGGCAAAGCCCTTTTCGATA
Found at i:38073196 original size:27 final size:27
Alignment explanation
Indices: 38073156--38073207 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
38073146 TATTCGACAT
*
38073156 TTTACCATATAGGGG-TATTACGGTCAC
1 TTTACCATACAGGGGCT-TTACGGTCAC
*
38073183 TTTACCCTACAGGGGCTTTACGGTC
1 TTTACCATACAGGGGCTTTACGGTC
38073208 TTTTTGCCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (27 bp):
TTTACCATACAGGGGCTTTACGGTCAC
Found at i:38073325 original size:27 final size:27
Alignment explanation
Indices: 38073286--38073403 Score: 173
Period size: 27 Copynumber: 4.4 Consensus size: 27
38073276 GGGTATTTCA
* * *
38073286 GTAATTTTGTAAATCGAGTGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
38073313 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
38073340 GTAATTCTATAAATTGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
38073367 ATAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
38073394 GTAATTCTAT
1 GTAATTCTAT
38073404 CTTACAGGAG
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:38073443 original size:27 final size:27
Alignment explanation
Indices: 38073413--38073667 Score: 254
Period size: 27 Copynumber: 9.6 Consensus size: 27
38073403 TCTTACAGGA
38073413 GTATTTCAGTAATTTTACAAATCGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* *
38073440 GTATTTTAGTAATTTTGCAAA-CTGAGG
1 GTATTTCAGTAATTTTACAAATC-GAGG
*
38073467 GTATTTCGGTAATTTTACAAATCGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* ** * * *
38073494 ATATTTGGGTAATTTTATAAATTGGGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* *
38073521 GTACTTT-GGTAATTTTACAAGTCGAGG
1 GTA-TTTCAGTAATTTTACAAATCGAGG
38073548 GTATTTCAGTAATTTTACAAATCGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* * *
38073575 GTATTTTAGTAATTTTGC-AATCGACG
1 GTATTTCAGTAATTTTACAAATCGAGG
* *
38073601 GTATTTCGGTAATTTTATAAA-CTG-GG
1 GTATTTCAGTAATTTTACAAATC-GAGG
* * *
38073627 GTACTTT-GGTAATTTTACAACT-GGGG
1 GTA-TTTCAGTAATTTTACAAATCGAGG
38073653 GTATTTCAGTAATTT
1 GTATTTCAGTAATTT
38073668 GGTATCTAAA
Statistics
Matches: 190, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
25 4 0.02
26 54 0.28
27 128 0.67
28 4 0.02
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAATCGAGG
Found at i:38073478 original size:81 final size:82
Alignment explanation
Indices: 38073409--38073667 Score: 291
Period size: 81 Copynumber: 3.2 Consensus size: 82
38073399 TCTATCTTAC
* *
38073409 AGGAGTATTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTC
1 AGGAGTATTTCAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACTGAGGGTATTTC
38073474 GGTAATTTTACAAATCG
66 GGTAATTTTACAAATCG
** * * * * *
38073491 AGGA-TATTTGGGTAATTTTATAAATTGGGGGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTT
1 AGGAGTATTTCAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACT-GAGGGTATTT
*
38073554 CAGTAATTTTACAAATCG
65 CGGTAATTTTACAAATCG
* * * * *
38073572 AGG-GTATTTTAGTAATTTTGC-AATCGACGGTATTTCGGTAATTTTATAAACTG-GGGTACTTT
1 AGGAGTATTTCAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACTGAGGGTA-TTT
*
38073634 -GGTAATTTTACAACT-G
65 CGGTAATTTTACAAATCG
*
38073650 -GGGGTATTTCAGTAATTT
1 AGGAGTATTTCAGTAATTT
38073668 GGTATCTAAA
Statistics
Matches: 148, Mismatches: 24, Indels: 14
0.80 0.13 0.08
Matches are distributed among these distances:
77 2 0.01
78 15 0.10
79 18 0.12
80 27 0.18
81 82 0.55
82 4 0.03
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (82 bp):
AGGAGTATTTCAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACTGAGGGTATTTC
GGTAATTTTACAAATCG
Found at i:38075170 original size:28 final size:28
Alignment explanation
Indices: 38075101--38075209 Score: 105
Period size: 28 Copynumber: 3.9 Consensus size: 28
38075091 GAGCATGACT
**
38075101 ATAAATGTGATTGGGCCTAAT-GGCTGT
1 ATAAATGTGATTGGGCCTAATGGGCTAC
* *
38075128 ATGAATGTGATTTGGACCTAATGGGCTAC
1 ATAAATGTGA-TTGGGCCTAATGGGCTAC
* * *
38075157 ATAAATGTGATTGGGCTTAATGGGCCAT
1 ATAAATGTGATTGGGCCTAATGGGCTAC
* *
38075185 ATGAAA-ATGATTGGGCCTAGTGGGC
1 AT-AAATGTGATTGGGCCTAATGGGC
38075210 CATATACAGG
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
27 9 0.13
28 42 0.63
29 16 0.24
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (28 bp):
ATAAATGTGATTGGGCCTAATGGGCTAC
Found at i:38075209 original size:56 final size:56
Alignment explanation
Indices: 38075101--38075209 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 56
38075091 GAGCATGACT
** **
38075101 ATAAATGTGATTGGGCCTAATGGCTGTATGAATGTGATTTGGACCTAATGGGCTAC
1 ATAAATGTGATTGGGCCTAATGGCCATATGAAAATGATTTGGACCTAATGGGCTAC
* * *
38075157 ATAAATGTGATTGGGCTTAATGGGCCATATGAAAATGA-TTGGGCCTAGTGGGC
1 ATAAATGTGATTGGGCCTAAT-GGCCATATGAAAATGATTTGGACCTAATGGGC
38075210 CATATACAGG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
56 33 0.73
57 12 0.27
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (56 bp):
ATAAATGTGATTGGGCCTAATGGCCATATGAAAATGATTTGGACCTAATGGGCTAC
Found at i:38075876 original size:5 final size:5
Alignment explanation
Indices: 38075868--38075892 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
38075858 TGGGTTACAC
38075868 TGCAT TGCAT TGCAT TGCAT TGCAT
1 TGCAT TGCAT TGCAT TGCAT TGCAT
38075893 GTGTGTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (5 bp):
TGCAT
Found at i:38078821 original size:29 final size:29
Alignment explanation
Indices: 38078779--38078838 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
38078769 GGTTTGTTTA
38078779 TTGGAGGAGCAGCAAGGTGTAGTGTCGAC
1 TTGGAGGAGCAGCAAGGTGTAGTGTCGAC
38078808 TTGGAGGAGCAGCAAGGTGTAGTGTCGAC
1 TTGGAGGAGCAGCAAGGTGTAGTGTCGAC
38078837 TT
1 TT
38078839 AGAGTAGCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.13, G:0.40, T:0.23
Consensus pattern (29 bp):
TTGGAGGAGCAGCAAGGTGTAGTGTCGAC
Found at i:38079633 original size:9 final size:9
Alignment explanation
Indices: 38079621--38079677 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
38079611 TTTGATAAAC
38079621 ATGATATGT
1 ATGATATGT
*
38079630 ATGATATGCAC
1 ATGATATG--T
*
38079641 ATGACATGT
1 ATGATATGT
*
38079650 ATGATATGCAC
1 ATGATATG--T
38079661 ATGATATGT
1 ATGATATGT
38079670 ATGATATG
1 ATGATATG
38079678 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:38079644 original size:20 final size:20
Alignment explanation
Indices: 38079619--38079681 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
38079609 ATTTTGATAA
38079619 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
38079639 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
38079659 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
38079679 ACA
1 ACA
38079682 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:38079791 original size:24 final size:24
Alignment explanation
Indices: 38079735--38079930 Score: 218
Period size: 24 Copynumber: 8.0 Consensus size: 24
38079725 GAGGAAGTGA
38079735 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
38079758 TAAAGAGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
38079782 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
38079806 AAAAGGGCTTACGCCCCAGCCCCAGTTATC
1 AAAAGGGCTTA------TGCCCCAGTTATC
*
38079836 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
38079859 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
38079883 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
38079907 AAAAGAGGC-TAGGCCCCCAGTTAT
1 AAAAG-GGCTTATG-CCCCAGTTAT
38079931 ATGATAAAGC
Statistics
Matches: 150, Mismatches: 13, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
23 42 0.28
24 72 0.48
25 13 0.09
30 23 0.15
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:38079804 original size:47 final size:47
Alignment explanation
Indices: 38079735--38079909 Score: 233
Period size: 47 Copynumber: 3.6 Consensus size: 47
38079725 GAGGAAGTGA
*
38079735 AAAAGGGCTTATGCCCCAGTTATTAAAGAGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
* *
38079782 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTA------TGCCCCAGTTATC
* *
38079836 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
38079883 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
38079910 AGAGGCTAGG
Statistics
Matches: 112, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
47 59 0.53
48 9 0.08
53 10 0.09
54 34 0.30
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:38079830 original size:30 final size:30
Alignment explanation
Indices: 38079794--38079854 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
38079784 AAGGGCTTAT
38079794 GCCCCAGTTATCAAAAGGGCTTACGCCCCA
1 GCCCCAGTTATCAAAAGGGCTTACGCCCCA
38079824 GCCCCAGTTATCAAAAGGGCTTACGCCCCA
1 GCCCCAGTTATCAAAAGGGCTTACGCCCCA
38079854 G
1 G
38079855 TTATTAAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.36, G:0.21, T:0.16
Consensus pattern (30 bp):
GCCCCAGTTATCAAAAGGGCTTACGCCCCA
Found at i:38079852 original size:54 final size:53
Alignment explanation
Indices: 38079770--38079877 Score: 180
Period size: 54 Copynumber: 2.0 Consensus size: 53
38079760 AAGAGCTTAT
*
38079770 GCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCA
1 GCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT-AAAAGGGCTTACGCCCCA
* *
38079824 GCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCA
1 GCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATAAAAGGGCTTACGCCCCA
38079877 G
1 G
38079878 TTATAAAAAG
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
53 17 0.33
54 34 0.67
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (53 bp):
GCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATAAAAGGGCTTACGCCCCA
Found at i:38079866 original size:77 final size:77
Alignment explanation
Indices: 38079747--38079901 Score: 231
Period size: 77 Copynumber: 2.0 Consensus size: 77
38079737 AAGGGCTTAT
* * *
38079747 GCCCCAGTTATTAAAGAGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGG
1 GCCCCAGTTATAAAAGAGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATAAAAAGG
38079812 GCTTACGCCCCA
66 GCTTACGCCCCA
* *
38079824 GCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATAAAAAG
1 GCCCCAGTTAT-AAAAGAGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATAAAAAG
**
38079888 GGCTTTTGCCCCA
65 GGCTTACGCCCCA
38079901 G
1 G
38079902 TTATTAAAAG
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
77 50 0.71
78 20 0.29
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (77 bp):
GCCCCAGTTATAAAAGAGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATAAAAAGG
GCTTACGCCCCA
Found at i:38080160 original size:31 final size:31
Alignment explanation
Indices: 38080125--38080188 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
38080115 CGTTTACCGT
*
38080125 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
38080156 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
38080187 AA
1 AA
38080189 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:38087545 original size:47 final size:47
Alignment explanation
Indices: 38087455--38087785 Score: 477
Period size: 47 Copynumber: 7.1 Consensus size: 47
38087445 TTAGGATTTT
** * * *
38087455 ATGTGATGAATGTGAATGTGTAT-TATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
38087501 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
38087548 ATGTGATGAATGTGAACATGCATATGTGGGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
38087595 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
38087642 ATGTGAAGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
38087689 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
38087736 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
38087783 ATG
1 ATG
38087786 CGAAATGTGT
Statistics
Matches: 260, Mismatches: 23, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
46 20 0.08
47 237 0.91
48 3 0.01
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:38087695 original size:22 final size:22
Alignment explanation
Indices: 38087621--38087695 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
38087611 CATGCATATG
38087621 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * * * *
38087643 TGTGAAGAATG-TGAATATGCATATA
1 TGTG-ATAAGGCCGAAT-GGC-CA-A
38087668 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
38087690 TGTGAT
1 TGTGAT
38087696 GAATGTGAAC
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.39
23 7 0.18
24 7 0.18
25 9 0.24
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:38087742 original size:22 final size:22
Alignment explanation
Indices: 38087667--38087742 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
38087657 ATATGCATAT
*
38087667 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
38087689 ATGTGATGAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
38087713 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
38087736 ATGTGAT
1 ATGTGAT
38087743 GAACGTGGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:38087863 original size:91 final size:92
Alignment explanation
Indices: 38087759--38087940 Score: 294
Period size: 91 Copynumber: 2.0 Consensus size: 92
38087749 GGAAGTGTAT
* * *
38087759 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATA-AGTAAAGCCGAAT
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATATAGTAAAGCCAAAT
*
38087823 GGCTAATGCGAAATGTGTATGAGATGG
66 GGCTAATGCGAAATATGTATGAGATGG
*
38087850 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATATGGTAAAGCCAAAT
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATATAGTAAAGCCAAAT
* *
38087915 GGCTAATGTGAGATATGTATGAGATG
66 GGCTAATGCGAAATATGTATGAGATG
38087941 TGTATATATA
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 49 0.59
92 34 0.41
ACGTcount: A:0.36, C:0.09, G:0.30, T:0.25
Consensus pattern (92 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATATAGTAAAGCCAAAT
GGCTAATGCGAAATATGTATGAGATGG
Found at i:38087947 original size:46 final size:45
Alignment explanation
Indices: 38087765--38087940 Score: 280
Period size: 46 Copynumber: 3.9 Consensus size: 45
38087755 GTATATATGT
38087765 GGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATA
1 GGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATA
*
38087810 AGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATGA
1 GGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATAT-A
*
38087856 GGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATA
1 GGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATA
* * * *
38087901 TGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 -GGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
38087941 TGTATATATA
Statistics
Matches: 121, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
45 44 0.36
46 77 0.64
ACGTcount: A:0.36, C:0.09, G:0.31, T:0.24
Consensus pattern (45 bp):
GGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATA
Found at i:38093479 original size:28 final size:28
Alignment explanation
Indices: 38093414--38093514 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
38093404 ATAGTGAATC
*
38093414 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
38093443 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
38093471 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
38093501 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38093515 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:38101415 original size:28 final size:28
Alignment explanation
Indices: 38101350--38101450 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
38101340 ATAGTGAATC
*
38101350 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
38101379 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
38101407 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
38101437 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38101451 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:38104341 original size:31 final size:31
Alignment explanation
Indices: 38104300--38104363 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
38104290 CCTTTTCATA
*
38104300 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
38104331 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
38104362 TT
1 TT
38104364 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:38104609 original size:24 final size:24
Alignment explanation
Indices: 38104557--38104746 Score: 278
Period size: 24 Copynumber: 8.0 Consensus size: 24
38104547 GCTTTATCAT
*
38104557 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
38104582 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
38104606 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
38104629 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
38104653 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
38104677 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
38104701 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
38104724 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
38104747 TCACTTCCTC
Statistics
Matches: 153, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
23 43 0.28
24 98 0.64
25 12 0.08
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:38104633 original size:47 final size:48
Alignment explanation
Indices: 38104556--38104747 Score: 291
Period size: 47 Copynumber: 4.0 Consensus size: 48
38104546 TGCTTTATCA
* *
38104556 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
38104605 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
38104652 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
38104700 GATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
38104747 T
1 T
38104748 CACTTCCTCC
Statistics
Matches: 133, Mismatches: 8, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
47 70 0.53
48 50 0.38
49 13 0.10
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:38104657 original size:71 final size:72
Alignment explanation
Indices: 38104557--38104747 Score: 289
Period size: 71 Copynumber: 2.7 Consensus size: 72
38104547 GCTTTATCAT
* *
38104557 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAA
38104621 GCCC-TTTA
64 GCCCTTTTA
* * *
38104629 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
*
38104694 CCTTTTG
66 CCTTTTA
38104701 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTT
38104748 CACTTCCTCC
Statistics
Matches: 109, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
71 76 0.70
72 33 0.30
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
CCTTTTA
Found at i:38104824 original size:20 final size:20
Alignment explanation
Indices: 38104801--38104843 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
38104791 GAACATCTCG
38104801 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
38104821 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
38104841 TGT
1 TGT
38104844 TTATCAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:38104925 original size:25 final size:25
Alignment explanation
Indices: 38104879--38104926 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
38104869 CATATATAAC
* * * *
38104879 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
38104904 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
38104927 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:38106145 original size:27 final size:27
Alignment explanation
Indices: 38106084--38106160 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
38106074 GGCATATTCA
38106084 TCATTTTACCATACAGGGGTATTACGG
1 TCATTTTACCATACAGGGGTATTACGG
* *
38106111 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAGGGG-TATTACGG
* *
38106138 TCTTTTTACC-TAATAGGGGTATT
1 TCATTTTACCAT-ACAGGGGTATT
38106161 TTAGTCATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 39 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGTATTACGG
Found at i:38106231 original size:27 final size:27
Alignment explanation
Indices: 38106205--38106484 Score: 147
Period size: 27 Copynumber: 10.3 Consensus size: 27
38106195 ATCTACAAAC
* *
38106205 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTATAAAT
* *
38106232 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTTC-AGTAA-TTTTATAAA-T
* * *
38106261 CAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
* ** *
38106288 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
** * * * *
38106315 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTCAGTAATTTTATAAAT
* *
38106342 CAAGGGTATTT-TGATAATTTTACAAA-
1 CAAGGGTATTTCAG-TAATTTTATAAAT
* ** *
38106368 CTAGAGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTCAGTAATTTTATAAAT
* *
38106395 CTAAGGGTATTTTAGTAATTTTGTAAAT
1 C-AAGGGTATTTCAGTAATTTTATAAAT
* *** * *
38106423 TAAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
* **
38106450 CAATGGTAAAAT-AGTAATTTTATAAAT
1 CAAGGGT-ATTTCAGTAATTTTATAAAT
*
38106477 CGAGGGTA
1 CAAGGGTA
38106485 AAATTGTAAT
Statistics
Matches: 199, Mismatches: 44, Indels: 21
0.75 0.17 0.08
Matches are distributed among these distances:
26 5 0.03
27 160 0.80
28 20 0.10
29 14 0.07
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTATAAAT
Found at i:38106349 original size:54 final size:53
Alignment explanation
Indices: 38106291--38106430 Score: 181
Period size: 54 Copynumber: 2.6 Consensus size: 53
38106281 TGTAAATCAG
38106291 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATT-AGGGTATTTCGGTAATTTCACAAACCAA
* * * * *
38106345 GGGTATTTTGATAATTTTACAAACTAGAGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAATTAG-GGTATTTCGGTAATTTCACAAACCAA
* **
38106399 GGGTATTTTAGTAATTTTGTAAATTAAGGGTA
1 GGGTATTTTGGTAATTTTACAAATT-AGGGTA
38106431 AAACAGTAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
53 2 0.03
54 70 0.95
55 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAATTAGGGTATTTCGGTAATTTCACAAACCAA
Found at i:38106485 original size:27 final size:27
Alignment explanation
Indices: 38106408--38106619 Score: 223
Period size: 27 Copynumber: 7.9 Consensus size: 27
38106398 AGGGTATTTT
* **
38106408 AGTAATTTTGTAAATTAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
38106435 AGTAATTCTGTAAATCAATGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
38106462 AGTAATTTTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
38106489 TGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
38106516 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
38106543 -GATAATTATGTAAATC-AGGGGTAAAAC
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* * *
38106570 GGTAATTATGTAAATCGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
38106597 -GATAATTCTGTAAATCGGGGGTA
1 AG-TAATTCTGTAAATCGAGGGTA
38106620 CTTTGGTAAT
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
26 3 0.02
27 158 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:38106539 original size:81 final size:81
Alignment explanation
Indices: 38106409--38106619 Score: 246
Period size: 81 Copynumber: 2.6 Consensus size: 81
38106399 GGGTATTTTA
* ** * * * *
38106409 GTAATTTTGTAAATTAAGGGTAAAACAGTAATTCTGTAAATCAATGGTAAAATAG-TAATTTTAT
1 GTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA-AGATAATTATAT
**
38106473 AAATC-GAGGGTAAAATT
65 AAATCAG-GGGTAAAACG
* * * *
38106490 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTA
1 GTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAAGATAATTATATA
38106555 AATCAGGGGTAAAACG
66 AATCAGGGGTAAAACG
* * *
38106571 GTAATTATGTAAATCGGGGGTAAAACGATAATTCTGTAAATCGGGGGTA
1 GTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
38106620 CTTTGGTAAT
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 1 0.01
81 109 0.98
82 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (81 bp):
GTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAAGATAATTATATA
AATCAGGGGTAAAACG
Found at i:38106646 original size:27 final size:27
Alignment explanation
Indices: 38106625--38106714 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
38106615 GGGTACTTTG
*
38106625 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
38106652 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
38106679 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
38106706 GTAATTTTA
1 GTAATTTTA
38106715 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:38106666 original size:54 final size:54
Alignment explanation
Indices: 38106608--38106714 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
38106598 ATAATTCTGT
* * *
38106608 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * *
38106662 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
38106715 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:38106728 original size:27 final size:27
Alignment explanation
Indices: 38106625--38106729 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
38106615 GGGTACTTTG
* *
38106625 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
38106652 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
38106679 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
38106706 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
38106730 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:38108035 original size:28 final size:28
Alignment explanation
Indices: 38107958--38108078 Score: 129
Period size: 28 Copynumber: 4.3 Consensus size: 28
38107948 TGAGCATGAC
38107958 CATAAATGTGATTGGGCCTAAT-GGCCA
1 CATAAATGTGATTGGGCCTAATGGGCCA
* * * **
38107985 CATGAATGTGATTTAGGCATAATGGGCTT
1 CATAAATGTGA-TTGGGCCTAATGGGCCA
38108014 CATAAATGTGATTGGGCCTAATGGGCCA
1 CATAAATGTGATTGGGCCTAATGGGCCA
* *
38108042 CATGAAA-GAGATTGGGCCTAGTGGGCCA
1 CAT-AAATGTGATTGGGCCTAATGGGCCA
* *
38108070 TATACATGT
1 CATAAATGT
38108079 ATGTGGATTT
Statistics
Matches: 75, Mismatches: 15, Indels: 7
0.77 0.15 0.07
Matches are distributed among these distances:
27 12 0.16
28 47 0.63
29 16 0.21
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (28 bp):
CATAAATGTGATTGGGCCTAATGGGCCA
Found at i:38118847 original size:42 final size:42
Alignment explanation
Indices: 38118796--38118909 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 42
38118786 GGTCATTGAA
38118796 ATTACGTGTAAGACCATATCTGGGATATGGCATCGATATGAG
1 ATTACGTGTAAGACCATATCTGGGATATGGCATCGATATGAG
* * *
38118838 ACTT-CGTGTAAGATCATAGCTGGGCTATTGGCATCGATATGAG
1 A-TTACGTGTAAGACCATATCTGGGATA-TGGCATCGATATGAG
* * *
38118881 ATTACATGTAACACCATATTTGGGATATG
1 ATTACGTGTAAGACCATATCTGGGATATG
38118910 ACATTAGTAC
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
42 25 0.42
43 35 0.58
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (42 bp):
ATTACGTGTAAGACCATATCTGGGATATGGCATCGATATGAG
Found at i:38122767 original size:43 final size:43
Alignment explanation
Indices: 38122708--38122971 Score: 221
Period size: 43 Copynumber: 6.2 Consensus size: 43
38122698 AAAACACTAT
* *
38122708 AGAACATGACCTTTAGCGGCGTTTTTCCCAAAAACACTGCTAA
1 AGAACATGGCCTTTAGCGGCGTTTTTCCCAAAAACGCTGCTAA
* * * *
38122751 AGAACATGGCCTTTAGCAGCGCTTTTCCCACAAATGCTGCTAA
1 AGAACATGGCCTTTAGCGGCGTTTTTCCCAAAAACGCTGCTAA
* *
38122794 AGAACATGGCCTTTAG-GGCGCTTTTCCCCACAAAA-GCCGCTAA
1 AGAACATGGCCTTTAGCGGCG-TTTTTCCCA-AAAACGCTGCTAA
* ** * * *
38122837 AGAACATGGCCTTTAGCGACGTTTTTCTGACAAATGCCGCTAA
1 AGAACATGGCCTTTAGCGGCGTTTTTCCCAAAAACGCTGCTAA
* * * * * **
38122880 AGAACATGACCTTTAGCGGCGCTTTTGCCACAAATGCCACT--
1 AGAACATGGCCTTTAGCGGCGTTTTTCCCAAAAACGCTGCTAA
* * * * * * *
38122921 ATAATATAGACCTTTAGCAGCGCTTTTCTCAAAAACGCCGCTAA
1 AGAACAT-GGCCTTTAGCGGCGTTTTTCCCAAAAACGCTGCTAA
38122965 AGAACAT
1 AGAACAT
38122972 TTAAAATTAA
Statistics
Matches: 181, Mismatches: 33, Indels: 13
0.80 0.15 0.06
Matches are distributed among these distances:
41 5 0.03
42 34 0.19
43 131 0.72
44 11 0.06
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
AGAACATGGCCTTTAGCGGCGTTTTTCCCAAAAACGCTGCTAA
Found at i:38122807 original size:86 final size:86
Alignment explanation
Indices: 38122708--38122971 Score: 281
Period size: 86 Copynumber: 3.1 Consensus size: 86
38122698 AAAACACTAT
38122708 AGAACATGACCTTTAGCGGCGTTTTTCCCA-AAAA-CACTGCTAAAGAACATGGCCTTTAGC-AG
1 AGAACATGACCTTTAGCGGCGTTTTTCCCACAAAAGC-C-GCTAAAGAACATGGCCTTTAGCGA-
*
38122770 CGCTTTTCCCACAAATGCTGCTAA
63 CGCTTTTCCCACAAATGCCGCTAA
* *
38122794 AGAACATGGCCTTTAG-GGCGCTTTTCCCCACAAAAGCCGCTAAAGAACATGGCCTTTAGCGACG
1 AGAACATGACCTTTAGCGGCG-TTTTTCCCACAAAAGCCGCTAAAGAACATGGCCTTTAGCGACG
* **
38122858 TTTTTCTGACAAATGCCGCTAA
65 CTTTTCCCACAAATGCCGCTAA
* * * * * * *
38122880 AGAACATGACCTTTAGCGGCGCTTTTGCCACAAATGCCACT--ATAATATAGACCTTTAGC-AGC
1 AGAACATGACCTTTAGCGGCGTTTTTCCCACAAAAGCCGCTAAAGAACAT-GGCCTTTAGCGA-C
* * *
38122942 GCTTTTCTCAAAAACGCCGCTAA
64 GCTTTTCCCACAAATGCCGCTAA
38122965 AGAACAT
1 AGAACAT
38122972 TTAAAATTAA
Statistics
Matches: 152, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
84 6 0.04
85 40 0.26
86 95 0.62
87 10 0.07
88 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (86 bp):
AGAACATGACCTTTAGCGGCGTTTTTCCCACAAAAGCCGCTAAAGAACATGGCCTTTAGCGACGC
TTTTCCCACAAATGCCGCTAA
Found at i:38122944 original size:129 final size:128
Alignment explanation
Indices: 38122708--38122971 Score: 309
Period size: 129 Copynumber: 2.1 Consensus size: 128
38122698 AAAACACTAT
* * *
38122708 AGAACATGACCTTTAGCGGCGTTTTTCCCAAAAACACTGCTAAAGAACATGGCCTTTAGCAGCGC
1 AGAACATGACCTTTAGCGACGTTTTTCCCAAAAACACCGCTAAAGAACATGACCTTTAGCAGCGC
** * *
38122773 TTTTCCCACAAATGCTGCTAAAGAACATGGCCTTTAGGGCGCTTTTCCCCACAAAA-GCCGCTAA
66 TTTTCCCACAAATGCCACTAAAGAACATGACCTTTAGAGCGCTTTT-CCCA-AAAACGCCGCTAA
* ** * ** *
38122837 AGAACATGGCCTTTAGCGACGTTTTTCTGACAAATGCCGCTAAAGAACATGACCTTTAGCGGCGC
1 AGAACATGACCTTTAGCGACGTTTTTCCCAAAAACACCGCTAAAGAACATGACCTTTAGCAGCGC
* * * *
38122902 TTTTGCCACAAATGCCACT--ATAATATAGACCTTTAGCAGCGCTTTTCTCAAAAACGCCGCTAA
66 TTTTCCCACAAATGCCACTAAAGAACAT-GACCTTTAG-AGCGCTTTTCCCAAAAACGCCGCTAA
38122965 AGAACAT
1 AGAACAT
38122972 TTAAAATTAA
Statistics
Matches: 114, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
127 9 0.08
128 26 0.23
129 79 0.69
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (128 bp):
AGAACATGACCTTTAGCGACGTTTTTCCCAAAAACACCGCTAAAGAACATGACCTTTAGCAGCGC
TTTTCCCACAAATGCCACTAAAGAACATGACCTTTAGAGCGCTTTTCCCAAAAACGCCGCTAA
Found at i:38128697 original size:29 final size:29
Alignment explanation
Indices: 38128665--38128825 Score: 304
Period size: 29 Copynumber: 5.5 Consensus size: 29
38128655 ATAGTGAATC
38128665 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
38128694 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
38128724 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
38128753 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
38128782 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
38128811 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38128826 GTACAATTTT
Statistics
Matches: 130, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
29 101 0.78
30 29 0.22
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:38128804 original size:58 final size:59
Alignment explanation
Indices: 38128665--38128855 Score: 312
Period size: 58 Copynumber: 3.2 Consensus size: 59
38128655 ATAGTGAATC
38128665 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
38128724 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
* * * * * *
38128782 CGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAACC
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGCT
38128842 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38128856 CAATCTTGTC
Statistics
Matches: 124, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
58 55 0.44
59 49 0.40
60 20 0.16
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:38128835 original size:88 final size:89
Alignment explanation
Indices: 38128664--38128855 Score: 307
Period size: 88 Copynumber: 2.2 Consensus size: 89
38128654 TATAGTGAAT
38128664 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCGCAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCGCAC
* * *
38128729 ACTTAGTGCTATATA-TTTTCAGC
66 ACTTAGTGCTATAAATTTTTAAAC
* *
38128752 TCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTTCGCAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCGCAC
*
38128816 ACTTAGTGCTGTACAATTTTTAAAC
66 ACTTAGTGCTATA-AATTTTTAAAC
38128841 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
38128856 CAATCTTGTC
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
87 26 0.27
88 49 0.52
89 20 0.21
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (89 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCGCAC
ACTTAGTGCTATAAATTTTTAAAC
Found at i:38132190 original size:91 final size:91
Alignment explanation
Indices: 38132037--38132219 Score: 334
Period size: 91 Copynumber: 2.0 Consensus size: 91
38132027 GATAGACAAG
38132037 TGTACATTCATCGTCGCAAAGCAATAGTGATTTCCGGCTTAAGGCATCCGCAACCACATTAG-CC
1 TGTACATTCATCGTCGCAAAGCAATAGTGATTTCCGGCTTAAGGCATCCGCAACCACATTAGCCC
38132101 TT-CCGGGTGATAATCAATGACGAGC
66 TTCCCGGGTGATAATCAATGACGAGC
38132126 TGTACATTCATCGCTCGCAAAGCAAATAGTGATTTCCGGCTTAAGGCATCCGCAACCACATTAGC
1 TGTACATTCATCG-TCGCAAAGC-AATAGTGATTTCCGGCTTAAGGCATCCGCAACCACATTAGC
38132191 CCTTCCCGGGTGATAATCAATGACGAGC
64 CCTTCCCGGGTGATAATCAATGACGAGC
38132219 T
1 T
38132220 CATAATCTTT
Statistics
Matches: 90, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
89 13 0.14
90 9 0.10
91 40 0.44
92 4 0.04
93 24 0.27
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (91 bp):
TGTACATTCATCGTCGCAAAGCAATAGTGATTTCCGGCTTAAGGCATCCGCAACCACATTAGCCC
TTCCCGGGTGATAATCAATGACGAGC
Found at i:38144840 original size:70 final size:70
Alignment explanation
Indices: 38144753--38145341 Score: 980
Period size: 70 Copynumber: 8.2 Consensus size: 70
38144743 CAAGTGACAG
*
38144753 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
38144818 GTTTC
66 GTTTC
38144823 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
38144888 GTTTC
66 GTTTC
*
38144893 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
38144958 GTTTC
66 GTTTC
*
38144963 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
38145028 AATTTATGTTTC
59 AATTTATGTTTC
*
38145040 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
38145105 GTTTC
66 GTTTC
*
38145110 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
38145175 GTTTC
66 GTTTC
*
38145180 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
38145245 AATTTATGTTTC
59 AATTTATGTTTC
*
38145257 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
38145322 GTTTC
66 GTTTC
38145327 AAAAATCAACTCATA
1 -AAAATCAACTCATA
38145342 GGTGAGTTGA
Statistics
Matches: 492, Mismatches: 12, Indels: 29
0.92 0.02 0.05
Matches are distributed among these distances:
70 336 0.68
71 18 0.04
72 2 0.00
75 2 0.00
76 4 0.01
77 130 0.26
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTC
Found at i:38145039 original size:77 final size:77
Alignment explanation
Indices: 38144947--38145319 Score: 603
Period size: 77 Copynumber: 5.0 Consensus size: 77
38144937 GTTGAGGTAA
*
38144947 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
38145012 GGTAATTTCAAT
66 GGTAATTTCAAT
*
38145024 TTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
38145089 GG-----T-AA-
66 GGTAATTTCAAT
*
38145094 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
38145159 GG-----T-AA-
66 GGTAATTTCAAT
*
38145164 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
38145229 GGTAATTTCAAT
66 GGTAATTTCAAT
*
38145241 TTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
38145306 GGTAATTTCAAT
66 GGTAATTTCAAT
38145318 TT
1 TT
38145320 ATGTTTCAAA
Statistics
Matches: 281, Mismatches: 8, Indels: 14
0.93 0.03 0.05
Matches are distributed among these distances:
70 133 0.47
71 2 0.01
72 1 0.00
75 1 0.00
76 2 0.01
77 142 0.51
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (77 bp):
TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
GGTAATTTCAAT
Found at i:38145121 original size:217 final size:217
Alignment explanation
Indices: 38144753--38145341 Score: 1093
Period size: 217 Copynumber: 2.7 Consensus size: 217
38144743 CAAGTGACAG
* *
38144753 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
*
38144811 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
38144876 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
131 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
38144941 AGGTAATTTCAATTTATGTTTC
196 AGGTAATTTCAATTTATGTTTC
38144963 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
38145028 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
38145093 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
131 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
38145158 AGGTAATTTCAATTTATGTTTC
196 AGGTAATTTCAATTTATGTTTC
38145180 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
38145245 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
38145310 ATTTCAATTTATGTTTCAAAAATCAACTCATA
131 ATTTCAATTTATGTTTC-AAAATCAACTCATA
38145342 GGTGAGTTGA
Statistics
Matches: 368, Mismatches: 3, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
210 49 0.13
215 1 0.00
216 2 0.01
217 302 0.82
218 14 0.04
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (217 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
AGGTAATTTCAATTTATGTTTC
Found at i:38145126 original size:147 final size:140
Alignment explanation
Indices: 38144753--38145341 Score: 980
Period size: 147 Copynumber: 4.1 Consensus size: 140
38144743 CAAGTGACAG
*
38144753 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
38144818 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
38144883 TTTATGTTTC
131 TTTATGTTTC
*
38144893 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
38144958 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA
38145023 TTTTCAATTTATGTTTC
125 -TTTCAATTTATGTTTC
*
38145040 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
38145105 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
38145170 TTTATGTTTC
131 TTTATGTTTC
*
38145180 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
*
38145245 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
59 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
38145310 ATTTCAATTTATGTTTC
124 ATTTCAATTTATGTTTC
38145327 AAAAATCAACTCATA
1 -AAAATCAACTCATA
38145342 GGTGAGTTGA
Statistics
Matches: 423, Mismatches: 11, Indels: 22
0.93 0.02 0.05
Matches are distributed among these distances:
140 183 0.43
141 2 0.00
142 1 0.00
145 2 0.00
146 4 0.01
147 217 0.51
148 14 0.03
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (140 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
TTTATGTTTC
Found at i:38145395 original size:147 final size:142
Alignment explanation
Indices: 38144773--38145442 Score: 686
Period size: 147 Copynumber: 4.7 Consensus size: 142
38144763 CACATTGCGA
* *
38144773 GAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AATTT-CAATTTATGTTTCAAAATCAA
1 GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAATCAA
38144831 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
66 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
38144896 ATCAACTCATATT
131 ATCAACTCA-ATT
* * *
38144909 GCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGG-----T-AATTT-CAATTTATGTTTCAAAA
1 ----GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAA
*
38144967 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTCAATT
62 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTCAATT
*
38145032 TATGTTTCAAAATCAACTCATATGGCGA
120 TATGTTTCAAAATCAACTCA-AT----T
* *
38145060 GAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AATTT-CAATTTATGTTTCAAAATCAA
1 GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAATCAA
*
38145118 CTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
66 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
38145183 ATCAACTCATATT
131 ATCAACTCA-ATT
* *
38145196 GCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTCAATTTATGTTTCAAAA
1 ----GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAA
*
38145261 TCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTT
62 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTT
38145326 CAAAAATCAACTC-A-T
127 C-AAAATCAACTCAATT
**** * * *
38145341 -AGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAGTCTCTACTTTCCAATTCCTGTTTTT
1 GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCA------A-TTTCCAATT--TATGTTT
*
38145405 CAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCT
57 C-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
38145443 GTTAATTTCT
Statistics
Matches: 476, Mismatches: 21, Indels: 56
0.86 0.04 0.10
Matches are distributed among these distances:
140 192 0.40
141 2 0.00
142 1 0.00
145 3 0.01
146 9 0.02
147 218 0.46
148 11 0.02
149 6 0.01
150 34 0.07
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.32
Consensus pattern (142 bp):
GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAATCAA
CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
ATCAACTCAATT
Found at i:38145484 original size:54 final size:52
Alignment explanation
Indices: 38145392--38145546 Score: 194
Period size: 54 Copynumber: 3.0 Consensus size: 52
38145382 TCTACTTTCC
* *
38145392 AATTCCTGTTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTGTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT
* *
38145446 AATTTCTGTCTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGTA-CC-T
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTT
**
38145497 --TTT-TGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
38145546 A
1 A
38145547 GGTCATATGT
Statistics
Matches: 89, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
47 1 0.01
48 38 0.43
49 4 0.04
51 1 0.01
54 44 0.49
55 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
Found at i:38146299 original size:35 final size:35
Alignment explanation
Indices: 38146253--38146358 Score: 194
Period size: 35 Copynumber: 3.0 Consensus size: 35
38146243 CACTTGCCTC
38146253 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
38146288 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
38146323 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
38146358 T
1 T
38146359 CACACACCCC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.16, C:0.49, G:0.12, T:0.23
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:38146783 original size:14 final size:14
Alignment explanation
Indices: 38146766--38146833 Score: 50
Period size: 15 Copynumber: 4.6 Consensus size: 14
38146756 GGAAGCAAAA
38146766 AAAAAAAATCCAGC
1 AAAAAAAATCCAGC
*
38146780 -AAAAAATTCCAGCACC
1 AAAAAAAATCCAG---C
38146796 AAAAAAAATTTCCAG-
1 AAAAAAAA--TCCAGC
*
38146811 AAAAAAATTTCCAGC
1 AAAAAAA-ATCCAGC
38146826 AAAAAAAA
1 AAAAAAAA
38146834 AACCAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 16
0.68 0.06 0.26
Matches are distributed among these distances:
13 11 0.26
14 5 0.12
15 14 0.33
16 1 0.02
17 6 0.14
19 5 0.12
ACGTcount: A:0.62, C:0.19, G:0.06, T:0.13
Consensus pattern (14 bp):
AAAAAAAATCCAGC
Found at i:38146810 original size:32 final size:32
Alignment explanation
Indices: 38146759--38146835 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
38146749 AAAAGAGGGA
*
38146759 AGCAAAAAAAAAAAATCCAGCAAAAAA-TTCC
1 AGCAAAAAAAAAAAATCCAGAAAAAAATTTCC
* **
38146790 AGCACCAAAAAAAATTTCCAGAAAAAAATTTCC
1 AGCA-AAAAAAAAAAATCCAGAAAAAAATTTCC
38146823 AGCAAAAAAAAAA
1 AGCAAAAAAAAAA
38146836 CCAAAAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
31 4 0.10
32 27 0.69
33 8 0.21
ACGTcount: A:0.64, C:0.18, G:0.06, T:0.12
Consensus pattern (32 bp):
AGCAAAAAAAAAAAATCCAGAAAAAAATTTCC
Found at i:38147118 original size:11 final size:11
Alignment explanation
Indices: 38147093--38147141 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
38147083 CGACCGGATT
*
38147093 TCCCTTC-CCC
1 TCCCTTCTCTC
38147103 TCCCTTCTCTC
1 TCCCTTCTCTC
38147114 TCCCTTCTCTC
1 TCCCTTCTCTC
38147125 TTCCC-TCTCTC
1 -TCCCTTCTCTC
*
38147136 TTCCTT
1 TCCCTT
38147142 TTTTTTCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 10 0.29
11 20 0.59
12 4 0.12
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:38147733 original size:2 final size:2
Alignment explanation
Indices: 38147657--38147717 Score: 65
Period size: 2 Copynumber: 32.0 Consensus size: 2
38147647 ATCATTTCTA
* * *
38147657 AT AT GT AT AT AT AT AT AT AT AT AT AT AT -T AT GT GT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
38147697 AT AT AT AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
38147718 GCCATTAGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
1 3 0.06
2 47 0.94
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (2 bp):
AT
Found at i:38147894 original size:2 final size:2
Alignment explanation
Indices: 38147877--38147915 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
38147867 GTGTATATTT
* *
38147877 TA TA TA CA TA TG 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 TA TA TA TA T
38147916 TTTTGCACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:38149041 original size:40 final size:39
Alignment explanation
Indices: 38148982--38149229 Score: 237
Period size: 40 Copynumber: 6.2 Consensus size: 39
38148972 CAATTGAATG
* * * **
38148982 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GGTTGTT
* * * *
38149022 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GGTTG-TT
* *
38149062 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCG-GTTGTT
* *
38149102 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCG-GTTGTT
* * * *
38149142 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GGTTGTT
* * * *
38149182 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GGTTGTT
38149222 ATATCCGG
1 ATATCCGG
38149230 TCGTATTCCG
Statistics
Matches: 177, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
40 175 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGGTTGTT
Found at i:38149117 original size:80 final size:81
Alignment explanation
Indices: 38148984--38149213 Score: 272
Period size: 80 Copynumber: 2.9 Consensus size: 81
38148974 ATTGAATGAT
* * * * *
38148984 ATCCGGGCTAAGTCCCGAAGACATTTATGCTG-GTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
* *
38149048 TT-GTGCTAG-TGACTAC
65 TTCGTGCGAGTTG-CTAA
* * *
38149064 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGCTAAGACCCGAAGGC-AT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
*
38149128 TCGTGCGAGTTGTTAA
66 TCGTGCGAGTTGCTAA
* * * *
38149144 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGGGCTAAGACCCGAAGGC-AT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
38149208 TCGTGC
66 TCGTGC
38149214 ATGTGGTTAT
Statistics
Matches: 130, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
79 4 0.03
80 124 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
TCGTGCGAGTTGCTAA
Found at i:38149228 original size:120 final size:119
Alignment explanation
Indices: 38148982--38149229 Score: 304
Period size: 120 Copynumber: 2.1 Consensus size: 119
38148972 CAATTGAATG
* * * *
38148982 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGTAATTAAATCCGGGCTAAGACCCGAAGGCA
* *
38149047 ATTGTGCTAGTGACTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
66 ATTGTGCAAGTGACTA-ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGGTT
* * * ** *
38149102 AAATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GTAATTAAATCCGGGCTAAGACCCGAAGGC
* *
38149166 ATTTGTGCAAGTCGTTCT-ATCCGGGCTAAGACCCGAAGGCATTCGTGC-ATGTGGTT
65 AATTGTGCAAGT-G-ACTAATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGGTT
38149222 ATATCCGG
1 ATATCCGG
38149230 TCGTATTCCG
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
119 2 0.02
120 104 0.95
121 1 0.01
122 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (119 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGTAATTAAATCCGGGCTAAGACCCGAAGGCA
ATTGTGCAAGTGACTAATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGGTT
Found at i:38152817 original size:40 final size:39
Alignment explanation
Indices: 38152668--38152819 Score: 232
Period size: 39 Copynumber: 3.9 Consensus size: 39
38152658 AATGTTCGAG
38152668 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
38152707 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGAGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
38152746 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
38152785 TGAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
38152820 GGTTACCATA
Statistics
Matches: 103, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 86 0.83
40 17 0.17
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:38152835 original size:40 final size:39
Alignment explanation
Indices: 38152668--38152849 Score: 213
Period size: 39 Copynumber: 4.6 Consensus size: 39
38152658 AATGTTCGAG
*
38152668 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
38152707 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGAGAGCTA
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
38152746 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * * *
38152785 TGA-AATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATAA-CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTA
** *
38152825 CCATAACCGGGCTATGTCCCGAAGG
1 TGATAACCGGGCTAAG-CCCGAAGG
38152850 TGTTTTGAAC
Statistics
Matches: 126, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
38 1 0.01
39 85 0.67
40 38 0.30
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.21
Consensus pattern (39 bp):
TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:38154913 original size:29 final size:29
Alignment explanation
Indices: 38154870--38154928 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
38154860 CATCAGAACA
*
38154870 ATTGATTCCGTAGGTAGAGACATAAATAT
1 ATTGATTCCGCAGGTAGAGACATAAATAT
*
38154899 ATTGATTCTGCAGGTAGAGACATAAATAT
1 ATTGATTCCGCAGGTAGAGACATAAATAT
38154928 A
1 A
38154929 CTCATTGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (29 bp):
ATTGATTCCGCAGGTAGAGACATAAATAT
Found at i:38157693 original size:30 final size:30
Alignment explanation
Indices: 38157659--38157754 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 30
38157649 ATTTATCTAG
*
38157659 ATATTAAAATGAGATATTAAATTTAATTTA
1 ATATTAATATGAGATATTAAATTTAATTTA
* * * **
38157689 ATATTTATCT-AGATAGTATTTTATTAATTTA
1 ATATTAATATGAGATATTA-AAT-TTAATTTA
*
38157720 ATATTAATATGAGATATTTAATTTAATTTA
1 ATATTAATATGAGATATTAAATTTAATTTA
38157750 ATATT
1 ATATT
38157755 TATCTTGGCA
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
29 7 0.14
30 21 0.41
31 17 0.33
32 6 0.12
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (30 bp):
ATATTAATATGAGATATTAAATTTAATTTA
Found at i:38157716 original size:31 final size:29
Alignment explanation
Indices: 38157681--38157785 Score: 111
Period size: 31 Copynumber: 3.4 Consensus size: 29
38157671 GATATTAAAT
*
38157681 TTAATTTAATATTTATCTAGATAGTATTTTA
1 TTAATTTAATATTTATCT-GACA-TATTTTA
* * * *
38157712 TTAATTTAATATTAATATGAGATATTTAA
1 TTAATTTAATATTTATCTGACATATTTTA
*
38157741 TTTAATTTAATATTTATCTTGGCAATATTTTA
1 -TTAATTTAATATTTATC-TGAC-ATATTTTA
38157773 TTAATTTAATATT
1 TTAATTTAATATT
38157786 AATGTGATTA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
29 6 0.10
30 18 0.29
31 31 0.50
32 7 0.11
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (29 bp):
TTAATTTAATATTTATCTGACATATTTTA
Found at i:38157732 original size:61 final size:61
Alignment explanation
Indices: 38157659--38157788 Score: 206
Period size: 61 Copynumber: 2.1 Consensus size: 61
38157649 ATTTATCTAG
* * *
38157659 ATATTAAAATGAGATATTAAATTTAATTTAATATTTATCTAGATAGTATTTTATTAATTTA
1 ATATTAATATGAGATATTAAATTTAATTTAATATTTATCTAGACAATATTTTATTAATTTA
* * *
38157720 ATATTAATATGAGATATTTAATTTAATTTAATATTTATCTTGGCAATATTTTATTAATTTA
1 ATATTAATATGAGATATTAAATTTAATTTAATATTTATCTAGACAATATTTTATTAATTTA
38157781 ATATTAAT
1 ATATTAAT
38157789 GTGATTAATT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (61 bp):
ATATTAATATGAGATATTAAATTTAATTTAATATTTATCTAGACAATATTTTATTAATTTA
Found at i:38164420 original size:6 final size:6
Alignment explanation
Indices: 38164411--38164436 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
38164401 AAATAACTTT
38164411 TTATAA TTATAA TTATAA TTATAA TT
1 TTATAA TTATAA TTATAA TTATAA TT
38164437 TTTATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTATAA
Found at i:38167264 original size:15 final size:13
Alignment explanation
Indices: 38167235--38167269 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
38167225 TATATATTTT
38167235 TTTAAATTTAAAA
1 TTTAAATTTAAAA
38167248 TTTAAATTTCGAAAA
1 TTTAAATTT--AAAA
38167263 TTTAAAT
1 TTTAAAT
38167270 AAAATTAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 9 0.45
15 11 0.55
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (13 bp):
TTTAAATTTAAAA
Found at i:38167445 original size:23 final size:23
Alignment explanation
Indices: 38167410--38167454 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
38167400 ATTTTAATAT
38167410 TTAAAAAGTAAATA-ACTAAATTC
1 TTAAAAAGTAAATACA-TAAATTC
38167433 TTAAAAA-TAAAATACATAAATT
1 TTAAAAAGT-AAATACATAAATT
38167455 AAATTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 1 0.05
23 18 0.90
24 1 0.05
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (23 bp):
TTAAAAAGTAAATACATAAATTC
Found at i:38167611 original size:2 final size:2
Alignment explanation
Indices: 38167606--38167634 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
38167596 TTGTATCTTA
38167606 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 A
38167635 ACATCCTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38167862 original size:2 final size:2
Alignment explanation
Indices: 38167855--38167896 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
38167845 TGCAATTCTC
38167855 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38167896 A
1 A
38167897 AAATCAATTC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38168811 original size:17 final size:17
Alignment explanation
Indices: 38168789--38168823 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
38168779 AACCACCAAC
38168789 ACACCAGATTGTAGTTT
1 ACACCAGATTGTAGTTT
*
38168806 ACACCAGATTGTGGTTT
1 ACACCAGATTGTAGTTT
38168823 A
1 A
38168824 ACTACCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (17 bp):
ACACCAGATTGTAGTTT
Found at i:38170386 original size:21 final size:22
Alignment explanation
Indices: 38170361--38170401 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
38170351 CTAGACACAG
38170361 GGGGC-ACACGCCCATGTGAGA
1 GGGGCAACACGCCCATGTGAGA
*
38170382 GGGGCAACACGCCCGTGTGA
1 GGGGCAACACGCCCATGTGA
38170402 CCAATTCGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.22, C:0.29, G:0.39, T:0.10
Consensus pattern (22 bp):
GGGGCAACACGCCCATGTGAGA
Found at i:38171594 original size:44 final size:46
Alignment explanation
Indices: 38171544--38171744 Score: 166
Period size: 46 Copynumber: 4.4 Consensus size: 46
38171534 ATGCCGATGC
* *
38171544 CATGTCTTACACTAGCTTA-A-CTCGTAGTC-GATGCATGTCTCAGA
1 CATGTCTTACACTAGCTTACATCTCG-AGGCTGATGCATGTCCCAGA
*
38171588 CATGTCTTACACTGGCTTACATCTCGAGGCTGATGCATGTCCCAGA
1 CATGTCTTACACTAGCTTACATCTCGAGGCTGATGCATGTCCCAGA
* * *
38171634 CATGTCTTACACTAGCTCT-CGTCTC-ACTGCCGATGACATGTCCC-GAA
1 CATGTCTTACACTAGCT-TACATCTCGA-GGCTGATG-CATGTCCCAG-A
* * * ** *
38171681 CATGGTCTTACACTAGCTCT-CGTAAT-GTGGCCAATGCATGTCCTAGA
1 CAT-GTCTTACACTAGCT-TACAT-CTCGAGGCTGATGCATGTCCCAGA
38171728 CATGTCTTACACTAGCT
1 CATGTCTTACACTAGCT
38171745 CACAATAGTC
Statistics
Matches: 134, Mismatches: 12, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
44 18 0.13
45 5 0.04
46 60 0.45
47 24 0.18
48 26 0.19
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
CATGTCTTACACTAGCTTACATCTCGAGGCTGATGCATGTCCCAGA
Found at i:38171721 original size:47 final size:45
Alignment explanation
Indices: 38171620--38171745 Score: 148
Period size: 48 Copynumber: 2.7 Consensus size: 45
38171610 CTCGAGGCTG
* *
38171620 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCACTGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTAT-ACTGCCA
*
38171666 ATGACATGTCCC-GAACATGGTCTTACACTAGCTCTCGTA-ATGTGGCCA
1 ATG-CATGTCCCAG-ACAT-GTCTTACACTAGCTCTCGTATA-CT-GCCA
*
38171714 ATGCATGTCCTAGACATGTCTTACACTAGCTC
1 ATGCATGTCCCAGACATGTCTTACACTAGCTC
38171746 ACAATAGTCC
Statistics
Matches: 70, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
46 20 0.29
47 24 0.34
48 26 0.37
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTATACTGCCA
Found at i:38174499 original size:29 final size:27
Alignment explanation
Indices: 38174465--38174566 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
38174455 TACTCAATCA
*
38174465 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
38174494 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
38174523 CGCA-ACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
38174551 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
38174567 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
27 1 0.02
28 23 0.38
29 36 0.60
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:38174539 original size:28 final size:29
Alignment explanation
Indices: 38174494--38174566 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 29
38174484 GATTCAAGCC
* * *
38174494 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATACAGTACAAACT
* *
38174523 CGCA-ACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCATACAGTACAAACT
*
38174551 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
38174567 ATCTCGTCAC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
28 23 0.62
29 14 0.38
ACGTcount: A:0.32, C:0.33, G:0.15, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACAGTACAAACT
Found at i:38181677 original size:29 final size:28
Alignment explanation
Indices: 38181610--38181681 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
38181600 AAAATTGTAC
* * *
38181610 AGCACTAAGTGTGCGAGTTTGATTCTAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
38181638 AGCACTAAGTGTGCGAG-CTGAAAATATAT
1 AGCACTAAGTGTGCGAGTCTG--AATATAT
38181667 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38181682 GATTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.05
28 17 0.44
29 20 0.51
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGAATATAT
Found at i:38189359 original size:29 final size:28
Alignment explanation
Indices: 38189292--38189363 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
38189282 AAAATTGTAC
* * *
38189292 AGCACTAAGTGTGCGAGTTTGATTCTAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
38189320 AGCACTAAGTGTGCGAG-CTGAAAATATAT
1 AGCACTAAGTGTGCGAGTCTG--AATATAT
38189349 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38189364 GATTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.05
28 17 0.44
29 20 0.51
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGAATATAT
Found at i:38192099 original size:25 final size:25
Alignment explanation
Indices: 38192071--38192149 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 25
38192061 CGAATGGCCA
38192071 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* *
38192096 ATGTGAT-AAGGCTG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
38192118 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
38192143 ATGTGAT
1 ATGTGAT
38192150 AAGGTAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
22 9 0.21
23 9 0.21
24 9 0.21
25 16 0.37
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:38192124 original size:22 final size:21
Alignment explanation
Indices: 38192051--38192171 Score: 66
Period size: 22 Copynumber: 5.2 Consensus size: 21
38192041 ATGCATGTAC
*
38192051 GTGATAAGGCCGAATGGCCAAT
1 GTGATAAGG-TGAATGGCCAAT
* *
38192073 GTGATGAATGTGAACAT-GCATATAT
1 GTGAT-AAGGTG-A-ATGGC-CA-AT
38192098 GTGATAAGGCTGAATGGCCAAT
1 GTGATAAGG-TGAATGGCCAAT
* *
38192120 GTGATGAATGTGAACAT-GCATATAT
1 GTGAT-AAGGTG-A-ATGGC-CA-AT
38192145 GTGATAAGGTAGAATGGCCAAT
1 GTGATAAGGT-GAATGGCCAAT
38192167 GTGAT
1 GTGAT
38192172 GAACGTGGAA
Statistics
Matches: 76, Mismatches: 9, Indels: 28
0.67 0.08 0.25
Matches are distributed among these distances:
22 22 0.29
23 18 0.24
24 19 0.25
25 17 0.22
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (21 bp):
GTGATAAGGTGAATGGCCAAT
Found at i:38192194 original size:47 final size:47
Alignment explanation
Indices: 38191981--38192174 Score: 334
Period size: 47 Copynumber: 4.1 Consensus size: 47
38191971 GATTTTATGA
*
38191981 GATGAATGTGAACATGCATATATGGGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
38192028 GATGAATGTGAACATGCATGTACGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
38192075 GATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
**
38192122 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
38192169 GATGAA
1 GATGAA
38192175 CGTGGAAGTG
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 139 1.00
ACGTcount: A:0.35, C:0.11, G:0.29, T:0.25
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Done.