Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr6
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: 26303135
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 1968672 characters in sequence are not A, C, G, or T
File 58 of 66
Found at i:21804134 original size:23 final size:22
Alignment explanation
Indices: 21804108--21804150 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
21804098 AAATTTTATT
21804108 CATAAGAAAACCAGAATAAAAGC
1 CATAAGAAAACCAG-ATAAAAGC
**
21804131 CATAATTAAACCAGATAAAA
1 CATAAGAAAACCAGATAAAA
21804151 TAGCAACAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.60, C:0.16, G:0.09, T:0.14
Consensus pattern (22 bp):
CATAAGAAAACCAGATAAAAGC
Found at i:21811969 original size:31 final size:31
Alignment explanation
Indices: 21811889--21811969 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 31
21811879 TTAAATTGTT
* *
21811889 TTCTTTTATTTCCTTTTTATTATTTTTTATT
1 TTCTTTTATTTCCTTTTTTTTATTTTTTATC
* * * *
21811920 TTGTTTTGTTGCCCTTTTTTTAATTTTTT-TC
1 TTCTTTTATT-TCCTTTTTTTTATTTTTTATC
*
21811951 TTCTCTTATTTCCTTTTTT
1 TTCTTTTATTTCCTTTTTT
21811970 CCTTACTTTT
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
30 8 0.21
31 16 0.41
32 15 0.38
ACGTcount: A:0.09, C:0.14, G:0.04, T:0.74
Consensus pattern (31 bp):
TTCTTTTATTTCCTTTTTTTTATTTTTTATC
Found at i:21814047 original size:2 final size:2
Alignment explanation
Indices: 21814040--21814065 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21814030 TAAATTTAAA
21814040 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
21814066 TTACTACACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21814171 original size:20 final size:20
Alignment explanation
Indices: 21814146--21814222 Score: 58
Period size: 19 Copynumber: 4.0 Consensus size: 20
21814136 GTTTAATACG
21814146 ATTAAATAAAAATATTTATA
1 ATTAAATAAAAATATTTATA
*
21814166 ATTAAAT-ATAAT-TTTATTA
1 ATTAAATAAAAATATTTA-TA
* *
21814185 TTTAAA-ATTAAA-ATTTATA
1 ATTAAATA-AAAATATTTATA
*
21814204 ATT--ATAAAAATAATTATA
1 ATTAAATAAAAATATTTATA
21814222 A
1 A
21814223 AATAAAACAA
Statistics
Matches: 44, Mismatches: 7, Indels: 14
0.68 0.11 0.22
Matches are distributed among these distances:
17 4 0.09
18 12 0.27
19 15 0.34
20 13 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTAAATAAAAATATTTATA
Found at i:21814234 original size:22 final size:22
Alignment explanation
Indices: 21814209--21814251 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
21814199 TTATAATTAT
*
21814209 AAAAATAATTATAAAATAAAAC
1 AAAAATAATAATAAAATAAAAC
*
21814231 AAAAATAATAATAATATAAAA
1 AAAAATAATAATAAAATAAAA
21814252 TAATCACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAAATAATAATAAAATAAAAC
Found at i:21814424 original size:18 final size:18
Alignment explanation
Indices: 21814403--21814448 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
21814393 TGTCACGTAT
* *
21814403 ACACGTTTAAACACGATA
1 ACACGATTAAACACAATA
21814421 ACACGATTAAACACAATA
1 ACACGATTAAACACAATA
21814439 ACACGATTAA
1 ACACGATTAA
21814449 GTAAACGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.50, C:0.22, G:0.09, T:0.20
Consensus pattern (18 bp):
ACACGATTAAACACAATA
Found at i:21816378 original size:16 final size:16
Alignment explanation
Indices: 21816343--21816377 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
21816333 ATACCTCGTT
21816343 AAAACCTTATAAGGAA
1 AAAACCTTATAAGGAA
21816359 AAAACCTTAT-AGGAA
1 AAAACCTTATAAGGAA
21816374 AAAA
1 AAAA
21816378 ATTCGAGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.60, C:0.11, G:0.11, T:0.17
Consensus pattern (16 bp):
AAAACCTTATAAGGAA
Found at i:21820089 original size:13 final size:13
Alignment explanation
Indices: 21820061--21820113 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 13
21820051 AATAGTAAAT
21820061 ACAT-TAATAA-A
1 ACATATAATAAGA
21820072 ACATATAATAAGA
1 ACATATAATAAGA
* **
21820085 ACATATCAT-TTA
1 ACATATAATAAGA
21820097 A-ATATAATAAGA
1 ACATATAATAAGA
21820109 ACATA
1 ACATA
21820114 CAAAAGCATC
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
11 10 0.31
12 10 0.31
13 12 0.38
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.28
Consensus pattern (13 bp):
ACATATAATAAGA
Found at i:21821184 original size:90 final size:89
Alignment explanation
Indices: 21821027--21821200 Score: 244
Period size: 90 Copynumber: 1.9 Consensus size: 89
21821017 GATATTAAGT
* * *
21821027 CACTTACTTGATTTGCTACAACCAGAAATTAAAGACTAACCATTGAAATCCTTTTAATGCTTTAA
1 CACTTACTTGATTTGCTAAAACCAGAAATTAAAGACTAACCATTGAAATCCTTTTAAAGCTTGAA
21821092 GATGATGAAAACAAAATAATACCAA
66 GATGATG-AAACAAAATAATACCAA
* * **
21821117 CACTTA-TCTGATTTGCTAAAACTAGAGATTAAA-ACCTAATTATTGAAATCCTTTTAAAGCTTG
1 CACTTACT-TGATTTGCTAAAACCAGAAATTAAAGA-CTAACCATTGAAATCCTTTTAAAGCTTG
21821180 AAGATGATGAAACAAAATAAT
64 AAGATGATGAAACAAAATAAT
21821201 TTTAAAACTT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
89 14 0.19
90 61 0.81
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (89 bp):
CACTTACTTGATTTGCTAAAACCAGAAATTAAAGACTAACCATTGAAATCCTTTTAAAGCTTGAA
GATGATGAAACAAAATAATACCAA
Found at i:21826536 original size:2 final size:2
Alignment explanation
Indices: 21826531--21826559 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21826521 TACGTGTGTG
21826531 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21826560 TGATTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21831549 original size:20 final size:21
Alignment explanation
Indices: 21831511--21831549 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
21831501 AATTCAAAAT
* *
21831511 AAAATTATAAAAATTTAATTA
1 AAAATAATAAAAATATAATTA
21831532 AAAATAATAAAAA-ATAAT
1 AAAATAATAAAAATATAAT
21831550 GATTTATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAATAATAAAAATATAATTA
Found at i:21833384 original size:2 final size:2
Alignment explanation
Indices: 21833377--21833401 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21833367 CTCCATATAA
21833377 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
21833402 AATTCTAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:21833486 original size:19 final size:19
Alignment explanation
Indices: 21833462--21833501 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
21833452 TCTTCACTTC
21833462 CTTTTCTTTAATATTGCCT
1 CTTTTCTTTAATATTGCCT
*
21833481 CTTTTCTTTAATATTTCCT
1 CTTTTCTTTAATATTGCCT
21833500 CT
1 CT
21833502 CCATAACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.23, G:0.03, T:0.60
Consensus pattern (19 bp):
CTTTTCTTTAATATTGCCT
Found at i:21844772 original size:16 final size:17
Alignment explanation
Indices: 21844739--21844774 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
21844729 ATGTTTCGTT
*
21844739 AAAACCTTATAAGAAAA
1 AAAACCTCATAAGAAAA
*
21844756 AAAACCTCATAGGAAAA
1 AAAACCTCATAAGAAAA
21844773 AA
1 AA
21844775 TCCAAGTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.64, C:0.14, G:0.08, T:0.14
Consensus pattern (17 bp):
AAAACCTCATAAGAAAA
Found at i:21848827 original size:28 final size:28
Alignment explanation
Indices: 21848795--21848902 Score: 164
Period size: 28 Copynumber: 3.9 Consensus size: 28
21848785 GTTTTTGCAT
* *
21848795 TATTCATCCACTTATGATAGGTTGA-AAG
1 TATTCATCCACTTTTGATGGGTT-ACAAG
* *
21848823 TATTCATCCATTTTTGGTGGGTTACAAG
1 TATTCATCCACTTTTGATGGGTTACAAG
21848851 TATTCATCCACTTTTGATGGGTTACAAG
1 TATTCATCCACTTTTGATGGGTTACAAG
21848879 TATTCATCCACTTTTGATGGGTTA
1 TATTCATCCACTTTTGATGGGTTA
21848903 TCCACTTCTC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
27 1 0.01
28 72 0.99
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.41
Consensus pattern (28 bp):
TATTCATCCACTTTTGATGGGTTACAAG
Found at i:21848972 original size:26 final size:26
Alignment explanation
Indices: 21848943--21849013 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
21848933 ATCCATCTAT
* *
21848943 TTCTGGCGGTAAAATTATCTATCCAC
1 TTCTGGTGGCAAAATTATCTATCCAC
21848969 TTCTGGTGGCAAAATTATCTATCCAC
1 TTCTGGTGGCAAAATTATCTATCCAC
* *
21848995 GTCTAGTGGCAAAATTATC
1 TTCTGGTGGCAAAATTATC
21849014 CTTAATTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (26 bp):
TTCTGGTGGCAAAATTATCTATCCAC
Found at i:21852101 original size:5 final size:5
Alignment explanation
Indices: 21852091--21852115 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
21852081 GAGAAAATGC
21852091 TCCTG TCCTG TCCTG TCCTG TCCTG
1 TCCTG TCCTG TCCTG TCCTG TCCTG
21852116 GCGTGGTGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.20, T:0.40
Consensus pattern (5 bp):
TCCTG
Found at i:21855781 original size:21 final size:21
Alignment explanation
Indices: 21855729--21855782 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
21855719 AATCACTGTG
* *
21855729 TGACTGATTTTTAGGCATTACG
1 TGACTGA-TTTTAGACATTACA
* * *
21855751 TAATTAATTTTAGACATTACA
1 TGACTGATTTTAGACATTACA
21855772 TGACTGATTTT
1 TGACTGATTTT
21855783 TAGGTATTGT
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (21 bp):
TGACTGATTTTAGACATTACA
Found at i:21856016 original size:26 final size:26
Alignment explanation
Indices: 21855954--21856096 Score: 172
Period size: 26 Copynumber: 5.7 Consensus size: 26
21855944 AATGCCTATC
*
21855954 AACTAGTCATGCAATGCCTTATC-AA
1 AACTAGTCACGCAATGCCTTATCAAA
* *
21855979 AACTAGTTACGCAATACCTTATCAAA
1 AACTAGTCACGCAATGCCTTATCAAA
*
21856005 AACTAGTGACGCAATGCC----CAAA
1 AACTAGTCACGCAATGCCTTATCAAA
* *
21856027 ATC-AGTCACGCAATGCCTTATCAGA
1 AACTAGTCACGCAATGCCTTATCAAA
* *
21856052 AACTAGTCACACAATACCTTATCAAA
1 AACTAGTCACGCAATGCCTTATCAAA
21856078 AACTAGTCACGCAATGCCT
1 AACTAGTCACGCAATGCCT
21856097 AAAATCAATC
Statistics
Matches: 98, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
21 13 0.13
22 6 0.06
25 25 0.26
26 54 0.55
ACGTcount: A:0.38, C:0.27, G:0.12, T:0.23
Consensus pattern (26 bp):
AACTAGTCACGCAATGCCTTATCAAA
Found at i:21856037 original size:21 final size:22
Alignment explanation
Indices: 21856001--21856152 Score: 78
Period size: 21 Copynumber: 6.7 Consensus size: 22
21855991 AATACCTTAT
* *
21856001 CAAAAACTAGTGACGCAATGCC
1 CAAAATCTAGTCACGCAATGCC
21856023 CAAAATC-AGTCACGCAATGCC
1 CAAAATCTAGTCACGCAATGCC
* *
21856044 TTATCAGAAA-CTAGTCACACAATACC
1 ----CA-AAATCTAGTCACGCAATGCC
*
21856070 TTATCAAAAACTAGTCACGCAATGCC
1 ----CAAAATCTAGTCACGCAATGCC
* * * **
21856096 TAAAATC-AATCACGTAATGTT
1 CAAAATCTAGTCACGCAATGCC
*
21856117 CAAAATC-AGTCACGTAATGCC
1 CAAAATCTAGTCACGCAATGCC
* *
21856138 TAAAAACTAGTCACG
1 CAAAATCTAGTCACG
21856153 TAATTTTCAA
Statistics
Matches: 104, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
21 45 0.43
22 18 0.17
25 6 0.06
26 35 0.34
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.21
Consensus pattern (22 bp):
CAAAATCTAGTCACGCAATGCC
Found at i:21856067 original size:73 final size:72
Alignment explanation
Indices: 21855958--21856114 Score: 242
Period size: 73 Copynumber: 2.2 Consensus size: 72
21855948 CCTATCAACT
* * * *
21855958 AGTCATGCAATGCCTTATCAAAACTAGTTACGCAATACCTTATCAAAAACTAGTGACGCAATGCC
1 AGTCACGCAATGCCTTATCAAAACTAGTCACACAATACCTTATCAAAAACTAGTCACGCAATGCC
21856023 CAAAATC
66 CAAAATC
21856030 AGTCACGCAATGCCTTATCAGAAACTAGTCACACAATACCTTATCAAAAACTAGTCACGCAATGC
1 AGTCACGCAATGCCTTATCA-AAACTAGTCACACAATACCTTATCAAAAACTAGTCACGCAATGC
*
21856095 CTAAAATC
65 CCAAAATC
* *
21856103 AATCACGTAATG
1 AGTCACGCAATG
21856115 TTCAAAATCA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
72 19 0.25
73 58 0.75
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.23
Consensus pattern (72 bp):
AGTCACGCAATGCCTTATCAAAACTAGTCACACAATACCTTATCAAAAACTAGTCACGCAATGCC
CAAAATC
Found at i:21856136 original size:42 final size:44
Alignment explanation
Indices: 21856073--21856165 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 44
21856063 CAATACCTTA
*
21856073 TCAAAAACTAGTCACGCAATGCCTAAAATC-AATCACGTAATGT
1 TCAAAAACTAGTCACGCAATGCCTAAAAACTAATCACGTAATGT
* * * *
21856116 TCAAAATC-AGTCACGTAATGCCTAAAAACTAGTCACGTAATTT
1 TCAAAAACTAGTCACGCAATGCCTAAAAACTAATCACGTAATGT
21856159 TCAAAAA
1 TCAAAAA
21856166 TCACTAAAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 19 0.44
43 24 0.56
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.25
Consensus pattern (44 bp):
TCAAAAACTAGTCACGCAATGCCTAAAAACTAATCACGTAATGT
Found at i:21856164 original size:22 final size:21
Alignment explanation
Indices: 21856105--21856165 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
21856095 CTAAAATCAA
* *
21856105 TCACGTAATGTTCAAAATCAG
1 TCACGTAATTTTCAAAAACAG
**
21856126 TCACGTAA-TGCCTAAAAACTAG
1 TCACGTAATTTTC-AAAAAC-AG
21856148 TCACGTAATTTTCAAAAA
1 TCACGTAATTTTCAAAAA
21856166 TCACTAAAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 1 0.03
21 13 0.42
22 15 0.48
23 2 0.06
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (21 bp):
TCACGTAATTTTCAAAAACAG
Found at i:21859330 original size:15 final size:15
Alignment explanation
Indices: 21859310--21859340 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
21859300 ACTTCTAAAT
21859310 TGATTTAGCTAAGGA
1 TGATTTAGCTAAGGA
21859325 TGATTTAGCTAAGGA
1 TGATTTAGCTAAGGA
21859340 T
1 T
21859341 AGTGTCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (15 bp):
TGATTTAGCTAAGGA
Found at i:21861041 original size:23 final size:24
Alignment explanation
Indices: 21861015--21861064 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
21861005 AGTATAATCA
*
21861015 TATAAATAAAATTTAT-TATAAGT
1 TATAAATAAAATTTATATATAAAT
* *
21861038 TAT-AGTAATATTTATATATAAAT
1 TATAAATAAAATTTATATATAAAT
21861061 TATA
1 TATA
21861065 TATATAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (24 bp):
TATAAATAAAATTTATATATAAAT
Found at i:21862027 original size:24 final size:24
Alignment explanation
Indices: 21861987--21862032 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
21861977 TCACACTAAT
*
21861987 AAAAAATAAATGAAATAAAAATTA
1 AAAAAATAAATAAAATAAAAATTA
*
21862011 AAAAAAT-AATAATAATACAAAT
1 AAAAAATAAATAA-AATAAAAAT
21862033 CATGCCCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (24 bp):
AAAAAATAAATAAAATAAAAATTA
Found at i:21871098 original size:22 final size:22
Alignment explanation
Indices: 21871056--21871098 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
21871046 GATTTTTGCA
*
21871056 AAAATACAAAAAAAATGTTTTT
1 AAAATACAAAAAAAATATTTTT
* *
21871078 AAAATATAAAAAATATATTTT
1 AAAATACAAAAAAAATATTTT
21871099 CTTGTTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (22 bp):
AAAATACAAAAAAAATATTTTT
Found at i:21871913 original size:14 final size:15
Alignment explanation
Indices: 21871895--21871943 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 15
21871885 ATTTAAAGTG
21871895 ATTTATTTTTTATAT
1 ATTTATTTTTTATAT
21871910 -TTTATATTTTATATAT
1 ATTTAT-TTTT-TATAT
21871926 ATTTATTTATTTATAT
1 ATTTATTT-TTTATAT
21871942 AT
1 AT
21871944 ATACTTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.17
15 4 0.13
16 14 0.47
17 7 0.23
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTATTTTTTATAT
Found at i:21871928 original size:18 final size:18
Alignment explanation
Indices: 21871905--21871956 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
21871895 ATTTATTTTT
21871905 TATATTTTATATTTTATA
1 TATATTTTATATTTTATA
*
21871923 TATATTTATTTATTTATATA
1 TATATTT-TATATTT-TATA
*
21871943 TATACTTTAT-TTTT
1 TATATTTTATATTTT
21871957 TTGATCATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 1 0.03
18 10 0.34
19 8 0.28
20 10 0.34
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
TATATTTTATATTTTATA
Found at i:21882923 original size:12 final size:13
Alignment explanation
Indices: 21882888--21882917 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
21882878 ATCCCGATTT
21882888 TTTTTTTTTATGA
1 TTTTTTTTTATGA
21882901 TTTTTTTTTATGA
1 TTTTTTTTTATGA
21882914 TTTT
1 TTTT
21882918 ATTTATTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (13 bp):
TTTTTTTTTATGA
Found at i:21882925 original size:9 final size:9
Alignment explanation
Indices: 21882913--21882977 Score: 55
Period size: 9 Copynumber: 7.2 Consensus size: 9
21882903 TTTTTTTATG
21882913 ATTTTATTT
1 ATTTTATTT
21882922 A-TTTACTTT
1 ATTTTA-TTT
*
21882931 ATTTAATTT
1 ATTTTATTT
* *
21882940 AATTTATAT
1 ATTTTATTT
21882949 ATTTTA-TT
1 ATTTTATTT
21882957 A-TTTATATT
1 ATTTTAT-TT
21882966 ATTTTAATTT
1 ATTTT-ATTT
21882976 AT
1 AT
21882978 GTGTCTACAG
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
7 4 0.09
8 6 0.14
9 22 0.50
10 10 0.23
11 2 0.05
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (9 bp):
ATTTTATTT
Found at i:21882939 original size:23 final size:23
Alignment explanation
Indices: 21882913--21882956 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
21882903 TTTTTTTATG
* *
21882913 ATTTTATTTATTTACTTTATTTA
1 ATTTAATTTATATACTTTATTTA
*
21882936 ATTTAATTTATATATTTTATT
1 ATTTAATTTATATACTTTATT
21882957 ATTTATATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (23 bp):
ATTTAATTTATATACTTTATTTA
Found at i:21884315 original size:8 final size:7
Alignment explanation
Indices: 21884299--21884330 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
21884289 TTAGAATACT
21884299 AAATATA
1 AAATATA
21884306 AAATTATA
1 AAA-TATA
21884314 AAATATA
1 AAATATA
21884321 AAATATA
1 AAATATA
21884328 AAA
1 AAA
21884331 ATTTAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATATA
Found at i:21884331 original size:15 final size:15
Alignment explanation
Indices: 21884299--21884342 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
21884289 TTAGAATACT
21884299 AAATATAAAAT-TATA
1 AAATATAAAATATA-A
21884314 AAATATAAAATATAA
1 AAATATAAAATATAA
*
21884329 AAAT-TTAAATATAA
1 AAATATAAAATATAA
21884343 TATACAGGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.33
15 16 0.59
16 2 0.07
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATATAAAATATAA
Found at i:21884755 original size:116 final size:115
Alignment explanation
Indices: 21884603--21884835 Score: 441
Period size: 117 Copynumber: 2.0 Consensus size: 115
21884593 AAAAAATAAA
21884603 ATTCACATAATAGAAAAAAAAGAATATGGCAAGTAAAAGATAAAACTCATATATGACATAAC-AA
1 ATTCACATAATAGAAAAAAAAGAATATGGCAAGTAAAAGATAAAACTCATATATGACATAACAAA
21884667 AAAAAAAAGAATATGATTGATGGTTTGTAAAAATTTGGAAAAGAAAATTT
66 AAAAAAAAGAATATGATTGATGGTTTGTAAAAATTTGGAAAAGAAAATTT
21884717 ATNTCACATAATAGAAAAAAAAAGAATATGGCAAGTAAAAGATAAAACTCATATATGACATAACA
1 AT-TCACATAATAG-AAAAAAAAGAATATGGCAAGTAAAAGATAAAACTCATATATGACATAACA
21884782 AAAAAAAAAAGAATATGATTGATGGTTTGTAAAAATTTGGAAAAGAAAATTT
64 AAAAAAAAAAGAATATGATTGATGGTTTGTAAAAATTTGGAAAAGAAAATTT
21884834 AT
1 AT
21884836 AGAAACTTAA
Statistics
Matches: 116, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
114 2 0.02
115 11 0.09
116 49 0.42
117 54 0.47
ACGTcount: A:0.55, C:0.06, G:0.14, T:0.24
Consensus pattern (115 bp):
ATTCACATAATAGAAAAAAAAGAATATGGCAAGTAAAAGATAAAACTCATATATGACATAACAAA
AAAAAAAAGAATATGATTGATGGTTTGTAAAAATTTGGAAAAGAAAATTT
Found at i:21884905 original size:117 final size:117
Alignment explanation
Indices: 21884616--21884893 Score: 310
Period size: 117 Copynumber: 2.4 Consensus size: 117
21884606 CACATAATAG
** * * *
21884616 AAAAAAAAGAATATGGCAAGTAAAAGATAAAACTCATATATGACATAAC-AAAAAAAAAAGAATA
1 AAAAAAAAGAATATAACAAATAAAAGATAAAAATAATATATGACATAACAAAAAAAAAAAGAATA
*** * *
21884680 TGATTGATGGTTTGTAAAAATTTGGAAAAGAAAATTTATNTCACATAATAGA
66 TGATTGATGGTTTGTAAAAATTTGGAAAAGAAAATTTATGAAACATAAAACA
** * * *
21884732 AAAAAAAAGAATATGGCAAGTAAAAGATAAAACTCATATATGACATAACAAAAAAAAAAAGAATA
1 AAAAAAAAGAATATAACAAATAAAAGATAAAAATAATATATGACATAACAAAAAAAAAAAGAATA
*
21884797 TGATTGATGGTTTGTAAAAATTTGGAAAAGAAAATTTATAGAAACTTAAAACA
66 TGATTGATGGTTTGTAAAAATTTGGAAAAGAAAATTTAT-GAAACATAAAACA
* * *
21884850 TATAAGCAAATAGTATA-AACAAATATAA-ATAAAAATAATTATAT
1 -A-AA--AAAAAGAATATAACAAATAAAAGATAAAAATAA-TATAT
21884894 AAATTAAAAA
Statistics
Matches: 141, Mismatches: 14, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
116 49 0.35
117 54 0.38
118 7 0.05
119 1 0.01
120 10 0.07
121 12 0.09
122 8 0.06
ACGTcount: A:0.57, C:0.06, G:0.12, T:0.24
Consensus pattern (117 bp):
AAAAAAAAGAATATAACAAATAAAAGATAAAAATAATATATGACATAACAAAAAAAAAAAGAATA
TGATTGATGGTTTGTAAAAATTTGGAAAAGAAAATTTATGAAACATAAAACA
Found at i:21887746 original size:42 final size:43
Alignment explanation
Indices: 21887697--21887855 Score: 164
Period size: 42 Copynumber: 3.6 Consensus size: 43
21887687 TGAGCTTTCC
*
21887697 TGATTTGGTGCAATGTTCACTTCAATTTAACGTTAAATCCCCT
1 TGATTTGGTGCAACGTTCACTTCAATTTAACGTTAAATCCCCT
**
21887740 T-ATTTGGTTTAACGTTCACTTCAATTCTCTAA-GTTTTATAA-CTCCCT
1 TGATTTGGTGCAACGTTCACTTCAA-T-T-TAACG--TTA-AATC-CCCT
* *
21887787 TGATTTGGTGCAATGTTCACTTCAATTTAACGTTAAAT-CCTT
1 TGATTTGGTGCAACGTTCACTTCAATTTAACGTTAAATCCCCT
* *
21887829 TGATTTGGTTCAACATTCACTTCAATT
1 TGATTTGGTGCAACGTTCACTTCAATT
21887856 CTCAGCTTAT
Statistics
Matches: 96, Mismatches: 10, Indels: 21
0.76 0.08 0.17
Matches are distributed among these distances:
42 47 0.49
43 4 0.04
44 5 0.05
45 6 0.06
46 6 0.06
47 8 0.08
48 20 0.21
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.43
Consensus pattern (43 bp):
TGATTTGGTGCAACGTTCACTTCAATTTAACGTTAAATCCCCT
Found at i:21893219 original size:128 final size:128
Alignment explanation
Indices: 21893001--21893242 Score: 385
Period size: 128 Copynumber: 1.9 Consensus size: 128
21892991 CAGCCTTTGC
* *
21893001 CTCAATTCACAACACACCTCTCAGTTCTTGCTTTTTTCTATTTTCTGCTTCCTCTGCCTTCCTTT
1 CTCAATTCACAACACACCTCTCAGTTCTTGCTTTTGTCTATTTTCTGCTTCCTCTACCTTCCTTT
* * * *
21893066 TCTCTACTTTCCTACTCTTGTTAGGTCTTTTCTAATTTTATTTTTGCTAATACCAGCCTCTCT
66 TCTCTACTTTCCTACCCGTGCTAGGTCCTTTCTAATTTTATTTTTGCTAATACCAGCCTCTCT
* * * * *
21893129 CTCAGTTCACAACACACCTCTTATTTCTTGCTTTTGTCTATTTTTTGGTTCCTCTACCTTCCTTT
1 CTCAATTCACAACACACCTCTCAGTTCTTGCTTTTGTCTATTTTCTGCTTCCTCTACCTTCCTTT
21893194 TCTCTACTTTCCTACCCGTGCTAGGTCCTTTCTAATTTTATTTTTGCTA
66 TCTCTACTTTCCTACCCGTGCTAGGTCCTTTCTAATTTTATTTTTGCTA
21893243 TTCTTAGTAT
Statistics
Matches: 103, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
128 103 1.00
ACGTcount: A:0.14, C:0.29, G:0.08, T:0.49
Consensus pattern (128 bp):
CTCAATTCACAACACACCTCTCAGTTCTTGCTTTTGTCTATTTTCTGCTTCCTCTACCTTCCTTT
TCTCTACTTTCCTACCCGTGCTAGGTCCTTTCTAATTTTATTTTTGCTAATACCAGCCTCTCT
Found at i:21893500 original size:44 final size:44
Alignment explanation
Indices: 21893451--21893537 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
21893441 AATTTTATTT
*
21893451 TTTGTTGTTCTTAGTATCCCTGATAGTTTGTGCAAACTAATCAG
1 TTTGTTGTTCCTAGTATCCCTGATAGTTTGTGCAAACTAATCAG
* ** * *
21893495 TTTGTTGTTCCTAGTGTCTTTGATAGTTTGTGTAAATTAATCA
1 TTTGTTGTTCCTAGTATCCCTGATAGTTTGTGCAAACTAATCA
21893538 AGAACAATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (44 bp):
TTTGTTGTTCCTAGTATCCCTGATAGTTTGTGCAAACTAATCAG
Found at i:21905600 original size:2 final size:2
Alignment explanation
Indices: 21905593--21905651 Score: 86
Period size: 2 Copynumber: 30.5 Consensus size: 2
21905583 CGTTTGGAAG
21905593 TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
21905633 TA TA CA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
21905652 TAATTTGCTC
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
1 2 0.04
2 49 0.96
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:21905617 original size:19 final size:19
Alignment explanation
Indices: 21905593--21905643 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
21905583 CGTTTGGAAG
21905593 TATATATATATATATAATA
1 TATATATATATATATAATA
21905612 TATATATATATATATAATA
1 TATATATATATATATAATA
*
21905631 TATATACATATAT
1 TATATATATATAT
21905644 TTATATATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
TATATATATATATATAATA
Found at i:21908201 original size:72 final size:76
Alignment explanation
Indices: 21908115--21908269 Score: 228
Period size: 72 Copynumber: 2.1 Consensus size: 76
21908105 AATCTGGCAG
* * *
21908115 AATTGGCATTGAAAAATATCTAGCTATAGTGCATCTTGCAGATGCATTA-ATAAT-GATTAGTGT
1 AATTGGCATTGAAAAATATCTAACTATAGTGCATCTTGCAAATGCATTATATAATAGATTACTGT
21908178 -AGTATTTCTA
66 AAGTATTTCTA
21908188 AATT-GCATTGAAAAATATCTAACTATAGTGCATCTTGCAAATGCATTATATAATAAAGATTACT
1 AATTGGCATTGAAAAATATCTAACTATAGTGCATCTTGCAAATGCATTATATAAT--AGATTACT
21908252 GTAGAGTATTTCTA
64 GTA-AGTATTTCTA
21908266 AATT
1 AATT
21908270 ATTTATTTTC
Statistics
Matches: 73, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
72 42 0.58
73 9 0.12
76 8 0.11
78 14 0.19
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (76 bp):
AATTGGCATTGAAAAATATCTAACTATAGTGCATCTTGCAAATGCATTATATAATAGATTACTGT
AAGTATTTCTA
Found at i:21917020 original size:127 final size:127
Alignment explanation
Indices: 21916794--21917048 Score: 386
Period size: 127 Copynumber: 2.0 Consensus size: 127
21916784 TGTGGATTGT
* * * *** *
21916794 GGAGTTTGATTAATCTTTTTCTTGCTTAGTGAGGATTTGAGTTTGAAAACTTGTAACCATGTTCT
1 GGAGTTTGATTAATCGTTTCCTTCCTTAACAAGGATTTGAATTTGAAAACTTGTAACCATGTTCT
* * *
21916859 TATGATTGGTTTTTATAGAAACATGTTAACATGAGGTAGAGGAAACAACTGGAACTGGTAAA
66 TATGATTGGTTTTTATAGAAACATGTTAACATGAGGGAGAAGAAACAACTGGAACTGGAAAA
*
21916921 GGAGTTTGATTAATCGTTTCCTTCCTTAACAAGGATTTGAATTTGAAAACTTGTAACTATGTTCT
1 GGAGTTTGATTAATCGTTTCCTTCCTTAACAAGGATTTGAATTTGAAAACTTGTAACCATGTTCT
*
21916986 TATGATTGGTTTTTATAGAAACATG-TAGACATGAGGGAGAAGAAACAATTGGAACTGGAAAA
66 TATGATTGGTTTTTATAGAAACATGTTA-ACATGAGGGAGAAGAAACAACTGGAACTGGAAAA
21917048 G
1 G
21917049 CAAGATTTGT
Statistics
Matches: 115, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
126 2 0.02
127 113 0.98
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (127 bp):
GGAGTTTGATTAATCGTTTCCTTCCTTAACAAGGATTTGAATTTGAAAACTTGTAACCATGTTCT
TATGATTGGTTTTTATAGAAACATGTTAACATGAGGGAGAAGAAACAACTGGAACTGGAAAA
Found at i:21934262 original size:2 final size:2
Alignment explanation
Indices: 21934255--21934279 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21934245 TGATAGTATC
21934255 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
21934280 ACTAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21939399 original size:21 final size:21
Alignment explanation
Indices: 21939375--21939429 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
21939365 AAAGATCATC
21939375 TCTTTGTCTTTCCGTTT-GGTT
1 TCTTTGTCTTT-CGTTTGGGTT
* *
21939396 TCTTTGGCTTTTGTTTGGGTT
1 TCTTTGTCTTTCGTTTGGGTT
21939417 T-TTTGT-TTT-GTTT
1 TCTTTGTCTTTCGTTT
21939430 TTTTTCTAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 4 0.13
19 3 0.10
20 8 0.27
21 15 0.50
ACGTcount: A:0.00, C:0.11, G:0.22, T:0.67
Consensus pattern (21 bp):
TCTTTGTCTTTCGTTTGGGTT
Found at i:21946440 original size:2 final size:2
Alignment explanation
Indices: 21946435--21946461 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21946425 AGAGAGATCT
21946435 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
21946462 AAGCTTNACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21946473 original size:58 final size:57
Alignment explanation
Indices: 21946410--21946520 Score: 213
Period size: 58 Copynumber: 1.9 Consensus size: 57
21946400 TTTTGCCCTC
21946410 TACTTTTTTTAGCATAGAGAGATCTAGAGAGAGAGAGAGAGAGAGAGAGAGAAAGCT
1 TACTTTTTTTAGCATAGAGAGATCTAGAGAGAGAGAGAGAGAGAGAGAGAGAAAGCT
21946467 TNACTTTTTTTAGCATAGAGAGATCTAGAGAGAGAGAGAGAGAGAGAGAGAGAA
1 T-ACTTTTTTTAGCATAGAGAGATCTAGAGAGAGAGAGAGAGAGAGAGAGAGAA
21946521 GTTGGTTTCT
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 1 0.02
58 52 0.98
ACGTcount: A:0.41, C:0.06, G:0.32, T:0.21
Consensus pattern (57 bp):
TACTTTTTTTAGCATAGAGAGATCTAGAGAGAGAGAGAGAGAGAGAGAGAGAAAGCT
Found at i:21946498 original size:2 final size:2
Alignment explanation
Indices: 21946493--21946519 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21946483 AGAGAGATCT
21946493 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
21946520 AGTTGGTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21962282 original size:2 final size:2
Alignment explanation
Indices: 21962275--21962300 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21962265 TTAACCATTC
21962275 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
21962301 TGAGATTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21964950 original size:22 final size:22
Alignment explanation
Indices: 21964920--21964980 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
21964910 TCACTGTATG
* *
21964920 ACTGATTTTTAGGTATT-ATGTA
1 ACTGGTTTTTAGGCATTGA-GTA
* *
21964942 ATTGG-TTTTAGGCATTGAGTG
1 ACTGGTTTTTAGGCATTGAGTA
21964963 ACTGGTTTTTAGGCATTG
1 ACTGGTTTTTAGGCATTG
21964981 TGTGATTGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
21 16 0.50
22 16 0.50
ACGTcount: A:0.21, C:0.07, G:0.26, T:0.46
Consensus pattern (22 bp):
ACTGGTTTTTAGGCATTGAGTA
Found at i:21964985 original size:22 final size:22
Alignment explanation
Indices: 21964918--21964985 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
21964908 AATCACTGTA
* * *
21964918 TGACTGATTTTTAGGTATTATG
1 TGACTGGTTTTTAGGCATTGTG
* * *
21964940 TAATTGG-TTTTAGGCATTGAG
1 TGACTGGTTTTTAGGCATTGTG
21964961 TGACTGGTTTTTAGGCATTGTG
1 TGACTGGTTTTTAGGCATTGTG
21964983 TGA
1 TGA
21964986 TTGATATTTA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
21 16 0.44
22 20 0.56
ACGTcount: A:0.21, C:0.06, G:0.28, T:0.46
Consensus pattern (22 bp):
TGACTGGTTTTTAGGCATTGTG
Found at i:21964995 original size:22 final size:22
Alignment explanation
Indices: 21964922--21964995 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 22
21964912 ACTGTATGAC
* * *
21964922 TGATTTTTAGGTATTATGTAAT
1 TGATTTTTAGGCATTGTGTGAT
* * *
21964944 TG-GTTTTAGGCATTGAGTGAC
1 TGATTTTTAGGCATTGTGTGAT
*
21964965 TGGTTTTTAGGCATTGTGTGAT
1 TGATTTTTAGGCATTGTGTGAT
*
21964987 TGATATTTA
1 TGATTTTTA
21964996 AATAATGCTT
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
21 15 0.38
22 25 0.62
ACGTcount: A:0.22, C:0.04, G:0.26, T:0.49
Consensus pattern (22 bp):
TGATTTTTAGGCATTGTGTGAT
Found at i:21965050 original size:23 final size:24
Alignment explanation
Indices: 21965020--21965088 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 24
21965010 CACACAATGT
21965020 CTTA-CTAACTAGTCACGTAATAC
1 CTTATCTAACTAGTCACGTAATAC
* * *
21965043 CTT-TCTAACAAATCACGTAAT-G
1 CTTATCTAACTAGTCACGTAATAC
*
21965065 CTTATC-AACTAGTCACGCAATAC
1 CTTATCTAACTAGTCACGTAATAC
21965088 C
1 C
21965089 CAAAGTCAGT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
22 15 0.42
23 21 0.58
ACGTcount: A:0.35, C:0.28, G:0.09, T:0.29
Consensus pattern (24 bp):
CTTATCTAACTAGTCACGTAATAC
Found at i:21965175 original size:79 final size:76
Alignment explanation
Indices: 21965026--21965177 Score: 189
Period size: 79 Copynumber: 1.9 Consensus size: 76
21965016 ATGTCTTACT
* ** *
21965026 AACTAGTCACGTAATACCTTTCTAACAAATCACGTAATGCTTATCAACTAGTCACGCAATACCCA
1 AACTAGTCACGTAATACCTTTCAAACAAATCACGTAATGCCCA-CAACTAGTCACACAATACCCA
21965091 AAGTCAGTCAAA
65 AAGTCAGTCAAA
* * *
21965103 AACTAGTCACGTAATACCTTATCAAAAACTAATCACGTAATGCCCA-AAGTCAGTCACACAATAT
1 AACTAGTCACGTAATACCTT-TC--AAACAAATCACGTAATGCCCACAACT-AGTCACACAATAC
21965167 CCAAAGTCAGT
62 CCAAAGTCAGT
21965178 TACGTAATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
77 20 0.31
78 5 0.08
79 22 0.34
80 17 0.27
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.24
Consensus pattern (76 bp):
AACTAGTCACGTAATACCTTTCAAACAAATCACGTAATGCCCACAACTAGTCACACAATACCCAA
AGTCAGTCAAA
Found at i:21965187 original size:21 final size:21
Alignment explanation
Indices: 21965135--21965187 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
21965125 CAAAAACTAA
**
21965135 TCACGTAATGCCCAAAGTCAG
1 TCACGTAATATCCAAAGTCAG
**
21965156 TCACACAATATCCAAAGTCAG
1 TCACGTAATATCCAAAGTCAG
*
21965177 TTACGTAATAT
1 TCACGTAATAT
21965188 TTAAAAACTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.25
Consensus pattern (21 bp):
TCACGTAATATCCAAAGTCAG
Found at i:21967259 original size:22 final size:22
Alignment explanation
Indices: 21967233--21967281 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
21967223 ACATGATTGG
* *
21967233 TTTTAGGCATTGTGTGACTGAT
1 TTTTAGACATTGCGTGACTGAT
21967255 TTTTAGACATTGCGTGACTGAT
1 TTTTAGACATTGCGTGACTGAT
*
21967277 ATTTA
1 TTTTA
21967282 AGTAATGCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.10, G:0.22, T:0.45
Consensus pattern (22 bp):
TTTTAGACATTGCGTGACTGAT
Found at i:21967364 original size:26 final size:26
Alignment explanation
Indices: 21967333--21967447 Score: 98
Period size: 26 Copynumber: 4.6 Consensus size: 26
21967323 AATGTCTATC
* *
21967333 AACTAATCACGTAATGCCTTATCAAA
1 AACTAATCACGCAATACCTTATCAAA
21967359 AACTAATCACGCAATACC----CAAA
1 AACTAATCACGCAATACCTTATCAAA
** * *
21967381 GTC-AGA-CATGCAATGCCTTATCAAA
1 AACTA-ATCACGCAATACCTTATCAAA
*
21967406 AACTAATCACGTAATACCTTATCAAA
1 AACTAATCACGCAATACCTTATCAAA
* *
21967432 AACTAGTCACACAATA
1 AACTAATCACGCAATA
21967448 ATCAAAGTCA
Statistics
Matches: 68, Mismatches: 14, Indels: 14
0.71 0.15 0.15
Matches are distributed among these distances:
21 10 0.15
22 6 0.09
25 6 0.09
26 46 0.68
ACGTcount: A:0.44, C:0.25, G:0.08, T:0.23
Consensus pattern (26 bp):
AACTAATCACGCAATACCTTATCAAA
Found at i:21967495 original size:21 final size:21
Alignment explanation
Indices: 21967436--21967495 Score: 50
Period size: 21 Copynumber: 2.9 Consensus size: 21
21967426 ATCAAAAACT
* *
21967436 AGTCACACAATAATCAAAGTC
1 AGTCACGCAATAATTAAAGTC
* * *
21967457 AGTCAAGTAAT-GTATAAAGTC
1 AGTCACGCAATAAT-TAAAGTC
*
21967478 AGTCACGCAATACTTAAA
1 AGTCACGCAATAATTAAA
21967496 AACTAATCAC
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.23
Consensus pattern (21 bp):
AGTCACGCAATAATTAAAGTC
Found at i:21976153 original size:13 final size:14
Alignment explanation
Indices: 21976135--21976169 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
21976125 ATATATTTTT
21976135 AATAATTTTTTA-A
1 AATAATTTTTTATA
21976148 AATAATTTTTTATTA
1 AATAATTTTTTA-TA
21976163 AATAATT
1 AATAATT
21976170 AATATAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 12 0.60
15 8 0.40
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
AATAATTTTTTATA
Found at i:21988106 original size:20 final size:19
Alignment explanation
Indices: 21988079--21988116 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
21988069 TTATTATGCA
*
21988079 TATTATTATATCATATCAT
1 TATTATTATAACATATCAT
21988098 TATTAATTATAACATATCA
1 TATT-ATTATAACATATCA
21988117 ACATGTCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (19 bp):
TATTATTATAACATATCAT
Found at i:21989778 original size:119 final size:121
Alignment explanation
Indices: 21989636--21989859 Score: 328
Period size: 119 Copynumber: 1.9 Consensus size: 121
21989626 GAAAGTAAAG
* * * **
21989636 AAAAAGTAAAAAGAAATTAAAATAAAAAATTATATTAATAATTTAATAATAATTTTTTAATA-TT
1 AAAAAATAAAAAGAAATTAAAATAAAAAATCATATTAATAATTTAATAATAAATTACTAATATTT
* *
21989700 T-AATTTTTAATAAAAATAGAAACTAAAACATTAA-AAAATGCAAATACAAATAGCT
66 TAAAATTTTAATAAAAATA-AAAATAAAACATTAACAAAATGCAAATACAAATAGCT
*
21989755 AAAAAATAAAAAGAAATTGAAATAAAAAATCATATTAATAATTTAATAATAAATTACTAATATTT
1 AAAAAATAAAAAGAAATTAAAATAAAAAATCATATTAATAATTTAATAATAAATTACTAATATTT
* *
21989820 TAAAATTTTAATGAAAATAAAAATAAAAGATTAACAAAAT
66 TAAAATTTTAATAAAAATAAAAATAAAACATTAACAAAAT
21989860 ATTATTAAAT
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
119 56 0.61
120 16 0.17
121 20 0.22
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (121 bp):
AAAAAATAAAAAGAAATTAAAATAAAAAATCATATTAATAATTTAATAATAAATTACTAATATTT
TAAAATTTTAATAAAAATAAAAATAAAACATTAACAAAATGCAAATACAAATAGCT
Found at i:21994696 original size:21 final size:21
Alignment explanation
Indices: 21994671--21994711 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21994661 ACATTTTACA
*
21994671 AAAAAATTCAATAAACTAAACC
1 AAAAAA-TAAATAAACTAAACC
*
21994693 AAAAAATAAATCAACTAAA
1 AAAAAATAAATAAACTAAA
21994712 TCATCAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAAAATAAATAAACTAAACC
Found at i:22015332 original size:44 final size:43
Alignment explanation
Indices: 22015239--22015332 Score: 109
Period size: 46 Copynumber: 2.1 Consensus size: 43
22015229 TTTATGTTAC
* **
22015239 AATTAAAAAATAATAAAAAATATTTTTTTAATAATTAATGNTTT
1 AATTAAAAAATAAAAAAAAATATTTTTTTAATAATTAATG-TAA
* *
22015283 TATTAAAAATTAAAAAATATAATATTTTTTTAATAATTAATG-AA
1 AATTAAAAAATAAAAAA-A-AATATTTTTTTAATAATTAATGTAA
22015327 AATTAA
1 AATTAA
22015333 GTTTTAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
44 19 0.45
45 1 0.02
46 22 0.52
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (43 bp):
AATTAAAAAATAAAAAAAAATATTTTTTTAATAATTAATGTAA
Found at i:22020013 original size:41 final size:41
Alignment explanation
Indices: 22019962--22020041 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
22019952 AATCTAAGTT
* *
22019962 TATCATAACATATTATATTTTAACAATTCAAGTC-AATAGTC
1 TATCATAACATATTATATCTCAACAATTCAA-TCTAATAGTC
22020003 TATCATAACATATTATATCTCAACAATTCAATCTAATAG
1 TATCATAACATATTATATCTCAACAATTCAATCTAATAG
22020042 CCCATAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 2 0.06
41 34 0.94
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.38
Consensus pattern (41 bp):
TATCATAACATATTATATCTCAACAATTCAATCTAATAGTC
Found at i:22021780 original size:16 final size:15
Alignment explanation
Indices: 22021755--22021787 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
22021745 GAAGAAGGAA
22021755 TAAACTGTAATTAAT
1 TAAACTGTAATTAAT
22021770 TAAAGCTGTAATTAAT
1 TAAA-CTGTAATTAAT
22021786 TA
1 TA
22021788 GGCCCCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.39
Consensus pattern (15 bp):
TAAACTGTAATTAAT
Found at i:22022515 original size:19 final size:19
Alignment explanation
Indices: 22022491--22022531 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
22022481 TCTTTGAGCG
22022491 TTTGAAGCATTTTTAAGCA
1 TTTGAAGCATTTTTAAGCA
22022510 TTTGAAGCATTTTTAAGCA
1 TTTGAAGCATTTTTAAGCA
22022529 TTT
1 TTT
22022532 TGATGTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (19 bp):
TTTGAAGCATTTTTAAGCA
Found at i:22022519 original size:9 final size:10
Alignment explanation
Indices: 22022491--22022534 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
22022481 TCTTTGAGCG
22022491 TTTGAAGCAT
1 TTTGAAGCAT
*
22022501 TTTTAAGCA-
1 TTTGAAGCAT
22022510 TTTGAAGCAT
1 TTTGAAGCAT
*
22022520 TTTTAAGCAT
1 TTTGAAGCAT
22022530 TTTGA
1 TTTGA
22022535 TGTGATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 8 0.28
10 21 0.72
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (10 bp):
TTTGAAGCAT
Found at i:22022987 original size:20 final size:22
Alignment explanation
Indices: 22022938--22022991 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 22
22022928 TAAGTCATGC
22022938 AATGCCTAAAAATCAGTCTCAT
1 AATGCCTAAAAATCAGTCTCAT
* * *
22022960 AATACCTAAAAATC-G-GTGAT
1 AATGCCTAAAAATCAGTCTCAT
22022980 AATGCCTAAAAA
1 AATGCCTAAAAA
22022992 CTATTAATGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 14 0.50
21 1 0.04
22 13 0.46
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (22 bp):
AATGCCTAAAAATCAGTCTCAT
Found at i:22039143 original size:14 final size:13
Alignment explanation
Indices: 22039126--22039158 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
22039116 TGGGAGAGAA
22039126 AGAGAGAAAAGAG
1 AGAGAGAAAAGAG
22039139 -GAGAGAGAAAGAG
1 AGAGAGA-AAAGAG
22039152 AGAGAGA
1 AGAGAGA
22039159 CTTGAATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.33
13 6 0.33
14 6 0.33
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (13 bp):
AGAGAGAAAAGAG
Found at i:22039144 original size:12 final size:14
Alignment explanation
Indices: 22039120--22039158 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
22039110 AAAGGATGGG
*
22039120 AGAGAAAGAGAGAA
1 AGAGAGAGAGAGAA
22039134 A-AGAGGAGAGAGAA
1 AGAGA-GAGAGAGAA
22039148 AGAGAGAGAGA
1 AGAGAGAGAGA
22039159 CTTGAATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 3 0.14
14 16 0.73
15 3 0.14
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (14 bp):
AGAGAGAGAGAGAA
Found at i:22040274 original size:14 final size:14
Alignment explanation
Indices: 22040255--22040281 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22040245 TGATTATTTA
22040255 GATAGTTCGGTTAG
1 GATAGTTCGGTTAG
22040269 GATAGTTCGGTTA
1 GATAGTTCGGTTA
22040282 TTAGAGTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.33, T:0.37
Consensus pattern (14 bp):
GATAGTTCGGTTAG
Found at i:22040629 original size:27 final size:27
Alignment explanation
Indices: 22040573--22040637 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
22040563 AATTTAATTT
**
22040573 TTTAATTTAATTATTTGTAAAATTTGA
1 TTTAATTTAATTATTTGTAAAATTAAA
22040600 TTTAATTTCAATTATTT-TAAACA-TAAA
1 TTTAATTT-AATTATTTGTAAA-ATTAAA
22040627 TTTAA-TTAATT
1 TTTAATTTAATT
22040638 TAATTATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 4 0.12
26 2 0.06
27 19 0.56
28 9 0.26
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (27 bp):
TTTAATTTAATTATTTGTAAAATTAAA
Found at i:22040648 original size:22 final size:22
Alignment explanation
Indices: 22040559--22040649 Score: 58
Period size: 22 Copynumber: 3.9 Consensus size: 22
22040549 GAATTAACTG
* *
22040559 AATTAATTTAATTTTTTAATTT
1 AATTAATTTAATTATTAAATTT
* *
22040581 AATTATTTGTAAAATTTGATTTAATTT
1 AATTAATT-T--AA-TT-ATTAAATTT
* **
22040608 CAATTATTTTAAACA-TAAATTT
1 -AATTAATTTAATTATTAAATTT
22040630 AATTAATTTAATTATTAAAT
1 AATTAATTTAATTATTAAAT
22040650 ATTCAAAATC
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
21 11 0.20
22 18 0.33
23 2 0.04
25 4 0.07
26 2 0.04
27 9 0.17
28 8 0.15
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
AATTAATTTAATTATTAAATTT
Found at i:22053134 original size:1 final size:1
Alignment explanation
Indices: 22053130--22053197 Score: 55
Period size: 1 Copynumber: 68.0 Consensus size: 1
22053120 ATGGGAAGGA
* * * * * * ** *
22053130 TTTTTTTTTTATTTTTTTTATTTTATTTTTTTTATTTTTTTTATTTATTTAATTTATTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
22053195 TTT
1 TTT
22053198 AATTTATGTG
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Found at i:22053144 original size:9 final size:9
Alignment explanation
Indices: 22053129--22053198 Score: 74
Period size: 9 Copynumber: 8.1 Consensus size: 9
22053119 GATGGGAAGG
22053129 ATTTTTTTT
1 ATTTTTTTT
*
22053138 -TTATTTTT
1 ATTTTTTTT
*
22053146 -TTTATTTT
1 ATTTTTTTT
22053154 ATTTTTTTT
1 ATTTTTTTT
22053163 ATTTTTTTT
1 ATTTTTTTT
* *
22053172 ATTTATTTA
1 ATTTTTTTT
*
22053181 ATTTATTTT
1 ATTTTTTTT
22053190 -TTTTTTTT
1 ATTTTTTTT
22053198 A
1 A
22053199 ATTTATGTGT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
8 20 0.39
9 31 0.61
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:22053162 original size:23 final size:23
Alignment explanation
Indices: 22053132--22053198 Score: 102
Period size: 22 Copynumber: 3.0 Consensus size: 23
22053122 GGGAAGGATT
22053132 TTTTTTTTATTTTTTTTATTTTA
1 TTTTTTTTATTTTTTTTATTTTA
22053155 TTTTTTTTATTTTTTTTA-TTTA
1 TTTTTTTTATTTTTTTTATTTTA
**
22053177 TTTAATTTATTTTTTTT-TTTTA
1 TTTTTTTTATTTTTTTTATTTTA
22053199 ATTTATGTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
22 23 0.56
23 18 0.44
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (23 bp):
TTTTTTTTATTTTTTTTATTTTA
Found at i:22053202 original size:27 final size:25
Alignment explanation
Indices: 22053129--22053204 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 25
22053119 GATGGGAAGG
22053129 ATTTTTTTTTTATTTTT-TTTATTTTA
1 ATTTTTTTTTT-TTTTTATTTA-TTTA
*
22053155 TTTTTTTTATTTTTTTTATTTATTTA
1 ATTTTTTT-TTTTTTTTATTTATTTA
22053181 ATTTATTTTTTTTTTTTAATTTAT
1 ATTT-TTTTTTTTTTTT-ATTTAT
22053205 GTGTCTACAC
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
26 27 0.61
27 17 0.39
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (25 bp):
ATTTTTTTTTTTTTTTATTTATTTA
Found at i:22053755 original size:42 final size:42
Alignment explanation
Indices: 22053696--22053775 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
22053686 TCAATGAACA
22053696 AACCCATATCTCATGCTTTTATACTTATCATTACTAAACTGT
1 AACCCATATCTCATGCTTTTATACTTATCATTACTAAACTGT
* *
22053738 AACCCATATCTCATGCTTTTATCCTTATTATTACTAAA
1 AACCCATATCTCATGCTTTTATACTTATCATTACTAAA
22053776 ATGATCTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.41
Consensus pattern (42 bp):
AACCCATATCTCATGCTTTTATACTTATCATTACTAAACTGT
Found at i:22056488 original size:27 final size:26
Alignment explanation
Indices: 22056441--22056491 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
22056431 TATAAAAATA
22056441 AATCTTAAAATTTATTCAAAGGAATC
1 AATCTTAAAATTTATTCAAAGGAATC
22056467 AATCTTAATAATTTACTT-AAAGGAA
1 AATCTTAA-AATTTA-TTCAAAGGAA
22056492 CTAACTAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 8 0.35
27 13 0.57
28 2 0.09
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (26 bp):
AATCTTAAAATTTATTCAAAGGAATC
Found at i:22060577 original size:14 final size:14
Alignment explanation
Indices: 22060558--22060591 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
22060548 TTTTTTTGTT
*
22060558 ATTATATGTATAAA
1 ATTATATATATAAA
*
22060572 ATTATATATATATA
1 ATTATATATATAAA
22060586 ATTATA
1 ATTATA
22060592 ATTACTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
ATTATATATATAAA
Found at i:22063030 original size:23 final size:23
Alignment explanation
Indices: 22063003--22063047 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
22062993 TGCCCAGGAT
22063003 TTTTCTTTTAGTTTTGGGTAGAA
1 TTTTCTTTTAGTTTTGGGTAGAA
**
22063026 TTTTCTTTTCTTTTTGGGTAGA
1 TTTTCTTTTAGTTTTGGGTAGA
22063048 CGCCCAGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.13, C:0.07, G:0.20, T:0.60
Consensus pattern (23 bp):
TTTTCTTTTAGTTTTGGGTAGAA
Found at i:22068002 original size:22 final size:22
Alignment explanation
Indices: 22067957--22068001 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
22067947 AGAGAAAATA
* *
22067957 TATTTTTGATAAAAATTAATTT
1 TATTTTTGAAAAAAATCAATTT
22067979 TATTTTTGAAAAAAAATCAATTT
1 TATTTTTG-AAAAAAATCAATTT
22068002 AGCTCTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
TATTTTTGAAAAAAATCAATTT
Found at i:22076676 original size:47 final size:46
Alignment explanation
Indices: 22076625--22076754 Score: 115
Period size: 47 Copynumber: 2.7 Consensus size: 46
22076615 CATTTCTTTA
22076625 ATATAATTTTTATATT-ATATATTTATTTTAATTT-TTTTACCTATATT
1 ATATAATTTTTATATTAATATATTTATTTTAATTTATTTT---TATATT
* * *
22076672 ATATAAATTTTA-ATTTCATATATTTTTATTTTACTTTAATTTTTATATT
1 ATATAATTTTTATA-TT-A-ATATATTTATTTTAATTT-ATTTTTATATT
* *
22076721 ATAT-ATTTTTATTTTAATATTTTTTATTTTAATT
1 ATATAATTTTTATATTAATA-TATTTATTTTAATT
22076755 ATAACATTAC
Statistics
Matches: 69, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
46 4 0.06
47 27 0.39
48 8 0.12
49 10 0.14
50 16 0.23
52 4 0.06
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (46 bp):
ATATAATTTTTATATTAATATATTTATTTTAATTTATTTTTATATT
Found at i:22076740 original size:21 final size:21
Alignment explanation
Indices: 22076710--22076750 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22076700 TTTTACTTTA
*
22076710 ATTTTTATATTATATATTTTT
1 ATTTTAATATTATATATTTTT
* *
22076731 ATTTTAATATTTTTTATTTT
1 ATTTTAATATTATATATTTT
22076751 AATTATAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (21 bp):
ATTTTAATATTATATATTTTT
Found at i:22076745 original size:30 final size:31
Alignment explanation
Indices: 22076689--22076747 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
22076679 TTTTAATTTC
*
22076689 ATATATTTTTATTTTACTTTAATTTTTATATT
1 ATATATTTTTATTTTAC-ATAATTTTTATATT
*
22076721 ATATATTTTTATTTTA-ATATTTTTTAT
1 ATATATTTTTATTTTACATAATTTTTAT
22076748 TTTAATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 9 0.36
32 16 0.64
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (31 bp):
ATATATTTTTATTTTACATAATTTTTATATT
Found at i:22076752 original size:15 final size:16
Alignment explanation
Indices: 22076621--22076753 Score: 84
Period size: 15 Copynumber: 8.4 Consensus size: 16
22076611 TTTTCATTTC
22076621 TTTAATATAATTTTTAT
1 TTTAATAT-ATTTTTAT
*
22076638 ATT-ATATA--TTTAT
1 TTTAATATATTTTTAT
22076651 TTTAAT-T-TTTTTACCT
1 TTTAATATATTTTTA--T
* *
22076667 ATATT-ATATAAATTTTAA
1 -T-TTAATAT-ATTTTTAT
*
22076685 TTTCATATATTTTTAT
1 TTTAATATATTTTTAT
* *
22076701 TTTACTTTAATTTTTAT
1 TTTAATAT-ATTTTTAT
*
22076718 ATT-ATATATTTTTAT
1 TTTAATATATTTTTAT
22076733 TTTAATAT-TTTTTAT
1 TTTAATATATTTTTAT
22076748 TTTAAT
1 TTTAAT
22076754 TATAACATTA
Statistics
Matches: 90, Mismatches: 13, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
13 8 0.09
14 6 0.07
15 24 0.27
16 24 0.27
17 20 0.22
18 3 0.03
20 5 0.06
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTAATATATTTTTAT
Found at i:22077355 original size:6 final size:6
Alignment explanation
Indices: 22077344--22077368 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
22077334 GTGGGGCCCA
22077344 CCACCG CCACCG CCACCG CCACCG C
1 CCACCG CCACCG CCACCG CCACCG C
22077369 TGGCCCCACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.68, G:0.16, T:0.00
Consensus pattern (6 bp):
CCACCG
Found at i:22092187 original size:19 final size:19
Alignment explanation
Indices: 22092159--22092201 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
22092149 GGCTTCATTA
* *
22092159 AAATAATATTTTTTAATTT
1 AAATAATATTGTATAATTT
* *
22092178 TAATAGTATTGTATAATTT
1 AAATAATATTGTATAATTT
22092197 AAATA
1 AAATA
22092202 TTAATATATT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
AAATAATATTGTATAATTT
Found at i:22108707 original size:13 final size:13
Alignment explanation
Indices: 22108689--22108713 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22108679 TCTTCGTTCA
22108689 TACATATGGTAGT
1 TACATATGGTAGT
22108702 TACATATGGTAG
1 TACATATGGTAG
22108714 CTCATTTCAA
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:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (13 bp):
TACATATGGTAGT
Found at i:22113213 original size:21 final size:21
Alignment explanation
Indices: 22113187--22113251 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
22113177 TTCCAATGAT
* *
22113187 CACCATGTCCATGATCATCAC
1 CACCATGACCATGACCATCAC
22113208 CACCATGACCATGACCAT---
1 CACCATGACCATGACCATCAC
* *
22113226 GACCATGACCATGACCACCAC
1 CACCATGACCATGACCATCAC
22113247 CACCA
1 CACCA
22113252 CCATCATGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
18 16 0.44
21 20 0.56
ACGTcount: A:0.32, C:0.42, G:0.11, T:0.15
Consensus pattern (21 bp):
CACCATGACCATGACCATCAC
Found at i:22113218 original size:6 final size:6
Alignment explanation
Indices: 22113209--22113242 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
22113199 GATCATCACC
22113209 ACCATG ACCATG ACCATG ACCATG ACCATG ACCA
1 ACCATG ACCATG ACCATG ACCATG ACCATG ACCA
22113243 CCACCACCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.35, C:0.35, G:0.15, T:0.15
Consensus pattern (6 bp):
ACCATG
Found at i:22113248 original size:12 final size:12
Alignment explanation
Indices: 22113205--22113248 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
22113195 CCATGATCAT
22113205 CACCACCATGAC
1 CACCACCATGAC
**
22113217 CATGACCATGAC
1 CACCACCATGAC
**
22113229 CATGACCATGAC
1 CACCACCATGAC
22113241 CACCACCA
1 CACCACCA
22113249 CCACCATCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.34, C:0.43, G:0.11, T:0.11
Consensus pattern (12 bp):
CACCACCATGAC
Found at i:22113255 original size:18 final size:18
Alignment explanation
Indices: 22113205--22113248 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
22113195 CCATGATCAT
22113205 CACCACCATGACCATGAC
1 CACCACCATGACCATGAC
**
22113223 CATGACCATGACCATGAC
1 CACCACCATGACCATGAC
22113241 CACCACCA
1 CACCACCA
22113249 CCACCATCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.34, C:0.43, G:0.11, T:0.11
Consensus pattern (18 bp):
CACCACCATGACCATGAC
Found at i:22119261 original size:12 final size:12
Alignment explanation
Indices: 22119244--22119278 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
22119234 CTAGAGGATT
22119244 TCTACTCTTTTA
1 TCTACTCTTTTA
22119256 TCTACTC-TTTA
1 TCTACTCTTTTA
22119267 TCTACATCTTTT
1 TCTAC-TCTTTT
22119279 TTGGTCATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 9 0.43
12 9 0.43
13 3 0.14
ACGTcount: A:0.17, C:0.26, G:0.00, T:0.57
Consensus pattern (12 bp):
TCTACTCTTTTA
Found at i:22119268 original size:11 final size:11
Alignment explanation
Indices: 22119244--22119277 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
22119234 CTAGAGGATT
22119244 TCTACTCTTTTA
1 TCTACTC-TTTA
22119256 TCTACTCTTTA
1 TCTACTCTTTA
22119267 TCTACATCTTT
1 TCTAC-TCTTT
22119278 TTTGGTCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (11 bp):
TCTACTCTTTA
Found at i:22137018 original size:17 final size:17
Alignment explanation
Indices: 22136996--22137029 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22136986 GTAACATAAT
*
22136996 GAGATTGCCTTGTGATA
1 GAGATTGCCATGTGATA
22137013 GAGATTGCCATGTGATA
1 GAGATTGCCATGTGATA
22137030 TTTTCATGGT
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:0.26, C:0.12, G:0.29, T:0.32
Consensus pattern (17 bp):
GAGATTGCCATGTGATA
Found at i:22137137 original size:11 final size:10
Alignment explanation
Indices: 22137108--22137154 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
22137098 AATAAAACAA
22137108 TAAAAATTTAT
1 TAAAAATTT-T
*
22137119 TTAAAATTTT
1 TAAAAATTTT
22137129 TAAATAA-TTT
1 TAAA-AATTTT
22137139 TAAAAACTTTT
1 TAAAAA-TTTT
22137150 TAAAA
1 TAAAA
22137155 TATCATGCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
9 2 0.06
10 11 0.35
11 18 0.58
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (10 bp):
TAAAAATTTT
Found at i:22147083 original size:16 final size:16
Alignment explanation
Indices: 22147062--22147092 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22147052 AATTTTTTAT
*
22147062 TTATAATTTAAATATG
1 TTATAATTAAAATATG
22147078 TTATAATTAAAATAT
1 TTATAATTAAAATAT
22147093 AAAATATTAA
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:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TTATAATTAAAATATG
Found at i:22147105 original size:29 final size:28
Alignment explanation
Indices: 22147072--22147139 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
22147062 TTATAATTTA
22147072 AATATGTTATAATTAAAATATAAAATATT
1 AATAT-TTATAATTAAAATATAAAATATT
* ** *
22147101 AATATTTTTATATTTTAATTTAAAATATT
1 AATATTTATA-ATTAAAATATAAAATATT
22147130 AAT-TTTATAA
1 AATATTTATAA
22147140 ATTTAAATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
27 1 0.03
28 9 0.27
29 23 0.70
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (28 bp):
AATATTTATAATTAAAATATAAAATATT
Found at i:22149206 original size:40 final size:40
Alignment explanation
Indices: 22149146--22149227 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
22149136 AAGAGAAAGA
22149146 AAGAACATTTCTCCAACAGAGGTTAATTTAATTCACCATT
1 AAGAACATTTCTCCAACAGAGGTTAATTTAATTCACCATT
*
22149186 AAGATCATTTCTCCAACAGAGGTTAATTTAATTCACCATT
1 AAGAACATTTCTCCAACAGAGGTTAATTTAATTCACCATT
22149226 AA
1 AA
22149228 CTTTATACAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (40 bp):
AAGAACATTTCTCCAACAGAGGTTAATTTAATTCACCATT
Found at i:22149309 original size:15 final size:15
Alignment explanation
Indices: 22149289--22149317 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22149279 GGTGGAAGTT
22149289 ACCAAGTTAGCTTTG
1 ACCAAGTTAGCTTTG
22149304 ACCAAGTTAGCTTT
1 ACCAAGTTAGCTTT
22149318 CTTCTCTACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (15 bp):
ACCAAGTTAGCTTTG
Found at i:22149505 original size:21 final size:21
Alignment explanation
Indices: 22149472--22149516 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
22149462 CACCCAGAAG
22149472 GAAAAAAAAAAAAGGAACAAA
1 GAAAAAAAAAAAAGGAACAAA
* * *
22149493 GAAAGAAAGAAAAGGAAGAAA
1 GAAAAAAAAAAAAGGAACAAA
22149514 GAA
1 GAA
22149517 CAACGAAGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (21 bp):
GAAAAAAAAAAAAGGAACAAA
Found at i:22154183 original size:55 final size:55
Alignment explanation
Indices: 22154123--22154286 Score: 186
Period size: 55 Copynumber: 3.0 Consensus size: 55
22154113 AAAAAATTAT
* ** *
22154123 ATGTAGTTATTACACATTATATTGAAAATTTAGTTGCCATACGTCATGTTGAAAA
1 ATGTAGTTATTACATATTATATTGAAAATTTAGTTGTTATATGTCATGTTGAAAA
* * * * **
22154178 ATGTAGTTATTACATGTGATGTTGAAAATTTAGTTGTTACATGTTGTGTTG-AAA
1 ATGTAGTTATTACATATTATATTGAAAATTTAGTTGTTATATGTCATGTTGAAAA
* * * * *
22154232 TTTTAGTTTTTACATAATATATTGAAAATGTAGTTGTTATATGTCATGTTGAAAA
1 ATGTAGTTATTACATATTATATTGAAAATTTAGTTGTTATATGTCATGTTGAAAA
22154287 TTTAATTGTT
Statistics
Matches: 87, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
54 43 0.49
55 44 0.51
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (55 bp):
ATGTAGTTATTACATATTATATTGAAAATTTAGTTGTTATATGTCATGTTGAAAA
Found at i:22154288 original size:81 final size:81
Alignment explanation
Indices: 22154175--22154325 Score: 221
Period size: 81 Copynumber: 1.9 Consensus size: 81
22154165 GTCATGTTGA
* * ** * *
22154175 AAAATGTAGTTATTACATGTGATGTTGAAAATTTAGTTGTTACATGTTGTGTTGAAATTTTAGTT
1 AAAATGTAGTTATTACATGTCATGTTGAAAATTTAATTGTTACATGTCATGTTAAAAATTTAGTT
*
22154240 TTTACATAATATATTG
66 ATTACATAATATATTG
* *
22154256 AAAATGTAGTTGTTATATGTCATGTTGAAAATTTAATTGTTACATGTCATGTTAAAAATTTAGTT
1 AAAATGTAGTTATTACATGTCATGTTGAAAATTTAATTGTTACATGTCATGTTAAAAATTTAGTT
22154321 ATTAC
66 ATTAC
22154326 TCGTCATGAT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.46
Consensus pattern (81 bp):
AAAATGTAGTTATTACATGTCATGTTGAAAATTTAATTGTTACATGTCATGTTAAAAATTTAGTT
ATTACATAATATATTG
Found at i:22154325 original size:27 final size:27
Alignment explanation
Indices: 22154144--22154340 Score: 182
Period size: 27 Copynumber: 7.3 Consensus size: 27
22154134 ACACATTATA
** * *
22154144 TTGAAAATTTAGTTGCCATACGTCATG
1 TTGAAAATTTAGTTGTTACATGTCATG
* * *
22154171 TTGAAAAATGTAGTTATTACATGTGATG
1 TTG-AAAATTTAGTTGTTACATGTCATG
**
22154199 TTGAAAATTTAGTTGTTACATGTTGTG
1 TTGAAAATTTAGTTGTTACATGTCATG
* * * *
22154226 TTGAAATTTTAGTTTTTACATAAT-ATA
1 TTGAAAATTTAGTTGTTACAT-GTCATG
* *
22154253 TTGAAAATGTAGTTGTTATATGTCATG
1 TTGAAAATTTAGTTGTTACATGTCATG
*
22154280 TTGAAAATTTAATTGTTACATGTCATG
1 TTGAAAATTTAGTTGTTACATGTCATG
* *
22154307 TTAAAAATTTAGTTATTAC-TCGTCATG
1 TTGAAAATTTAGTTGTTACAT-GTCATG
*
22154334 ATGAAAA
1 TTGAAAA
22154341 AATTATAACA
Statistics
Matches: 136, Mismatches: 30, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
26 2 0.01
27 113 0.83
28 21 0.15
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.43
Consensus pattern (27 bp):
TTGAAAATTTAGTTGTTACATGTCATG
Found at i:22154339 original size:81 final size:82
Alignment explanation
Indices: 22154164--22154340 Score: 207
Period size: 81 Copynumber: 2.2 Consensus size: 82
22154154 AGTTGCCATA
* * * ** *
22154164 CGTCATGTTGAAAAATGTAGTTATTACATGTGATGTTGAAAATTTAGTTGTTACATGTTGTGTTG
1 CGTCATGATG-AAAATGTAGTTATTACATGTCATGTTGAAAATTTAATTGTTACATGTCATGTTA
* *
22154229 AAATTTTAGTTTTTACAT
65 AAAATTTAGTTATTACAT
** * *
22154247 AAT-AT-ATTGAAAATGTAGTTGTTATATGTCATGTTGAAAATTTAATTGTTACATGTCATGTTA
1 CGTCATGA-TGAAAATGTAGTTATTACATGTCATGTTGAAAATTTAATTGTTACATGTCATGTTA
22154310 AAAATTTAGTTATTAC-T
65 AAAATTTAGTTATTACAT
22154327 CGTCATGATGAAAA
1 CGTCATGATGAAAA
22154341 AATTATAACA
Statistics
Matches: 77, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
80 2 0.03
81 69 0.90
82 5 0.06
83 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (82 bp):
CGTCATGATGAAAATGTAGTTATTACATGTCATGTTGAAAATTTAATTGTTACATGTCATGTTAA
AAATTTAGTTATTACAT
Found at i:22155024 original size:22 final size:22
Alignment explanation
Indices: 22154969--22155041 Score: 67
Period size: 22 Copynumber: 3.1 Consensus size: 22
22154959 CAATAATTTG
*
22154969 ATTATACATATAAAAGTACTTTTTA
1 ATTATA-ATTTAAAA-TA-TTTTTA
*
22154994 ATTGTTAATTTAAAATATTTTTA
1 ATT-ATAATTTAAAATATTTTTA
*
22155017 ATTATAATTTCAAAA-AATTTTA
1 ATTATAATTT-AAAATATTTTTA
22155039 ATT
1 ATT
22155042 TATTTATATT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
22 15 0.36
23 13 0.31
24 2 0.05
25 10 0.24
26 2 0.05
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (22 bp):
ATTATAATTTAAAATATTTTTA
Found at i:22155036 original size:32 final size:32
Alignment explanation
Indices: 22155000--22155060 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
22154990 TTTAATTGTT
22155000 AATTTAAAATATT-TTTA-ATTATAATTTCAAAA
1 AATTT-AAAT-TTATTTATATTATAATTTCAAAA
*
22155032 AATTTTAATTTATTTATATTATAATTTCA
1 AATTTAAATTTATTTATATTATAATTTCA
22155061 TAAATTTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 2 0.08
31 7 0.27
32 17 0.65
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (32 bp):
AATTTAAATTTATTTATATTATAATTTCAAAA
Found at i:22155532 original size:13 final size:13
Alignment explanation
Indices: 22155494--22155536 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
22155484 ATAAAAAAAG
22155494 TATTATTAAAAATA
1 TATT-TTAAAAATA
**
22155508 T-TTTTAGTAATA
1 TATTTTAAAAATA
22155520 TATTTTAAAAATA
1 TATTTTAAAAATA
22155533 TATT
1 TATT
22155537 GTTTTAAGTC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 8 0.33
13 15 0.62
14 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (13 bp):
TATTTTAAAAATA
Found at i:22156538 original size:36 final size:37
Alignment explanation
Indices: 22156491--22156565 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 37
22156481 ATATCTGGAG
22156491 TTGAATTCATTAACGGCGGCG-TTCTAGGGCAAAGTA
1 TTGAATTCATTAACGGCGGCGATTCTAGGGCAAAGTA
22156527 TTGAATTCATTAACGGCGGCGATTCTAGGGCAAAGTA
1 TTGAATTCATTAACGGCGGCGATTCTAGGGCAAAGTA
22156564 TT
1 TT
22156566 CATTTTGAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 21 0.55
37 17 0.45
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (37 bp):
TTGAATTCATTAACGGCGGCGATTCTAGGGCAAAGTA
Found at i:22160183 original size:15 final size:15
Alignment explanation
Indices: 22160163--22160199 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
22160153 TGCTCATTTA
*
22160163 GATTGGTAGGGAATG
1 GATTGGTAGGAAATG
22160178 GATTGGTAGGAAATG
1 GATTGGTAGGAAATG
*
22160193 GAGTGGT
1 GATTGGT
22160200 CAGCTGAGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.46, T:0.27
Consensus pattern (15 bp):
GATTGGTAGGAAATG
Found at i:22160228 original size:63 final size:63
Alignment explanation
Indices: 22160149--22160401 Score: 443
Period size: 63 Copynumber: 4.0 Consensus size: 63
22160139 AGAAACCAGA
*
22160149 AACTTGCTCATTTAGATTGGTAGGGAATGGATTGGTAGGAAATGGAGTGGTCAGCTGAGCAGG
1 AACTTGCTCATTTAGATTGGTAGGGAATGGATTGGTAGGAAATGGAGCGGTCAGCTGAGCAGG
* *
22160212 AACTTGCACATTTAGATTGGTAGGGAATGGATTGGTAGGAAATGGAGCGTTCAGCTGAGCAGG
1 AACTTGCTCATTTAGATTGGTAGGGAATGGATTGGTAGGAAATGGAGCGGTCAGCTGAGCAGG
* *
22160275 AACTTGCTCATTTAGATTGGTAGGGAATAGATTGGTAGGAAATGGAGCGTTCAGCTGAGCAGG
1 AACTTGCTCATTTAGATTGGTAGGGAATGGATTGGTAGGAAATGGAGCGGTCAGCTGAGCAGG
* *
22160338 AACTTGCTCATTTAGATTGGTAGGGAATGGATTGGCAGGAAATGGAGTGGTCAGCTGAGCAGG
1 AACTTGCTCATTTAGATTGGTAGGGAATGGATTGGTAGGAAATGGAGCGGTCAGCTGAGCAGG
22160401 A
1 A
22160402 TCCATTGGAG
Statistics
Matches: 181, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 181 1.00
ACGTcount: A:0.28, C:0.11, G:0.35, T:0.26
Consensus pattern (63 bp):
AACTTGCTCATTTAGATTGGTAGGGAATGGATTGGTAGGAAATGGAGCGGTCAGCTGAGCAGG
Found at i:22160246 original size:15 final size:15
Alignment explanation
Indices: 22160226--22160257 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22160216 TGCACATTTA
*
22160226 GATTGGTAGGGAATG
1 GATTGGTAGGAAATG
22160241 GATTGGTAGGAAATG
1 GATTGGTAGGAAATG
22160256 GA
1 GA
22160258 GCGTTCAGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.44, T:0.25
Consensus pattern (15 bp):
GATTGGTAGGAAATG
Found at i:22171365 original size:20 final size:19
Alignment explanation
Indices: 22171333--22171372 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
22171323 CATTTTTTCT
22171333 AATAAAAATAAGAAAAAGGA
1 AATAAAAATAAG-AAAAGGA
22171353 AATAGAAAA-AAGAAAAGGA
1 AATA-AAAATAAGAAAAGGA
22171372 A
1 A
22171373 GATCGACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
20 7 0.37
21 4 0.21
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.07
Consensus pattern (19 bp):
AATAAAAATAAGAAAAGGA
Found at i:22174777 original size:43 final size:43
Alignment explanation
Indices: 22174724--22174808 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
22174714 TTGTATGCAG
* *
22174724 TTGATATTATTTCATGCATTGCTGCATCTTTCT-TATTTGCTTT
1 TTGATATTATTTCATGCACTGCTACATCTTT-TGTATTTGCTTT
* **
22174767 TTGATGTTATTTTGTGCACTGCTACATCTTTTGTATTTGCTT
1 TTGATATTATTTCATGCACTGCTACATCTTTTGTATTTGCTT
22174809 GAATGATGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.15, C:0.15, G:0.14, T:0.55
Consensus pattern (43 bp):
TTGATATTATTTCATGCACTGCTACATCTTTTGTATTTGCTTT
Found at i:22182289 original size:24 final size:24
Alignment explanation
Indices: 22182250--22182308 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
22182240 ATAAAATATT
**
22182250 ATTTATTATATTTAATCCAATCATAA
1 ATTT-TTAT-TTTAATAAAATCATAA
*
22182276 ATTTTTATTTTAATAAAATCATTA
1 ATTTTTATTTTAATAAAATCATAA
*
22182300 ATTATTATT
1 ATTTTTATT
22182309 ATTCAATACA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 21 0.72
25 4 0.14
26 4 0.14
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTTTTATTTTAATAAAATCATAA
Found at i:22183237 original size:21 final size:22
Alignment explanation
Indices: 22183191--22183241 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
22183181 AGAAAAGAAG
22183191 AATT-AAAAAATAGATATTATA
1 AATTAAAAAAATAGATATTATA
22183212 AATTAAAAAAATA-AT-TTAATA
1 AATTAAAAAAATAGATATT-ATA
*
22183233 TATTAAAAA
1 AATTAAAAA
22183242 TAGCTATTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 2 0.07
21 17 0.63
22 8 0.30
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
AATTAAAAAAATAGATATTATA
Found at i:22190841 original size:23 final size:24
Alignment explanation
Indices: 22190800--22190846 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
22190790 TACTCATAAT
*
22190800 TTTAAAATATTTATTTTTAAAAAA
1 TTTAAAATATTTATCTTTAAAAAA
*
22190824 TTTAAACT-TTTATCTTTAAAAAA
1 TTTAAAATATTTATCTTTAAAAAA
22190847 ATTATATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTAAAATATTTATCTTTAAAAAA
Found at i:22190847 original size:24 final size:24
Alignment explanation
Indices: 22190800--22190849 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
22190790 TACTCATAAT
*
22190800 TTTAAAATATTTATTTTTAAAAAA
1 TTTAAAATATTTATTTTAAAAAAA
*
22190824 TTTAAACT-TTTATCTTTAAAAAAA
1 TTTAAAATATTTAT-TTTAAAAAAA
22190848 TT
1 TT
22190850 ATATAAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (24 bp):
TTTAAAATATTTATTTTAAAAAAA
Found at i:22197165 original size:2 final size:2
Alignment explanation
Indices: 22197158--22197184 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22197148 TCTATTCTCC
22197158 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
22197185 CAGTTTTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.