Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 63 of 189
Found at i:17683727 original size:9 final size:9
Alignment explanation
Indices: 17683713--17683737 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
17683703 GACTAAAATG
17683713 TGAAATAAA
1 TGAAATAAA
17683722 TGAAATAAA
1 TGAAATAAA
17683731 TGAAATA
1 TGAAATA
17683738 TGTGGACTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (9 bp):
TGAAATAAA
Found at i:17684570 original size:80 final size:83
Alignment explanation
Indices: 17684486--17684643 Score: 198
Period size: 84 Copynumber: 1.9 Consensus size: 83
17684476 TTATATTGAG
* *
17684486 TATAAATAT-GAA-AT-TATACT-TATATATATATGTTAAATTCGAATATGTATGTGTATATAGG
1 TATAAATATGGAATATATATA-TGTATATATATATGTTAAATTCGAATATGTATATATATATAGG
*
17684547 TATAAGTTCTTGTTTCGAA
65 TATAAGATCTTGTTTCGAA
* * * * *
17684566 TATAAGTATGGAATTATATATATGTATATATATTTGTTAGATTCGAATATGTATATATCTATATG
1 TATAAATATGGAA-TATATATATGTATATATATATGTTAAATTCGAATATGTATATATATATAGG
17684631 TATAAGATCTTGT
65 TATAAGATCTTGT
17684644 ATTGAAATGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 8 0.12
81 3 0.05
83 3 0.05
84 51 0.78
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (83 bp):
TATAAATATGGAATATATATATGTATATATATATGTTAAATTCGAATATGTATATATATATAGGT
ATAAGATCTTGTTTCGAA
Found at i:17685052 original size:81 final size:81
Alignment explanation
Indices: 17684916--17685176 Score: 425
Period size: 81 Copynumber: 3.2 Consensus size: 81
17684906 AGTAAGATGA
* * *
17684916 TTCAGACTTTACATCTTGCAGGCTTGATGCTGGTGAAATGTTTCAGACTTTACGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCA-GCTTGATGCCGGTGAAATGTTTCAGACTTTACGTCTAGCAGGCT
* *
17684981 TGATGCCAGTGAAATGT
65 TGATGCCGGTGAAATAT
17684998 TTCAGACTTTACGTCTAGCAGCTTGATGCCGGTGAAATGTTTCAGACTTTACGTCTAGCAGGCTT
1 TTCAGACTTTACGTCTAGCAGCTTGATGCCGGTGAAATGTTTCAGACTTTACGTCTAGCAGGCTT
17685063 GATGCCGGTGAAATAT
66 GATGCCGGTGAAATAT
* *
17685079 TTC-GAACTTTACGTCTAGCAGGTTGATGCCGGTGAAATGTTTCAGACTTTATGTCTAGCAGGCT
1 TTCAG-ACTTTACGTCTAGCAGCTTGATGCCGGTGAAATGTTTCAGACTTTACGTCTAGCAGGCT
17685143 TGATGCCGGTGAAATAT
65 TGATGCCGGTGAAATAT
*
17685160 TTCAGACTTTATGTCTA
1 TTCAGACTTTACGTCTA
17685177 ACAGGCTAAT
Statistics
Matches: 169, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
80 1 0.01
81 149 0.88
82 19 0.11
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (81 bp):
TTCAGACTTTACGTCTAGCAGCTTGATGCCGGTGAAATGTTTCAGACTTTACGTCTAGCAGGCTT
GATGCCGGTGAAATAT
Found at i:17685144 original size:122 final size:122
Alignment explanation
Indices: 17684916--17685183 Score: 423
Period size: 122 Copynumber: 2.2 Consensus size: 122
17684906 AGTAAGATGA
* * * *
17684916 TTCAGACTTTACATCTTGCAGGCTTGATGCTGGTGAAATGTTTCAGACTTTACGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATATTTCAGACTTTACGTCTAGCAGGCT
*
17684981 TGATGCCAGTGAAATGTTTCAGACTTTACGTCTAGCAGCTTGATGCCGGTGAAATGT
66 TGATGCCAGTGAAATGTTTCAGACTTTACGTCTAGCAGCTTGATGCCGGTGAAATAT
17685038 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATATTTC-GAACTTTACGTCTAGCAGG-
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATATTTCAG-ACTTTACGTCTAGCAGGC
* *
17685101 TTGATGCCGGTGAAATGTTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAAATAT
65 TTGATGCCAGTGAAATGTTTCAGACTTTACGTCTAGCA-GCTTGATGCCGGTGAAATAT
* *
17685160 TTCAGACTTTATGTCTAACAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
17685184 AATTGTCGGT
Statistics
Matches: 135, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
121 37 0.27
122 98 0.73
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (122 bp):
TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATATTTCAGACTTTACGTCTAGCAGGCT
TGATGCCAGTGAAATGTTTCAGACTTTACGTCTAGCAGCTTGATGCCGGTGAAATAT
Found at i:17685194 original size:41 final size:41
Alignment explanation
Indices: 17684916--17685183 Score: 425
Period size: 41 Copynumber: 6.6 Consensus size: 41
17684906 AGTAAGATGA
* * *
17684916 TTCAGACTTTACATCTTGCAGGCTTGATGCTGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
*
17684957 TTCAGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
17684998 TTCAGACTTTACGTCTAGCA-GCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
*
17685038 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
17685079 TTC-GAACTTTACGTCTAGCAGG-TTGATGCCGGTGAAATGT
1 TTCAG-ACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
* *
17685119 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
* *
17685160 TTCAGACTTTATGTCTAACAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
17685184 AATTGTCGGT
Statistics
Matches: 213, Mismatches: 10, Indels: 8
0.92 0.04 0.03
Matches are distributed among these distances:
40 76 0.36
41 137 0.64
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
Found at i:17685715 original size:71 final size:70
Alignment explanation
Indices: 17685639--17685795 Score: 208
Period size: 71 Copynumber: 2.2 Consensus size: 70
17685629 GATAATTACA
*
17685639 TATATACATTTGGTTATAATATTTGTTAAG-TATATGTATATATATGCATTCGGCTATTCATGTT
1 TATATACATTTGGTTATAATATCTGTTAAGATATATGTATATA-A-GCATTCGGCTATTCATGTT
17685703 CAAAGTG
64 CAAAGTG
*** *
17685710 TATATACATTTGGAGCTAATATCTGTTAAGCATATATGTATATAAGCATTCGGCTATTCATGTTT
1 TATATACATTTGGTTATAATATCTGTTAAG-ATATATGTATATAAGCATTCGGCTATTCATGTTC
*
17685775 ATAGTG
65 AAAGTG
* *
17685781 AATATACATTCGGTT
1 TATATACATTTGGTT
17685796 TTAAGAGTTG
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
71 61 0.82
72 1 0.01
73 12 0.16
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (70 bp):
TATATACATTTGGTTATAATATCTGTTAAGATATATGTATATAAGCATTCGGCTATTCATGTTCA
AAGTG
Found at i:17686871 original size:15 final size:16
Alignment explanation
Indices: 17686851--17686880 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17686841 GTTATGATAT
17686851 ATGAAA-TTTTTAAGA
1 ATGAAAGTTTTTAAGA
17686866 ATGAAAGTTTTTAAG
1 ATGAAAGTTTTTAAG
17686881 TTACAGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (16 bp):
ATGAAAGTTTTTAAGA
Found at i:17687535 original size:60 final size:60
Alignment explanation
Indices: 17687437--17687574 Score: 188
Period size: 60 Copynumber: 2.3 Consensus size: 60
17687427 AGCAAGGCTA
* * * *
17687437 CAAACCCAACTCACAAGAACCTTGCGCGAGCTCATAAGGTAGGATCCCAGGTACAGCTCG
1 CAAAGCCAACTCACAAGAACCTTACGCGAGCTCATAAGGCAGGATCCCAGGCACAGCTCG
* **
17687497 CAGAGCCAACTCACAAGAACCTTACGCGAGCTCATAAGGCAGGATTGCAGGCACAGCTCG
1 CAAAGCCAACTCACAAGAACCTTACGCGAGCTCATAAGGCAGGATCCCAGGCACAGCTCG
*
17687557 TAAAG-CAAGCTCACAAGA
1 CAAAGCCAA-CTCACAAGA
17687575 TAAGGTTACA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 3 0.04
60 65 0.96
ACGTcount: A:0.34, C:0.30, G:0.22, T:0.14
Consensus pattern (60 bp):
CAAAGCCAACTCACAAGAACCTTACGCGAGCTCATAAGGCAGGATCCCAGGCACAGCTCG
Found at i:17702890 original size:105 final size:102
Alignment explanation
Indices: 17702653--17702910 Score: 318
Period size: 105 Copynumber: 2.5 Consensus size: 102
17702643 ATCAGGCTAA
* * *
17702653 ATGCCTTGCTTTCTCATTCTGCCAAAAATATCTTCAGCTTCAGAAACCATACTATTCTTGCAAAG
1 ATGCCTTGCTTTCTCA-TCTG-CAACAATAACTTCAGCTTCAGAAACCATACCATTCTTGCAAAG
* * * *
17702718 TGAATCCATCAATATATTATACGTGATAACATTAGGTTC
64 CGAATCCATCAATATACTATACATGAAAACATTAGGTTC
* *
17702757 AGCGCCTTGCTTTCTCATCGTGCAAACAATAAATTCAGCTTCAGAAACCATACCATTCTTGCAAA
1 A-TGCCTTGCTTTCTCATC-TGC-AACAATAACTTCAGCTTCAGAAACCATACCATTCTTGCAAA
* *
17702822 GCGAATCTATCAATGTACTATACATGAAAACATTAGGTTC
63 GCGAATCCATCAATATACTATACATGAAAACATTAGGTTC
* * *
17702862 GATGCCTTGCTTTCTCATCATGTCAACAACAACTTCGGCTTTAGAAACC
1 -ATGCCTTGCTTTCTCATC-TG-CAACAATAACTTCAGCTTCAGAAACC
17702911 TCCCCCATCT
Statistics
Matches: 132, Mismatches: 17, Indels: 9
0.84 0.11 0.06
Matches are distributed among these distances:
104 4 0.03
105 126 0.95
106 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (102 bp):
ATGCCTTGCTTTCTCATCTGCAACAATAACTTCAGCTTCAGAAACCATACCATTCTTGCAAAGCG
AATCCATCAATATACTATACATGAAAACATTAGGTTC
Found at i:17713463 original size:20 final size:20
Alignment explanation
Indices: 17713448--17713499 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
17713438 TGAAAATATC
17713448 ATTAAAAATTATAAAAAAAT
1 ATTAAAAATTATAAAAAAAT
*
17713468 ATT-AAAATTTTATAAAAAAT
1 ATTAAAAATTATA-AAAAAAT
17713488 ATTAAAAATTAT
1 ATTAAAAATTAT
17713500 GTTTAAGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 8 0.29
20 13 0.46
21 7 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATTAAAAATTATAAAAAAAT
Found at i:17714882 original size:24 final size:24
Alignment explanation
Indices: 17714848--17714897 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
17714838 CAAAAAAAAG
*
17714848 AAAAAGCAGTCCAAAATCAATAGA
1 AAAAAGCAGTCCAAAAGCAATAGA
*
17714872 AAAAAGTAGTCCAAAAGCAATAGA
1 AAAAAGCAGTCCAAAAGCAATAGA
17714896 AA
1 AA
17714898 TATATGAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.60, C:0.14, G:0.14, T:0.12
Consensus pattern (24 bp):
AAAAAGCAGTCCAAAAGCAATAGA
Found at i:17715123 original size:22 final size:22
Alignment explanation
Indices: 17715093--17715135 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
17715083 ACACCAAAAC
*
17715093 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
17715115 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
17715136 AGCGCCGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:17715292 original size:43 final size:43
Alignment explanation
Indices: 17715245--17715389 Score: 168
Period size: 43 Copynumber: 3.4 Consensus size: 43
17715235 AGACTAAGAG
* *
17715245 CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGAT-TGGTGT
1 CTTTAGCGGCGTTTTTAATATAAGCGCCGCTATAGATCAGG-GT
**
17715288 CTTTAGCGGCGTTTTTGTTGA-AAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTAAT-ATAAGCGCCGCTATAGATCAGGGT
* * * * *
17715331 CTTTAGCGGCATTTTTTATATAAGTGCCGCTATAGATCATGGC
1 CTTTAGCGGCGTTTTTAATATAAGCGCCGCTATAGATCAGGGT
*
17715374 CTTTAGCGGCGCTTTT
1 CTTTAGCGGCGTTTTT
17715390 CCCAAAAACG
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
42 1 0.01
43 83 0.95
44 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTAATATAAGCGCCGCTATAGATCAGGGT
Found at i:17715402 original size:86 final size:86
Alignment explanation
Indices: 17715245--17715432 Score: 191
Period size: 86 Copynumber: 2.2 Consensus size: 86
17715235 AGACTAAGAG
* * * ****
17715245 CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGATTGGTGTCTTTAGCGGCGTTTTTGTTGAA
1 CTTTAGCGGCATTTTTAATATAACCGCCGCTATAGATTGGTGCCTTTAGCGGCGCTTTTCCCAAA
* * * *
17715310 AGCGCCGCTATAGATCAGGGT
66 AACGCCGCAATAGACCAGGAT
* **
17715331 CTTTAGCGGCATTTTTTATATAAGTGCCGCTATAGATCAT-G-GCCTTTAGCGGCGCTTTTCCCA
1 CTTTAGCGGCATTTTTAATATAACCGCCGCTATAGAT--TGGTGCCTTTAGCGGCGCTTTTCCCA
**
17715394 AAAACGCCGCAATAGACCCTGAT
64 AAAACGCCGCAATAGACCAGGAT
*
17715417 CTATAGCGGCATTTTT
1 CTTTAGCGGCATTTTT
17715433 CGCACAAACG
Statistics
Matches: 83, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
86 81 0.98
87 1 0.01
88 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (86 bp):
CTTTAGCGGCATTTTTAATATAACCGCCGCTATAGATTGGTGCCTTTAGCGGCGCTTTTCCCAAA
AACGCCGCAATAGACCAGGAT
Found at i:17715579 original size:43 final size:42
Alignment explanation
Indices: 17715377--17715582 Score: 211
Period size: 43 Copynumber: 4.7 Consensus size: 42
17715367 TCATGGCCTT
17715377 TAGCGGCGCTTTTCCCAAAAACGCCGC-AATAGACCCTGATCTA
1 TAGCGGCGCTTTT-CCAAAAACGCCGCTAA-AGACCCTGATCTA
** *
17715420 TAGCGGCATTTTTCGCACAAACGCCGC-AATAGACCCTGATCTA
1 TAGCGGCGCTTTTC-CAAAAACGCCGCTAA-AGACCCTGATCTA
* *
17715463 TAGCGGCGCTTATCCAGAAAACGCCGCTAAATACCCTTTG-TCTATA
1 TAGCGGCGCTTTTCCA-AAAACGCCGCTAAAGACCC--TGATC--TA
** * *
17715509 TAGCGGCGCTTCGCGCGAAAACGCCGCTAAAGACCCTAATCTA
1 TAGCGGCGCTTTTC-CAAAAACGCCGCTAAAGACCCTGATCTA
17715552 TAGCGGCGCTTTTACCAAAAACGCCGCTAAA
1 TAGCGGCGCTTTT-CCAAAAACGCCGCTAAA
17715583 TTTGACAGAT
Statistics
Matches: 137, Mismatches: 16, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
42 3 0.02
43 91 0.66
44 6 0.04
45 4 0.03
46 32 0.23
47 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (42 bp):
TAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCTGATCTA
Found at i:17715913 original size:21 final size:21
Alignment explanation
Indices: 17715887--17715998 Score: 116
Period size: 21 Copynumber: 5.3 Consensus size: 21
17715877 TTTGACGCTG
*
17715887 CTCTGCTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGCAGC
**
17715908 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
17715929 CTCTGCTTCCCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
17715950 CTGTTCTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
17715971 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
17715992 ATCTGCT
1 CTCTGCT
17715999 CTAAGCTGCT
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 78 1.00
ACGTcount: A:0.04, C:0.42, G:0.18, T:0.37
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:17716054 original size:66 final size:66
Alignment explanation
Indices: 17715970--17716116 Score: 199
Period size: 66 Copynumber: 2.2 Consensus size: 66
17715960 CTCGCTGCCG
* *
17715970 CCTCTGCTTCTCTTGCTGCCGCATCTGCTCTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
17716033 GAA
64 GAA
* * * *
17716036 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
17716101 A
66 A
*
17716102 CATCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
17716117 ATGTTGCCTC
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 1 0.01
66 67 0.93
67 4 0.06
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.39
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:17716132 original size:66 final size:66
Alignment explanation
Indices: 17716009--17716139 Score: 192
Period size: 66 Copynumber: 2.0 Consensus size: 66
17715999 CTAAGCTGCT
* * *
17716009 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGT
1 GCTGGAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
17716074 A
66 A
* * *
17716075 GCTGGAGTTCTTCATATCTTT-TTTGAACATCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTG
1 GCTGGAGTTCTTCATA-CTTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTG
17716139 T
65 T
17716140 GTAATTTGCT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 54 0.93
67 4 0.07
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.41
Consensus pattern (66 bp):
GCTGGAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
A
Found at i:17721560 original size:16 final size:16
Alignment explanation
Indices: 17721539--17721572 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
17721529 ATAGTTAAGC
17721539 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
17721555 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
17721571 TA
1 TA
17721573 CCCAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:17721604 original size:25 final size:25
Alignment explanation
Indices: 17721553--17721608 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
17721543 TAAGTTATGT
* *
17721553 ATTATGTAAGTTATTTATTACCCAA
1 ATTATGTAAGTTATGTATTACCAAA
* **
17721578 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATGTATTACCAAA
17721603 ATTATG
1 ATTATG
17721609 CTATGTAAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTACCAAA
Found at i:17721622 original size:9 final size:9
Alignment explanation
Indices: 17721610--17721807 Score: 60
Period size: 9 Copynumber: 22.7 Consensus size: 9
17721600 AAAATTATGC
17721610 TATGTAAGT
1 TATGTAAGT
17721619 TATGTAAGT
1 TATGTAAGT
* **
17721628 CACATAAGT
1 TATGTAAGT
17721637 TATGTAAG-
1 TATGTAAGT
* * *
17721645 -AAGTTATT
1 TATGTAAGT
17721653 TATGTAAGT
1 TATGTAAGT
*
17721662 TAT-TTA-T
1 TATGTAAGT
* *
17721669 TATGAAAAT
1 TATGTAAGT
*
17721678 TAAGTAAGT
1 TATGTAAGT
*
17721687 TATGTAATT
1 TATGTAAGT
*
17721696 TACG-AA-T
1 TATGTAAGT
* **
17721703 AAT-TAAAAA
1 TATGT-AAGT
17721712 TATGTAAGT
1 TATGTAAGT
17721721 TATGTAAG-
1 TATGTAAGT
17721729 T-TGTAAGT
1 TATGTAAGT
*
17721737 TATGTATA-A
1 TATGTA-AGT
17721746 TAT-TAA-T
1 TATGTAAGT
**
17721753 TAACTAAGT
1 TATGTAAGT
* *
17721762 TATGTCATT
1 TATGTAAGT
*
17721771 TATGTATCATAT
1 TATGTA--A-GT
17721783 TAATGTAAGT
1 T-ATGTAAGT
*
17721793 TATGTAATT
1 TATGTAAGT
17721802 TATGTA
1 TATGTA
17721808 TATTAACTAA
Statistics
Matches: 134, Mismatches: 38, Indels: 34
0.65 0.18 0.17
Matches are distributed among these distances:
7 19 0.14
8 14 0.10
9 88 0.66
10 4 0.03
11 2 0.01
12 2 0.01
13 5 0.04
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.43
Consensus pattern (9 bp):
TATGTAAGT
Found at i:17721690 original size:34 final size:34
Alignment explanation
Indices: 17721652--17721730 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
17721642 AAGAAGTTAT
*** * *
17721652 TTATGTAAGTTATTTATTATGAAAATTAAGTAAG
1 TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
* * *
17721686 TTATGTAATTTACGAATAATTAAAAATATGTAAG
1 TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
17721720 TTATGTAAGTT
1 TTATGTAAGTT
17721731 GTAAGTTATG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.42, C:0.01, G:0.14, T:0.43
Consensus pattern (34 bp):
TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
Found at i:17721774 original size:34 final size:33
Alignment explanation
Indices: 17721730--17721893 Score: 171
Period size: 34 Copynumber: 5.1 Consensus size: 33
17721720 TTATGTAAGT
*
17721730 TGTAAGTTATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTATAATATTAATTAA-TAAGTTA
* * *
17721764 TGTCATTTATGTATCATATTAA-T-GTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATAAGTTA
* * *
17721795 TGTAATTTATG--T-ATATTAACTAATTATTTA
1 TGTAATTTATGTATAATATTAATTAATAAGTTA
*
17721825 TGTAAGTTATGTATAATATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATATTAATTAA-TAAGTTA
* *
17721859 TGTCATTTATGTATAATATTAA-T-GTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATAAGTTA
17721890 TGTA
1 TGTA
17721894 TAATATTAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 15
0.78 0.12 0.11
Matches are distributed among these distances:
28 7 0.06
29 2 0.02
30 15 0.14
31 27 0.25
32 1 0.01
33 12 0.11
34 44 0.41
ACGTcount: A:0.37, C:0.03, G:0.12, T:0.48
Consensus pattern (33 bp):
TGTAATTTATGTATAATATTAATTAATAAGTTA
Found at i:17721828 original size:30 final size:31
Alignment explanation
Indices: 17721745--17721949 Score: 135
Period size: 31 Copynumber: 6.7 Consensus size: 31
17721735 GTTATGTATA
* * *
17721745 ATATTAATTAACTAAGTTATGTCATTTATGT
1 ATATTAACTAATTAAGTTATGTAATTTATGT
*
17721776 ATCA-T-ATTAATGTAAGTTATGTAATTTATGT
1 AT-ATTAACTAAT-TAAGTTATGTAATTTATGT
* *
17721807 ATATTAACTAATT-ATTTATGTAAGTTATGTAT
1 ATATTAACTAATTAAGTTATGTAATTTATG--T
* *
17721839 AATATTAATTAATTAAGTTATGTCATTTATGT
1 -ATATTAACTAATTAAGTTATGTAATTTATGT
* *
17721871 ATAAT-ATTAATGTAAGTTATGT-A--TA---
1 ATATTAACTAAT-TAAGTTATGTAATTTATGT
* * *
17721896 ATATTAATTAATTAAGTTATGTCATCTATGT
1 ATATTAACTAATTAAGTTATGTAATTTATGT
* *
17721927 ATAAT-ATTAATGTAAGTTATGTA
1 ATATTAACTAAT-TAAGTTATGTA
17721950 TAATATTAAT
Statistics
Matches: 144, Mismatches: 13, Indels: 34
0.75 0.07 0.18
Matches are distributed among these distances:
25 14 0.10
26 7 0.05
28 4 0.03
30 33 0.23
31 53 0.37
32 8 0.06
33 12 0.08
34 13 0.09
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.48
Consensus pattern (31 bp):
ATATTAACTAATTAAGTTATGTAATTTATGT
Found at i:17721895 original size:56 final size:56
Alignment explanation
Indices: 17721819--17721974 Score: 294
Period size: 56 Copynumber: 2.8 Consensus size: 56
17721809 ATTAACTAAT
* *
17721819 TATTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAA
1 TATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAA
17721875 TATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAA
1 TATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAA
17721931 TATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTC
1 TATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTC
17721975 CCTTACAATA
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 98 1.00
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.48
Consensus pattern (56 bp):
TATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAA
Found at i:17722095 original size:24 final size:24
Alignment explanation
Indices: 17722063--17722115 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
17722053 AGTATTTTAT
17722063 AATATAATATTAATTTTAGATACA
1 AATATAATATTAATTTTAGATACA
*
17722087 AATATAATATTAATTTTAGTTACA
1 AATATAATATTAATTTTAGATACA
17722111 AATAT
1 AATAT
17722116 TATACAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (24 bp):
AATATAATATTAATTTTAGATACA
Found at i:17723605 original size:17 final size:17
Alignment explanation
Indices: 17723585--17723622 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
17723575 TTAAAGTTCA
17723585 CAAGGAAGTAAAGGCTG
1 CAAGGAAGTAAAGGCTG
*
17723602 CAAGGAAGTAGAGGCTG
1 CAAGGAAGTAAAGGCTG
17723619 CAAG
1 CAAG
17723623 TTCCTGGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.39, C:0.13, G:0.37, T:0.11
Consensus pattern (17 bp):
CAAGGAAGTAAAGGCTG
Found at i:17723910 original size:33 final size:33
Alignment explanation
Indices: 17723863--17723926 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
17723853 ATATACATAT
*
17723863 ATTCATACCTAACACTAATCTCATTTAACTCGA
1 ATTCATACCCAACACTAATCTCATTTAACTCGA
*
17723896 ATTCATACCCAACACTCATCTCATTTAACTC
1 ATTCATACCCAACACTAATCTCATTTAACTC
17723927 TAATAACATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.02, T:0.33
Consensus pattern (33 bp):
ATTCATACCCAACACTAATCTCATTTAACTCGA
Found at i:17724171 original size:14 final size:15
Alignment explanation
Indices: 17724152--17724190 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
17724142 AATTGGGAAA
17724152 TTGGGGAAAAT-ACT
1 TTGGGGAAAATAACT
17724166 TTGGGGAAGAATAACT
1 TTGGGGAA-AATAACT
*
17724182 TGGGGGAAA
1 TTGGGGAAA
17724191 TTGGGGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 4 0.18
16 10 0.45
ACGTcount: A:0.36, C:0.05, G:0.36, T:0.23
Consensus pattern (15 bp):
TTGGGGAAAATAACT
Found at i:17724195 original size:25 final size:22
Alignment explanation
Indices: 17724166--17724222 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 22
17724156 GGAAAATACT
*
17724166 TTGGGGAAGAATAACTTGGGGGAAA
1 TTGGGGAA-AAGAACTT--GGGAAA
*
17724191 TTGGGGGAAAAGAAGTTGGGAAA
1 TT-GGGGAAAAGAACTTGGGAAA
17724214 TTGGGGAAA
1 TTGGGGAAA
17724223 TGAAATCGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 7 0.24
23 8 0.28
25 8 0.28
26 6 0.21
ACGTcount: A:0.37, C:0.02, G:0.42, T:0.19
Consensus pattern (22 bp):
TTGGGGAAAAGAACTTGGGAAA
Found at i:17724235 original size:23 final size:23
Alignment explanation
Indices: 17724185--17724238 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
17724175 AATAACTTGG
* *
17724185 GGGAAATTGGGGGAAAAGAAGTT
1 GGGAAATTGGGGGAAAAGAAATC
*
17724208 GGGAAATT-GGGGAAATGAAATC
1 GGGAAATTGGGGGAAAAGAAATC
17724230 GTGGAAATT
1 G-GGAAATT
17724239 TGACTTGGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.39, C:0.02, G:0.39, T:0.20
Consensus pattern (23 bp):
GGGAAATTGGGGGAAAAGAAATC
Found at i:17726454 original size:42 final size:41
Alignment explanation
Indices: 17726369--17726631 Score: 391
Period size: 42 Copynumber: 6.3 Consensus size: 41
17726359 CGCATATATA
* *
17726369 AAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCATAGGCG
1 AAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTAGACG
*
17726410 AAAACGCCGCTATAGACCCGGAGCATTAGCGGCGCTTAGACG
1 AAAACGCCGCTAAAGACCC-GAGCATTAGCGGCGCTTAGACG
* *
17726452 AAAACGCCGCTAAAGACTCGGAGCATTACCGGCGCTTAGACG
1 AAAACGCCGCTAAAGAC-CCGAGCATTAGCGGCGCTTAGACG
* * *
17726494 AAAGCGCCGCTAAAGACTCGGAGCATTAGTGGCGCTTAGACG
1 AAAACGCCGCTAAAGAC-CCGAGCATTAGCGGCGCTTAGACG
* *
17726536 AAAACGCCGCTATAGACCCGAGCATTAGCGGCGCTTAGACA
1 AAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTAGACG
* *
17726577 AAAACGCCGCTATAGACCCGAGCATTAGCGGCGCTTAGACA
1 AAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTAGACG
17726618 AAAACGCCGCTAAA
1 AAAACGCCGCTAAA
17726632 TGTTTAAAAA
Statistics
Matches: 205, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
41 93 0.45
42 111 0.54
43 1 0.00
ACGTcount: A:0.32, C:0.28, G:0.27, T:0.14
Consensus pattern (41 bp):
AAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTAGACG
Found at i:17726574 original size:23 final size:24
Alignment explanation
Indices: 17726543--17726616 Score: 65
Period size: 24 Copynumber: 3.4 Consensus size: 24
17726533 ACGAAAACGC
17726543 CGCTATAGACCCGAGCATTAGCGG
1 CGCTATAGACCCGAGCATTAGCGG
* * *
17726567 CGCT-TAGA--C-A--A-AAACGC
1 CGCTATAGACCCGAGCATTAGCGG
17726584 CGCTATAGACCCGAGCATTAGCGG
1 CGCTATAGACCCGAGCATTAGCGG
17726608 CGCT-TAGAC
1 CGCTATAGAC
17726617 AAAAACGCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 15
0.64 0.10 0.26
Matches are distributed among these distances:
17 7 0.19
18 5 0.14
20 2 0.05
21 2 0.05
23 10 0.27
24 11 0.30
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (24 bp):
CGCTATAGACCCGAGCATTAGCGG
Found at i:17732167 original size:16 final size:16
Alignment explanation
Indices: 17732146--17732176 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17732136 ATTTCACTAT
*
17732146 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
17732162 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
17732177 GCATGCATAG
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:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:17734179 original size:76 final size:74
Alignment explanation
Indices: 17734082--17734295 Score: 302
Period size: 76 Copynumber: 2.8 Consensus size: 74
17734072 CTGGAGTATA
* * *
17734082 TTGAATATAAAAGGGGCTGCTAAGTGCTAATTCCCTGATTCATTGGTGGTTGCTAAGTGCTGATT
1 TTGAATAT-AAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATT
17734147 CCACCATATC
65 CCACCATATC
* *
17734157 TTGGAATATAAAGGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTTAGTGCTGAT
1 TT-GAATATAAA-GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGAT
*
17734222 TCCACCGTATC
64 TCCACCATATC
* * * *
17734233 TTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGA
1 TTGAATAT-AAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGA
17734296 ATTCACCGAT
Statistics
Matches: 124, Mismatches: 12, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
75 56 0.45
76 68 0.55
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (74 bp):
TTGAATATAAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTC
CACCATATC
Found at i:17734222 original size:33 final size:33
Alignment explanation
Indices: 17734172--17734305 Score: 115
Period size: 33 Copynumber: 3.8 Consensus size: 33
17734162 ATATAAAGGG
*
17734172 GGTTGCTAAGTGTTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
17734205 GGTTGCTTAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
* *
17734247 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
17734280 GGTTGCTAAGTGCTGAATTCACCGAT
1 GGTTGCTAAGTGCTG-ATTCCCCGAT
17734306 AACGGATAAC
Statistics
Matches: 80, Mismatches: 11, Indels: 19
0.73 0.10 0.17
Matches are distributed among these distances:
33 34 0.43
34 11 0.14
35 1 0.01
36 2 0.03
37 3 0.04
38 3 0.04
39 2 0.03
40 1 0.01
41 3 0.04
42 20 0.25
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:17734358 original size:2 final size:2
Alignment explanation
Indices: 17734351--17734378 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17734341 GGAAAGGTGA
17734351 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17734379 GGTGGATAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17737554 original size:20 final size:20
Alignment explanation
Indices: 17737531--17737581 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
17737521 AACAATCAAC
*
17737531 TGAAACTAAGAACAAATGAT
1 TGAAACCAAGAACAAATGAT
*
17737551 TGAAACCAAGAACAATTGAT
1 TGAAACCAAGAACAAATGAT
*
17737571 TAAAACCAAGA
1 TGAAACCAAGA
17737582 GTAAAAAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.55, C:0.14, G:0.14, T:0.18
Consensus pattern (20 bp):
TGAAACCAAGAACAAATGAT
Found at i:17737688 original size:20 final size:20
Alignment explanation
Indices: 17737663--17737703 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
17737653 ACTAACAACT
17737663 TACTAAACAAACTTAAGAAC
1 TACTAAACAAACTTAAGAAC
* *
17737683 TACTAAATAAACTTAATAAC
1 TACTAAACAAACTTAAGAAC
17737703 T
1 T
17737704 GCCTAGCCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.17, G:0.02, T:0.27
Consensus pattern (20 bp):
TACTAAACAAACTTAAGAAC
Found at i:17740295 original size:41 final size:41
Alignment explanation
Indices: 17740172--17740295 Score: 122
Period size: 41 Copynumber: 3.0 Consensus size: 41
17740162 CATATAGGCT
* * * *
17740172 GGCCAACCACACGACCATGTAACCTACATGGTCTGGCACAC
1 GGCCAACCACACGACCGTGTGACCCACATGGTCTGCCACAC
* * * * * **
17740213 GACCAACCACACGACCGTATGACCCCCATTGTTTGTTACAC
1 GGCCAACCACACGACCGTGTGACCCACATGGTCTGCCACAC
* * *
17740254 GGCCTACCACACGGCCGTGTGACCCATATGGTCTGCCACAC
1 GGCCAACCACACGACCGTGTGACCCACATGGTCTGCCACAC
17740295 G
1 G
17740296 ACTGTATGGT
Statistics
Matches: 63, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.25, C:0.37, G:0.20, T:0.18
Consensus pattern (41 bp):
GGCCAACCACACGACCGTGTGACCCACATGGTCTGCCACAC
Found at i:17741355 original size:14 final size:15
Alignment explanation
Indices: 17741336--17741364 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17741326 TGATCACTCT
17741336 TGATTTC-ACTAACC
1 TGATTTCTACTAACC
17741350 TGATTTCTACTAACC
1 TGATTTCTACTAACC
17741365 CGGCCGGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.38
Consensus pattern (15 bp):
TGATTTCTACTAACC
Found at i:17744820 original size:9 final size:9
Alignment explanation
Indices: 17744788--17744891 Score: 63
Period size: 9 Copynumber: 11.6 Consensus size: 9
17744778 AGGATTTGTT
17744788 TTTTTTATA
1 TTTTTTATA
* *
17744797 TATTATAGT-
1 TTTTTTA-TA
17744806 TTTTTTATA
1 TTTTTTATA
17744815 TTTTTTATA
1 TTTTTTATA
*
17744824 --TATTATA
1 TTTTTTATA
*
17744831 GTTTTTATA
1 TTTTTTATA
17744840 TTTTTTATA
1 TTTTTTATA
* *
17744849 TATTATATA
1 TTTTTTATA
*
17744858 TTATATTA-A
1 TT-TTTTATA
*
17744867 TTCTTTTACA
1 TT-TTTTATA
*
17744877 CTTTTTATAA
1 TTTTTTAT-A
17744887 TTTTT
1 TTTTT
17744892 GGAGATGTAA
Statistics
Matches: 71, Mismatches: 17, Indels: 13
0.70 0.17 0.13
Matches are distributed among these distances:
7 6 0.08
8 1 0.01
9 53 0.75
10 11 0.15
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTTTATA
Found at i:17744823 original size:25 final size:26
Alignment explanation
Indices: 17744787--17744855 Score: 113
Period size: 27 Copynumber: 2.7 Consensus size: 26
17744777 TAGGATTTGT
*
17744787 TTTTTTTATATATTATAGTTTTTTTA
1 TTTTTTTATATATTATAGTTTTTATA
17744813 TATTTTTTATATATTATAGTTTTTATA
1 T-TTTTTTATATATTATAGTTTTTATA
17744840 -TTTTTTATATATTATA
1 TTTTTTTATATATTATA
17744856 TATTATATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
25 16 0.39
26 1 0.02
27 24 0.59
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (26 bp):
TTTTTTTATATATTATAGTTTTTATA
Found at i:17744826 original size:27 final size:25
Alignment explanation
Indices: 17744788--17744855 Score: 118
Period size: 25 Copynumber: 2.6 Consensus size: 25
17744778 AGGATTTGTT
17744788 TTTTTTATATATTATAGTTTTTTTATA
1 TTTTTTATATATTATAG--TTTTTATA
17744815 TTTTTTATATATTATAGTTTTTATA
1 TTTTTTATATATTATAGTTTTTATA
17744840 TTTTTTATATATTATA
1 TTTTTTATATATTATA
17744856 TATTATATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 24 0.59
27 17 0.41
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (25 bp):
TTTTTTATATATTATAGTTTTTATA
Found at i:17746673 original size:29 final size:28
Alignment explanation
Indices: 17746628--17746704 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 28
17746618 TTTGATCTAA
*
17746628 TGTGCAATTTGATACATAATA-TTTGATTT
1 TGTGCAATTT-ACACATAA-AGTTTGATTT
17746657 TGTGCAATTATACACATTAAAGTTTGATTT
1 TGTGCAATT-TACACA-TAAAGTTTGATTT
*
17746687 TGATTCAATTGTACACAT
1 TG-TGCAATT-TACACAT
17746705 TTAAAGAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
29 14 0.34
30 15 0.37
31 12 0.29
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.44
Consensus pattern (28 bp):
TGTGCAATTTACACATAAAGTTTGATTT
Found at i:17746685 original size:30 final size:32
Alignment explanation
Indices: 17746649--17746710 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
17746639 ATACATAATA
17746649 TTTGATTTTG-TGCAATTATACACA-TTAAAG
1 TTTGATTTTGATGCAATTATACACATTTAAAG
* *
17746679 TTTGATTTTGATTCAATTGTACACATTTAAAG
1 TTTGATTTTGATGCAATTATACACATTTAAAG
17746711 AAATGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 10 0.36
31 12 0.43
32 6 0.21
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (32 bp):
TTTGATTTTGATGCAATTATACACATTTAAAG
Found at i:17747703 original size:15 final size:14
Alignment explanation
Indices: 17747675--17747713 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
17747665 TGTTAATTGC
*
17747675 ATAAAATGTAAATAT
1 ATAAAAT-TTAATAT
17747690 ATAATAATTTAATAT
1 ATAA-AATTTAATAT
17747705 ATAAAATTT
1 ATAAAATTT
17747714 TTTATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 5 0.23
15 14 0.64
16 3 0.14
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (14 bp):
ATAAAATTTAATAT
Found at i:17747758 original size:17 final size:16
Alignment explanation
Indices: 17747718--17747759 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
17747708 AAATTTTTTA
17747718 TATTTAAAA-ATAAAT
1 TATTTAAAATATAAAT
* *
17747733 AATTAAAAATATTAAAT
1 TATTTAAAATA-TAAAT
17747750 TATTTAAAAT
1 TATTTAAAAT
17747760 TGGTTCCCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 7 0.33
16 1 0.05
17 13 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TATTTAAAATATAAAT
Found at i:17749186 original size:64 final size:64
Alignment explanation
Indices: 17749062--17749205 Score: 164
Period size: 64 Copynumber: 2.2 Consensus size: 64
17749052 ACACATGCCC
* * * *
17749062 GTGTCCTTGGCCCATGTGATCATTATCTTATAATTACTGAGTTACACGGCCTAGATACACGCTT
1 GTGTCCTTGGCCCGTGAGATCATTATCTTATAATCACTGAGTTACACGGCCTAGACACACGCTT
* * * * * *
17749126 GTGTCCTTAGCCCGTGAGATCCTTATCTTGTAATCAGTGAGTTACATGGCCT-GAACACACGTTT
1 GTGTCCTTGGCCCGTGAGATCATTATCTTATAATCACTGAGTTACACGGCCTAG-ACACACGCTT
* *
17749190 GTCTTCTTGGCCCGTG
1 GTGTCCTTGGCCCGTG
17749206 TGAACCCTAC
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
63 1 0.02
64 65 0.98
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (64 bp):
GTGTCCTTGGCCCGTGAGATCATTATCTTATAATCACTGAGTTACACGGCCTAGACACACGCTT
Found at i:17752162 original size:2 final size:2
Alignment explanation
Indices: 17752155--17752184 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
17752145 CTGCCCTCAC
17752155 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
17752185 TTATGTGTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:17753947 original size:23 final size:23
Alignment explanation
Indices: 17753921--17753978 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
17753911 GTACATACTT
17753921 ATATATATTCTT-TATATTTTAAA
1 ATATATATT-TTATATATTTTAAA
*
17753944 ATATATATTTTATATATTTT--T
1 ATATATATTTTATATATTTTAAA
17753965 ATATATATTTTATA
1 ATATATATTTTATA
17753979 ATTCACATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 14 0.42
22 2 0.06
23 17 0.52
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
ATATATATTTTATATATTTTAAA
Found at i:17753960 original size:11 final size:11
Alignment explanation
Indices: 17753944--17753978 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
17753934 ATATTTTAAA
17753944 ATATATATTTT
1 ATATATATTTT
17753955 ATATAT-TTTT
1 ATATATATTTT
17753965 ATATATATTTT
1 ATATATATTTT
17753976 ATA
1 ATA
17753979 ATTCACATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
ATATATATTTT
Found at i:17754019 original size:25 final size:26
Alignment explanation
Indices: 17753964--17754023 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
17753954 TATATATTTT
*
17753964 TATATATATTTTATAATTCACATATA
1 TATACATATTTTATAATTCACATATA
* * * *
17753990 CATACATATTTT-TAATTTATATCTA
1 TATACATATTTTATAATTCACATATA
17754015 TATACATAT
1 TATACATAT
17754024 ATATCTCTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (26 bp):
TATACATATTTTATAATTCACATATA
Found at i:17754537 original size:70 final size:70
Alignment explanation
Indices: 17754404--17754537 Score: 191
Period size: 70 Copynumber: 1.9 Consensus size: 70
17754394 CAAACTCAAG
** *
17754404 TTTTAAACGATCTCGAGAATTATGAGGAGATCGTGTCCTAACTTACTGGATATGATCTCTTTTTC
1 TTTTAAACGATCTCGAGAATTATGAAAAGATCGTGTCCTAACTTACTGGATATGACCTCTTTTTC
17754469 CTAAA
66 CTAAA
* *
17754474 TTTTAAACGATCTCGGGAATTAAT-AAAAGATCGTGTCCTAACTTACTGGGA-ATGACCTTTTTT
1 TTTTAAACGATCTCGAGAATT-ATGAAAAGATCGTGTCCTAACTTACT-GGATATGACCTCTTTT
17754537 T
64 T
17754538 TAAAATCCGA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
70 52 0.91
71 5 0.09
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.37
Consensus pattern (70 bp):
TTTTAAACGATCTCGAGAATTATGAAAAGATCGTGTCCTAACTTACTGGATATGACCTCTTTTTC
CTAAA
Found at i:17756400 original size:24 final size:24
Alignment explanation
Indices: 17756373--17756420 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
17756363 AAATTAGTAA
17756373 GTCAAATAAACTATACTAATAAAT
1 GTCAAATAAACTATACTAATAAAT
* *
17756397 GTCAAATATATTATACTAATAAAT
1 GTCAAATAAACTATACTAATAAAT
17756421 ACTAAATCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
GTCAAATAAACTATACTAATAAAT
Found at i:17758544 original size:38 final size:36
Alignment explanation
Indices: 17758476--17758548 Score: 85
Period size: 38 Copynumber: 2.0 Consensus size: 36
17758466 TCACTCTAAT
*
17758476 ATTAAATTAATATAATACTTATCAAGATAATTATTAG
1 ATTAAATTAATATAATACTTATCAAAATAA-TATTAG
* *
17758513 ATTAAATTTAATATTAA-ATTTATTAAAATAATATTA
1 ATTAAA-TTAATA-TAATACTTATCAAAATAATATTA
17758549 TTTTTAGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
37 11 0.35
38 17 0.55
39 3 0.10
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (36 bp):
ATTAAATTAATATAATACTTATCAAAATAATATTAG
Found at i:17759080 original size:17 final size:17
Alignment explanation
Indices: 17759058--17759091 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17759048 AAAATTTATT
*
17759058 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTTAAAA
17759075 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTTAAAA
17759092 ATATATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAAAATTTTAAAA
Found at i:17761184 original size:26 final size:26
Alignment explanation
Indices: 17761165--17761224 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
17761155 CAAAGCTGCG
17761165 AGTAACAGTATTACAGCAAAACTGTC
1 AGTAACAGTATTACAGCAAAACTGTC
**
17761191 AGTAACAGTATCGCAGCAAAACTGTC
1 AGTAACAGTATTACAGCAAAACTGTC
17761217 AGTAACAG
1 AGTAACAG
17761225 AATTGCTGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (26 bp):
AGTAACAGTATTACAGCAAAACTGTC
Found at i:17764783 original size:13 final size:13
Alignment explanation
Indices: 17764765--17764789 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17764755 TTTAAATTAT
17764765 TTTTCTATAAAAA
1 TTTTCTATAAAAA
17764778 TTTTCTATAAAA
1 TTTTCTATAAAA
17764790 TAAATTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTCTATAAAAA
Found at i:17767730 original size:21 final size:20
Alignment explanation
Indices: 17767706--17767759 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
17767696 AATAAAAAGG
17767706 ATAAATTTTAAAACAATGTTA
1 ATAAATTTTAAAAC-ATGTTA
* *
17767727 ATAAACTCT-AAACATGTTA
1 ATAAATTTTAAAACATGTTA
17767746 ATAATAATTTTAAA
1 AT-A-AATTTTAAA
17767760 TAATTGTACC
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
19 8 0.31
20 5 0.19
21 11 0.42
22 2 0.08
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (20 bp):
ATAAATTTTAAAACATGTTA
Found at i:17768913 original size:17 final size:17
Alignment explanation
Indices: 17768887--17768921 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
17768877 CGTGTATTTG
*
17768887 GCGTGGAGGCACAACAC
1 GCGTGCAGGCACAACAC
*
17768904 GCGTGCAGGCGCAACAC
1 GCGTGCAGGCACAACAC
17768921 G
1 G
17768922 TGCGAGAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.37, T:0.06
Consensus pattern (17 bp):
GCGTGCAGGCACAACAC
Found at i:17770024 original size:43 final size:43
Alignment explanation
Indices: 17769963--17770234 Score: 303
Period size: 43 Copynumber: 6.3 Consensus size: 43
17769953 GCGTCGCTAA
* *
17769963 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAGACCAGGAC
* * ** *
17770006 CTTTAGCGGCACTTTTCCCATAAACGTCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAGACCAGGAC
* * * * *
17770049 CTTTAGCGGCGCTTTTCTCACAAGCACCGCTAAAGACAAGTAA
1 CTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAGACCAGGAC
* *
17770092 CTTTAGCGGCGCTTTTCCCACAATCACCGCTAAAGATCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAGACCAGGAC
* * * **
17770135 ATTTAGCGGGGCTTTTGCCACAAACACCGCTAAAGACCAATAC
1 CTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAGACCAGGAC
* ** * *
17770178 CTTTAGTGATGCTTTTCCCACAAACGCCGCTAAAG-CTCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAGAC-CAGGAC
*
17770221 CTTTAGCGACGCTT
1 CTTTAGCGGCGCTT
17770235 CTATTAAAAA
Statistics
Matches: 190, Mismatches: 38, Indels: 2
0.83 0.17 0.01
Matches are distributed among these distances:
42 1 0.01
43 189 0.99
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.24
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAGACCAGGAC
Found at i:17770192 original size:129 final size:129
Alignment explanation
Indices: 17769960--17770234 Score: 345
Period size: 129 Copynumber: 2.1 Consensus size: 129
17769950 ACCGCGTCGC
* *
17769960 TAACTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCACTTTTCCC
1 TAACTTTAGCGACGCTTTTCCCACAAACACCGCTAAAGACCAGGACATTTAGCGGCACTTTTCCC
* ** * * *
17770025 ATAAACGTCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCTCACAAGCACCGCTAAAGACAAG
66 ACAAACACCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAACACCGCTAAAGACAAG
* * * ** *
17770089 TAACTTTAGCGGCGCTTTTCCCACAATCACCGCTAAAGATCAGGACATTTAGCGGGGCTTTTGCC
1 TAACTTTAGCGACGCTTTTCCCACAAACACCGCTAAAGACCAGGACATTTAGCGGCACTTTTCCC
* * * * * *
17770154 ACAAACACCGCTAAAGACCAATACCTTTAGTGATGCTTTTCCCACAAACGCCGCTAAAGCTCATG
66 ACAAACACCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAACACCGCTAAAG-ACAAG
*
17770219 -ACCTTTAGCGACGCTT
1 TAACTTTAGCGACGCTT
17770235 CTATTAAAAA
Statistics
Matches: 123, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
129 120 0.98
130 3 0.02
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (129 bp):
TAACTTTAGCGACGCTTTTCCCACAAACACCGCTAAAGACCAGGACATTTAGCGGCACTTTTCCC
ACAAACACCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAACACCGCTAAAGACAAG
Found at i:17771681 original size:41 final size:41
Alignment explanation
Indices: 17771583--17771832 Score: 233
Period size: 41 Copynumber: 6.1 Consensus size: 41
17771573 TAGATTATAT
* * * * * *
17771583 TAAATCCCTGAGCATTAGCGGCGCTTTTTAAAAAATGCCAC
1 TAAAGCCCTGAGTATTAGCGGCGCTTTCTCAAAAACGCCGC
** *
17771624 TAAA--AATAGAGAATTAGCGGCGC-TTCTTCAAAAACGCCGC
1 TAAAGCCCT-GAGTATTAGCGGCGCTTTC-TCAAAAACGCCGC
* *
17771664 TAAAGCCCTGAGTATTAGCAGCGC-TACTTCAAAAACGCCGC
1 TAAAGCCCTGAGTATTAGCGGCGCTTTC-TCAAAAACGCCGC
* * * *
17771705 TAAATCCTTGA-TCATTAGCGGTGCTTTCCCAAAAACGCCGC
1 TAAAGCCCTGAGT-ATTAGCGGCGCTTTCTCAAAAACGCCGC
*
17771746 TAAAGCCCTGA-TCATTAGCGGCGCTTTCCCAAAAACGCCGC
1 TAAAGCCCTGAGT-ATTAGCGGCGCTTTCTCAAAAACGCCGC
* * *
17771787 TAAAGCCCTGAGCATTAGTGGCGCTTTATCAAAAAACGCCGC
1 TAAAGCCCTGAGTATTAGCGGCGCTTTCTC-AAAAACGCCGC
17771829 TAAA
1 TAAA
17771833 ACCCCGAAAG
Statistics
Matches: 176, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
39 3 0.02
40 29 0.16
41 126 0.72
42 18 0.10
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (41 bp):
TAAAGCCCTGAGTATTAGCGGCGCTTTCTCAAAAACGCCGC
Found at i:17772261 original size:17 final size:18
Alignment explanation
Indices: 17772234--17772267 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
17772224 ATAAAAGTAG
*
17772234 AAAAATCAAATTGTATAA
1 AAAAATCAAATTATATAA
17772252 AAAAAT-AAATTATATA
1 AAAAATCAAATTATATA
17772268 GTTCAAATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAAATCAAATTATATAA
Found at i:17776782 original size:43 final size:43
Alignment explanation
Indices: 17776734--17776909 Score: 266
Period size: 43 Copynumber: 4.1 Consensus size: 43
17776724 TTTTTAAAAG
* *
17776734 CGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTTACACAAA
1 CGCCGCTAAAGTACATGTTCTTTAGCGGCGCTTTTAACACAAA
17776777 CGCCGCTAAAGGT-CATGTTCTTTAGCGGCGCTTTTAACACAAA
1 CGCCGCTAAA-GTACATGTTCTTTAGCGGCGCTTTTAACACAAA
* *
17776820 CGCCGCTAAAGTTCATGTTCTTTAGCGGCGCTTCTAACACAAA
1 CGCCGCTAAAGTACATGTTCTTTAGCGGCGCTTTTAACACAAA
* *
17776863 CGCCGCTAAAGCTA-ATGTTCTTTAGTGGCGCTTTTTACACAAA
1 CGCCGCTAAAG-TACATGTTCTTTAGCGGCGCTTTTAACACAAA
17776906 CGCC
1 CGCC
17776910 ACTATTTGTT
Statistics
Matches: 123, Mismatches: 7, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
42 2 0.02
43 119 0.97
44 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (43 bp):
CGCCGCTAAAGTACATGTTCTTTAGCGGCGCTTTTAACACAAA
Found at i:17778772 original size:324 final size:324
Alignment explanation
Indices: 17778183--17778833 Score: 1221
Period size: 324 Copynumber: 2.0 Consensus size: 324
17778173 AATATAAGTG
17778183 AAACTAATTCCTAAGTATTACAGATGACATTAACGTTTTGTTACCTTAATATTATCAAGGGCTTG
1 AAACTAATTCCTAAGTATTACAGATGACATTAACGTTTTGTTACCTTAATATTATCAAGGGCTTG
*
17778248 ATTTTTGTTACTATCGGGCATTTGATGCCATGACTCGTAGTTGATAGGTAACATATTCGCATTTC
66 ATTTTTGTTAATATCGGGCATTTGATGCCATGACTCGTAGTTGATAGGTAACATATTCGCATTTC
17778313 GTACTAAAATGCCCATGTATCCTGCTAATAGTCGAGCTTCTATTCCAACAGGCTGACCAAAACTG
131 GTACTAAAATGCCCATGTATCCTGCTAATAGTCGAGCTTCTATTCCAACAGGCTGACCAAAACTG
* *
17778378 TTTCTGGATACTTTGACACGCTCGACTGGATCTAACTCGTACAACTCGCTAAGTAGCGTATGACC
196 TTTCTGCATACTTTGACACGCTCGACTGGATCTAACTCGTACAACTCGCTAAGTAGCGTACGACC
17778443 TCGACCTCTGCGCGTCCTACCATTTTCAGCTGAAAAACGGTATATTATAATATAAGATTTTAAA
261 TCGACCTCTGCGCGTCCTACCATTTTCAGCTGAAAAACGGTATATTATAATATAAGATTTTAAA
*
17778507 AAACTAATTCCTAAGTATTACAGATGACATTAACGTTTTGTTACCTTAATATTATCGAGGGCTTG
1 AAACTAATTCCTAAGTATTACAGATGACATTAACGTTTTGTTACCTTAATATTATCAAGGGCTTG
17778572 ATTTTTGTTAATATCGGGCATTTGATGCCATGACTCGTAGTTGATAGGTAACATATTCGCATTTC
66 ATTTTTGTTAATATCGGGCATTTGATGCCATGACTCGTAGTTGATAGGTAACATATTCGCATTTC
* *
17778637 GTGCTAAAATGCCCATGTATCCTGCTAATAGTCGAGCTTCTGTTCCAACAGGCTGACCAAAACTG
131 GTACTAAAATGCCCATGTATCCTGCTAATAGTCGAGCTTCTATTCCAACAGGCTGACCAAAACTG
*
17778702 TTTCTGCATACTTTGACACGCTCGATTGGATCTAACTCGTACAACTCGCTAAGTAGCGTACGACC
196 TTTCTGCATACTTTGACACGCTCGACTGGATCTAACTCGTACAACTCGCTAAGTAGCGTACGACC
* *
17778767 TCGACCTCTGCGCGTCCTACCATTTTCAGGTGACAAACGGTATATTATAATATAAGATTTTAAA
261 TCGACCTCTGCGCGTCCTACCATTTTCAGCTGAAAAACGGTATATTATAATATAAGATTTTAAA
17778831 AAA
1 AAA
17778834 TAAACCAATT
Statistics
Matches: 318, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
324 318 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (324 bp):
AAACTAATTCCTAAGTATTACAGATGACATTAACGTTTTGTTACCTTAATATTATCAAGGGCTTG
ATTTTTGTTAATATCGGGCATTTGATGCCATGACTCGTAGTTGATAGGTAACATATTCGCATTTC
GTACTAAAATGCCCATGTATCCTGCTAATAGTCGAGCTTCTATTCCAACAGGCTGACCAAAACTG
TTTCTGCATACTTTGACACGCTCGACTGGATCTAACTCGTACAACTCGCTAAGTAGCGTACGACC
TCGACCTCTGCGCGTCCTACCATTTTCAGCTGAAAAACGGTATATTATAATATAAGATTTTAAA
Found at i:17783028 original size:9 final size:9
Alignment explanation
Indices: 17783014--17783131 Score: 106
Period size: 9 Copynumber: 13.4 Consensus size: 9
17783004 TAAGGGATAT
17783014 TTATGTAAG
1 TTATGTAAG
17783023 TTATGTAAG
1 TTATGTAAG
17783032 TTATGT-A-
1 TTATGTAAG
* *
17783039 TTAAGTAAA
1 TTATGTAAG
17783048 TTATGTAAG
1 TTATGTAAG
17783057 TTATGT-A-
1 TTATGTAAG
*
17783064 TTATGTAAA
1 TTATGTAAG
17783073 TTATGTAAG
1 TTATGTAAG
17783082 TTATGTATTAAG
1 TTATG---TAAG
*
17783094 -TAGGTTAAG
1 TTATG-TAAG
*
17783103 TTATGT--C
1 TTATGTAAG
17783110 TTATGTAAG
1 TTATGTAAG
17783119 TTATGTAAG
1 TTATGTAAG
17783128 TTAT
1 TTAT
17783132 TGTTTTTGTG
Statistics
Matches: 91, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
7 17 0.19
8 4 0.04
9 60 0.66
10 3 0.03
11 3 0.03
12 4 0.04
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:17783046 original size:25 final size:25
Alignment explanation
Indices: 17783018--17783131 Score: 146
Period size: 25 Copynumber: 4.7 Consensus size: 25
17783008 GGATATTTAT
17783018 GTAAGTTATGTAAGTTATGTATTAA
1 GTAAGTTATGTAAGTTATGTATTAA
* *
17783043 GTAAATTATGTAAGTTATGTATTAT
1 GTAAGTTATGTAAGTTATGTATTAA
*
17783068 GTAAATTATGTAAGTTATGTATTAA
1 GTAAGTTATGTAAGTTATGTATTAA
* * *
17783093 GT-AG--GT-TAAGTTATGTCTTAT
1 GTAAGTTATGTAAGTTATGTATTAA
17783114 GTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
17783132 TGTTTTTGTG
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.19
22 3 0.04
24 2 0.03
25 57 0.74
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.46
Consensus pattern (25 bp):
GTAAGTTATGTAAGTTATGTATTAA
Found at i:17783100 original size:16 final size:17
Alignment explanation
Indices: 17783014--17783100 Score: 74
Period size: 16 Copynumber: 5.2 Consensus size: 17
17783004 TAAGGGATAT
*
17783014 TTATGTAAGTTATGTAAG
1 TTATGTAA-TTAAGTAAG
*
17783032 TTATGT-ATTAAGTAAA
1 TTATGTAATTAAGTAAG
*
17783048 TTATGTAAGTTATGT-A-
1 TTATGTAA-TTAAGTAAG
*
17783064 TTATGTAAATTATGTAAG
1 TTATGT-AATTAAGTAAG
*
17783082 TTATGT-ATTAAGTAGG
1 TTATGTAATTAAGTAAG
17783098 TTA
1 TTA
17783101 AGTTATGTCT
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
16 36 0.61
17 6 0.10
18 17 0.29
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (17 bp):
TTATGTAATTAAGTAAG
Found at i:17783118 original size:16 final size:16
Alignment explanation
Indices: 17783023--17783125 Score: 84
Period size: 16 Copynumber: 6.0 Consensus size: 16
17783013 TTTATGTAAG
17783023 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
* *
17783039 TTAAGTAAATTATGTAA
1 TTATGTAAGTTATGT-A
17783056 GTTATGT-A-TTATGTAAA
1 -TTATGTAAGTTATGT--A
17783073 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
17783089 TTAAGTAGGTTAAGTTATGTC
1 TT-A-T--G-TAAGTTATGTA
17783110 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
17783126 AGTTATTGTT
Statistics
Matches: 72, Mismatches: 5, Indels: 20
0.74 0.05 0.21
Matches are distributed among these distances:
16 38 0.53
17 7 0.10
18 12 0.17
19 1 0.01
20 2 0.03
21 12 0.17
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:17783121 original size:21 final size:21
Alignment explanation
Indices: 17783078--17783121 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
17783068 GTAAATTATG
*
17783078 TAAGTTATGTATTAAGTAGGT
1 TAAGTTATGTATTAAGTAAGT
* *
17783099 TAAGTTATGTCTTATGTAAGT
1 TAAGTTATGTATTAAGTAAGT
17783120 TA
1 TA
17783122 TGTAAGTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.45
Consensus pattern (21 bp):
TAAGTTATGTATTAAGTAAGT
Found at i:17783206 original size:12 final size:12
Alignment explanation
Indices: 17783186--17783250 Score: 89
Period size: 12 Copynumber: 5.6 Consensus size: 12
17783176 TATTGTAATA
17783186 TAAGTTATTATG
1 TAAGTTATTATG
*
17783198 TAGGTTATTATG
1 TAAGTTATTATG
17783210 TAAGTT-TT-TG
1 TAAGTTATTATG
17783220 TAAGTTATTATG
1 TAAGTTATTATG
* *
17783232 TAGGATATTATG
1 TAAGTTATTATG
17783244 TAAGTTA
1 TAAGTTA
17783251 GGATATTATG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
10 8 0.18
11 4 0.09
12 33 0.73
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (12 bp):
TAAGTTATTATG
Found at i:17783226 original size:22 final size:24
Alignment explanation
Indices: 17783186--17783250 Score: 89
Period size: 22 Copynumber: 2.8 Consensus size: 24
17783176 TATTGTAATA
*
17783186 TAAGTTATTATGTAGGTTATTATG
1 TAAGTTATTATGTAAGTTATTATG
17783210 TAAGTT-TT-TGTAAGTTATTATG
1 TAAGTTATTATGTAAGTTATTATG
* *
17783232 TAGGATATTATGTAAGTTA
1 TAAGTTATTATGTAAGTTA
17783251 GGATATTATG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 17 0.47
23 4 0.11
24 15 0.42
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (24 bp):
TAAGTTATTATGTAAGTTATTATG
Found at i:17783264 original size:12 final size:12
Alignment explanation
Indices: 17783191--17783268 Score: 52
Period size: 12 Copynumber: 6.2 Consensus size: 12
17783181 TAATATAAGT
*
17783191 TATTATGTAGGT
1 TATTATGTAGGA
*
17783203 TATTATGTAAG-
1 TATTATGTAGGA
* * *
17783214 T-TTTTGTAAGT
1 TATTATGTAGGA
17783225 TATTATGTAGGA
1 TATTATGTAGGA
17783237 TATTATGTAAGTTAGGA
1 TATTA--T--G-TAGGA
17783254 TATTATGTAGGA
1 TATTATGTAGGA
17783266 TAT
1 TAT
17783269 ATAATTTTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
10 8 0.15
11 2 0.04
12 30 0.56
13 1 0.02
14 1 0.02
15 1 0.02
16 1 0.02
17 10 0.19
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (12 bp):
TATTATGTAGGA
Found at i:17783357 original size:9 final size:9
Alignment explanation
Indices: 17783343--17783399 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
17783333 ATTATATATT
*
17783343 TAAATTTTG
1 TAAATTATG
17783352 TAAATTATG
1 TAAATTATG
17783361 --AATTATG
1 TAAATTATG
17783368 TAAATTATG
1 TAAATTATG
* *
17783377 TAAAATACG
1 TAAATTATG
*
17783386 TAAGTTATG
1 TAAATTATG
17783395 -AAATT
1 TAAATT
17783400 TGAACTTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
7 7 0.18
8 4 0.10
9 28 0.72
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (9 bp):
TAAATTATG
Found at i:17783369 original size:16 final size:16
Alignment explanation
Indices: 17783345--17783376 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17783335 TATATATTTA
*
17783345 AATTTTGTAAATTATG
1 AATTATGTAAATTATG
17783361 AATTATGTAAATTATG
1 AATTATGTAAATTATG
17783377 TAAAATACGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (16 bp):
AATTATGTAAATTATG
Found at i:17787907 original size:23 final size:23
Alignment explanation
Indices: 17787881--17787956 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
17787871 TAAACCATAA
17787881 ACTATAAAACCCTTAAACTACAT
1 ACTATAAAACCCTTAAACTACAT
**
17787904 ACTATAGTAAA-TATTAAACATTA-A-
1 ACTATA--AAACCCTTAAAC--TACAT
17787928 ACTATAAAACCCTTAAACTACAT
1 ACTATAAAACCCTTAAACTACAT
17787951 ACTATA
1 ACTATA
17787957 GCCCTTAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
21 2 0.05
22 4 0.10
23 18 0.43
24 12 0.29
25 4 0.10
26 2 0.05
ACGTcount: A:0.50, C:0.20, G:0.01, T:0.29
Consensus pattern (23 bp):
ACTATAAAACCCTTAAACTACAT
Found at i:17788427 original size:41 final size:41
Alignment explanation
Indices: 17788382--17788581 Score: 321
Period size: 41 Copynumber: 4.9 Consensus size: 41
17788372 AGGCCTGAGA
*
17788382 ATTAGCGGCGCAT-CAATAAAAACGCCGCTAAAGCCCAGAAC
1 ATTAGCGGCGCTTAC-ATAAAAACGCCGCTAAAGCCCAGAAC
* * *
17788423 ATTAGCGGCGCTTACTTAAAAATGCCGCTAAATCCCAGAAC
1 ATTAGCGGCGCTTACATAAAAACGCCGCTAAAGCCCAGAAC
17788464 ATTAGCGGCGCTTACATAAAAACGCCGCTAAAGCCCAGAAC
1 ATTAGCGGCGCTTACATAAAAACGCCGCTAAAGCCCAGAAC
* * *
17788505 ATTAGCGGCGTTTAGATAAAAACGCCGCTAAAGCCCATAAC
1 ATTAGCGGCGCTTACATAAAAACGCCGCTAAAGCCCAGAAC
17788546 ATTAGCGGCGCTTACATAAAAACGCCGCTAAAGCCC
1 ATTAGCGGCGCTTACATAAAAACGCCGCTAAAGCCC
17788582 CCGAAAAGTC
Statistics
Matches: 146, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
41 145 0.99
42 1 0.01
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.17
Consensus pattern (41 bp):
ATTAGCGGCGCTTACATAAAAACGCCGCTAAAGCCCAGAAC
Found at i:17795508 original size:33 final size:33
Alignment explanation
Indices: 17795471--17795544 Score: 148
Period size: 33 Copynumber: 2.2 Consensus size: 33
17795461 TTAATCCATG
17795471 TCCAAACATGCTATTTTAGTTACCATTCAAAAC
1 TCCAAACATGCTATTTTAGTTACCATTCAAAAC
17795504 TCCAAACATGCTATTTTAGTTACCATTCAAAAC
1 TCCAAACATGCTATTTTAGTTACCATTCAAAAC
17795537 TCCAAACA
1 TCCAAACA
17795545 CATTTACCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (33 bp):
TCCAAACATGCTATTTTAGTTACCATTCAAAAC
Found at i:17796166 original size:34 final size:34
Alignment explanation
Indices: 17796123--17796240 Score: 123
Period size: 34 Copynumber: 3.5 Consensus size: 34
17796113 GGATACACGG
*
17796123 GTAACTACACCACACCAGATTGCTCGTTACAGTA
1 GTAACTACACCACACCAGATTGCTCGTCACAGTA
* * *
17796157 GTAACTACACCACACCAGATTGATTGTCAGAGTA
1 GTAACTACACCACACCAGATTGCTCGTCACAGTA
* * * * *
17796191 ATAACTAAACCACACCAG-TTGCTCTGGC-GAGCA
1 GTAACTACACCACACCAGATTGCTC-GTCACAGTA
*
17796224 GTAACTACACCTCACCA
1 GTAACTACACCACACCA
17796241 ACGCATTGAA
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
33 22 0.31
34 48 0.69
ACGTcount: A:0.34, C:0.30, G:0.15, T:0.21
Consensus pattern (34 bp):
GTAACTACACCACACCAGATTGCTCGTCACAGTA
Found at i:17799667 original size:29 final size:29
Alignment explanation
Indices: 17799617--17799676 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
17799607 GAAACTCTTC
* *
17799617 GGACCATGTAAGTCATCTTATCTATTAGA
1 GGACCATGTAAGTAATCCTATCTATTAGA
17799646 GGACCATGTAAGTAATCCTATCTATTAGA
1 GGACCATGTAAGTAATCCTATCTATTAGA
17799675 GG
1 GG
17799677 TATTCATAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (29 bp):
GGACCATGTAAGTAATCCTATCTATTAGA
Found at i:17799915 original size:19 final size:19
Alignment explanation
Indices: 17799878--17799916 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
17799868 TTTAAGTTTC
*
17799878 ATATAATAAAAATTATATA
1 ATATAATAAAAAATATATA
17799897 ATAT-ATAAAAAATATTATA
1 ATATAATAAAAAATA-TATA
17799916 A
1 A
17799917 ACTAGTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
ATATAATAAAAAATATATA
Found at i:17810718 original size:25 final size:25
Alignment explanation
Indices: 17810671--17810741 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
17810661 TATGTAGAAT
17810671 AACTTAAAATAAAATAATATATAAAGC
1 AACTTAAAAT--AATAATATATAAAGC
*
17810698 AACTTAAAATAATAATCTATAAAGC
1 AACTTAAAATAATAATATATAAAGC
* *
17810723 AAGTTAAAATAATCATATA
1 AACTTAAAATAATAATATA
17810742 CAAATTTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 30 0.75
27 10 0.25
ACGTcount: A:0.59, C:0.08, G:0.04, T:0.28
Consensus pattern (25 bp):
AACTTAAAATAATAATATATAAAGC
Found at i:17815252 original size:12 final size:12
Alignment explanation
Indices: 17815235--17815265 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
17815225 CCTCACATGC
17815235 TCGTGTGCTAGG
1 TCGTGTGCTAGG
17815247 TCGTGTGCTAGG
1 TCGTGTGCTAGG
*
17815259 CCGTGTG
1 TCGTGTG
17815266 AAGCTACTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.19, G:0.42, T:0.32
Consensus pattern (12 bp):
TCGTGTGCTAGG
Found at i:17816923 original size:20 final size:21
Alignment explanation
Indices: 17816888--17816929 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
17816878 CCATACATTT
17816888 AACAATTTAACACATTTATCA
1 AACAATTTAACACATTTATCA
* *
17816909 AACAATTT-GCACATTTCTCA
1 AACAATTTAACACATTTATCA
17816929 A
1 A
17816930 TTTAACCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.33
Consensus pattern (21 bp):
AACAATTTAACACATTTATCA
Found at i:17831828 original size:43 final size:42
Alignment explanation
Indices: 17831767--17831904 Score: 136
Period size: 42 Copynumber: 3.5 Consensus size: 42
17831757 AGTGATTCGA
17831767 GGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATACAGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATAC-GT
*
17831810 GGAATCAGCACTTAGCAA---C---CAC---CAATGA-ATCGG
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATA-CGT
* *
17831843 GGAATCAGCACTTAGTAACCCCTTTCACATTTAA-GATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATAC-GT
*
17831885 GGGATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
17831905 ACCAATGAAT
Statistics
Matches: 77, Mismatches: 6, Indels: 25
0.71 0.06 0.23
Matches are distributed among these distances:
33 19 0.25
34 7 0.09
36 1 0.01
37 3 0.04
39 3 0.04
40 1 0.01
41 3 0.04
42 22 0.29
43 18 0.23
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATACGT
Found at i:17831863 original size:76 final size:75
Alignment explanation
Indices: 17831732--17831941 Score: 339
Period size: 76 Copynumber: 2.8 Consensus size: 75
17831722 TCTGTTATCG
* * * *
17831732 GTGGATTCAGCACTTAGCAACCACCAGTGATTCGAGGAATCAGCACTTAGCAACCCCTTTCACAT
1 GTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCACAT
17831797 TCAATGATACA
66 TCAA-GATACA
*
17831808 GTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGTAACCCCTTTCACAT
1 GTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCACAT
* *
17831873 TTAAGATACG
66 TCAAGATACA
*
17831883 GTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
1 GTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
17831942 AGGGGAATCA
Statistics
Matches: 125, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
75 62 0.50
76 63 0.50
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (75 bp):
GTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCACAT
TCAAGATACA
Found at i:17831912 original size:75 final size:76
Alignment explanation
Indices: 17831730--17831941 Score: 338
Period size: 75 Copynumber: 2.8 Consensus size: 76
17831720 TATCTGTTAT
* * *
17831730 CGGT-GGATTCAGCACTTAGCAACCACCAGTGATTCGAGGAATCAGCACTTAGCAACCCCTTTCA
1 CGGTGGGA-TCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCA
17831794 CATTCAATGATA
65 CATTCAATGATA
* * *
17831806 CAGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGTAACCCCTTTCAC
1 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
17831871 ATTTAA-GATA
66 ATTCAATGATA
17831881 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
1 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
17831942 AGGGGAATCA
Statistics
Matches: 125, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
75 62 0.50
76 61 0.49
77 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (76 bp):
CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTCAATGATA
Found at i:17831965 original size:102 final size:102
Alignment explanation
Indices: 17831841--17832041 Score: 357
Period size: 102 Copynumber: 2.0 Consensus size: 102
17831831 CCAATGAATC
* * * * *
17831841 GGGGAATCAGCACTTAGTAACCCCTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTAGAATCAGCACTTAGCAACCA
17831906 CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTA
66 CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTA
17831943 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTAGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTAGAATCAGCACTTAGCAACCA
17832008 CCAATGAATCGGGGAATCAGCACTTAGCAACCCC
66 CCAATGAATCGGGGAATCAGCACTTAGCAACCCC
17832042 CTTTATATTC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 94 1.00
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTAGAATCAGCACTTAGCAACCA
CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTA
Found at i:17839366 original size:33 final size:33
Alignment explanation
Indices: 17839328--17839455 Score: 121
Period size: 33 Copynumber: 3.6 Consensus size: 33
17839318 ATGATACGGT
17839328 GGAATCAGCACTTAACAACCACCAATGAATCGG
1 GGAATCAGCACTTAACAACCACCAATGAATCGG
* * *
17839361 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGG
1 GGAATCAGCACTTAACAACCAC---CA-A--TGA-AT-CGG
* *
17839402 TGGGATCAGCACTTAGCAACCACCAATGAATCGG
1 -GGAATCAGCACTTAACAACCACCAATGAATCGG
*
17839436 GGAATCATCACTTAACAACC
1 GGAATCAGCACTTAACAACC
17839456 CCTTGGGGGA
Statistics
Matches: 77, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
33 37 0.48
34 3 0.04
35 2 0.03
36 4 0.05
37 1 0.01
38 1 0.01
39 4 0.05
40 2 0.03
41 3 0.04
42 20 0.26
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (33 bp):
GGAATCAGCACTTAACAACCACCAATGAATCGG
Found at i:17839374 original size:76 final size:75
Alignment explanation
Indices: 17839248--17839459 Score: 325
Period size: 76 Copynumber: 2.8 Consensus size: 75
17839238 TATCCGTTAT
* * * *
17839248 CGGTGGATTCAGCACTTATCAACCACCAGTGATTCGGGGAATCAACACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAACAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTTCAC
17839313 ATTCAATGATA
66 ATTCAA-GATA
*
17839324 CGGTGGAATCAGCACTTAACAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAACAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTTCAC
*
17839389 ATTTAAGATA
66 ATTCAAGATA
* * * *
17839399 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCATCACTTAACAACCCCTT
1 CGGTGGAATCAGCACTTAACAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCTT
17839460 GGGGGAATCA
Statistics
Matches: 126, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
75 61 0.48
76 65 0.52
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAACAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTTCAC
ATTCAAGATA
Found at i:17839481 original size:102 final size:102
Alignment explanation
Indices: 17839359--17839559 Score: 312
Period size: 102 Copynumber: 2.0 Consensus size: 102
17839349 CCAATGAATC
* * * *
17839359 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGATGGAATCAGCACTTAGCAACCA
* *
17839424 CCAATGAATCGGGGAATCATCACTTAACAACCCCTTG
66 CCAATGAATCGGGAAATCAGCACTTAACAACCCCTTG
*
17839461 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGATGGAATCAGCACTTCGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGATGGAATCAGCACTTAGCAACCA
* * *
17839526 CCAATGAATTGGGAAATTAGCACTTAGCAACCCC
66 CCAATGAATCGGGAAATCAGCACTTAACAACCCC
17839560 CTTTATATTT
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 89 1.00
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGATGGAATCAGCACTTAGCAACCA
CCAATGAATCGGGAAATCAGCACTTAACAACCCCTTG
Found at i:17844971 original size:25 final size:25
Alignment explanation
Indices: 17844910--17845050 Score: 106
Period size: 25 Copynumber: 5.5 Consensus size: 25
17844900 TCATGTATGT
* * * *
17844910 TCATACGAGCTATGAATCAGTATGC
1 TCATACGAGCTGTAAATCAGGAAGC
* *
17844935 TC-TCATGAGCTGTGAATCAGGAAGC
1 TCAT-ACGAGCTGTAAATCAGGAAGC
* *
17844960 TCATACGAGCTGCAAAT-TGAGAAGC
1 TCATACGAGCTGTAAATCAG-GAAGC
* * *
17844985 TCATACTACAAGCTGCAAATCAAGAAGC
1 TC--A-TACGAGCTGTAAATCAGGAAGC
*
17845013 TCATACGAGCTGTAAATCGGGAAGC
1 TCATACGAGCTGTAAATCAGGAAGC
*
17845038 TCATACGTGCTGT
1 TCATACGAGCTGT
17845051 GGTGTGTCCG
Statistics
Matches: 93, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
24 2 0.02
25 68 0.73
26 2 0.02
27 1 0.01
28 20 0.22
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (25 bp):
TCATACGAGCTGTAAATCAGGAAGC
Found at i:17846841 original size:14 final size:14
Alignment explanation
Indices: 17846822--17846851 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17846812 TTCTCCTCAG
17846822 TCTCACAAATCAAA
1 TCTCACAAATCAAA
*
17846836 TCTCACGAATCAAA
1 TCTCACAAATCAAA
17846850 TC
1 TC
17846852 AACCCCGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.30, G:0.03, T:0.23
Consensus pattern (14 bp):
TCTCACAAATCAAA
Found at i:17851128 original size:28 final size:28
Alignment explanation
Indices: 17851096--17851150 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
17851086 ACCAAAGTTT
17851096 ATAAATAAAACAGACAGAAAATGCAAAA
1 ATAAATAAAACAGACAGAAAATGCAAAA
*
17851124 ATAAATAAAATAGACAGAAAATGCAAA
1 ATAAATAAAACAGACAGAAAATGCAAA
17851151 CATTTCATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (28 bp):
ATAAATAAAACAGACAGAAAATGCAAAA
Found at i:17852535 original size:25 final size:25
Alignment explanation
Indices: 17852466--17852535 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
17852456 GTTGTGAATT
*
17852466 GGGAAGCTCATACAAGCTGCAAATC
1 GGGAAGCTCATACAAGCTGTAAATC
* *
17852491 AGGAAGCTCATACGAGCTGTAAATC
1 GGGAAGCTCATACAAGCTGTAAATC
17852516 GGGAAGCTCATACAAGCTGT
1 GGGAAGCTCATACAAGCTGT
17852536 GGTTTGTCCA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (25 bp):
GGGAAGCTCATACAAGCTGTAAATC
Found at i:17856897 original size:18 final size:17
Alignment explanation
Indices: 17856876--17856926 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 17
17856866 TTTTTTAATT
17856876 TTTTGTAATATTTTATAA
1 TTTT-TAATATTTTATAA
*
17856894 TTTTTCATATCTTTATAA
1 TTTTTAATAT-TTTATAA
17856912 TTTTTAATGATTTTA
1 TTTTTAAT-ATTTTA
17856927 AATAGAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 5 0.17
18 22 0.76
19 2 0.07
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (17 bp):
TTTTTAATATTTTATAA
Found at i:17858991 original size:17 final size:17
Alignment explanation
Indices: 17858969--17859002 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
17858959 CTGCATTGCT
17858969 TCCATTTCTAACTGGTG
1 TCCATTTCTAACTGGTG
17858986 TCCATTTCTAACTGGTG
1 TCCATTTCTAACTGGTG
17859003 GTGGTCGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.41
Consensus pattern (17 bp):
TCCATTTCTAACTGGTG
Found at i:17859514 original size:27 final size:27
Alignment explanation
Indices: 17859476--17859723 Score: 343
Period size: 27 Copynumber: 9.2 Consensus size: 27
17859466 TTACATTGTT
* *
17859476 ATGATCGAAATACCCTCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* **
17859503 ATGACCGAAATATCCATATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
17859530 ATGATCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
17859557 ATGACCAAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
17859584 ATGACCAAAATACCCTCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
17859611 ATGATCGAAATACCCCTATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
17859638 ATGATCGAAATACCCCCAAAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
17859665 ATGACTGAAATACCCCTATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
17859692 ATGACCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
17859719 ATGAC
1 ATGAC
17859724 TGTTATATCC
Statistics
Matches: 194, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 194 1.00
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.19
Consensus pattern (27 bp):
ATGACCGAAATACCCCCATAGGGTAAA
Found at i:17861633 original size:22 final size:20
Alignment explanation
Indices: 17861608--17861654 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
17861598 GTTACTAATT
*
17861608 TAATTTAACTTAAAATTTTAAA
1 TAATTTAA--TAAAATATTAAA
17861630 TAATTTAATAAAATATTAAA
1 TAATTTAATAAAATATTAAA
17861650 -AATTT
1 TAATTT
17861655 CAATTATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 5 0.21
20 11 0.46
22 8 0.33
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATTTAATAAAATATTAAA
Found at i:17873205 original size:16 final size:16
Alignment explanation
Indices: 17873184--17873235 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
17873174 TTTGGTTCGC
17873184 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
17873200 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
17873216 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
17873232 TGTA
1 TGTA
17873236 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:17873282 original size:45 final size:44
Alignment explanation
Indices: 17873216--17873313 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
17873206 GGATTAGAGG
*
17873216 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
17873261 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
*
17873305 TGGAATGGA
1 TGTAATGGA
17873314 GTTGTAATAG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 24 0.51
45 23 0.49
ACGTcount: A:0.33, C:0.05, G:0.30, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:17873493 original size:18 final size:18
Alignment explanation
Indices: 17873470--17873616 Score: 91
Period size: 18 Copynumber: 8.6 Consensus size: 18
17873460 TTATTATTAA
17873470 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
17873488 ATATAATTTAAT-AAAAT
1 ATATAATTTAATAAAAAT
*
17873505 ATATGAATTTACT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * *
17873523 -TATAATAT-ATAATATT
1 ATATAATTTAATAAAAAT
* * *
17873539 ATAAAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
17873558 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
*
17873570 ATATAATTTAACAAAAAT
1 ATATAATTTAATAAAAAT
*
17873588 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
17873606 AT-TAATATTAA
1 ATATAAT-TTAA
17873617 ATATTCTTAT
Statistics
Matches: 99, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
12 1 0.01
13 5 0.05
14 2 0.02
15 3 0.03
16 8 0.08
17 26 0.26
18 49 0.49
19 5 0.05
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:17873530 original size:41 final size:40
Alignment explanation
Indices: 17873485--17873725 Score: 137
Period size: 38 Copynumber: 6.0 Consensus size: 40
17873475 ATTTAATAAA
17873485 AATATATAATTTAATAAAATATATGAATTTACTAAAATTAT
1 AATATATAATTTAATAAAATATAT-AATTTACTAAAATTAT
*
17873526 AATATATAATATT-AT-AAA-ATATAATTTA-AAATAATTATT
1 AATATATAAT-TTAATAAAATATATAATTTACTAA-AATTA-T
* * *
17873565 ATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTAT
1 A--ATATATAATTTAA-TAAAATATATAATTTACTAAAATTAT
* *** *
17873608 --TA-AT-ATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATA-AAATATAT-AATTTACTAAAATTAT
* *
17873646 AATATATAA--TACTATAAA-ATATAATTTA-AAATAATTATT
1 AATATATAATTTAATA-AAATATATAATTTACTAA-AATTA-T
* * *
17873685 ATTAAATATAATTTAACAAAAATATATAATTTAATAAAATT
1 A--ATATATAATTTAA-TAAAATATATAATTTACTAAAATT
17873726 CTTAGTATTA
Statistics
Matches: 152, Mismatches: 23, Indels: 47
0.68 0.10 0.21
Matches are distributed among these distances:
36 1 0.01
37 14 0.09
38 37 0.24
39 13 0.09
40 11 0.07
41 30 0.20
42 3 0.02
43 9 0.06
44 30 0.20
45 4 0.03
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (40 bp):
AATATATAATTTAATAAAATATATAATTTACTAAAATTAT
Found at i:17873541 original size:15 final size:15
Alignment explanation
Indices: 17873521--17873576 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
17873511 ATTTACTAAA
*
17873521 ATTATAATATATAAT
1 ATTATAAAATATAAT
17873536 ATTATAAAATAT-A-
1 ATTATAAAATATAAT
*
17873549 ATT-TAAAATA-ATT
1 ATTATAAAATATAAT
*
17873562 ATTATTAAATATAAT
1 ATTATAAAATATAAT
17873577 TTAACAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 7 0.21
13 6 0.18
14 7 0.21
15 13 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATAAAATATAAT
Found at i:17873571 original size:26 final size:25
Alignment explanation
Indices: 17873531--17873709 Score: 94
Period size: 26 Copynumber: 7.3 Consensus size: 25
17873521 ATTATAATAT
*
17873531 ATAATATTATAAAATATAATTTAAA
1 ATAATATTATTAAATATAATTTAAA
17873556 ATAATTATTATTAAATATAATTTAACA
1 ATAA-TATTATTAAATATAATTTAA-A
* *
17873583 AAAATA-TA-T-AATTTAA--TAAA
1 ATAATATTATTAAATATAATTTAAA
* * *
17873603 ATTATTAATATTAAATAT--TCTT-AT
1 A-TAATATTATTAAATATAAT-TTAAA
* *
17873627 ATGAAT-TTACTAAAATCATAA--T-AT
1 AT-AATATTA-TTAAAT-ATAATTTAAA
* *
17873651 ATAATACTATAAAATATAATTTAAA
1 ATAATATTATTAAATATAATTTAAA
17873676 ATAATTATTATTAAATATAATTTAACA
1 ATAA-TATTATTAAATATAATTTAA-A
*
17873703 AAAATAT
1 ATAATAT
17873710 ATAATTTAAT
Statistics
Matches: 119, Mismatches: 15, Indels: 39
0.69 0.09 0.23
Matches are distributed among these distances:
20 2 0.02
21 6 0.05
22 6 0.05
23 19 0.16
24 22 0.18
25 14 0.12
26 42 0.35
27 8 0.07
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (25 bp):
ATAATATTATTAAATATAATTTAAA
Found at i:17873650 original size:120 final size:120
Alignment explanation
Indices: 17873470--17873746 Score: 452
Period size: 120 Copynumber: 2.3 Consensus size: 120
17873460 TTATTATTAA
* *** *
17873470 ATATAATTTAATAAAAATATATAAT-TT-AATA-AAATATATGAATTTACTAAAATTATAATATA
1 ATATAATTTAATAAAATTAT-TAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATA
*
17873532 TAATATTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAAAAT
65 TAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAAAAT
17873588 ATATAATTTAATAAAATTATTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTATTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
17873653 AATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAAAAT
66 AATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAAAAT
* *
17873708 ATATAATTTAATAAAATTCTTAGTATTAAATATTCTTAT
1 ATATAATTTAATAAAATTATTAATATTAAATATTCTTAT
17873747 GATTGTATCA
Statistics
Matches: 148, Mismatches: 8, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
117 4 0.03
118 21 0.14
119 4 0.03
120 119 0.80
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.42
Consensus pattern (120 bp):
ATATAATTTAATAAAATTATTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAAAAT
Found at i:17873722 original size:59 final size:59
Alignment explanation
Indices: 17873526--17873724 Score: 228
Period size: 59 Copynumber: 3.3 Consensus size: 59
17873516 CTAAAATTAT
17873526 AATATATAATATTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
1 AATATATAATATTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
* * * * ** *
17873585 AATATATAAT-TTAATAAAATTATTAATATT-AAAT-ATTCTTATATGAATTTACTAAAATC-AT
1 AATATATAATATT-ATAAAA-TA-TAAT-TTAAAATAATTATTAT-TAAATATAATTTAA-CAAA
*
17873646 AATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
1 AATATATAATATTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
17873705 AATATATAAT-TTAATAAAAT
1 AATATATAATATT-ATAAAAT
17873725 TCTTAGTATT
Statistics
Matches: 113, Mismatches: 16, Indels: 22
0.75 0.11 0.15
Matches are distributed among these distances:
58 6 0.05
59 51 0.45
60 18 0.16
61 34 0.30
62 4 0.04
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (59 bp):
AATATATAATATTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
Found at i:17880775 original size:23 final size:23
Alignment explanation
Indices: 17880749--17880801 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
17880739 ATAAGTGCAA
*
17880749 CACTGATATGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
*
17880772 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
*
17880795 CATTGAT
1 CACTGAT
17880802 CAATAACACT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATACGTAGCCGAAGCTAC
Found at i:17884799 original size:16 final size:16
Alignment explanation
Indices: 17884778--17884822 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
17884768 AGACAGTAAG
17884778 CAAAGTGCAAGCCTGT
1 CAAAGTGCAAGCCTGT
**
17884794 CAAAGTGTGAGCCTGT
1 CAAAGTGCAAGCCTGT
* *
17884810 CGAATTGCAAGCC
1 CAAAGTGCAAGCC
17884823 AAAGTGGTGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (16 bp):
CAAAGTGCAAGCCTGT
Found at i:17886729 original size:57 final size:60
Alignment explanation
Indices: 17886636--17886783 Score: 187
Period size: 57 Copynumber: 2.5 Consensus size: 60
17886626 ACCATAATTC
* * *
17886636 GGATTACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCAAGAGGGCTATATC-A-A
1 GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCAAGAGGGCTATATCAATA
***
17886694 -GATCACCCGTCCGGGCTAGAT-CTTTTTCACACATATTCTTTGGGAGGGCTATATCAAGATA
1 GGATCACCCGTCCGGGCTAGATCCTTTTTC-CACATATTCTTCAAGAGGGCTATATC-A-ATA
17886755 GGATCACCCGTCCGGGCTAGATCCTTTTT
1 GGATCACCCGTCCGGGCTAGATCCTTTTT
17886784 ACCGTCAATT
Statistics
Matches: 77, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
56 6 0.08
57 42 0.55
60 1 0.01
61 1 0.01
62 21 0.27
63 6 0.08
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (60 bp):
GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCAAGAGGGCTATATCAATA
Found at i:17889499 original size:22 final size:21
Alignment explanation
Indices: 17889459--17889523 Score: 69
Period size: 22 Copynumber: 3.1 Consensus size: 21
17889449 AGGCAAGCTT
* *
17889459 ATTGGAC-CCAAAGTTGCAAC
1 ATTGGACGACAAAGTCGCAAC
17889479 ATTGGACGATCAAAGTCGCAAC
1 ATTGGACGA-CAAAGTCGCAAC
* * *
17889501 ATTGGCCTACAAAGTCGCGAC
1 ATTGGACGACAAAGTCGCAAC
17889522 AT
1 AT
17889524 CCACTCACCA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
20 7 0.18
21 13 0.34
22 18 0.47
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.20
Consensus pattern (21 bp):
ATTGGACGACAAAGTCGCAAC
Found at i:17889515 original size:21 final size:22
Alignment explanation
Indices: 17889467--17889523 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
17889457 TTATTGGACC
*
17889467 CAAAGTTGCAACATTGGACGAT
1 CAAAGTCGCAACATTGGACGAT
* *
17889489 CAAAGTCGCAACATTGGCCTA-
1 CAAAGTCGCAACATTGGACGAT
*
17889510 CAAAGTCGCGACAT
1 CAAAGTCGCAACAT
17889524 CCACTCACCA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 13 0.42
22 18 0.58
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (22 bp):
CAAAGTCGCAACATTGGACGAT
Found at i:17889648 original size:57 final size:57
Alignment explanation
Indices: 17889532--17889663 Score: 201
Period size: 57 Copynumber: 2.3 Consensus size: 57
17889522 ATCCACTCAC
* *
17889532 CAAAGTCACAACATTCAAGCCAATAGCTTGAAGATGGAAGTTGATCCCAAACAATAG
1 CAAAGTCACAACATTCAAGCCAATAGCCTGAAGATGGAAGTTGATCCCAAACAACAG
* * *
17889589 CAAAATCACAACATTCAAGCCAGTAGCCTGAAGATGGAAGTTGATCCCAAACAGCAG
1 CAAAGTCACAACATTCAAGCCAATAGCCTGAAGATGGAAGTTGATCCCAAACAACAG
* *
17889646 CAAAGTCGCGACATTCAA
1 CAAAGTCACAACATTCAA
17889664 CAAGTCTCAA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 67 1.00
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.17
Consensus pattern (57 bp):
CAAAGTCACAACATTCAAGCCAATAGCCTGAAGATGGAAGTTGATCCCAAACAACAG
Found at i:17898455 original size:8 final size:8
Alignment explanation
Indices: 17898444--17898473 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
17898434 TTATTTTTTT
17898444 AATTTTAA
1 AATTTTAA
17898452 AATTTTAA
1 AATTTTAA
17898460 AATTTTAA
1 AATTTTAA
17898468 AATTTT
1 AATTTT
17898474 TTTAAAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
AATTTTAA
Found at i:17898490 original size:15 final size:15
Alignment explanation
Indices: 17898470--17898513 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
17898460 AATTTTAAAA
17898470 TTTTTTTAAAATACT
1 TTTTTTTAAAATACT
* **
17898485 TTTTTTTAAATTTTT
1 TTTTTTTAAAATACT
17898500 TTATTTTTAAAATA
1 TT-TTTTTAAAATA
17898514 AATTTTTAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTTTTAAAATACT
Found at i:17907146 original size:31 final size:31
Alignment explanation
Indices: 17907080--17907148 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
17907070 AGTTAATCCT
* * *
17907080 TGAATTTGACAATTATTCTCATATTGTGATT
1 TGAACTTGACAATTATTCTCATATTGGGATC
* *
17907111 TGAACTTGACAATTATT-TGTATATTGGGGTC
1 TGAACTTGACAATTATTCT-CATATTGGGATC
17907142 TGAACTT
1 TGAACTT
17907149 TAGAGTATTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 1 0.03
31 31 0.97
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (31 bp):
TGAACTTGACAATTATTCTCATATTGGGATC
Found at i:17909898 original size:20 final size:20
Alignment explanation
Indices: 17909875--17909912 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
17909865 CTACCTGTAA
*
17909875 AAGTTCACTTCTACCCATTC
1 AAGTCCACTTCTACCCATTC
17909895 AAGTCCACTTCTACCCAT
1 AAGTCCACTTCTACCCAT
17909913 ACATCTTGTC
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:0.26, C:0.37, G:0.05, T:0.32
Consensus pattern (20 bp):
AAGTCCACTTCTACCCATTC
Found at i:17912143 original size:3 final size:3
Alignment explanation
Indices: 17912135--17912171 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
17912125 TAAATACAAT
**
17912135 ATA ATA ATA CCA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
17912172 ACAAGGTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Done.