Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 146 of 292
Found at i:43395825 original size:100 final size:100
Alignment explanation
Indices: 43395647--43395834 Score: 322
Period size: 100 Copynumber: 1.9 Consensus size: 100
43395637 TATTGTGAGG
*
43395647 TCACATGTGTAGTACTAAGTGCAGGATACTACGTGTACTGGATAATTGGTCTCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGATACTACGTGTACTGGATAATTGGTCGCATGTGTAGTACT
*
43395712 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCATACCCGATAACTTCGA
* * * *
43395747 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATTGGATAATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGATACTACGTGTACTGGATAATTGGTCGCATGTGTAGTACT
43395812 AAGTGCAGGCTACTATGCATACC
66 AAGTGCAGGCTACTATGCATACC
43395835 AAATAGCTTT
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGCAGGATACTACGTGTACTGGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCCGATAACTTCGA
Found at i:43397220 original size:31 final size:31
Alignment explanation
Indices: 43397179--43397242 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
43397169 CCTTTTCATA
*
43397179 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
43397210 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
43397241 TT
1 TT
43397243 ATGGTAAACG
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:43397481 original size:23 final size:24
Alignment explanation
Indices: 43397450--43397577 Score: 192
Period size: 24 Copynumber: 5.4 Consensus size: 24
43397440 CTGGAGGCCT
43397450 AGCCTCTTTTAATAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
43397474 AGCCCTTTTTAATAACTGGGGCA-A
1 AGCCC-TTTTAATAACTGGGGCATA
43397498 AGCCCTTTTTAATAACTGGGGCATA
1 AGCCC-TTTTAATAACTGGGGCATA
*
43397523 AGCCC-TTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
43397546 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
43397569 AGCCCTTTT
1 AGCCCTTTT
43397578 GCACTTCCTC
Statistics
Matches: 99, Mismatches: 2, Indels: 6
0.93 0.02 0.06
Matches are distributed among these distances:
23 45 0.45
24 48 0.48
25 6 0.06
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:43397654 original size:20 final size:20
Alignment explanation
Indices: 43397631--43397693 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
43397621 GAACATCTCG
*
43397631 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
43397651 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
43397671 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
43397691 TGT
1 TGT
43397694 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:43397667 original size:9 final size:9
Alignment explanation
Indices: 43397635--43397691 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
43397625 ATCTCGTGTG
43397635 CATATCATA
1 CATATCATA
* *
43397644 CATGTCATGTG
1 CATATCA--TA
43397655 CATATCATA
1 CATATCATA
*
43397664 CATATCATGTG
1 CATATCA--TA
43397675 CATATCATA
1 CATATCATA
43397684 CATATCAT
1 CATATCAT
43397692 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:43397758 original size:25 final size:25
Alignment explanation
Indices: 43397730--43397777 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43397720 ATGTATAAAC
* * *
43397730 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
43397755 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
43397778 CATATTGTAA
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:43401196 original size:20 final size:19
Alignment explanation
Indices: 43401171--43401223 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
43401161 ACATTTTCTA
43401171 TTCTGTTTAGTTCTGCTTGG
1 TTCTGTTT-GTTCTGCTTGG
* *
43401191 TTCTGTTCTGCTCTGCTTTG
1 TTCTGTT-TGTTCTGCTTGG
43401211 TTCTGTTTTGTTC
1 TTCTG-TTTGTTC
43401224 AGTTTCGTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.02, C:0.19, G:0.21, T:0.58
Consensus pattern (19 bp):
TTCTGTTTGTTCTGCTTGG
Found at i:43401274 original size:25 final size:25
Alignment explanation
Indices: 43401246--43401300 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
43401236 TACTGCTCAG
*
43401246 TTCTGTT-TAGTTTTACTCTATTCTA
1 TTCTGTTAT-GTTTTACTCTATCCTA
* *
43401271 TTCTGTTATGTTTTGCTCTGTCCTA
1 TTCTGTTATGTTTTACTCTATCCTA
43401296 TTCTG
1 TTCTG
43401301 GTTGGGTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.11, C:0.18, G:0.13, T:0.58
Consensus pattern (25 bp):
TTCTGTTATGTTTTACTCTATCCTA
Found at i:43401826 original size:16 final size:16
Alignment explanation
Indices: 43401805--43401859 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
43401795 GTTTGGTTTA
43401805 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
43401821 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
*
43401837 TTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
43401853 CTGTAAT
1 CTGTAAT
43401860 CAGTAATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:43409848 original size:28 final size:28
Alignment explanation
Indices: 43409816--43409896 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 28
43409806 AAGTTTGCAA
43409816 TAATTGTCCTTTAATGATTCGTGGTCAC
1 TAATTGTCCTTTAATGATTCGTGGTCAC
** * *
43409844 TAATT-T--TCGACTGA-T--T-G-CAA
1 TAATTGTCCTTTAATGATTCGTGGTCAC
43409864 TAATTGTCCTTTAATGATTCGTGGTCAC
1 TAATTGTCCTTTAATGATTCGTGGTCAC
43409892 TAATT
1 TAATT
43409897 TTCGACTGAC
Statistics
Matches: 37, Mismatches: 8, Indels: 16
0.61 0.13 0.26
Matches are distributed among these distances:
20 7 0.19
21 2 0.05
22 1 0.03
23 5 0.14
24 2 0.05
25 5 0.14
26 1 0.03
27 2 0.05
28 12 0.32
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (28 bp):
TAATTGTCCTTTAATGATTCGTGGTCAC
Found at i:43409881 original size:48 final size:48
Alignment explanation
Indices: 43409810--43409905 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
43409800 TTGATAAAGT
43409810 TTGCAATAATTGTCCTTTAATGATTCGTGGTCACTAATTTTCGACTGA
1 TTGCAATAATTGTCCTTTAATGATTCGTGGTCACTAATTTTCGACTGA
43409858 TTGCAATAATTGTCCTTTAATGATTCGTGGTCACTAATTTTCGACTGA
1 TTGCAATAATTGTCCTTTAATGATTCGTGGTCACTAATTTTCGACTGA
43409906 CTTAATGCTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (48 bp):
TTGCAATAATTGTCCTTTAATGATTCGTGGTCACTAATTTTCGACTGA
Found at i:43411249 original size:3 final size:3
Alignment explanation
Indices: 43411234--43411268 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
43411224 AATTTGGATG
*
43411234 TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
43411269 TAGTATGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:43415189 original size:3 final size:3
Alignment explanation
Indices: 43415181--43415205 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
43415171 ATGTTATTGC
43415181 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
43415206 TAGTATGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:43415907 original size:70 final size:70
Alignment explanation
Indices: 43415794--43415931 Score: 267
Period size: 70 Copynumber: 2.0 Consensus size: 70
43415784 TCAGTAGGTA
43415794 AGGTTTATAATTAATTGTGACCCTATATTAGTAAAGAATGAAGCATGGAGCACTGGCCAACAACA
1 AGGTTTATAATTAATTGTGACCCTATATTAGTAAAGAATGAAGCATGGAGCACTGGCCAACAACA
43415859 GGGGC
66 GGGGC
*
43415864 AGGTTTATAATTAATTGTGACCCTATATTAGTAAAGAATGAAGCATGGTGCACTGGCCAACAACA
1 AGGTTTATAATTAATTGTGACCCTATATTAGTAAAGAATGAAGCATGGAGCACTGGCCAACAACA
43415929 GGG
66 GGG
43415932 CGAAGGCACA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (70 bp):
AGGTTTATAATTAATTGTGACCCTATATTAGTAAAGAATGAAGCATGGAGCACTGGCCAACAACA
GGGGC
Found at i:43445950 original size:49 final size:49
Alignment explanation
Indices: 43445791--43446096 Score: 464
Period size: 49 Copynumber: 6.4 Consensus size: 49
43445781 TACATATATG
* * * *
43445791 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGCATG----
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
43445836 TGTGATAAGGCCGT-ATGGCCAATGTGATGAATGTGAAAGTGTA--TATA
1 TGTGATAAGGCC-TAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
43445883 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
43445932 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
43445981 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* * *
43446030 TGTGATAAGGCTTAATGGCCGATGTGGTGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
43446079 TGTGATAAGGCCTAATGG
1 TGTGATAAGGCCTAATGG
43446097 TAATGTAAAA
Statistics
Matches: 245, Mismatches: 8, Indels: 12
0.92 0.03 0.05
Matches are distributed among these distances:
45 39 0.16
46 1 0.00
47 40 0.16
49 165 0.67
ACGTcount: A:0.30, C:0.09, G:0.32, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:43446248 original size:37 final size:37
Alignment explanation
Indices: 43446198--43446282 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
43446188 GGAATATGTT
*
43446198 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
43446235 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
43446272 CCGGGTAAGAC
1 CCGGGTAAGAC
43446283 TTCGTAATTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:43449985 original size:19 final size:19
Alignment explanation
Indices: 43449961--43449999 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
43449951 GCTATAAATG
43449961 ACTTATTTTAGTAAGATTA
1 ACTTATTTTAGTAAGATTA
*
43449980 ACTTATTTTGGTAAGATTA
1 ACTTATTTTAGTAAGATTA
43449999 A
1 A
43450000 GTAGGTTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.05, G:0.13, T:0.46
Consensus pattern (19 bp):
ACTTATTTTAGTAAGATTA
Found at i:43455998 original size:16 final size:16
Alignment explanation
Indices: 43455977--43456008 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
43455967 GCCAACTCCC
43455977 ATTGCTATATACAAAA
1 ATTGCTATATACAAAA
43455993 ATTGCTATATACAAAA
1 ATTGCTATATACAAAA
43456009 CCAAAACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (16 bp):
ATTGCTATATACAAAA
Found at i:43461588 original size:21 final size:20
Alignment explanation
Indices: 43461560--43461599 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
43461550 CAAAACTTGT
43461560 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
43461580 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
43461600 AAATCTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:43474006 original size:49 final size:49
Alignment explanation
Indices: 43473946--43474202 Score: 439
Period size: 49 Copynumber: 5.3 Consensus size: 49
43473936 GTATGAGATA
43473946 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
43473995 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
43474044 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
43474093 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * *
43474142 TATATATGTGATAAGGCCTAGTGGCCAACGTGATG-ATGTGGAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
43474188 TATAAATGTGATAAG
1 TATATATGTGATAAG
43474203 TCCCGAAGGG
Statistics
Matches: 201, Mismatches: 7, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
46 17 0.08
48 7 0.03
49 177 0.88
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:43476305 original size:32 final size:32
Alignment explanation
Indices: 43476264--43476329 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
43476254 AGGGCACTTA
43476264 ATCAAGGAAAACACTCTCAAGCCACATATCAT
1 ATCAAGGAAAACACTCTCAAGCCACATATCAT
* **
43476296 ATCAAGGAAAACATTCTTGAGCCACATATCAT
1 ATCAAGGAAAACACTCTCAAGCCACATATCAT
43476328 AT
1 AT
43476330 AACAATATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.23
Consensus pattern (32 bp):
ATCAAGGAAAACACTCTCAAGCCACATATCAT
Found at i:43481388 original size:42 final size:42
Alignment explanation
Indices: 43481241--43481395 Score: 159
Period size: 42 Copynumber: 3.5 Consensus size: 42
43481231 AAATGCCAAA
* *
43481241 GCCATGTCCCAAACATGGTCTTACATG-GGTCTACATATCAAT
1 GCCATGTCCCAGACATGGTCTTACATGAGGTCT-CATATCGAT
* * * * * *
43481283 GTCATATCCCAGATATGGTCTTATATGAAGTCTCATGTCGGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACATGAGGTCTCA--T--AT--CGAT
*
43481331 GCCATGTCCCTGACATGGTCTTACATGAGGTCTCATATCGAT
1 GCCATGTCCCAGACATGGTCTTACATGAGGTCTCATATCGAT
43481373 GCCATGTCCCAGACATGGTCTTA
1 GCCATGTCCCAGACATGGTCTTA
43481396 TACAAAATCT
Statistics
Matches: 90, Mismatches: 16, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
42 50 0.56
43 4 0.04
44 2 0.02
46 2 0.02
48 32 0.36
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (42 bp):
GCCATGTCCCAGACATGGTCTTACATGAGGTCTCATATCGAT
Found at i:43481407 original size:42 final size:42
Alignment explanation
Indices: 43481327--43481438 Score: 125
Period size: 42 Copynumber: 2.7 Consensus size: 42
43481317 ATGTCGGTGC
* ** **
43481327 CGATGCCATGTCCCTGACATGGTCTTACATGAGGTCTCATAT
1 CGATGCCATGTCCCAGACATGGTCTTACACAAAATCTCATAT
*
43481369 CGATGCCATGTCCCAGACATGGTCTTATACAAAATCTCATAT
1 CGATGCCATGTCCCAGACATGGTCTTACACAAAATCTCATAT
* * * * *
43481411 CAATGCCATATCACAGATATGATCTTAC
1 CGATGCCATGTCCCAGACATGGTCTTAC
43481439 TTGAAATTAT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (42 bp):
CGATGCCATGTCCCAGACATGGTCTTACACAAAATCTCATAT
Found at i:43481407 original size:90 final size:90
Alignment explanation
Indices: 43481241--43481408 Score: 239
Period size: 90 Copynumber: 1.9 Consensus size: 90
43481231 AAATGCCAAA
* *
43481241 GCCATGTCCCAAACATGGTCTTACATGGGTCTACATATCAATGTCATATCCCAGATATGGTCTTA
1 GCCATGTCCCAAACATGGTCTTACATGGGTCTACATATCAATGCCATATCCCAGACATGGTCTTA
** *
43481306 TATGAAGTCTCATGTCGGTGCCGAT
66 TACAAAATCTCATGTCGGTGCCGAT
** * *
43481331 GCCATGTCCCTGACATGGTCTTACATGAGGTCT-CATATCGATGCCATGTCCCAGACATGGTCTT
1 GCCATGTCCCAAACATGGTCTTACATG-GGTCTACATATCAATGCCATATCCCAGACATGGTCTT
43481395 ATACAAAATCTCAT
65 ATACAAAATCTCAT
43481409 ATCAATGCCA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
90 63 0.93
91 5 0.07
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (90 bp):
GCCATGTCCCAAACATGGTCTTACATGGGTCTACATATCAATGCCATATCCCAGACATGGTCTTA
TACAAAATCTCATGTCGGTGCCGAT
Found at i:43481510 original size:48 final size:47
Alignment explanation
Indices: 43481458--43481583 Score: 171
Period size: 48 Copynumber: 2.6 Consensus size: 47
43481448 TATACCGATG
* *
43481458 CTGATGCCATATTCCAAATATGGTCTTACACTGGCACACATATCAACA
1 CTGATGCCAT-TTCCAAACATGGTCTTACACTGGCACACATACCAACA
* *
43481506 CTGATGCCATGTCCTAGACATGGTCTTACACTGGCACACATACCAACA
1 CTGATGCCATTTCC-AAACATGGTCTTACACTGGCACACATACCAACA
* *
43481554 CCGATGCCATGTCCCAAACATGGTCTTACA
1 CTGATGCCAT-TTCCAAACATGGTCTTACA
43481584 TTAGCTCTCA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
47 3 0.04
48 63 0.93
49 2 0.03
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (47 bp):
CTGATGCCATTTCCAAACATGGTCTTACACTGGCACACATACCAACA
Found at i:43490773 original size:26 final size:26
Alignment explanation
Indices: 43490737--43490846 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
43490727 TGATACAAAT
43490737 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
43490763 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
43490789 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
43490815 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
43490841 TGATAA
1 TGATAA
43490847 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:43492361 original size:26 final size:26
Alignment explanation
Indices: 43492331--43492383 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
43492321 TTTATAGTTT
43492331 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
43492357 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
43492383 T
1 T
43492384 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:43496521 original size:26 final size:26
Alignment explanation
Indices: 43496485--43496619 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
43496475 TGATACAAAT
* *
43496485 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
43496511 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
43496537 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
43496563 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
43496589 TGATAATGGGTTAGGT-AATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
43496614 TGATAA
1 TGATAA
43496620 GAATTTCATG
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 15 0.14
26 92 0.86
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:43498154 original size:25 final size:25
Alignment explanation
Indices: 43498106--43498154 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
43498096 ACAGTTTTAC
43498106 CCCTAGGAGATAAATTACCGAAATA
1 CCCTAGGAGATAAATTACCGAAATA
* *
43498131 CCCTAGG-GTTAAATTGACCTAAAT
1 CCCTAGGAGATAAATT-ACCGAAAT
43498155 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCTAGGAGATAAATTACCGAAATA
Found at i:43512940 original size:40 final size:40
Alignment explanation
Indices: 43512885--43513066 Score: 298
Period size: 40 Copynumber: 4.6 Consensus size: 40
43512875 TATTCGAATG
43512885 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
43512925 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
43512965 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
43513005 ATATCCGGGCTAAGACCCGAAGGCATTTGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AG-TGACT
* *
43513045 ATAT-CTGGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
43513067 TACTTGGGTT
Statistics
Matches: 136, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
39 16 0.12
40 118 0.87
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:43517482 original size:38 final size:38
Alignment explanation
Indices: 43517348--43517483 Score: 164
Period size: 38 Copynumber: 3.6 Consensus size: 38
43517338 CGAGGTATAA
* * * *
43517348 AACCCGAACATAACACCAGCACGAAGCCTACGGGATTT
1 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
* * * * * *
43517386 AAACTCAGATATAATACCAACACTAGGCCTGCGAGATTT
1 -AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
43517425 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
1 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
*
43517463 AACCCGGATATAATTCCAGCA
1 AACCCGGATATAATACCAGCA
43517484 TAAAGCCTAC
Statistics
Matches: 80, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
38 52 0.65
39 28 0.35
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.18
Consensus pattern (38 bp):
AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
Found at i:43517503 original size:77 final size:77
Alignment explanation
Indices: 43517348--43517493 Score: 179
Period size: 77 Copynumber: 1.9 Consensus size: 77
43517338 CGAGGTATAA
* * * *
43517348 AACCCGAACATAACACCAGCACGAAGCCTACGGGATTTAAACTCAGATATAATACCAACACTAGG
1 AACCCGGATATAACACCAGCACGAAGCCTACGGGATTTAAACCCAGATATAATACCAACACTAAG
*
43517413 CCTGCGAGATTT
66 CCTACGAGATTT
* * * * *
43517425 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT-AACCCGGATATAATTCCAGCA-TAAA
1 AACCCGGATATAACACCAGCACGAAGCCTACGGGATTTAAACCCAGATATAATACCAACACT-AA
43517488 GCCTAC
65 GCCTAC
43517494 AGGTCTTTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
75 1 0.02
76 23 0.40
77 34 0.59
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.18
Consensus pattern (77 bp):
AACCCGGATATAACACCAGCACGAAGCCTACGGGATTTAAACCCAGATATAATACCAACACTAAG
CCTACGAGATTT
Found at i:43518721 original size:2 final size:2
Alignment explanation
Indices: 43518704--43518741 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
43518694 AGCATCACTT
*
43518704 TA TA AA TA TA -A 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
43518742 TCGACTTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:43521877 original size:57 final size:57
Alignment explanation
Indices: 43521808--43521917 Score: 168
Period size: 58 Copynumber: 1.9 Consensus size: 57
43521798 GTGCCCACTG
*
43521808 ACCGATCTGCACACATAGTGCTCGGTT-GAAGAACTCGCACACACAGTGCCTCAATT
1 ACCGATCTGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATT
* * *
43521864 ACCGATTTCGCACACATAGTGCTCGGTTAAAAGAATTTGCACACACAGTGCCTC
1 ACCGATCT-GCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTC
43521918 TAATCATTCG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
56 7 0.15
57 19 0.40
58 22 0.46
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (57 bp):
ACCGATCTGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATT
Found at i:43521905 original size:29 final size:28
Alignment explanation
Indices: 43521815--43521914 Score: 85
Period size: 29 Copynumber: 3.5 Consensus size: 28
43521805 CTGACCGATC
* * *
43521815 TGCACACATAGTGCTCGGTTGAAGAACT
1 TGCACACACAGTGCTCGGTTAAAGAATT
* ** **
43521843 CGCACACACAGTGCCTCAATTACCG-ATT
1 TGCACACACAGTG-CTCGGTTAAAGAATT
*
43521871 TCGCACACATAGTGCTCGGTTAAAAGAATT
1 T-GCACACACAGTGCTCGGTT-AAAGAATT
43521901 TGCACACACAGTGC
1 TGCACACACAGTGC
43521915 CTCTAATCAT
Statistics
Matches: 53, Mismatches: 15, Indels: 7
0.71 0.20 0.09
Matches are distributed among these distances:
28 18 0.34
29 31 0.58
30 4 0.08
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (28 bp):
TGCACACACAGTGCTCGGTTAAAGAATT
Found at i:43523806 original size:38 final size:38
Alignment explanation
Indices: 43523663--43523828 Score: 143
Period size: 38 Copynumber: 4.3 Consensus size: 38
43523653 CGAGGTATAA
* * * ** *
43523663 AACCCGAACATAACACCAGCATGAAGCCTACGGGACTTT
1 AACCCGGATATAATACCAGCACAAAGCCTGCGGGA-TTT
* * * * *
43523702 AAACTCAGATATAATACCAGCACTAGGCCTGCGAGATTT
1 -AACCCGGATATAATACCAGCACAAAGCCTGCGGGATTT
*
43523741 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
1 AACCCGGATATAATACCAGCACAAAGCCTGCGGGATTT
* * * * *
43523779 AACCCGGATATAATTCTAGCATAAAGCCTACGGGTCTTT
1 AACCCGGATATAATACCAGCACAAAGCCTGCGGG-ATTT
43523818 AAGCCCGGATA
1 AA-CCCGGATA
43523829 CACATCAAAT
Statistics
Matches: 103, Mismatches: 21, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
38 62 0.60
39 8 0.08
40 33 0.32
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (38 bp):
AACCCGGATATAATACCAGCACAAAGCCTGCGGGATTT
Found at i:43527269 original size:39 final size:39
Alignment explanation
Indices: 43527213--43527296 Score: 123
Period size: 39 Copynumber: 2.2 Consensus size: 39
43527203 TTCATGACGG
* *
43527213 TTTGGAGATGGCCTAGTTGTTAGGCTACCACAAAATTAT
1 TTTGGAGATGACCTAGTTGTTAGGATACCACAAAATTAT
* * *
43527252 TTTGGAGATGACTTAGTTGTTAGGATACCGCAGAATTAT
1 TTTGGAGATGACCTAGTTGTTAGGATACCACAAAATTAT
43527291 TTTGGA
1 TTTGGA
43527297 ATATGATAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (39 bp):
TTTGGAGATGACCTAGTTGTTAGGATACCACAAAATTAT
Found at i:43527844 original size:51 final size:51
Alignment explanation
Indices: 43527745--43527877 Score: 149
Period size: 51 Copynumber: 2.6 Consensus size: 51
43527735 CCATCAAATC
* * *
43527745 TCTAAGAATATAATATCATATCTTCTAAGATTACATATCTTAGATAAGATA
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
* ** * * * ** *
43527796 TGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAGATC
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
*
43527847 TCTAAGATTATAATATCATATCTTTTAAGAT
1 TCTAAGATTATAATATCATATCTTATAAGAT
43527878 CATGTTTCCA
Statistics
Matches: 64, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (51 bp):
TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
Found at i:43528950 original size:96 final size:96
Alignment explanation
Indices: 43528783--43528976 Score: 289
Period size: 96 Copynumber: 2.0 Consensus size: 96
43528773 TCGCTTCTTT
* **
43528783 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCTTT
1 TTGCTCCTCTTAGCCCTCTTGGCTTCGACTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
** * * *
43528848 GTCTGCTCCATCGTTCCCTTCGATGACAGAC
66 ACCTGCTCCATCATTCCCATCGATAACAGAC
* *
43528879 TTGCTCCTCTTTGCCCTCTTGGCTTCGACTTTTCCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
1 TTGCTCCTCTTAGCCCTCTTGGCTTCGACTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
*
43528944 ACCTGCTCGATCATTCCCATCGATAACAGAC
66 ACCTGCTCCATCATTCCCATCGATAACAGAC
43528975 TT
1 TT
43528977 CCTCGGACAC
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 87 1.00
ACGTcount: A:0.13, C:0.35, G:0.18, T:0.35
Consensus pattern (96 bp):
TTGCTCCTCTTAGCCCTCTTGGCTTCGACTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
ACCTGCTCCATCATTCCCATCGATAACAGAC
Found at i:43530759 original size:51 final size:51
Alignment explanation
Indices: 43530660--43530792 Score: 149
Period size: 51 Copynumber: 2.6 Consensus size: 51
43530650 CCATCAAATC
* * *
43530660 TCTAAGAATATAATATCATATCTTCTAAGATTACATATCTTAGATAAGATA
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
* ** * * * ** *
43530711 TGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAGATC
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
*
43530762 TCTAAGATTATAATATCATATCTTTTAAGAT
1 TCTAAGATTATAATATCATATCTTATAAGAT
43530793 CATGTTTCCA
Statistics
Matches: 64, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (51 bp):
TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
Found at i:43531492 original size:2 final size:2
Alignment explanation
Indices: 43531487--43531540 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
43531477 ACATACGTAT
43531487 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43531529 TA TA TA TA TA TA
1 TA TA TA TA TA TA
43531541 ATCTGCAGTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43532686 original size:9 final size:9
Alignment explanation
Indices: 43532664--43532710 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
43532654 CTCCATCTTA
43532664 ATTTAAATTT
1 ATTTAAA-TT
43532674 ATTTAAATT
1 ATTTAAATT
*
43532683 ATTTAAAAT
1 ATTTAAATT
*
43532692 AATT-AATT
1 ATTTAAATT
*
43532700 TTTTAAATT
1 ATTTAAATT
43532709 AT
1 AT
43532711 AAATAAACTT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
8 5 0.17
9 18 0.60
10 7 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
ATTTAAATT
Found at i:43536221 original size:24 final size:24
Alignment explanation
Indices: 43536188--43536241 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
43536178 AGCTGCCAAA
*
43536188 AAATGTAGGTTGTGGATAAACCACC
1 AAAT-TAGGTTGGGGATAAACCACC
*
43536213 AAATTAGGTTGGGGATAAACCACT
1 AAATTAGGTTGGGGATAAACCACC
43536237 AAATT
1 AAATT
43536242 TGCAGATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.26
Consensus pattern (24 bp):
AAATTAGGTTGGGGATAAACCACC
Found at i:43537815 original size:13 final size:13
Alignment explanation
Indices: 43537797--43537823 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
43537787 ACTTAAGGTG
43537797 CTTAACCATTAGA
1 CTTAACCATTAGA
43537810 CTTAACCATTAGA
1 CTTAACCATTAGA
43537823 C
1 C
43537824 CACTTCAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (13 bp):
CTTAACCATTAGA
Found at i:43540392 original size:95 final size:94
Alignment explanation
Indices: 43540288--43540537 Score: 313
Period size: 95 Copynumber: 2.6 Consensus size: 94
43540278 CAAAATTCCT
* * *
43540288 CGTGTTTATTGTCCCGACAAAATTCATATGCTGCCATAGTCGAGCTATGGTCTTACACAATATAA
1 CGTGTTTATTGTCCCGAC-GACTTCATATGCTGCCATAATCGAGCTATGGTCTTACACAATATAA
* * * *
43540353 C-CCTATGTTTAATGTCCTTGCAGGCTACCC
65 CTCC-ATGATTAACGTCCTGGCAGACTACCC
* * * * *
43540383 CGTGTTTATTGTCCCAATGGACTCCATATGCTGCCATAATCAAGATATGGTCTTACACAATATAA
1 CGTGTTTATTGTCCCGA-CGACTTCATATGCTGCCATAATCGAGCTATGGTCTTACACAATATAA
*
43540448 CTCCATGATTAACGTCCTGGCAGACTATCC
65 CTCCATGATTAACGTCCTGGCAGACTACCC
* * *
43540478 CATGCTCATTGTCCCGATCGACTTCATATGCTGCCATAATCGAGCTATGGTCTTACACAA
1 CGTGTTTATTGTCCCGA-CGACTTCATATGCTGCCATAATCGAGCTATGGTCTTACACAA
43540538 ACCCCATGTT
Statistics
Matches: 132, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
95 130 0.98
96 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (94 bp):
CGTGTTTATTGTCCCGACGACTTCATATGCTGCCATAATCGAGCTATGGTCTTACACAATATAAC
TCCATGATTAACGTCCTGGCAGACTACCC
Found at i:43544601 original size:27 final size:28
Alignment explanation
Indices: 43544571--43544640 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
43544561 ATAATAAGTC
*
43544571 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
43544598 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
43544626 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43544641 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:43552522 original size:27 final size:28
Alignment explanation
Indices: 43552492--43552561 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
43552482 ATAATAAGTC
*
43552492 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
43552519 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
43552547 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43552562 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:43556897 original size:95 final size:94
Alignment explanation
Indices: 43556808--43556991 Score: 235
Period size: 94 Copynumber: 1.9 Consensus size: 94
43556798 ATCCTGGTGA
* * * * *
43556808 ACTACTCCATGTTTATTGTCCCGACAGACTCCATATGCTTCCATAGTCAAACTACAATCTTACAC
1 ACTACCCCATGTTTATT-ACCCAAAAGACTCCATATACTTCCATAGTCAAACTACAATCTTACAC
*
43556873 AATATAATC-TCATGTTTAATATCCTTGCAG
65 AATATAA-CACCATGTTTAATATCCTTGCAG
* * * * *
43556903 ACTACCCCGTGTTTATTACCCAAAAGACTCTATATACTTCCATAGTCAAGCTATAGTCTTACACA
1 ACTACCCCATGTTTATTACCCAAAAGACTCCATATACTTCCATAGTCAAACTACAATCTTACACA
*
43556968 ATATAACACCATGTTTAATGTCCT
66 ATATAACACCATGTTTAATATCCT
43556992 AGCGGGCTGT
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
93 1 0.01
94 60 0.79
95 15 0.20
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.33
Consensus pattern (94 bp):
ACTACCCCATGTTTATTACCCAAAAGACTCCATATACTTCCATAGTCAAACTACAATCTTACACA
ATATAACACCATGTTTAATATCCTTGCAG
Found at i:43558165 original size:27 final size:28
Alignment explanation
Indices: 43558121--43558187 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
43558111 TTAATGTATG
43558121 TTTTAAATATGTCATAGT-TAGTACATAA
1 TTTT-AATATGTCATAGTCTAGTACATAA
* * * *
43558149 TTTTAATGTGTCTTAGTCTATTACATAT
1 TTTTAATATGTCATAGTCTAGTACATAA
43558177 TTTTAATATGT
1 TTTTAATATGT
43558188 TCTAACTGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 11 0.33
28 22 0.67
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.51
Consensus pattern (28 bp):
TTTTAATATGTCATAGTCTAGTACATAA
Found at i:43558457 original size:44 final size:44
Alignment explanation
Indices: 43558373--43558455 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 44
43558363 AGACAAGCAC
* *
43558373 GCATGGGATGACATTAAATGAGCTACGGATTTCTCTTTTTCCAT
1 GCATGGGATGACATGAAATGAGCTACGGACTTCTCTTTTTCCAT
* * *
43558417 GCATGGGATGGCATGAAA-GAGCTGCTGACTTCTCTTTTT
1 GCATGGGATGACATGAAATGAGCTACGGACTTCTCTTTTT
43558456 TCTCAGGTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 18 0.53
44 16 0.47
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (44 bp):
GCATGGGATGACATGAAATGAGCTACGGACTTCTCTTTTTCCAT
Found at i:43568033 original size:40 final size:40
Alignment explanation
Indices: 43567989--43568118 Score: 215
Period size: 40 Copynumber: 3.2 Consensus size: 40
43567979 GCTCTCGATA
43567989 TAATATATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGG
1 TAATATATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGG
*
43568029 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
1 TAATATATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGG
*
43568069 TAATATATATATCCGGGTTAAATCCTGCAGGCTTAGTGCTGG
1 T-A-ATATATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGG
*
43568111 TACTATAT
1 TAATATAT
43568119 CCAGACTTAG
Statistics
Matches: 84, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
40 45 0.54
41 2 0.02
42 37 0.44
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (40 bp):
TAATATATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGG
Found at i:43568077 original size:42 final size:42
Alignment explanation
Indices: 43567991--43568118 Score: 215
Period size: 42 Copynumber: 3.1 Consensus size: 42
43567981 TCTCGATATA
43567991 ATATATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGT-A-
1 ATATATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAAT
*
43568031 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAAT
* *
43568073 ATATATATCCGGGTTAAATCCTGCAGGCTTAGTGCTGGTACT
1 ATATATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAAT
43568115 ATAT
1 ATAT
43568119 CCAGACTTAG
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 38 0.46
41 1 0.01
42 43 0.52
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (42 bp):
ATATATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAAT
Found at i:43571513 original size:46 final size:45
Alignment explanation
Indices: 43571421--43571587 Score: 151
Period size: 46 Copynumber: 3.6 Consensus size: 45
43571411 ATAGCCAATA
* * * * * * *
43571421 CATGTCCCAGACACGTCTTACACTGGCTTACGTCTCGAGGCAGATG
1 CATGTCCCAGACATGTCTTACACTAGCCT-CGTTTCAATGCCGATG
43571467 CATGTCCCAGACATGTCTTACACTAGCACTCGTTTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-CTCGTTTCAATGCCGATG
* * *
43571513 CTATGTCCCAGACAGGGTCTTATACT-GGCTC-TTAT-AATGTGGCCGATG
1 C-ATGTCCCAGACA-TGTCTTACACTAGCCTCGTT-TCAA--T-GCCGATG
43571561 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
43571588 TCACAATAAC
Statistics
Matches: 100, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
45 4 0.04
46 51 0.51
47 28 0.28
48 17 0.17
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCCTCGTTTCAATGCCGATG
Found at i:43577220 original size:2 final size:2
Alignment explanation
Indices: 43577215--43577252 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
43577205 ACATACGTAT
*
43577215 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43577253 ATCTGCTGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43584485 original size:55 final size:52
Alignment explanation
Indices: 43584398--43584651 Score: 214
Period size: 55 Copynumber: 4.8 Consensus size: 52
43584388 ATTAGGGTTT
* *
43584398 AAGGATACCGTGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGG-TACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGGC
* * ** * *
43584453 AAGGAAATCATGTAAGACCATGTGAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGG-TACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* * *
43584508 AAAGGTCCCATGTAAGACCATGCCAAGGCAT-GCATTGGTGAG-TTCATAAGGC
1 -AAGGTACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* *
43584560 AAGGCTACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA---
1 AAGG-TACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
* * * * *
43584609 AAGGATACCACGTAAGACCATGACAAGTCATGGAAATGGTAAG
1 AAGG-TACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
43584652 GTACCCGTGT
Statistics
Matches: 165, Mismatches: 27, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
49 38 0.23
51 5 0.03
52 31 0.19
53 13 0.08
54 19 0.12
55 55 0.33
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (52 bp):
AAGGTACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:43584603 original size:107 final size:110
Alignment explanation
Indices: 43584408--43584604 Score: 294
Period size: 107 Copynumber: 1.8 Consensus size: 110
43584398 AAGGATACCG
*
43584408 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
* *
43584473 TGTGAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
* **
43584518 TGTAAGACCATGCCAAGGCAT-GC-ATTGGTGA-G-TTCATAAGGCAAGGCTACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
*
43584579 ATGTCAAGACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCAATGATAAGTT
43584605 TCAAAAGGAT
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
106 3 0.04
107 46 0.58
108 7 0.09
109 2 0.03
110 21 0.27
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:43584864 original size:16 final size:16
Alignment explanation
Indices: 43584843--43584873 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43584833 ATAAATTTGA
43584843 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
43584859 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
43584874 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:43591472 original size:40 final size:40
Alignment explanation
Indices: 43591417--43591551 Score: 225
Period size: 40 Copynumber: 3.4 Consensus size: 40
43591407 CGGATGTAAC
* *
43591417 AACCAGCACGGATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
43591457 AACCCGTACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
43591497 AACCTGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
43591537 AACCCGCACAAATGC
1 AACCCGCACGAATGC
43591552 TATGCACATA
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 88 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:43597623 original size:42 final size:42
Alignment explanation
Indices: 43597550--43597641 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
43597540 TGGCCCATAG
***
43597550 GCCCATTTCAATATCACATATAATGTTAATGAAAGAATGCAA
1 GCCCATTTCAATATCACATATAATACCAATGAAAGAATGCAA
* *
43597592 GCCCATTTCAATATCACATGA-AATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACAT-ATAATACCAATGAAAGAATGCAA
*
43597634 ACCCATTT
1 GCCCATTT
43597642 GGGGAGACTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATATCACATATAATACCAATGAAAGAATGCAA
Found at i:43597813 original size:23 final size:23
Alignment explanation
Indices: 43597783--43597948 Score: 260
Period size: 23 Copynumber: 7.1 Consensus size: 23
43597773 CCTTGCCTCT
*
43597783 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
43597806 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
43597829 TTTTGATCACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
43597853 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
43597876 TTTTGATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
43597900 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
43597923 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
43597946 TTT
1 TTT
43597949 TGCACTTCTT
Statistics
Matches: 130, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
23 89 0.68
24 41 0.32
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:43597841 original size:47 final size:47
Alignment explanation
Indices: 43597781--43597948 Score: 275
Period size: 47 Copynumber: 3.6 Consensus size: 47
43597771 GGCCTTGCCT
* *
43597781 CTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
* *
43597828 CTTTTGATCACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
* *
43597875 CTTTTGATAACTAGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
43597922 C-TTTAATAACTGGGGCATAAGCCCTTT
1 CTTTTAATAACTGGGGCATAAGCCCTTT
43597949 TGCACTTCTT
Statistics
Matches: 113, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
46 24 0.21
47 89 0.79
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
Found at i:43597949 original size:70 final size:71
Alignment explanation
Indices: 43597783--43597950 Score: 268
Period size: 70 Copynumber: 2.4 Consensus size: 71
43597773 CCTTGCCTCT
* * * * * *
43597783 TTTAATAACTGGGGCAAAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGCAT
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCCTTTTAATAACTGGGGCAT
43597847 AAGCCC
66 AAGCCC
43597853 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCC-TTTAATAACTGGGGCAT
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCCTTTTAATAACTGGGGCAT
43597917 AAGCCC
66 AAGCCC
43597923 TTTAATAACTGGGGCATAAGCCCTTTTG
1 TTTAATAACTGGGGCATAAGCCCTTTTG
43597951 CACTTCTTCC
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
70 71 0.78
71 20 0.22
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (71 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCCTTTTAATAACTGGGGCAT
AAGCCC
Found at i:43598023 original size:20 final size:20
Alignment explanation
Indices: 43597995--43598045 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
43597985 GCATTTATGA
*
43597995 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
43598015 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
43598035 ACATATCATGT
1 ACATATCATGT
43598046 TTATCAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:43598110 original size:25 final size:25
Alignment explanation
Indices: 43598082--43598129 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
43598072 ATATATAAAC
* *
43598082 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
43598107 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
43598130 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:43599238 original size:27 final size:27
Alignment explanation
Indices: 43599176--43599240 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
43599166 GGGCATATTC
43599176 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
43599203 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
43599230 GTCTTTTTACC
1 GTCATTTTACC
43599241 TTTTAGGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:43599324 original size:27 final size:27
Alignment explanation
Indices: 43599294--43599345 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
43599284 GTAAATCAAC
43599294 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
43599321 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
43599346 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:43599465 original size:27 final size:27
Alignment explanation
Indices: 43599302--43599496 Score: 117
Period size: 27 Copynumber: 7.1 Consensus size: 27
43599292 ACAAACCAAA
* * * *
43599302 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTTAGTAATTTTATAAATCAAG
*
43599329 GGTATTTCTA-TAATTTTTAGAAAGTCAAG
1 GGTATTT-TAGTAA-TTTTATAAA-TCAAG
* * * *
43599358 GGTATTTCT-GTAACTTTGTAAATTAGG
1 GGTATTT-TAGTAATTTTATAAATCAAG
* * **
43599385 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
* * * *
43599412 GGT-TTTTCGGTAATTTCACAAACCAAG
1 GGTATTTT-AGTAATTTTATAAATCAAG
43599439 GGTATTTTAGTAATTTTATAAATCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
*** ** *
43599466 GGTAAAATAGTAATTCAATAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
43599493 GGTA
1 GGTA
43599497 AAACGGTAAT
Statistics
Matches: 132, Mismatches: 29, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
26 5 0.04
27 94 0.71
28 18 0.14
29 15 0.11
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTATAAATCAAG
Found at i:43599497 original size:27 final size:27
Alignment explanation
Indices: 43599457--43599766 Score: 184
Period size: 27 Copynumber: 11.5 Consensus size: 27
43599447 AGTAATTTTA
* * *
43599457 TAAATCAAGGGTAAAATAGTAATTCAA
1 TAAATCGAGGGTAAAACAGTAATTCAG
* *
43599484 TAAATCGAGGGTAAAACGGTAATTCTG
1 TAAATCGAGGGTAAAACAGTAATTCAG
*
43599511 TAAGTCGAGGGTAAAAC-GATAATT-ATG
1 TAAATCGAGGGTAAAACAG-TAATTCA-G
*
43599538 TAAATC-AGGGGTAAAACGGTAATT-ATG
1 TAAATCGA-GGGTAAAACAGTAATTCA-G
** *
43599565 TAAATTAAGGGTAAAACAGTAATTCTG
1 TAAATCGAGGGTAAAACAGTAATTCAG
* *
43599592 TAAGTCGAGGGTAAAA-TGATAATT-ATG
1 TAAATCGAGGGTAAAACAG-TAATTCA-G
*
43599619 TAAATC-AGGGGTAAAACGGTAATT-ATG
1 TAAATCGA-GGGTAAAACAGTAATTCA-G
* *
43599646 TAAAT-TAGGGGTAAAACGGTAATTCTA-
1 TAAATCGA-GGGTAAAACAGTAATTC-AG
*
43599673 TAAGTCGAGGGTAAAAC-GATAATT-ATG
1 TAAATCGAGGGTAAAACAG-TAATTCA-G
**
43599700 TAAATC-AGTGGTAAAATGGTAATT-ATG
1 TAAATCGAG-GGTAAAACAGTAATTCA-G
* *
43599727 TAAAT-TAGGGGTAAAAC-GATAATTCTG
1 TAAATCGA-GGGTAAAACAG-TAATTCAG
43599754 TAAATCGAGGGTA
1 TAAATCGAGGGTA
43599767 CTTTGGTAAT
Statistics
Matches: 234, Mismatches: 25, Indels: 48
0.76 0.08 0.16
Matches are distributed among these distances:
25 1 0.00
26 8 0.03
27 217 0.93
28 7 0.03
29 1 0.00
ACGTcount: A:0.42, C:0.07, G:0.24, T:0.28
Consensus pattern (27 bp):
TAAATCGAGGGTAAAACAGTAATTCAG
Found at i:43599506 original size:54 final size:54
Alignment explanation
Indices: 43599448--43599766 Score: 335
Period size: 54 Copynumber: 5.9 Consensus size: 54
43599438 GGGTATTTTA
* * * *
43599448 GTAATTTTATAAATCAAGGGTAAAA-TAGTAATTCA-ATAAATCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACGA-TAATT-ATGTAAATCGAGGGTAAAACG
* * *
43599502 GTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATC-AGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACGATAATTATGTAAATCGA-GGGTAAAACG
* * * *
43599556 GTAATTATGTAAATTAAGGGTAAAAC-AGTAATTCTGTAAGTCGAGGGTAAAATG
1 GTAATTATGTAAATCAAGGGTAAAACGA-TAATTATGTAAATCGAGGGTAAAACG
* * * *
43599610 ATAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACGATAATTATGTAAATCGA-GGGTAAAACG
* * * * *
43599664 GTAATTCTATAAGTCGAGGGTAAAACGATAATTATGTAAATC-AGTGGTAAAATG
1 GTAATTATGTAAATCAAGGGTAAAACGATAATTATGTAAATCGAG-GGTAAAACG
* * *
43599718 GTAATTATGTAAATTAGGGGTAAAACGATAATTCTGTAAATCGAGGGTA
1 GTAATTATGTAAATCAAGGGTAAAACGATAATTATGTAAATCGAGGGTA
43599767 CTTTGGTAAT
Statistics
Matches: 219, Mismatches: 36, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
53 5 0.02
54 210 0.96
55 4 0.02
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (54 bp):
GTAATTATGTAAATCAAGGGTAAAACGATAATTATGTAAATCGAGGGTAAAACG
Found at i:43599522 original size:81 final size:80
Alignment explanation
Indices: 43599457--43599766 Score: 410
Period size: 81 Copynumber: 3.8 Consensus size: 80
43599447 AGTAATTTTA
** * *
43599457 TAAATCAAGGGTAAAATAGTAATTCA-ATAAA-TCGAGGGTAAAACGGTAATTCTGTAAGTCGAG
1 TAAATCAAGGGTAAAACGGTAATT-ATGTAAATTAG-GGGTAAAACGGTAATTCTGTAAGTCGAG
*
43599520 GGTAAAACGATAATTATG
64 GGTAATA-GATAATTATG
* * *
43599538 TAAATCAGGGGTAAAACGGTAATTATGTAAATTAAGGGTAAAACAGTAATTCTGTAAGTCGAGGG
1 TAAATCAAGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAGTCGAGGG
*
43599603 TAAAATGATAATTATG
66 TAATA-GATAATTATG
* *
43599619 TAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTATAAGTCGAGGG
1 TAAATCAAGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAGTCGAGGG
*
43599684 TAAAACGATAATTATG
66 TAATA-GATAATTATG
* * *
43599700 TAAATC-AGTGGTAAAATGGTAATTATGTAAATTAGGGGTAAAACGATAATTCTGTAAATCGAGG
1 TAAATCAAG-GGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAGTCGAGG
43599764 GTA
65 GTA
43599767 CTTTGGTAAT
Statistics
Matches: 209, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
80 2 0.01
81 206 0.99
82 1 0.00
ACGTcount: A:0.42, C:0.07, G:0.24, T:0.28
Consensus pattern (80 bp):
TAAATCAAGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAGTCGAGGG
TAATAGATAATTATG
Found at i:43599777 original size:81 final size:81
Alignment explanation
Indices: 43599492--43599766 Score: 462
Period size: 81 Copynumber: 3.4 Consensus size: 81
43599482 AATAAATCGA
*
43599492 GGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAACGG
1 GGGTAAAACGATAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAACGG
*
43599557 TAATTATGTAAATTAA
66 TAATTATGTAAATTAG
*
43599573 GGGTAAAAC-AGTAATTCTGTAAGTCGAGGGTAAAATGATAATTATGTAAATCAGGGGTAAAACG
1 GGGTAAAACGA-TAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAACG
43599637 GTAATTATGTAAATTAG
65 GTAATTATGTAAATTAG
* * * *
43599654 GGGTAAAACGGTAATTCTATAAGTCGAGGGTAAAACGATAATTATGTAAATCAGTGGTAAAATGG
1 GGGTAAAACGATAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAACGG
43599719 TAATTATGTAAATTAG
66 TAATTATGTAAATTAG
*
43599735 GGGTAAAACGATAATTCTGTAAATCGAGGGTA
1 GGGTAAAACGATAATTCTGTAAGTCGAGGGTA
43599767 CTTTGGTAAT
Statistics
Matches: 181, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
81 181 1.00
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (81 bp):
GGGTAAAACGATAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAACGG
TAATTATGTAAATTAG
Found at i:43599788 original size:27 final size:27
Alignment explanation
Indices: 43599755--43599861 Score: 128
Period size: 27 Copynumber: 4.0 Consensus size: 27
43599745 ATAATTCTGT
43599755 AAATCGAGGGTACTTT-GGTAATTTTAC
1 AAATCGAGGGTA-TTTCGGTAATTTTAC
* * *
43599782 AAGTCGAAGGTATTTCGGTAAATTTAC
1 AAATCGAGGGTATTTCGGTAATTTTAC
* *
43599809 AAATCGAGGGTATTTCAGTATTTTTAC
1 AAATCGAGGGTATTTCGGTAATTTTAC
*
43599836 AAA-CTAAGGGTATTTCGGTAATTTTA
1 AAATC-GAGGGTATTTCGGTAATTTTA
43599862 GTAAACTAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 4 0.06
27 63 0.94
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (27 bp):
AAATCGAGGGTATTTCGGTAATTTTAC
Found at i:43599875 original size:27 final size:27
Alignment explanation
Indices: 43599772--43599876 Score: 72
Period size: 27 Copynumber: 3.9 Consensus size: 27
43599762 GGGTACTTTG
* * *
43599772 GTAATTTTACAAGTCGAAG-GTATTTCG
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* * *
43599799 GTAAATTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
43599826 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
43599853 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
43599877 CTAAACAGGG
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.84
28 8 0.13
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:43602805 original size:42 final size:42
Alignment explanation
Indices: 43602746--43602837 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
43602736 TGGCCCATAG
**
43602746 GCCCATTTCAATATCACAT-ATAATGTCAATGAAAGAATGCAA
1 GCCCATTTCAATATCACATGA-AATACCAATGAAAGAATGCAA
* *
43602788 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAAAGAATGCAA
*
43602830 ACCCATTT
1 GCCCATTT
43602838 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAAAGAATGCAA
Found at i:43603009 original size:23 final size:23
Alignment explanation
Indices: 43602979--43603142 Score: 265
Period size: 23 Copynumber: 7.0 Consensus size: 23
43602969 CCTTGCCTCT
*
43602979 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
43603002 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
43603025 TTTTGATCACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
43603049 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
43603072 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
43603096 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
43603119 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
43603142 T
1 T
43603143 ATTGCACTTC
Statistics
Matches: 130, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
23 88 0.68
24 42 0.32
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:43603037 original size:47 final size:47
Alignment explanation
Indices: 43602977--43603142 Score: 280
Period size: 47 Copynumber: 3.6 Consensus size: 47
43602967 GGCCTTGCCT
* *
43602977 CTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
* *
43603024 CTTTTGATCACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
*
43603071 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
43603118 C-TTTAATAACTGGGGCATAAGCCCT
1 CTTTTAATAACTGGGGCATAAGCCCT
43603143 ATTGCACTTC
Statistics
Matches: 113, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
46 23 0.20
47 90 0.80
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (47 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
Found at i:43603062 original size:70 final size:69
Alignment explanation
Indices: 43602979--43603142 Score: 265
Period size: 70 Copynumber: 2.3 Consensus size: 69
43602969 CCTTGCCTCT
* * * *
43602979 TTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGCATA
1 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATA
43603044 AGCCC
65 AGCCC
*
43603049 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
1 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
43603114 AGCCC
65 AGCCC
43603119 TTTAATAACTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
43603143 ATTGCACTTC
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
69 1 0.01
70 66 0.75
71 21 0.24
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (69 bp):
TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAA
GCCC
Found at i:43603217 original size:9 final size:9
Alignment explanation
Indices: 43603203--43603259 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
43603193 ATCTCATGTG
43603203 CATATCATA
1 CATATCATA
*
43603212 CATATCATGTG
1 CATATCA--TA
43603223 CATATCATA
1 CATATCATA
* *
43603232 CATGTCATGTG
1 CATATCA--TA
43603243 CATATCATA
1 CATATCATA
43603252 CATATCAT
1 CATATCAT
43603260 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:43603219 original size:20 final size:20
Alignment explanation
Indices: 43603191--43603261 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
43603181 GCATTTATGA
*
43603191 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
43603211 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
43603231 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
43603251 ACATATCATGT
1 ACATATCATGT
43603262 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:43603226 original size:11 final size:11
Alignment explanation
Indices: 43603196--43603250 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
43603186 TATGAACATC
43603196 TCATGTGCATA
1 TCATGTGCATA
*
43603207 TCA--TACATA
1 TCATGTGCATA
43603216 TCATGTGCATA
1 TCATGTGCATA
* *
43603227 TCA--TACATG
1 TCATGTGCATA
43603236 TCATGTGCATA
1 TCATGTGCATA
43603247 TCAT
1 TCAT
43603251 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:43603326 original size:25 final size:25
Alignment explanation
Indices: 43603298--43603345 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
43603288 ATATATAAAC
* *
43603298 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
43603323 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
43603346 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:43604454 original size:27 final size:27
Alignment explanation
Indices: 43604392--43604456 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
43604382 GGGCATATTC
43604392 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
43604419 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
43604446 GTCTTTTTACC
1 GTCATTTTACC
43604457 TTTTAGGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:43604681 original size:27 final size:27
Alignment explanation
Indices: 43604518--43604685 Score: 110
Period size: 27 Copynumber: 6.1 Consensus size: 27
43604508 ACAAACCAAA
* * *
43604518 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTTAGTAATTTTGTAAATCAAG
43604545 GGTATTTCTA-TAATTTT-TAGAAAGTCAAG
1 GGTATTT-TAGTAATTTTGT--AAA-TCAAG
* * *
43604574 GGTATTTCTA-TAACTTTGTAAATTAGG
1 GGTATTT-TAGTAATTTTGTAAATCAAG
* ** **
43604601 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTAGTAATTTTGTAAATCAAG
* *** *
43604628 GGT-TTTTCGGTAATTTCACAAACCAAG
1 GGTATTTT-AGTAATTTTGTAAATCAAG
43604655 GGTATTTTAGTAATTTTGTAAATCAAG
1 GGTATTTTAGTAATTTTGTAAATCAAG
43604682 GGTA
1 GGTA
43604686 AAACAGTAAT
Statistics
Matches: 112, Mismatches: 21, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
26 6 0.05
27 75 0.67
28 11 0.10
29 19 0.17
30 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTGTAAATCAAG
Found at i:43604693 original size:27 final size:27
Alignment explanation
Indices: 43604664--43604982 Score: 336
Period size: 27 Copynumber: 11.8 Consensus size: 27
43604654 GGGTATTTTA
* *
43604664 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
43604691 GTAATTCA-ATAAATCGAGGGTAAAACG
1 GTAATT-ATGTAAATCAAGGGTAAAACG
* * *
43604718 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
43604745 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
43604772 GTAATTATGTAAATTAGGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
* * * *
43604799 GTAATTCTGTAAGTCGAGGGTAAAATG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
43604826 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
43604853 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * * *
43604880 GTAATTCTATAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
43604907 ATAATTATGTAAATCAGGGGTAAAATG
1 GTAATTATGTAAATCAAGGGTAAAACG
*
43604934 GTAATTATGTAAAT-TAGGCGTAAAACG
1 GTAATTATGTAAATCAAGG-GTAAAACG
* *
43604961 GTAATTCTGTAAATCGAGGGTA
1 GTAATTATGTAAATCAAGGGTA
43604983 CTTTGGTAAT
Statistics
Matches: 239, Mismatches: 49, Indels: 8
0.81 0.17 0.03
Matches are distributed among these distances:
26 2 0.01
27 234 0.98
28 3 0.01
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
GTAATTATGTAAATCAAGGGTAAAACG
Found at i:43604993 original size:81 final size:81
Alignment explanation
Indices: 43604665--43604982 Score: 496
Period size: 81 Copynumber: 3.9 Consensus size: 81
43604655 GGTATTTTAG
* * * * *
43604665 TAATTTTGTAAATCAAGGGTAAAACAGTAATTCA-ATAAA-TCGAGGGTAAAACGGTAATTCTGT
1 TAATTATGTAAATCAGGGGTAAAACGGTAATT-ATGTAAATTAG-GGGTAAAACGGTAATTCTGT
*
43604728 AAGTCGAGGGTAAAACGA
64 AAGTCGAGGGTAAAATGA
*
43604746 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACAGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
43604811 GTCGAGGGTAAAATGA
66 GTCGAGGGTAAAATGA
*
43604827 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTATAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
*
43604892 GTCGAGGGTAAAACGA
66 GTCGAGGGTAAAATGA
* *
43604908 TAATTATGTAAATCAGGGGTAAAATGGTAATTATGTAAATTAGGCGTAAAACGGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
*
43604973 ATCGAGGGTA
66 GTCGAGGGTA
43604983 CTTTGGTAAT
Statistics
Matches: 221, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
80 1 0.00
81 218 0.99
82 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.28
Consensus pattern (81 bp):
TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
GTCGAGGGTAAAATGA
Found at i:43605004 original size:27 final size:27
Alignment explanation
Indices: 43604971--43605077 Score: 126
Period size: 27 Copynumber: 4.0 Consensus size: 27
43604961 GTAATTCTGT
43604971 AAATCGAGGGTACTTT-GGTAATTTTAC
1 AAATCGAGGGTA-TTTCGGTAATTTTAC
* * *
43604998 AAGTCGAAGGTATTTCGGTAAATTTAC
1 AAATCGAGGGTATTTCGGTAATTTTAC
* *
43605025 AAATCGAGGGTATTTCAGTATTTTTAC
1 AAATCGAGGGTATTTCGGTAATTTTAC
** *
43605052 AAATTAAGGGTATTTCGGTAACTTTA
1 AAATCGAGGGTATTTCGGTAATTTTA
43605078 GTAAACTAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
26 3 0.05
27 63 0.95
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (27 bp):
AAATCGAGGGTATTTCGGTAATTTTAC
Found at i:43608831 original size:28 final size:29
Alignment explanation
Indices: 43608800--43608873 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 29
43608790 TACTCGATTT
* *
43608800 CGCACACTTAGTGCCATGCGATT-TAGCC
1 CGCACACTTAGTGCCATGCCATTCGAGCC
** * *
43608828 CGCACACACAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCCATTCGAGCC
43608857 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
43608874 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.22, C:0.36, G:0.20, T:0.22
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCCATTCGAGCC
Found at i:43616714 original size:29 final size:29
Alignment explanation
Indices: 43616644--43616746 Score: 91
Period size: 29 Copynumber: 3.6 Consensus size: 29
43616634 ATACTCGATT
* *
43616644 TCGCACACTTAGTGCCATGCGATT-TAGC
1 TCGCACACTTAGTGCCATGCAATTCCAGC
* ** ** *
43616672 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCAATTCCAGC
** *
43616701 TCGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGCAATTCCAGC
*
43616730 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
43616747 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 15, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
28 19 0.32
29 40 0.68
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.23
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATGCAATTCCAGC
Found at i:43622828 original size:40 final size:40
Alignment explanation
Indices: 43622783--43622912 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
43622773 CGGAATACAA
43622783 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
43622823 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
43622863 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
43622903 CCGGATATAA
1 CCGGATATAA
43622913 TTTCCAGCAA
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:43626880 original size:26 final size:27
Alignment explanation
Indices: 43626827--43626880 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
43626817 TTGCCTCAAG
* *
43626827 TTCAAATCTTTTTGAGTCATCAAGTAT
1 TTCAAATCTTTTTGAGTCAGCAAATAT
43626854 TTCAAA-CTTTTATGA-TCAGCAAATAT
1 TTCAAATCTTTT-TGAGTCAGCAAATAT
43626880 T
1 T
43626881 CGACACTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (27 bp):
TTCAAATCTTTTTGAGTCAGCAAATAT
Found at i:43635987 original size:30 final size:30
Alignment explanation
Indices: 43635951--43636013 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
43635941 CCTTTTCATA
43635951 TTTCATATTTCATAACACTGGGCCGAAGCC
1 TTTCATATTTCATAACACTGGGCCGAAGCC
**
43635981 TTTCATATTTCATATTACTGGGCCGAAGCC
1 TTTCATATTTCATAACACTGGGCCGAAGCC
43636011 TTT
1 TTT
43636014 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (30 bp):
TTTCATATTTCATAACACTGGGCCGAAGCC
Found at i:43636255 original size:24 final size:24
Alignment explanation
Indices: 43636219--43636276 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
43636209 CTGGAGGCCT
43636219 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCAAA
*
43636244 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCAAA
43636268 AGCCCTTTT
1 AGCCCTTTT
43636277 TCACTTCCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 28 0.88
25 4 0.12
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCAAA
Found at i:43636350 original size:20 final size:20
Alignment explanation
Indices: 43636325--43636390 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
43636315 TTATGATTAC
43636325 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
43636345 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
43636365 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
43636385 A-CATGT
1 ATCATGT
43636391 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 5 0.11
20 39 0.89
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:43636356 original size:11 final size:11
Alignment explanation
Indices: 43636325--43636380 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
43636315 TTATGATTAC
43636325 ATCATGTGCAT
1 ATCATGTGCAT
*
43636336 ATCA--TACAT
1 ATCATGTGCAT
43636345 ATCATGTGCAT
1 ATCATGTGCAT
*
43636356 ATCA--TACAT
1 ATCATGTGCAT
*
43636365 GTCATGTGCAT
1 ATCATGTGCAT
43636376 ATCAT
1 ATCAT
43636381 ACATACATGT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:43636459 original size:25 final size:25
Alignment explanation
Indices: 43636427--43636474 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43636417 ATACATAAAC
* * *
43636427 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
43636452 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
43636475 CATGTTATAG
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:43642489 original size:53 final size:54
Alignment explanation
Indices: 43642409--43642614 Score: 200
Period size: 53 Copynumber: 3.8 Consensus size: 54
43642399 TTCCTTTTTA
* * * *
43642409 AACTTACCATTGCCACGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
43642462 AACTCACCATTGTCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
43642516 TAGTTTATCAATGCCATGTCTTGACATGATCTTACAT-GTTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
43642570 AACTTACCAATACCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
43642615 ACACCCTAAT
Statistics
Matches: 119, Mismatches: 31, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
53 72 0.61
54 20 0.17
55 27 0.23
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:43648037 original size:48 final size:47
Alignment explanation
Indices: 43647982--43648253 Score: 219
Period size: 50 Copynumber: 5.6 Consensus size: 47
43647972 TAAGGTGCCA
** * *
43647982 ATGCCATGTCCCGGATATGGTCTTACACTGACTCACACATCAAAGTCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGACTCACATATC-AAGTCG
* * ** *
43648030 ATGCCATGTCCCAGACATAGTCTTACACTGAATCTCGTATATCGAGGTCG
1 ATGCCATGTCCCAAACATGGTCTTACACTG-A-CTCACATATC-AAGTCG
* * *
43648080 ATCCCATGTCCCAAACATGGTCTTACACTGA--CACATATCAAGCCC
1 ATGCCATGTCCCAAACATGGTCTTACACTGACTCACATATCAAGTCG
* * * * *
43648125 ATGCCATGTCCCAAACATGGTCTTACA-TTAGCTCTCATATCTCGAGGCCC
1 ATGCCATGTCCCAAACATGGTCTTACACTGA-CTCACATA--TC-AAGTCG
* * * *
43648175 ATGCCATGTCCCAGACATGGTTTTACACT-AGCTCTCATATCTTAAGGCTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGA-CTCACATATC--AAGTC-G
43648225 ATGCCATGTCCCAAACATGGTCTTACACT
1 ATGCCATGTCCCAAACATGGTCTTACACT
43648254 AGCTCTCATA
Statistics
Matches: 185, Mismatches: 28, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
44 2 0.01
45 29 0.16
46 6 0.03
47 5 0.03
48 29 0.16
49 7 0.04
50 106 0.57
51 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (47 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGACTCACATATCAAGTCG
Found at i:43648170 original size:95 final size:96
Alignment explanation
Indices: 43647998--43648267 Score: 301
Period size: 95 Copynumber: 2.8 Consensus size: 96
43647988 TGTCCCGGAT
* * * * * *
43647998 ATGGTCTTACACTGACTCACACATCAAAGTCGATGCCATGTCCCAGACATAGTCTTACACT-GAA
1 ATGGTCTTACACTGA--CACATATCTAAGCCGATGCCATGTCCCAAACATGGTCTTACACTAG-C
* * *
43648062 TCTCGTATATCGAGGTCGATCCCATGTCCCAAAC
63 TCTCATATATCGAGGCCCATCCCATGTCCCAAAC
* *
43648096 ATGGTCTTACACTGACACATATC-AAGCCCATGCCATGTCCCAAACATGGTCTTACATTAGCTCT
1 ATGGTCTTACACTGACACATATCTAAGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCT
* * *
43648160 CATATCTCGAGGCCCATGCCATGTCCCAGAC
66 CATATATCGAGGCCCATCCCATGTCCCAAAC
* * * *
43648191 ATGGTTTTACACTAGCTCTCATATCTTAAGGCTGATGCCATGTCCCAAACATGGTCTTACACTAG
1 ATGGTCTTACACT-G-ACACATATC-TAA-GCCGATGCCATGTCCCAAACATGGTCTTACACTAG
43648256 CTCTCATATATC
62 CTCTCATATATC
43648268 CCTAGCATCA
Statistics
Matches: 146, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
95 70 0.48
96 9 0.06
97 7 0.05
98 15 0.10
99 2 0.01
100 43 0.29
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.28
Consensus pattern (96 bp):
ATGGTCTTACACTGACACATATCTAAGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCT
CATATATCGAGGCCCATCCCATGTCCCAAAC
Found at i:43648201 original size:50 final size:50
Alignment explanation
Indices: 43648030--43648264 Score: 257
Period size: 50 Copynumber: 4.8 Consensus size: 50
43648020 ATCAAAGTCG
* * * * * * * *
43648030 ATGCCATGTCCCAGACATAGTCTTACACT-GAATCTCGTATATCGAGGTCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAG-CTCTCATATCTCAAGGCCC
* * *
43648080 ATCCCATGTCCCAAACATGGTCTTACACT-G-ACACATA--TCAA-GCCC
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCTCAAGGCCC
* *
43648125 ATGCCATGTCCCAAACATGGTCTTACATTAGCTCTCATATCTCGAGGCCC
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCTCAAGGCCC
* * * **
43648175 ATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCATATCTTAAGGCTG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCTCAAGGCCC
43648225 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAT
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAT
43648265 ATCCCTAGCA
Statistics
Matches: 157, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
45 29 0.18
46 4 0.03
47 5 0.03
48 4 0.03
49 3 0.02
50 112 0.71
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (50 bp):
ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCTCAAGGCCC
Found at i:43652262 original size:40 final size:40
Alignment explanation
Indices: 43652148--43652319 Score: 197
Period size: 40 Copynumber: 4.3 Consensus size: 40
43652138 GATAACTGGA
* *
43652148 CTAAGATCCGAAGGCATTCGTGCAAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCAAGTTGCTATATCCGGG
* * * * * *
43652188 CTATGTCCCGAAGGTATTTATGCTAG-TGATTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCAAGTTG-CTATATCCGGG
* *
43652228 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCTGGG
1 CTAAGACCCGAAGGCATTTGTGCAAGTTGCTATATCCGGG
* *
43652268 CTAAGACCCAAAGGCATTTGTGCAAGTTGTTATATCC-GG
1 CTAAGACCCGAAGGCATTTGTGCAAGTTGCTATATCCGGG
43652307 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
43652320 ATACTTGGGT
Statistics
Matches: 109, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.13
40 92 0.84
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTGTGCAAGTTGCTATATCCGGG
Found at i:43656685 original size:29 final size:29
Alignment explanation
Indices: 43656646--43656725 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
43656636 CTTAATAATC
*
43656646 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
43656676 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
43656705 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
43656726 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:43658511 original size:20 final size:20
Alignment explanation
Indices: 43658486--43658524 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
43658476 AGGGACTAAA
* *
43658486 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
43658506 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
43658525 TATGCATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:43660109 original size:27 final size:27
Alignment explanation
Indices: 43659905--43660111 Score: 134
Period size: 27 Copynumber: 7.7 Consensus size: 27
43659895 TTAGTTTACC
* *
43659905 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCGAAATACCCTC-GATTTGTA
* * *
43659932 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCGAAATACCCTCGA-TTTGTA
* *
43659959 AAATTACCAAAATATCCCT-GATTTGTG
1 AAATTACCGAAATA-CCCTCGATTTGTA
* **
43659986 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** *
43660013 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * **
43660040 AAGTTACC-AAAGTACTCTTGATTTACA
1 AAATTACCGAAA-TACCCTCGATTTGTA
* * *** *
43660067 GAATTATCGTTTTACCCTCGATTTATA
1 AAATTACCGAAATACCCTCGATTTGTA
43660094 AAATTACCGAAATACCCT
1 AAATTACCGAAATACCCT
43660112 TGTAGGGTAG
Statistics
Matches: 139, Mismatches: 35, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
26 7 0.05
27 128 0.92
28 4 0.03
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:43660131 original size:27 final size:27
Alignment explanation
Indices: 43660098--43660326 Score: 300
Period size: 27 Copynumber: 8.5 Consensus size: 27
43660088 TTTATAAAAT
*
43660098 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
* *
43660125 TGA-CGAAATACCCTTGTAAGGTAGAAA
1 T-ACCGAAATACCCCTGTAGGGTAGAAA
*
43660152 TACCGAAATACCCCTGTAGGGTAGATA
1 TACCGAAATACCCCTGTAGGGTAGAAA
*
43660179 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
** * *
43660206 TACTAAAATACCCCTGTAAGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
* *
43660233 TACCAAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
43660260 TACCGAAATACCCCTGTAGGGTA-AAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
* *
43660286 TTACTGAAATACCCCTGTAGGGTAGAAT
1 -TACCGAAATACCCCTGTAGGGTAGAAA
*
43660314 TACCGAGATACCC
1 TACCGAAATACCC
43660327 TCATGGGGTA
Statistics
Matches: 179, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
26 4 0.02
27 172 0.96
28 3 0.02
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAA
Found at i:43660633 original size:27 final size:26
Alignment explanation
Indices: 43660589--43660640 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
43660579 CTCACTGCAA
*
43660589 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
43660616 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
43660641 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:43660717 original size:27 final size:26
Alignment explanation
Indices: 43660679--43660738 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
43660669 CCACATATAT
* *
43660679 ATATTTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
43660705 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
43660732 ATATCTG
1 ATATCTG
43660739 GCAGCCTCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:43660949 original size:58 final size:57
Alignment explanation
Indices: 43660861--43661011 Score: 175
Period size: 57 Copynumber: 2.6 Consensus size: 57
43660851 CATTGACGTT
* ** *
43660861 GTTATAGAAAGGATTTAGCCCAGACAGGTAATCCTGAAAT-AA-TACCTCTCGAGCATAC
1 GTTATATAAAGGATTTAGCCTGGACTGGTAATCCTG-AATCAACT-CCTCT-GAGCATAC
* *
43660919 GTTATGATTATGG-TTTAGCCTGGACTGGTAATCCT-AATCAAGCTCCTCTGAGCATAC
1 GTTAT-ATAAAGGATTTAGCCTGGACTGGTAATCCTGAATCAA-CTCCTCTGAGCATAC
43660976 GTTATATAAAGGATTTAGCCTGGACTGGTAATCCTG
1 GTTATATAAAGGATTTAGCCTGGACTGGTAATCCTG
43661012 TTGTACGATA
Statistics
Matches: 79, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
56 8 0.10
57 37 0.47
58 29 0.37
59 5 0.06
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (57 bp):
GTTATATAAAGGATTTAGCCTGGACTGGTAATCCTGAATCAACTCCTCTGAGCATAC
Found at i:43668162 original size:42 final size:42
Alignment explanation
Indices: 43668053--43668162 Score: 100
Period size: 43 Copynumber: 2.6 Consensus size: 42
43668043 CATACAATGC
* * * * *
43668053 CAACGTCCCAGCCGTGGTCTTACAAGTAATCAAATATTGATG
1 CAACGTCCCAGACGTGGTCCTACACGAAATCAAATATTGAAG
* *
43668095 CCACTGTCCCAAACAG-GG-CCTTACACGAAATCAAATA-TGAAG
1 CAAC-GTCCCAGAC-GTGGTCC-TACACGAAATCAAATATTGAAG
43668137 CGAACGTCCCAGACGTGGTCCTACAC
1 C-AACGTCCCAGACGTGGTCCTACAC
43668163 ATAAAAAAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
41 1 0.02
42 24 0.45
43 27 0.51
44 1 0.02
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (42 bp):
CAACGTCCCAGACGTGGTCCTACACGAAATCAAATATTGAAG
Found at i:43676893 original size:21 final size:21
Alignment explanation
Indices: 43676869--43676908 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
43676859 CATTTGTACA
*
43676869 TATATCATATTTTCTCAAACT
1 TATATCATATTTTCACAAACT
43676890 TATATCATATTTTCACAAA
1 TATATCATATTTTCACAAA
43676909 AGTACATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.45
Consensus pattern (21 bp):
TATATCATATTTTCACAAACT
Found at i:43681561 original size:49 final size:49
Alignment explanation
Indices: 43681506--43681872 Score: 576
Period size: 47 Copynumber: 7.7 Consensus size: 49
43681496 AGATTTTAAC
43681506 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
43681555 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
43681604 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGAT
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
43681651 GTGATG-ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
43681699 GTGATGAATGTGAAAGTGTATATA-A-GTGATAAGGCCTAATGGCCGAT
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
* * *
43681746 GTGATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCAAT
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
* * * * *
43681793 GTGATGAATGTGAAAGTG--TATATATGTGATAGGGCCGAGTGGCCAAC
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
*
43681840 GTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAG
43681873 TCCCGAAGGG
Statistics
Matches: 301, Mismatches: 8, Indels: 20
0.91 0.02 0.06
Matches are distributed among these distances:
45 6 0.02
46 15 0.05
47 153 0.51
48 40 0.13
49 87 0.29
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (49 bp):
GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
Found at i:43681692 original size:95 final size:96
Alignment explanation
Indices: 43681506--43681872 Score: 591
Period size: 95 Copynumber: 3.9 Consensus size: 96
43681496 AGATTTTAAC
43681506 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
43681571 TGTATATATATGTGATAAGGCCTAATGGCCGAT
64 TGTATATATATGTGATAAGGCCTAATGGCCGAT
43681604 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG-ATGTGAAAGTG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
43681668 TATATATATGTGATAAGGCCTAATGGCCGAT
66 TATATATATGTGATAAGGCCTAATGGCCGAT
*
43681699 GTGATGAATGTGAAAGTGTATATAAGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-G
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
43681762 TGTATATATGTGATAAGGCCGAATGGCCAAT
66 TATATATATGTGATAAGGCCTAATGGCCGAT
* * * * * *
43681793 GTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
43681858 TATA-A-ATGTGATAAG
66 TATATATATGTGATAAG
43681873 TCCCGAAGGG
Statistics
Matches: 254, Mismatches: 12, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
94 91 0.36
95 101 0.40
96 44 0.17
98 18 0.07
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (96 bp):
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATATGTGATAAGGCCTAATGGCCGAT
Found at i:43685409 original size:11 final size:11
Alignment explanation
Indices: 43685390--43685420 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
43685380 GAACTTTGAG
*
43685390 ATGAATTGATA
1 ATGACTTGATA
43685401 ATGACTTGATA
1 ATGACTTGATA
43685412 ATGACTTGA
1 ATGACTTGA
43685421 AAGAATATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.35
Consensus pattern (11 bp):
ATGACTTGATA
Found at i:43687992 original size:39 final size:39
Alignment explanation
Indices: 43687941--43688123 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
43687931 AATGTTCGAG
43687941 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
43687980 TGATATCTGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
43688019 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
43688058 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
43688098 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
43688124 GTTTGAACGA
Statistics
Matches: 124, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 86 0.69
40 38 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:43693206 original size:44 final size:44
Alignment explanation
Indices: 43693091--43693225 Score: 168
Period size: 46 Copynumber: 3.1 Consensus size: 44
43693081 ATTGAGACGA
* * *
43693091 GTGCCAGTGTAAGATATATCTGGGACATGCATCAGCCT-CGAGAT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCA-ACTACGAGAT
*
43693135 GTAAGCCAGTGTAAGACATGTCCGGGACATGCATCAACTACGAGAT
1 GT--GCCAGTGTAAGACATGTCTGGGACATGCATCAACTACGAGAT
* *
43693181 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGAC-AC-AGAT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAACTACGAGAT
43693223 GTG
1 GTG
43693226 TGAGAGCCGG
Statistics
Matches: 81, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
42 7 0.09
43 2 0.02
44 33 0.41
45 2 0.02
46 37 0.46
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (44 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCAACTACGAGAT
Found at i:43697001 original size:15 final size:16
Alignment explanation
Indices: 43696982--43697022 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
43696972 ATTTTCTTGT
43696982 TTTGGATTTCTTTATA
1 TTTGGATTTCTTTATA
43696998 -TTGGA-TT-TTTATA
1 TTTGGATTTCTTTATA
43697011 TTCTGGATTTCT
1 TT-TGGATTTCT
43697023 CCGTTATGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
13 6 0.29
14 3 0.14
15 9 0.43
16 2 0.10
17 1 0.05
ACGTcount: A:0.17, C:0.07, G:0.15, T:0.61
Consensus pattern (16 bp):
TTTGGATTTCTTTATA
Found at i:43699657 original size:47 final size:45
Alignment explanation
Indices: 43699591--43699809 Score: 151
Period size: 46 Copynumber: 4.8 Consensus size: 45
43699581 CTGTTATGTG
* * *
43699591 AGCCATTGTCAGACATGTCTGGGACATGCATCAGCCATATTATGAA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATA-GATGAA
* * * * *
43699637 AGCCTGTGTAAGACCATGTCTAGGACATGGCAT-AGGCATTAAGACGAG
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-T-AGATGAA
* * * *
43699685 TGCCAGTGTAAGATATGTCTGGGACATGCATCGGCC-TCGAGATGTA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAT--AGATGAA
* * *
43699731 AGCCAGTATAAGACATGTCTGGAACATGCATCAG-C-TACGA-GATC
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATA-GATGA-A
* * * *
43699775 TGCTAGTGTAAGACATGCCTGGGACTTGCATCAGC
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGC
43699810 ACGGATGTGT
Statistics
Matches: 133, Mismatches: 31, Indels: 19
0.73 0.17 0.10
Matches are distributed among these distances:
43 2 0.02
44 30 0.23
45 3 0.02
46 47 0.35
47 31 0.23
48 19 0.14
49 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (45 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATAGATGAA
Found at i:43706804 original size:17 final size:19
Alignment explanation
Indices: 43706762--43706805 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
43706752 ATGAAATTTT
*
43706762 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
43706781 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
43706799 AA-TATTA
1 AATTATTA
43706806 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:43708651 original size:28 final size:28
Alignment explanation
Indices: 43708619--43708687 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
43708609 GCGTAGATCA
43708619 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
43708647 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
43708675 CGATA-TACCCCTA
1 CGAAATTACCCCTA
43708688 GGGTTTTAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:43715771 original size:27 final size:27
Alignment explanation
Indices: 43715739--43716252 Score: 683
Period size: 27 Copynumber: 19.1 Consensus size: 27
43715729 TAGTTTACCA
* * *
43715739 AATTACTGAAATACTCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
43715766 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
43715793 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
43715820 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
43715847 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
43715874 AATTACTGAAATACCCCTGTAAGGTA-
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
43715900 AATTAACGACATACCCCTCTAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
43715927 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
43715954 AATTACCGAAATACCCCTGTAGAGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** **
43715981 AATAACTAAAATACCCCTGTAATGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
43716008 AATTATCGAAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
43716034 AATTACTGAAATACCCCTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
43716061 AATTACCGAAATATCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
43716088 AATTACTGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
43716115 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
43716142 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
43716169 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
43716196 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
43716223 AATTATCGAGATACCCTTGTGGGGTA-
1 AATTACCGAAATACCCCTGTAGGGTAG
43716249 AATT
1 AATT
43716253 TACCATTTTT
Statistics
Matches: 425, Mismatches: 60, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
26 46 0.11
27 379 0.89
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:43716567 original size:20 final size:20
Alignment explanation
Indices: 43716544--43716581 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
43716534 GGCTGTGTGC
43716544 TGATACTGTGGGCTTCGTAT
1 TGATACTGTGGGCTTCGTAT
*
43716564 TGATATTGTGGGCTTCGT
1 TGATACTGTGGGCTTCGT
43716582 GCCTATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.13, G:0.32, T:0.42
Consensus pattern (20 bp):
TGATACTGTGGGCTTCGTAT
Done.