Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 291 of 313
Found at i:89333756 original size:79 final size:81
Alignment explanation
Indices: 89333654--89333837 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
89333644 GCTCCTCGTT
* *
89333654 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
89333716 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
89333734 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
89333798 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
89333814 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
89333838 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:89333771 original size:39 final size:41
Alignment explanation
Indices: 89333654--89333837 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
89333644 GCTCCTCGTT
* *
89333654 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
89333694 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
89333734 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
89333773 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
89333814 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
89333838 CATCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:89336348 original size:34 final size:34
Alignment explanation
Indices: 89336301--89336368 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
89336291 GTGAAATTTG
*
89336301 TTGCAACTCTTACACTTCGGTTTTTGATCATCTA
1 TTGCAACTCTTACACTTCGGCTTTTGATCATCTA
89336335 TTGCAAC-CTTTACACTTCGGCTTTTGATCATCTA
1 TTGCAACTC-TTACACTTCGGCTTTTGATCATCTA
89336369 CACTCCTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 1 0.03
34 31 0.97
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.43
Consensus pattern (34 bp):
TTGCAACTCTTACACTTCGGCTTTTGATCATCTA
Found at i:89339211 original size:70 final size:70
Alignment explanation
Indices: 89339070--89339204 Score: 261
Period size: 70 Copynumber: 1.9 Consensus size: 70
89339060 TGTAAATGAG
*
89339070 ATCAACAGATTACCTGTCTAGGCTAAATCCTTTCTTCAACACATGTAGGACCTCATTACACATGT
1 ATCAACAGATTACCTGTCTAGGCTAAATCCTTTCTTCAACACATGCAGGACCTCATTACACATGT
89339135 CAATC
66 CAATC
89339140 ATCAACAGATTACCTGTCTAGGCTAAATCCTTTCTTCAACACATGCAGGACCTCATTACACATGT
1 ATCAACAGATTACCTGTCTAGGCTAAATCCTTTCTTCAACACATGCAGGACCTCATTACACATGT
89339205 TTATCATGGT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (70 bp):
ATCAACAGATTACCTGTCTAGGCTAAATCCTTTCTTCAACACATGCAGGACCTCATTACACATGT
CAATC
Found at i:89340258 original size:35 final size:35
Alignment explanation
Indices: 89340219--89340288 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
89340209 AGTTTTGCAA
*
89340219 TTTATTCAATTTAGTCCCTAATTTTCCAATTGGGC
1 TTTATTCAATTTAATCCCTAATTTTCCAATTGGGC
89340254 TTTATTCAATTTAATCCCTAATTTTCCAATTGGGC
1 TTTATTCAATTTAATCCCTAATTTTCCAATTGGGC
89340289 ACTTACTCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTATTCAATTTAATCCCTAATTTTCCAATTGGGC
Found at i:89342935 original size:37 final size:37
Alignment explanation
Indices: 89342885--89342958 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
89342875 CCGTACCTGT
*
89342885 AACACCCCGTACCCGAGTCCGTCGCCGGAGTCGGACA
1 AACACCCCGTACCCGAGTCCATCGCCGGAGTCGGACA
89342922 AACACCCCGTACCCGAGTCCATCGCCGGAGTCGGACA
1 AACACCCCGTACCCGAGTCCATCGCCGGAGTCGGACA
89342959 CGAGGGGTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.23, C:0.41, G:0.26, T:0.11
Consensus pattern (37 bp):
AACACCCCGTACCCGAGTCCATCGCCGGAGTCGGACA
Found at i:89343473 original size:115 final size:115
Alignment explanation
Indices: 89343271--89343500 Score: 390
Period size: 115 Copynumber: 2.0 Consensus size: 115
89343261 TGATGACGTT
*
89343271 TGTTTATATAGAAACTAGACTCAGAGAGGAATCTATACATATATGGCTTGACTCCTAATTGTCTC
1 TGTTTATATAGAAACTAGACTCAGAGAGGAATCTATACATATATGGCTTGACTCCTAATTATCTC
* * * *
89343336 TGGTTAATTTATAATGAATTTCCATATTCGGAACAGGAAATCCAGAAACC
66 TGGTTAATTTATAATGAATTTCCAAAGTCAGAACAGGAAATACAGAAACC
*
89343386 TGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATATGG-TATGACTCCTAATTATCT
1 TGTTTATATAGAAACTAGACTCAGAGAGGAATCTATACATATATGGCT-TGACTCCTAATTATCT
89343450 CTGGTTAATTTATAATGAATTTCCAAAGTCAGAACAGGAAATACAGAAACC
65 CTGGTTAATTTATAATGAATTTCCAAAGTCAGAACAGGAAATACAGAAACC
89343501 GTTCTGGCCC
Statistics
Matches: 108, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
114 1 0.01
115 107 0.99
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (115 bp):
TGTTTATATAGAAACTAGACTCAGAGAGGAATCTATACATATATGGCTTGACTCCTAATTATCTC
TGGTTAATTTATAATGAATTTCCAAAGTCAGAACAGGAAATACAGAAACC
Found at i:89344438 original size:40 final size:40
Alignment explanation
Indices: 89344394--89344705 Score: 387
Period size: 40 Copynumber: 7.8 Consensus size: 40
89344384 ATAACCACAA
89344394 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
89344434 GCACAAATGCCTTCGGGTCTTAGCCCGAATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
89344474 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
89344514 GCACAAATGCCTTCGGGTCTTAGCCCGAATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * * *
89344554 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAATTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
89344594 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
89344634 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
89344674 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
89344706 CATTCAAATG
Statistics
Matches: 225, Mismatches: 41, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
39 9 0.04
40 206 0.92
41 10 0.04
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:89344701 original size:80 final size:80
Alignment explanation
Indices: 89344374--89344704 Score: 565
Period size: 80 Copynumber: 4.2 Consensus size: 80
89344364 TCTTCGGAAT
* * * * * * *
89344374 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
89344438 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
89344453 TTAGCCCGAATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
89344518 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
89344533 TTAGCCCGAATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAATTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
89344598 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
89344613 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
89344678 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
89344693 TTAGCCCGGATA
1 TTAGCCCGGATA
89344705 TCATTCAAAT
Statistics
Matches: 240, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
79 4 0.02
80 236 0.98
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:89348882 original size:45 final size:44
Alignment explanation
Indices: 89348797--89348882 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 44
89348787 TATGTGATCT
*
89348797 GAACTCATTGAGTTGTGTATGAGTTCATGATATATGTGACATCC
1 GAACTCATTGAGTTGTGTATGAGTTCATGATATATATGACATCC
* * *
89348841 GAACTTATTGAGTTGTGGTCTGAGTT-AGTGATATGTATGACA
1 GAACTCATTGAGTTGT-GTATGAGTTCA-TGATATATATGACA
89348883 CATGTTTTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 16 0.44
45 20 0.56
ACGTcount: A:0.27, C:0.10, G:0.26, T:0.37
Consensus pattern (44 bp):
GAACTCATTGAGTTGTGTATGAGTTCATGATATATATGACATCC
Found at i:89382118 original size:45 final size:45
Alignment explanation
Indices: 89382063--89382433 Score: 193
Period size: 45 Copynumber: 8.2 Consensus size: 45
89382053 AGCCACTATC
* * *
89382063 TATTTATTTCCA--ATATGATACCATAGTGTTTTTCAACTATGTTCT
1 TATTTATTTCCATCATAT--TACCATAATGTCTTTCAACTATGGTCT
*
89382108 TATTTATTTCCATCATATTTCCATAATGTCTTTCAACTATGGTCT
1 TATTTATTTCCATCATATTACCATAATGTCTTTCAACTATGGTCT
* *** * * * **
89382153 TATTCAATTTTGGT-ATAGTGCTATGTTGTCTTTCAACTATGGTCT
1 TATT-TATTTCCATCATATTACCATAATGTCTTTCAACTATGGTCT
* *** * * *
89382198 TATTCGATTTTGGT-ATATTGCCATATTGTCTTTCAACTATGGTTT
1 TATT-TATTTCCATCATATTACCATAATGTCTTTCAACTATGGTCT
* * * *
89382243 TATTCGT-TTTCAAT-ATAGTGCCATAGTGTCTTTCAACTATGGTCT
1 TATT--TATTTCCATCATATTACCATAATGTCTTTCAACTATGGTCT
* * ** * *
89382288 TATTCATTTCCAGT-ATAGTGTCATAGTTTCTTTCAACTATGGTCT
1 TATTTATTTCCA-TCATATTACCATAATGTCTTTCAACTATGGTCT
* * * * ** *
89382333 TATTCATTTTC-TGTATAGTGTCATAGTGTCTTTCAACTATGGTCT
1 TATTTATTTCCAT-CATATTACCATAATGTCTTTCAACTATGGTCT
* ** * ** *
89382378 TATTCATTTTCGGT-ATAGTGTCATAGTGTCTTTCAACTATGGTCT
1 TATTTA-TTTCCATCATATTACCATAATGTCTTTCAACTATGGTCT
*
89382423 TATTCATTTCC
1 TATTTATTTCC
89382434 TGTAACACCC
Statistics
Matches: 281, Mismatches: 35, Indels: 21
0.83 0.10 0.06
Matches are distributed among these distances:
43 1 0.00
44 9 0.03
45 258 0.92
46 8 0.03
47 5 0.02
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.48
Consensus pattern (45 bp):
TATTTATTTCCATCATATTACCATAATGTCTTTCAACTATGGTCT
Found at i:89382246 original size:22 final size:22
Alignment explanation
Indices: 89382221--89382426 Score: 79
Period size: 22 Copynumber: 9.2 Consensus size: 22
89382211 TATATTGCCA
*
89382221 TATTGTCTTTCAACTATGGTTT
1 TATTGTCTTTCAACTATGGTCT
* *
89382243 TATTCGT-TTTCAA-TATAGTGCCA
1 TATT-GTCTTTCAACTAT-G-GTCT
*
89382266 TAGTGTCTTTCAACTATGGTCT
1 TATTGTCTTTCAACTATGGTCT
* * *
89382288 TA-T-TCATTTCCAGTATAGTGTCA
1 TATTGTC-TTTCAACTAT-G-GTCT
89382311 TAGTT-TCTTTCAACTATGGTCT
1 TA-TTGTCTTTCAACTATGGTCT
* ** *
89382333 TATTCAT-TTTC-TGTATAGTGTCA
1 TATT-GTCTTTCAACTAT-G-GTCT
*
89382356 TAGTGTCTTTCAACTATGGTCT
1 TATTGTCTTTCAACTATGGTCT
* ** *
89382378 TATTCAT-TTTC-GGTATAGTGTCA
1 TATT-GTCTTTCAACTAT-G-GTCT
*
89382401 TAGTGTCTTTCAACTATGGTCT
1 TATTGTCTTTCAACTATGGTCT
89382423 TATT
1 TATT
89382427 CATTTCCTGT
Statistics
Matches: 132, Mismatches: 31, Indels: 42
0.64 0.15 0.20
Matches are distributed among these distances:
20 2 0.02
21 20 0.15
22 47 0.36
23 43 0.33
24 17 0.13
25 3 0.02
ACGTcount: A:0.21, C:0.16, G:0.15, T:0.48
Consensus pattern (22 bp):
TATTGTCTTTCAACTATGGTCT
Found at i:89382325 original size:135 final size:135
Alignment explanation
Indices: 89382083--89382433 Score: 460
Period size: 135 Copynumber: 2.6 Consensus size: 135
89382073 CAATATGATA
* * * * * * *
89382083 CCATAGTGTTTTTCAACTATGTTCTTATTTA-TTTCCATCATATTTCCATAATGTCTTTCAACTA
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCAAT-ATAGTGCCATAGTGTCTTTCAACTA
**
89382147 TGGTCTTATTCAATTT-TGGTATAGTGCTATGTTGTCTTTCAACTATGGTCTTATTCGATTTT-G
65 TGGTCTTATTC-ATTTCCAGTATAGTGCTATGTTGTCTTTCAACTATGGTCTTATTC-ATTTTCG
*
89382210 GTATATTG
128 GTATAGTG
* * *
89382218 CCATATTGTCTTTCAACTATGGTTTTATTCGTTTTCAATATAGTGCCATAGTGTCTTTCAACTAT
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCAATATAGTGCCATAGTGTCTTTCAACTAT
*
89382283 GGTCTTATTCATTTCCAGTATAGTG-TCATAGTT-TCTTTCAACTATGGTCTTATTCATTTTCTG
66 GGTCTTATTCATTTCCAGTATAGTGCT-AT-GTTGTCTTTCAACTATGGTCTTATTCATTTTCGG
89382346 TATAGTG
129 TATAGTG
* ** *
89382353 TCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGGTATAGTGTCATAGTGTCTTTCAACTAT
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCAATATAGTGCCATAGTGTCTTTCAACTAT
89382418 GGTCTTATTCATTTCC
66 GGTCTTATTCATTTCC
89382434 TGTAACACCC
Statistics
Matches: 190, Mismatches: 21, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
134 10 0.05
135 171 0.90
136 9 0.05
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (135 bp):
CCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCAATATAGTGCCATAGTGTCTTTCAACTAT
GGTCTTATTCATTTCCAGTATAGTGCTATGTTGTCTTTCAACTATGGTCTTATTCATTTTCGGTA
TAGTG
Found at i:89382437 original size:90 final size:89
Alignment explanation
Indices: 89382084--89382437 Score: 430
Period size: 90 Copynumber: 3.9 Consensus size: 89
89382074 AATATGATAC
* * * ** * *
89382084 CATAGTGTTTTTCAACTATGTTCTTATTTA-TTTCCATCATA-TTTCCATAATGTCTTTCAACTA
1 CATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGGT-ATAGTGT-CATAGTGTCTTTCAACTA
*
89382147 TGGTCTTATTCAATTTT-GGTATAGTG
64 TGGTCTTATTC-ATTTTCTGTATAGTG
* * *
89382173 C-TATGTTGTCTTTCAACTATGGTCTTATTCGATTTT-GGTATATTGCCATATTGTCTTTCAACT
1 CATA-G-TGTCTTTCAACTATGGTCTTATTC-ATTTTCGGTATAGTGTCATAGTGTCTTTCAACT
* * **
89382236 ATGGTTTTATTCGTTTTCAATATAGTG
63 ATGGTCTTATTCATTTTCTGTATAGTG
* * *
89382263 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCAGTATAGTGTCATAGTTTCTTTCAACTAT
1 -CATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGGTATAGTGTCATAGTGTCTTTCAACTAT
89382328 GGTCTTATTCATTTTCTGTATAGTG
65 GGTCTTATTCATTTTCTGTATAGTG
89382353 TCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGGTATAGTGTCATAGTGTCTTTCAACTAT
1 -CATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGGTATAGTGTCATAGTGTCTTTCAACTAT
*
89382418 GGTCTTATTCATTTCCTGTA
65 GGTCTTATTCATTTTCTGTA
89382438 ACACCCTTAA
Statistics
Matches: 229, Mismatches: 27, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
88 2 0.01
89 10 0.04
90 207 0.90
91 5 0.02
92 5 0.02
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.48
Consensus pattern (89 bp):
CATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGGTATAGTGTCATAGTGTCTTTCAACTATG
GTCTTATTCATTTTCTGTATAGTG
Found at i:89384595 original size:49 final size:49
Alignment explanation
Indices: 89384469--89385071 Score: 1036
Period size: 49 Copynumber: 12.3 Consensus size: 49
89384459 CCCTTCGGGA
* * * * * *
89384469 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
* *
89384515 CTCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
89384563 CTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
89384612 CTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
89384661 CTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
89384710 CTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
89384759 CTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
* *
89384808 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
89384857 CTTATCACATACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--C--ACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
89384910 CTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
89384959 CTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
89385008 CTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
89385057 CTTATCACATATATA
1 CTTATCACATATATA
89385072 CATTCACATC
Statistics
Matches: 535, Mismatches: 12, Indels: 17
0.95 0.02 0.03
Matches are distributed among these distances:
46 3 0.01
47 40 0.07
48 2 0.00
49 442 0.83
51 2 0.00
53 46 0.09
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.34
Consensus pattern (49 bp):
CTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
Found at i:89388054 original size:34 final size:34
Alignment explanation
Indices: 89388016--89388080 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
89388006 TTATATACAT
89388016 GATATAATTTACTTATCAAACACAGCATTTATGC
1 GATATAATTTACTTATCAAACACAGCATTTATGC
89388050 GATATAATTTACTTATCAAACACAGCATTTA
1 GATATAATTTACTTATCAAACACAGCATTTA
89388081 GGCCAATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (34 bp):
GATATAATTTACTTATCAAACACAGCATTTATGC
Found at i:89396160 original size:24 final size:26
Alignment explanation
Indices: 89396124--89396174 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 26
89396114 TTTCACAATA
89396124 AATTTCTCTATTTCA-ATTTCAATATC
1 AATTTCTCTATTTCATA-TTCAATATC
*
89396150 AATTTC-C-ATTTCTTATTCAATATC
1 AATTTCTCTATTTCATATTCAATATC
89396174 A
1 A
89396175 TTCAATGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 15 0.65
25 2 0.09
26 6 0.26
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (26 bp):
AATTTCTCTATTTCATATTCAATATC
Found at i:89396527 original size:27 final size:27
Alignment explanation
Indices: 89396480--89396531 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
89396470 ATAATTCAAT
*
89396480 TTCCAATCAATATACAATTTCAATCCA
1 TTCCAATCAATACACAATTTCAATCCA
*
89396507 TTCCAATTCAATACAC-TTTTCAATC
1 TTCCAA-TCAATACACAATTTCAATC
89396532 ATACACATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (27 bp):
TTCCAATCAATACACAATTTCAATCCA
Found at i:89397301 original size:18 final size:17
Alignment explanation
Indices: 89397269--89397303 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
89397259 CTTTTCCATC
*
89397269 CTTTTGTTTCTTTATTT
1 CTTTTATTTCTTTATTT
89397286 CTTTTATTTACTTTATTT
1 CTTTTATTT-CTTTATTT
89397304 TATGTTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.74
Consensus pattern (17 bp):
CTTTTATTTCTTTATTT
Found at i:89402524 original size:11 final size:11
Alignment explanation
Indices: 89402508--89402533 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
89402498 TATTCTTACC
89402508 CCGATCAAGAT
1 CCGATCAAGAT
89402519 CCGATCAAGAT
1 CCGATCAAGAT
89402530 CCGA
1 CCGA
89402534 ATCACGTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.31, G:0.19, T:0.15
Consensus pattern (11 bp):
CCGATCAAGAT
Found at i:89403553 original size:21 final size:21
Alignment explanation
Indices: 89403529--89403575 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
89403519 TATGTCTATC
89403529 CCACACA-CTCGTGTGGTAAAT
1 CCACACACCT-GTGTGGTAAAT
*
89403550 CCACACGCCTGTGTGGTAAAT
1 CCACACACCTGTGTGGTAAAT
89403571 CCACA
1 CCACA
89403576 TGTCTATGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (21 bp):
CCACACACCTGTGTGGTAAAT
Found at i:89403589 original size:21 final size:21
Alignment explanation
Indices: 89403540--89403594 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
89403530 CACACACTCG
*
89403540 TGTGGTAAATCCACACGCCTG
1 TGTGGTAAATCCACACGCCTA
* *
89403561 TGTGGTAAATCCACATGTCTA
1 TGTGGTAAATCCACACGCCTA
*
89403582 TGTTGTAACATCC
1 TGTGGTAA-ATCC
89403595 CAAATTAGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (21 bp):
TGTGGTAAATCCACACGCCTA
Found at i:89407019 original size:49 final size:49
Alignment explanation
Indices: 89406897--89407847 Score: 1797
Period size: 49 Copynumber: 19.5 Consensus size: 49
89406887 TTCGGGACTC
* * * * * *
89406897 ATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
89406944 GTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
89406991 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
89407040 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
89407089 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
89407138 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
89407187 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
89407236 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
89407285 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
89407334 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
89407383 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
89407432 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
89407481 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
89407530 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
89407579 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
89407628 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
89407677 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
89407726 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
89407775 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
89407824 ATCAC--ATATATACACTTTCACATT
1 ATCACATATATATACACTTTCACATT
89407848 TATTCAAATA
Statistics
Matches: 892, Mismatches: 8, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
46 1 0.00
47 60 0.07
49 831 0.93
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:89409310 original size:43 final size:43
Alignment explanation
Indices: 89409263--89409349 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
89409253 CTAAGGTTCC
*
89409263 CAACACCGATTATACCTATTCAATTTGCTCTTTACCTTTTCTA
1 CAACACCGATTATACCTATTCAATTTGATCTTTACCTTTTCTA
* *
89409306 CAACACCGATTCTACCTATTCAATTTGATCTTTCCCTTTTCTA
1 CAACACCGATTATACCTATTCAATTTGATCTTTACCTTTTCTA
89409349 C
1 C
89409350 TACAACCTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.24, C:0.30, G:0.05, T:0.41
Consensus pattern (43 bp):
CAACACCGATTATACCTATTCAATTTGATCTTTACCTTTTCTA
Found at i:89412791 original size:38 final size:38
Alignment explanation
Indices: 89412714--89412863 Score: 176
Period size: 38 Copynumber: 3.9 Consensus size: 38
89412704 GATTTATCGA
* *** * * *
89412714 CACAAAGCCTGCTAGATGCTAAGCCTGTACAACATCGG
1 CACAAAGCCTACTAGGCACTAAGCCTGAATAACACCGG
89412752 CACGAAA-CCTACTAGGCACTAAGCCTGAATAACACCGG
1 CAC-AAAGCCTACTAGGCACTAAGCCTGAATAACACCGG
* *
89412790 CACAAAGCCTACTAGGCATTAAGCCTGAATAACACCAG
1 CACAAAGCCTACTAGGCACTAAGCCTGAATAACACCGG
* * *
89412828 CACAAAGCCTGCTAAGCACTAAGCCTCAATAACACC
1 CACAAAGCCTACTAGGCACTAAGCCTGAATAACACC
89412864 CAATTTGAAT
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
37 3 0.03
38 91 0.94
39 3 0.03
ACGTcount: A:0.37, C:0.31, G:0.17, T:0.15
Consensus pattern (38 bp):
CACAAAGCCTACTAGGCACTAAGCCTGAATAACACCGG
Found at i:89412797 original size:22 final size:22
Alignment explanation
Indices: 89412766--89412838 Score: 59
Period size: 22 Copynumber: 3.6 Consensus size: 22
89412756 AAACCTACTA
*
89412766 GGCACTAAGCCTGAATAACACC
1 GGCACAAAGCCTGAATAACACC
*
89412788 GGCACAAAGCCT-ACT---A--
1 GGCACAAAGCCTGAATAACACC
**
89412804 GGCATTAAGCCTGAATAACACC
1 GGCACAAAGCCTGAATAACACC
*
89412826 AGCACAAAGCCTG
1 GGCACAAAGCCTG
89412839 CTAAGCACTA
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
16 10 0.27
17 2 0.05
18 1 0.03
20 1 0.03
21 2 0.05
22 21 0.57
ACGTcount: A:0.37, C:0.30, G:0.19, T:0.14
Consensus pattern (22 bp):
GGCACAAAGCCTGAATAACACC
Found at i:89416321 original size:17 final size:19
Alignment explanation
Indices: 89416301--89416346 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 19
89416291 GATAAATTTA
89416301 TATAAAAAT-TA-TGAAAT
1 TATAAAAATATAGTGAAAT
89416318 TATAAAAGATATAGTGAAAT
1 TATAAAA-ATATAGTGAAAT
89416338 T-TAAAAATA
1 TATAAAAATA
89416347 GTTTTGTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 7 0.27
18 5 0.19
19 7 0.27
20 7 0.27
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (19 bp):
TATAAAAATATAGTGAAAT
Found at i:89418034 original size:17 final size:17
Alignment explanation
Indices: 89418014--89418066 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 17
89418004 GATGAAATGA
89418014 TATTATAATTTTATAAT
1 TATTATAATTTTATAAT
89418031 TA-T-TAATATTT-TAAT
1 TATTATAAT-TTTATAAT
89418046 TATCTCATAATTTTAT-AT
1 TAT-T-ATAATTTTATAAT
89418064 TAT
1 TAT
89418067 AGAATAGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
15 10 0.33
16 4 0.13
17 3 0.10
18 8 0.27
19 5 0.17
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTATAATTTTATAAT
Found at i:89425469 original size:28 final size:29
Alignment explanation
Indices: 89425437--89425495 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
89425427 GAGTTTTTCA
*
89425437 AAAAATGACCTATTCTA-ATAATTTTGTTT
1 AAAATTGACCTATTC-ACATAATTTTGTTT
* *
89425466 AAAATTGGCCTATTCACATAATTTTTTTT
1 AAAATTGACCTATTCACATAATTTTGTTT
89425495 A
1 A
89425496 CATTTATTCG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.46
Consensus pattern (29 bp):
AAAATTGACCTATTCACATAATTTTGTTT
Found at i:89427195 original size:14 final size:13
Alignment explanation
Indices: 89427174--89427223 Score: 61
Period size: 14 Copynumber: 3.9 Consensus size: 13
89427164 TTTGATTTTG
89427174 ATTTTGTTGTTTA
1 ATTTTGTTGTTTA
89427187 ATGTTTGTTG-TT-
1 AT-TTTGTTGTTTA
89427199 -TTTTGTTGTTTA
1 ATTTTGTTGTTTA
89427211 ATTTTTGTTGTTT
1 A-TTTTGTTGTTT
89427224 TTCGTGAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
10 7 0.22
11 3 0.09
13 4 0.12
14 18 0.56
ACGTcount: A:0.10, C:0.00, G:0.18, T:0.72
Consensus pattern (13 bp):
ATTTTGTTGTTTA
Found at i:89427202 original size:24 final size:24
Alignment explanation
Indices: 89427175--89427225 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
89427165 TTGATTTTGA
89427175 TTTTGTTGTTTAATGTTTGTTGTT
1 TTTTGTTGTTTAATGTTTGTTGTT
*
89427199 TTTTGTTGTTTAATTTTTGTTGTT
1 TTTTGTTGTTTAATGTTTGTTGTT
89427223 TTT
1 TTT
89427226 CGTGAACATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.08, C:0.00, G:0.18, T:0.75
Consensus pattern (24 bp):
TTTTGTTGTTTAATGTTTGTTGTT
Found at i:89428385 original size:23 final size:23
Alignment explanation
Indices: 89428332--89428385 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
89428322 TTTATTTTAA
89428332 AATATATT-AAATAATAAAATATT
1 AATAT-TTAAAATAATAAAATATT
*
89428355 ATTATTTAAAATAATAAAATATAT
1 AATATTTAAAATAATAAAATAT-T
89428379 AAT-TTTA
1 AATATTTA
89428386 TATTTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 2 0.07
23 22 0.81
24 3 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AATATTTAAAATAATAAAATATT
Found at i:89431425 original size:53 final size:53
Alignment explanation
Indices: 89431340--89431546 Score: 135
Period size: 53 Copynumber: 3.8 Consensus size: 53
89431330 TTCATTTTTA
* * * * *
89431340 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGTCTTATG
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
89431393 AACTCACCATTGTCGTGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCG
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTAT-G
** * * * * * * *** * *
89431447 TAGTTTATCAATGCCATGTCTAGATATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTAT-G
* * * * * *
89431502 AACTTACCAATGCCATGCCTTGGCCTGGTCTTACTTGGTATCCTT
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTT
89431547 AAACCCTAAT
Statistics
Matches: 114, Mismatches: 38, Indels: 3
0.74 0.25 0.02
Matches are distributed among these distances:
53 43 0.38
54 35 0.31
55 36 0.32
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:89436879 original size:47 final size:45
Alignment explanation
Indices: 89436688--89437002 Score: 176
Period size: 47 Copynumber: 6.7 Consensus size: 45
89436678 AGGCCAATGC
* * * * *
89436688 CATGTCCCAGATATGGTCTTACACTAGCTCTCGTCTATACGTGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCACTC-ACTCTAC--GCTGATG
* * ** **
89436737 CATGACCCAGACATGTCTTACACTAGCACGAAACT-TAATC-GATG
1 CATGTCCCAGACATGTCTTACACTGGCAC-TCACTCTACGCTGATG
* * * * **
89436781 CATGTCCTAGACACGTCTTACACTGGCTAACATCA-TCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGC--AC-TCACTCTACGCTGATG
89436828 CATGTCCCAGACATGTCTTACACTGGCACTCACCTCTACGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCACTCA-CTCTACGCTGATG
* * * *
89436874 CCATGTCCCAGACGTGGTCTTACACGGGCTA-TCA-TGATACGGTTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGC-ACTCACT-CTAC-GCTGATG
* * *
89436922 CATGTCCCAAACATGTCTTACACTAGCCCTCATCTCAATAC-C-GATG
1 CATGTCCCAGACATGTCTTACACTGGCACTCA-CTC--TACGCTGATG
* *
89436968 CCATGTCCCAGACATGGTCTTATACTGGCTCTCAC
1 -CATGTCCCAGACAT-GTCTTACACTGGCACTCAC
89437003 GTAACCCCTT
Statistics
Matches: 207, Mismatches: 40, Indels: 40
0.72 0.14 0.14
Matches are distributed among these distances:
44 30 0.14
45 4 0.02
46 32 0.15
47 72 0.35
48 53 0.26
49 16 0.08
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCACTCACTCTACGCTGATG
Found at i:89438847 original size:27 final size:27
Alignment explanation
Indices: 89438817--89438938 Score: 118
Period size: 27 Copynumber: 4.5 Consensus size: 27
89438807 GAGTTTGTTG
*
89438817 CAAAGGCGTTCCTTTCATATTGTGCCA
1 CAAAGGCGTTCCTTTCATATTGCGCCA
** * * **
89438844 CAAATACGTTCTTTTAATATTGCGTTA
1 CAAAGGCGTTCCTTTCATATTGCGCCA
** *
89438871 CAAAGATGTTCTTTTCATATTGCGCCA
1 CAAAGGCGTTCCTTTCATATTGCGCCA
** *
89438898 CAAAGGCACTCCTTTCATATTGCACCA
1 CAAAGGCGTTCCTTTCATATTGCGCCA
*
89438925 CAAAGGCATTCCTT
1 CAAAGGCGTTCCTT
89438939 ATCTATCATG
Statistics
Matches: 76, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (27 bp):
CAAAGGCGTTCCTTTCATATTGCGCCA
Found at i:89440516 original size:27 final size:27
Alignment explanation
Indices: 89440486--89440662 Score: 203
Period size: 27 Copynumber: 6.5 Consensus size: 27
89440476 TATTGAGTCT
* * * *
89440486 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTACATAGTCAAATC
* *
89440513 GCACACTTAGTGCTACGTAATCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
89440540 GCACACTTAGTGCTACATAGTCAAACTC
1 GCACACTTAGTGCTACATAGTCAAA-TC
** * *
89440568 GCACACTTAGTGCCGCATGGTCAATTC
1 GCACACTTAGTGCTACATAGTCAAATC
* **
89440595 GCACACTTAGTGC-ATCATATTCATTTC
1 GCACACTTAGTGCTA-CATAGTCAAATC
*
89440622 GCACACTTAGTGCAACATAGTCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
89440649 GCACACTTAGTGCT
1 GCACACTTAGTGCT
89440663 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAGTCAAATC
Found at i:89440624 original size:82 final size:81
Alignment explanation
Indices: 89440506--89440661 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
89440496 TGCTATATAA
* *
89440506 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
89440571 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
89440588 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
89440652 CACTTAGTGC
65 CACTTAGTGC
89440662 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:89444510 original size:48 final size:48
Alignment explanation
Indices: 89444447--89444670 Score: 237
Period size: 48 Copynumber: 4.8 Consensus size: 48
89444437 TGGTAGGATA
* * *
89444447 CCAATGCCATATCCCAGATATGGTCCTACATGGGATCACATATCAATC
1 CCAATGCCATGTCCCAGATATGGTCTTACATGGGATCACATATCAATG
* * ** * *
89444495 CCAATGCCATGTCCCAGACATAGTCTTACATGGGATCGTAAATCGATG
1 CCAATGCCATGTCCCAGATATGGTCTTACATGGGATCACATATCAATG
* *
89444543 CCAATGCCATGTCCCAGACATGGTCTTACATAGGATCACATAT-AGATG
1 CCAATGCCATGTCCCAGATATGGTCTTACATGGGATCACATATCA-ATG
** * *
89444591 CCAAT---A-G-CCCA-ACTATGGTCTTACATGAAATTACATATCGATG
1 CCAATGCCATGTCCCAGA-TATGGTCTTACATGGGATCACATATCAATG
*
89444634 CCAAAGCCATGTCCCAGATATGGTCTTACATGGGATC
1 CCAATGCCATGTCCCAGATATGGTCTTACATGGGATC
89444671 GCACATAACC
Statistics
Matches: 142, Mismatches: 25, Indels: 18
0.77 0.14 0.10
Matches are distributed among these distances:
42 1 0.01
43 31 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 105 0.74
49 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (48 bp):
CCAATGCCATGTCCCAGATATGGTCTTACATGGGATCACATATCAATG
Found at i:89446107 original size:30 final size:30
Alignment explanation
Indices: 89446071--89446132 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
89446061 CTTGCCTTAG
89446071 AAGAAGGAAGAAGAGAACTCTCATTTCCCA
1 AAGAAGGAAGAAGAGAACTCTCATTTCCCA
89446101 AAGAAGGAAGAAGAGAACTCTCATTTCCCA
1 AAGAAGGAAGAAGAGAACTCTCATTTCCCA
89446131 AA
1 AA
89446133 CTTGAATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.45, C:0.19, G:0.19, T:0.16
Consensus pattern (30 bp):
AAGAAGGAAGAAGAGAACTCTCATTTCCCA
Found at i:89457843 original size:16 final size:16
Alignment explanation
Indices: 89457824--89457856 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
89457814 TATTAATGTT
89457824 AAATTTT-ATAATTAAA
1 AAATTTTAAT-ATTAAA
89457840 AAATTTTAATATTAAA
1 AAATTTTAATATTAAA
89457856 A
1 A
89457857 TAACTTCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATTTTAATATTAAA
Found at i:89459249 original size:19 final size:20
Alignment explanation
Indices: 89459215--89459254 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
89459205 TTTTATCTAC
89459215 TAAACAAAATTTAAATAATT
1 TAAACAAAATTTAAATAATT
* *
89459235 TAAATAAAA-TTAAATCATT
1 TAAACAAAATTTAAATAATT
89459254 T
1 T
89459255 TTAACCAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAACAAAATTTAAATAATT
Found at i:89463729 original size:23 final size:23
Alignment explanation
Indices: 89463703--89463766 Score: 101
Period size: 23 Copynumber: 2.7 Consensus size: 23
89463693 TAAGCACTGT
89463703 TGAGCTGAAATGGTAAGCTCTAA
1 TGAGCTGAAATGGTAAGCTCTAA
*
89463726 TGAGCTGAAATGGTAAGCTCTAG
1 TGAGCTGAAATGGTAAGCTCTAA
*
89463749 TGAGCTGAGAATAGTAAG
1 TGAGCTGA-AATGGTAAG
89463767 TTCTTACAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
23 30 0.79
24 8 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (23 bp):
TGAGCTGAAATGGTAAGCTCTAA
Found at i:89466824 original size:27 final size:28
Alignment explanation
Indices: 89466740--89466837 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
89466730 CATGAGATTG
* * * *
89466740 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
89466769 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
89466797 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
89466824 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
89466838 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:89466848 original size:27 final size:27
Alignment explanation
Indices: 89466768--89466850 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
89466758 TAAATTGTAC
* *
89466768 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
89466796 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
89466823 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
89466850 A
1 A
89466851 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:89466851 original size:29 final size:27
Alignment explanation
Indices: 89466740--89466851 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
89466730 CATGAGATTG
** * *
89466740 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
89466769 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
89466797 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
89466824 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
89466852 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:89468755 original size:40 final size:40
Alignment explanation
Indices: 89468685--89468809 Score: 182
Period size: 40 Copynumber: 3.1 Consensus size: 40
89468675 CGGATGATAA
* *
89468685 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
89468725 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
89468765 CGAAGGCATTTGTGCGAGCTACTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
89468804 CGAAGG
1 CGAAGG
89468810 TACTTGGTTT
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 14 0.18
40 64 0.81
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:89476359 original size:93 final size:93
Alignment explanation
Indices: 89476230--89476401 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
89476220 CGCCCATAAG
* * *
89476230 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
89476295 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
89476323 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
89476388 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
89476402 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:89476398 original size:46 final size:46
Alignment explanation
Indices: 89476223--89476398 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
89476213 TGTAACCCGC
* * * *
89476223 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
89476269 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
89476319 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
89476362 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
89476399 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:89476417 original size:46 final size:46
Alignment explanation
Indices: 89476272--89476410 Score: 135
Period size: 47 Copynumber: 3.0 Consensus size: 46
89476262 TTCGCATCCA
*
89476272 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
89476320 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
89476365 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
89476411 CTAGTGACAT
Statistics
Matches: 74, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.38
47 29 0.39
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:89476853 original size:30 final size:30
Alignment explanation
Indices: 89476819--89476878 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
89476809 ATTTAATATG
89476819 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
89476849 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
89476879 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:89478439 original size:41 final size:41
Alignment explanation
Indices: 89478382--89478464 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
89478372 TAGAGGAAGG
* *
89478382 GAAAGAGATGAAAATTGGCACGTATATTGCTGATGATATAA
1 GAAAGAGATGAAAATTGGCACGCATATTGCTGATAATATAA
*
89478423 GAAAGAGGTGAAAATTGGCACGCATATTGCTGATAATATAA
1 GAAAGAGATGAAAATTGGCACGCATATTGCTGATAATATAA
89478464 G
1 G
89478465 GCAAGGACTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.41, C:0.08, G:0.25, T:0.25
Consensus pattern (41 bp):
GAAAGAGATGAAAATTGGCACGCATATTGCTGATAATATAA
Found at i:89483051 original size:78 final size:78
Alignment explanation
Indices: 89482922--89483170 Score: 401
Period size: 78 Copynumber: 3.2 Consensus size: 78
89482912 CGACGGAGAG
*
89482922 CAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGCAG
1 CAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
* *
89482987 ATCAAAGACACAA
66 ATCGAAGACATAA
*
89483000 CAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGTAG
1 CAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
89483065 ATCGAAGACATAA
66 ATCGAAGACATAA
* * *
89483078 CAGAT-TGGACCTTCATTGAAGCAGATCGAAGATGATTTGGCATCTCTGTATTAGATGGGGAACA
1 CAGATCT-GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCA
*
89483142 GATCGAAGACATAG
65 GATCGAAGACATAA
*
89483156 CAGATCTAACCTTCA
1 CAGATCTGACCTTCA
89483171 CGTGTTTACG
Statistics
Matches: 159, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
77 1 0.01
78 157 0.99
79 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (78 bp):
CAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
ATCGAAGACATAA
Found at i:89483331 original size:78 final size:78
Alignment explanation
Indices: 89483241--89483535 Score: 430
Period size: 78 Copynumber: 3.8 Consensus size: 78
89483231 TCGAAGAAAT
** * * *
89483241 AGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGA
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGA
* *
89483306 AGCAGGTCTAAGA
66 AGCAGATCCAAGA
* *
89483319 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATTTGACCTTCATTGA
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGA
89483384 AGCAGATCCAAGA
66 AGCAGATCCAAGA
* * *
89483397 TGATTTGGCATATCTGTATTAGACAGGGAGCAGATCGAAGACATAACAGAT-TAGACCTTCATTG
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCT-GACCTTCATTG
*
89483461 AAGTAGATCCAAGA
65 AAGCAGATCCAAGA
* * *
89483475 TGATTTGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCA
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCA
89483536 CGTGTTTACG
Statistics
Matches: 197, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
77 1 0.01
78 195 0.99
79 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (78 bp):
AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGA
AGCAGATCCAAGA
Found at i:89483590 original size:365 final size:365
Alignment explanation
Indices: 89482920--89483990 Score: 1748
Period size: 365 Copynumber: 2.9 Consensus size: 365
89482910 TTCGACGGAG
89482920 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGC
1 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGC
* *
89482985 AGATCAAAGACACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTA
66 AGATCGAAGACACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATATCTGTA
* * *
89483050 TTAGACGGGGAGTAGATCGAAGACATAACAGATTGGACCTTCATTGAAGCAGATCGAAGATGATT
131 TTAGACGGGGAGCAGATCGAAGACATAACAGATTGGACCTTCATTGAAGAAGATCCAAGATGATT
* *
89483115 TGGCATCTCTGTATTAGATGGGGAACAGATCGAAGACATAGCAGATCTAACCTTCACGTGTTTAC
196 TGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCACGTGTTTAC
*
89483180 GCTGAAGAAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAATAGAT
261 GCTGAAGAAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGAT
89483245 TTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACAT
326 TTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACAT
* * * *
89483285 AGCAGATCTGACCTTCATTGAAGCAGGTCTAAGAAGATTTGGCATCTCTGTATTAGACGGGGAGC
1 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGC
*
89483350 AGATCGAAGACACAACAGATTTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATATCTGTA
66 AGATCGAAGACACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATATCTGTA
* * *
89483415 TTAGACAGGGAGCAGATCGAAGACATAACAGATTAGACCTTCATTGAAGTAGATCCAAGATGATT
131 TTAGACGGGGAGCAGATCGAAGACATAACAGATTGGACCTTCATTGAAGAAGATCCAAGATGATT
89483480 TGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCACGTGTTTAC
196 TGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCACGTGTTTAC
*
89483545 GCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGAT
261 GCTGAAGAAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGAT
89483610 TTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACAT
326 TTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACAT
*
89483650 AGCAGATCTGACCTTCATTAAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGC
1 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGC
* *
89483715 AGATCGAAGACACAACAGATCTGACCTTTATTGAAGCAGATCCAAGATGATTTGGCATATTTGTA
66 AGATCGAAGACACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATATCTGTA
* * *
89483780 TTAGACGGGGAGCAAATCAAAGACATAACAGATTGGACCTTTATTGAAGAAGATCCAAGATGATT
131 TTAGACGGGGAGCAGATCGAAGACATAACAGATTGGACCTTCATTGAAGAAGATCCAAGATGATT
* * *
89483845 TGGCATCTTTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATGTGTTTAC
196 TGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCACGTGTTTAC
* * * * * * * * * *
89483910 -ATCGAAGTAGATCCAAGGTGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGAT
261 GCT-GAAGAAGATCTAA---GA-TGATTTGGCATCTCTGTACT-GTCAGAGAACAAATCGAAGA-
89483974 AACAGATTTGGCATCTC
319 AACAGATTTGGCATCTC
89483991 AGTATTAGAC
Statistics
Matches: 656, Mismatches: 43, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
364 1 0.00
365 603 0.92
368 2 0.00
369 18 0.03
370 15 0.02
371 17 0.03
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (365 bp):
AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGC
AGATCGAAGACACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATATCTGTA
TTAGACGGGGAGCAGATCGAAGACATAACAGATTGGACCTTCATTGAAGAAGATCCAAGATGATT
TGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCACGTGTTTAC
GCTGAAGAAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGAT
TTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACAT
Found at i:89483711 original size:78 final size:78
Alignment explanation
Indices: 89483607--89483901 Score: 421
Period size: 78 Copynumber: 3.8 Consensus size: 78
89483597 CGAAGAAACA
** * * *
89483607 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTAAA
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
89483672 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
89483685 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACACAACAGATCTGACCTTTATTGAA
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
89483750 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * * * * *
89483763 GATTTGGCATATTTGTATTAGACGGGGAGCAAATCAAAGACATAACAGAT-TGGACCTTTATTGA
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAACAGATCT-GACCTTCATTGA
*
89483827 AGAAGATCCAAGAT
65 AGCAGATCCAAGAT
* * *
89483841 GATTTGGCATCTTTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAACAGATCTGACCTTCAT
89483902 GTGTTTACAT
Statistics
Matches: 196, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
77 1 0.01
78 194 0.99
79 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:89484055 original size:44 final size:45
Alignment explanation
Indices: 89483841--89484114 Score: 205
Period size: 45 Copynumber: 6.1 Consensus size: 45
89483831 GATCCAAGAT
* *
89483841 GATTTGGCATCTTTGTATTAGACGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * * * *
89483888 GATCTGACCT-TCATGTGTTTACATC--GAAGTAGATCCAAGGTGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAACA
* *
89483933 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* ** * * **
89483978 GATTTGGCATCTCAGTATTAGACAAGGAACAGATTGAAGA-AGTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
** *
89484022 GATTTTTCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* ** * * *
89484067 GATTTGGCCTCAATGTATTAGACGGGGAGCAAATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
89484112 GAT
1 GAT
89484115 ATCGCCTTTC
Statistics
Matches: 169, Mismatches: 51, Indels: 16
0.72 0.22 0.07
Matches are distributed among these distances:
43 1 0.01
44 38 0.22
45 101 0.60
46 3 0.02
47 21 0.12
48 4 0.02
49 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:89484479 original size:18 final size:19
Alignment explanation
Indices: 89484456--89484501 Score: 85
Period size: 18 Copynumber: 2.5 Consensus size: 19
89484446 ATGGAAATAT
89484456 AATCTTAGATATGAT-TGC
1 AATCTTAGATATGATATGC
89484474 AATCTTAGATATGATATGC
1 AATCTTAGATATGATATGC
89484493 AATCTTAGA
1 AATCTTAGA
89484502 AGATATGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
AATCTTAGATATGATATGC
Found at i:89484527 original size:22 final size:22
Alignment explanation
Indices: 89484462--89484524 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
89484452 ATATAATCTT
89484462 AGATATGAT-TGCAATCTT---
1 AGATATGATATGCAATCTTAGA
89484480 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
89484502 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
89484525 GATTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
18 9 0.24
19 9 0.24
22 8 0.21
23 12 0.32
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:89484740 original size:18 final size:20
Alignment explanation
Indices: 89484700--89484741 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
89484690 TCCCTCTTAC
*
89484700 GTTCTTATTTTATATGGTTT
1 GTTCTTATTTTATATGCTTT
89484720 GTTCTTATTTTAT-T-CTTT
1 GTTCTTATTTTATATGCTTT
89484738 GTTC
1 GTTC
89484742 ATCTTCGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
19 1 0.05
20 13 0.62
ACGTcount: A:0.12, C:0.10, G:0.12, T:0.67
Consensus pattern (20 bp):
GTTCTTATTTTATATGCTTT
Found at i:89484814 original size:17 final size:17
Alignment explanation
Indices: 89484790--89484824 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
89484780 ATGTTTCCGG
*
89484790 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
89484808 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
89484825 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:89487597 original size:29 final size:30
Alignment explanation
Indices: 89487565--89487622 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
89487555 AAAATTAACC
**
89487565 TAATCTCATAATT-TTTCGAAAAAATGACT
1 TAATCTCATAATTCTTTAAAAAAAATGACT
* *
89487594 TAATTTGATAATTCTTTAAAAAAAATGAC
1 TAATCTCATAATTCTTTAAAAAAAATGAC
89487623 ATTTTTAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (30 bp):
TAATCTCATAATTCTTTAAAAAAAATGACT
Found at i:89489342 original size:60 final size:59
Alignment explanation
Indices: 89489274--89489519 Score: 282
Period size: 60 Copynumber: 4.1 Consensus size: 59
89489264 CGTAAGTTTG
*
89489274 CTTTAAAGAAGCAAATTACCTTGAATAAGTAAAATCACTTTAAAGAAGTGTGCAAGTTCA
1 CTTTAAAGAAGCAAATTACCTT-AATAAGTAAAACCACTTTAAAGAAGTGTGCAAGTTCA
* * * *
89489334 CTTTAAAGAAGCAAGTTACCTTAAATAGGTAAAGCCACTTTAAAGAAGTGTGCAAGTAT-G
1 CTTTAAAGAAGCAAATTACCTT-AATAAGTAAAACCACTTTAAAGAAGTGTGCAAGT-TCA
* * **
89489394 TTTTAAATAAGCAAATTACCTT-A-AAGTGACTACCACTTTAAAGAAGTGTGCAAGTTCA
1 CTTTAAAGAAGCAAATTACCTTAATAAGT-AAAACCACTTTAAAGAAGTGTGCAAGTTCA
* * * * * * *
89489452 CTTTAAAGAAGCAAATTACATTCAAGAGGTAAAGCCACTTCAAAAAAGTGTACAAGTTCA
1 CTTTAAAGAAGCAAATTACCTT-AATAAGTAAAACCACTTTAAAGAAGTGTGCAAGTTCA
89489512 CTTTAAAG
1 CTTTAAAG
89489520 TAGTAAGTTG
Statistics
Matches: 156, Mismatches: 24, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
57 4 0.03
58 44 0.28
60 104 0.67
61 4 0.03
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.28
Consensus pattern (59 bp):
CTTTAAAGAAGCAAATTACCTTAATAAGTAAAACCACTTTAAAGAAGTGTGCAAGTTCA
Found at i:89489517 original size:118 final size:119
Alignment explanation
Indices: 89489274--89489519 Score: 327
Period size: 118 Copynumber: 2.1 Consensus size: 119
89489264 CGTAAGTTTG
*
89489274 CTTTAAAGAAGCAAATTACCTTGAATAAGTAAAATCACTTTAAAGAAGTGTGCAAGTTCACTTTA
1 CTTTAAAGAAGCAAATTACCTT-AATAAGTAAAACCACTTTAAAGAAGTGTGCAAGTTCACTTTA
* * * * * * *
89489339 AAGAAGCAAGTTACCTTAAATAGGTAAAGCCACTTTAAAGAAGTGTGCAAGTATG
65 AAGAAGCAAATTACATTAAAGAGGTAAAGCCACTTCAAAAAAGTGTACAAGTATA
* * **
89489394 TTTTAAATAAGCAAATTACCTT-A-AAGTGACTACCACTTTAAAGAAGTGTGCAAGTTCACTTTA
1 CTTTAAAGAAGCAAATTACCTTAATAAGT-AAAACCACTTTAAAGAAGTGTGCAAGTTCACTTTA
*
89489457 AAGAAGCAAATTACATTCAAGAGGTAAAGCCACTTCAAAAAAGTGTACAAGT-TCA
65 AAGAAGCAAATTACATTAAAGAGGTAAAGCCACTTCAAAAAAGTGTACAAGTAT-A
89489512 CTTTAAAG
1 CTTTAAAG
89489520 TAGTAAGTTG
Statistics
Matches: 109, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
117 5 0.05
118 84 0.77
120 20 0.18
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.28
Consensus pattern (119 bp):
CTTTAAAGAAGCAAATTACCTTAATAAGTAAAACCACTTTAAAGAAGTGTGCAAGTTCACTTTAA
AGAAGCAAATTACATTAAAGAGGTAAAGCCACTTCAAAAAAGTGTACAAGTATA
Found at i:89491450 original size:23 final size:23
Alignment explanation
Indices: 89491424--89491468 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
89491414 TACTTGTGTG
89491424 CAAGTGACAATGACACTTCGGTA
1 CAAGTGACAATGACACTTCGGTA
* * *
89491447 CAAGTGATAGTGGCACTTCGGT
1 CAAGTGACAATGACACTTCGGT
89491469 GTAAATTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (23 bp):
CAAGTGACAATGACACTTCGGTA
Found at i:89501988 original size:27 final size:27
Alignment explanation
Indices: 89501948--89502053 Score: 131
Period size: 27 Copynumber: 3.9 Consensus size: 27
89501938 ATGGTGACTT
* *
89501948 AAATATCCCTATAGGGTAAAATAACCG
1 AAATACCCCCATAGGGTAAAATAACCG
* *
89501975 AAATACCCCCATAGGATAAAATGACCG
1 AAATACCCCCATAGGGTAAAATAACCG
* *
89502002 AAATACCCCCATAGGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATAACCG
** *
89502029 AAATACCCTTATAAGGTAAAATAAC
1 AAATACCCCCATAGGGTAAAATAAC
89502054 TATAATACTC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.46, C:0.22, G:0.13, T:0.19
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATAACCG
Found at i:89502060 original size:27 final size:27
Alignment explanation
Indices: 89502016--89502130 Score: 110
Period size: 27 Copynumber: 4.3 Consensus size: 27
89502006 ACCCCCATAG
* * * *
89502016 GGTAAAATGACCAAAATACCCTTATAA
1 GGTAAAATAACTATAATACCCTTGTAA
89502043 GGTAAAATAACTATAATACTCC-TGT-A
1 GGTAAAATAACTATAATAC-CCTTGTAA
* *
89502069 GGATAAAATAACTGTAATACCCTTGTAG
1 GG-TAAAATAACTATAATACCCTTGTAA
* * *
89502097 GGTAAAA-GACTGTAATACCCCTGTAA
1 GGTAAAATAACTATAATACCCTTGTAA
89502123 GGTAAAAT
1 GGTAAAAT
89502131 GATTGATTTG
Statistics
Matches: 74, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
26 28 0.38
27 42 0.57
28 4 0.05
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.26
Consensus pattern (27 bp):
GGTAAAATAACTATAATACCCTTGTAA
Found at i:89502061 original size:54 final size:54
Alignment explanation
Indices: 89501949--89502130 Score: 154
Period size: 54 Copynumber: 3.4 Consensus size: 54
89501939 TGGTGACTTA
* ** * *
89501949 AATATCCCTATAGGGTAAAATAACCGAAATACCCCCAT-AGGATAAAATGACCGA-
1 AATACCCCTATAGGGTAAAATAACCGAAATACCCTTATAAGG-TAAAAT-AACTAT
* * *
89502003 AATACCCCCATAGGGTAAAATGACCAAAATACCCTTATAAGGTAAAATAACTAT
1 AATACCCCTATAGGGTAAAATAACCGAAATACCCTTATAAGGTAAAATAACTAT
* * * * * * * * *
89502057 AATACTCCTGTAGGATAAAATAACTGTAATACCCTTGTAGGGTAAAA-GACTGT
1 AATACCCCTATAGGGTAAAATAACCGAAATACCCTTATAAGGTAAAATAACTAT
* *
89502110 AATACCCCTGTAAGGTAAAAT
1 AATACCCCTATAGGGTAAAAT
89502131 GATTGATTTG
Statistics
Matches: 103, Mismatches: 23, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
53 25 0.24
54 75 0.73
55 3 0.03
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (54 bp):
AATACCCCTATAGGGTAAAATAACCGAAATACCCTTATAAGGTAAAATAACTAT
Found at i:89502115 original size:26 final size:27
Alignment explanation
Indices: 89502030--89502130 Score: 118
Period size: 27 Copynumber: 3.8 Consensus size: 27
89502020 AAATGACCAA
* *
89502030 AATACCCTTATAAGGTAAAATAACTAT
1 AATACCCTTGTAAGGTAAAATAACTGT
89502057 AATACTCC-TGT-AGGATAAAATAACTGT
1 AATAC-CCTTGTAAGG-TAAAATAACTGT
* *
89502084 AATACCCTTGTAGGGTAAAA-GACTGT
1 AATACCCTTGTAAGGTAAAATAACTGT
*
89502110 AATACCCCTGTAAGGTAAAAT
1 AATACCCTTGTAAGGTAAAAT
89502131 GATTGATTTG
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
26 28 0.44
27 31 0.49
28 4 0.06
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.28
Consensus pattern (27 bp):
AATACCCTTGTAAGGTAAAATAACTGT
Found at i:89503690 original size:29 final size:24
Alignment explanation
Indices: 89503635--89503685 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
89503625 AACACATAGC
89503635 AAACATTTTTAGATTAAATTAAAG
1 AAACATTTTTAGATTAAATTAAAG
89503659 AAACATTTTTAGATTAAATTAAAG
1 AAACATTTTTAGATTAAATTAAAG
89503683 AAA
1 AAA
89503686 GGAAAGATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (24 bp):
AAACATTTTTAGATTAAATTAAAG
Found at i:89508056 original size:50 final size:50
Alignment explanation
Indices: 89507981--89508080 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
89507971 AAATTAATTC
89507981 CCAAGAAAGGTTGGAGGTGTAACACCCCGTACCCGAGACCGTTGCCGGAG
1 CCAAGAAAGGTTGGAGGTGTAACACCCCGTACCCGAGACCGTTGCCGGAG
*
89508031 CCAAGAAAGGTTGGAGGTGTAACACCCCGTACCCGAGACCGTTTCCGGAG
1 CCAAGAAAGGTTGGAGGTGTAACACCCCGTACCCGAGACCGTTGCCGGAG
89508081 TCGGACACGA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.26, C:0.28, G:0.31, T:0.15
Consensus pattern (50 bp):
CCAAGAAAGGTTGGAGGTGTAACACCCCGTACCCGAGACCGTTGCCGGAG
Found at i:89509613 original size:79 final size:80
Alignment explanation
Indices: 89509443--89509624 Score: 192
Period size: 79 Copynumber: 2.3 Consensus size: 80
89509433 GCTACTTGTT
* **
89509443 CAAATGCCTTCGGGACATAGCCC-GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
89509507 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* * * **
89509524 CAATGTCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
89509587 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
89509603 CAAAGCCTTCGGGACTTAGCCC
1 CAAAGCCTTCGGGACTTAGCCC
89509625 GGACATCATT
Statistics
Matches: 83, Mismatches: 14, Indels: 9
0.78 0.13 0.08
Matches are distributed among these distances:
78 3 0.04
79 55 0.66
80 22 0.27
81 3 0.04
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:89509627 original size:40 final size:40
Alignment explanation
Indices: 89509443--89509627 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
89509433 GCTACTTGTT
* *
89509443 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
89509483 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
89509523 CCAATGTCTTCGGG-CTTAGCCCAGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
89509562 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
89509603 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
89509628 CATCATTCGA
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 2 0.02
39 29 0.24
40 77 0.64
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:89517446 original size:40 final size:40
Alignment explanation
Indices: 89517402--89517519 Score: 141
Period size: 40 Copynumber: 3.0 Consensus size: 40
89517392 TGTAAGGGCN
* *
89517402 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
* *
89517442 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCTGGATA
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATA
* * *
89517482 TGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
89517520 CATCATTCGA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
39 3 0.05
40 52 0.79
41 11 0.17
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
Found at i:89519352 original size:263 final size:263
Alignment explanation
Indices: 89519021--89519545 Score: 1041
Period size: 263 Copynumber: 2.0 Consensus size: 263
89519011 ACCCATAAGC
*
89519021 CCCTTTGACTAAATTCGCATGCAATTTACTAAATCGAAGCCTAAAACTTTCACACATTCATAATC
1 CCCTTTGACTAAATTCACATGCAATTTACTAAATCGAAGCCTAAAACTTTCACACATTCATAATC
89519086 ACATATTTTAGACAATAAATATCACATTCAAATAATTTGGTGACTCGTTTTAGCGGTCCCGAAAC
66 ACATATTTTAGACAATAAATATCACATTCAAATAATTTGGTGACTCGTTTTAGCGGTCCCGAAAC
89519151 CGCTTTCCGACTAGGGTCACTTTAGGGCTGTCACACTATCATTGGTGGAAGACATTGATTTCAGT
131 CGCTTTCCGACTAGGGTCACTTTAGGGCTGTCACACTATCATTGGTGGAAGACATTGATTTCAGT
89519216 GGTACCGAAAGAGAAAGTGACTTGGGAGTTCTTTCAAGAAGAATTTCGGAAGAAATATGTAACAC
196 GGTACCGAAAGAGAAAGTGACTTGGGAGTTCTTTCAAGAAGAATTTCGGAAGAAATATGTAACAC
89519281 CCT
261 CCT
89519284 CCCTTTGACTAAATTCACATGCAATTTACTAAATCGAAGCCTAAAACTTTCACACATTCATAATC
1 CCCTTTGACTAAATTCACATGCAATTTACTAAATCGAAGCCTAAAACTTTCACACATTCATAATC
89519349 ACATATTTTAGACAATAAATATCACATTCAAATAATTTGGTGACTCGTTTTAGCGGTCCCGAAAC
66 ACATATTTTAGACAATAAATATCACATTCAAATAATTTGGTGACTCGTTTTAGCGGTCCCGAAAC
89519414 CGCTTTCCGACTAGGGTCACTTTAGGGCTGTCACACTATCATTGGTGGAAGACATTGATTTCAGT
131 CGCTTTCCGACTAGGGTCACTTTAGGGCTGTCACACTATCATTGGTGGAAGACATTGATTTCAGT
89519479 GGTACCGAAAGAGAAAGTGACTTGGGAGTTCTTTCAAGAAGAATTTCGGAAGAAATATGTAACAC
196 GGTACCGAAAGAGAAAGTGACTTGGGAGTTCTTTCAAGAAGAATTTCGGAAGAAATATGTAACAC
89519544 CC
261 CC
89519546 CGAACCCGAA
Statistics
Matches: 261, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
263 261 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (263 bp):
CCCTTTGACTAAATTCACATGCAATTTACTAAATCGAAGCCTAAAACTTTCACACATTCATAATC
ACATATTTTAGACAATAAATATCACATTCAAATAATTTGGTGACTCGTTTTAGCGGTCCCGAAAC
CGCTTTCCGACTAGGGTCACTTTAGGGCTGTCACACTATCATTGGTGGAAGACATTGATTTCAGT
GGTACCGAAAGAGAAAGTGACTTGGGAGTTCTTTCAAGAAGAATTTCGGAAGAAATATGTAACAC
CCT
Found at i:89520914 original size:27 final size:27
Alignment explanation
Indices: 89520884--89521061 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
89520874 ATATTGAGTC
* * * *
89520884 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
89520911 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
89520938 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** *
89520966 CGCACACTTAGTGCCGCATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
89520993 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
89521020 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
89521047 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
89521062 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 107 0.81
28 25 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:89521023 original size:82 final size:81
Alignment explanation
Indices: 89520905--89521060 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
89520895 TGCTATATAA
* *
89520905 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
89520970 CACTTAGTGCCGCATAG
65 CACTTAGTGCCGCATAG
* * **
89520987 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
89521051 CACTTAGTGC
65 CACTTAGTGC
89521061 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATAG
Found at i:89526853 original size:75 final size:75
Alignment explanation
Indices: 89526730--89526881 Score: 304
Period size: 75 Copynumber: 2.0 Consensus size: 75
89526720 CTTACCGGTA
89526730 AATAGGTTTGGGTATCGTTCTTTCATCGAGCTCTCAGTCTCCCAAGTTGCTTCCTCGATCCCGTG
1 AATAGGTTTGGGTATCGTTCTTTCATCGAGCTCTCAGTCTCCCAAGTTGCTTCCTCGATCCCGTG
89526795 TTTGAGCCAT
66 TTTGAGCCAT
89526805 AATAGGTTTGGGTATCGTTCTTTCATCGAGCTCTCAGTCTCCCAAGTTGCTTCCTCGATCCCGTG
1 AATAGGTTTGGGTATCGTTCTTTCATCGAGCTCTCAGTCTCCCAAGTTGCTTCCTCGATCCCGTG
89526870 TTTGAGCCAT
66 TTTGAGCCAT
89526880 AA
1 AA
89526882 CACCTTTACT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (75 bp):
AATAGGTTTGGGTATCGTTCTTTCATCGAGCTCTCAGTCTCCCAAGTTGCTTCCTCGATCCCGTG
TTTGAGCCAT
Found at i:89529598 original size:89 final size:89
Alignment explanation
Indices: 89529447--89529624 Score: 356
Period size: 89 Copynumber: 2.0 Consensus size: 89
89529437 CCCAAGGTGA
89529447 AAAACTTGGTCGAGCGAAACCTCTATCCGTCAGTTCTTGCAACTGAGCTTTCAACTCCTTTAACT
1 AAAACTTGGTCGAGCGAAACCTCTATCCGTCAGTTCTTGCAACTGAGCTTTCAACTCCTTTAACT
89529512 CGGTTGGTGCCATACGATACGGAG
66 CGGTTGGTGCCATACGATACGGAG
89529536 AAAACTTGGTCGAGCGAAACCTCTATCCGTCAGTTCTTGCAACTGAGCTTTCAACTCCTTTAACT
1 AAAACTTGGTCGAGCGAAACCTCTATCCGTCAGTTCTTGCAACTGAGCTTTCAACTCCTTTAACT
89529601 CGGTTGGTGCCATACGATACGGAG
66 CGGTTGGTGCCATACGATACGGAG
89529625 CTATCGAAAT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (89 bp):
AAAACTTGGTCGAGCGAAACCTCTATCCGTCAGTTCTTGCAACTGAGCTTTCAACTCCTTTAACT
CGGTTGGTGCCATACGATACGGAG
Found at i:89533081 original size:144 final size:144
Alignment explanation
Indices: 89532821--89533104 Score: 568
Period size: 144 Copynumber: 2.0 Consensus size: 144
89532811 GCCGAAGGCC
89532821 GGTAGCTCGTTTATCAACTGAGCGAACATTTATTTGTAAGGGCTCGATTAATATTCAACACATAC
1 GGTAGCTCGTTTATCAACTGAGCGAACATTTATTTGTAAGGGCTCGATTAATATTCAACACATAC
89532886 GTAACATATCCCCATATTGGGATGTTTTTCGAGTATTCGCTGGAATTTTACAGCAAGCTCATTCA
66 GTAACATATCCCCATATTGGGATGTTTTTCGAGTATTCGCTGGAATTTTACAGCAAGCTCATTCA
89532951 TTACCAAATCACGT
131 TTACCAAATCACGT
89532965 GGTAGCTCGTTTATCAACTGAGCGAACATTTATTTGTAAGGGCTCGATTAATATTCAACACATAC
1 GGTAGCTCGTTTATCAACTGAGCGAACATTTATTTGTAAGGGCTCGATTAATATTCAACACATAC
89533030 GTAACATATCCCCATATTGGGATGTTTTTCGAGTATTCGCTGGAATTTTACAGCAAGCTCATTCA
66 GTAACATATCCCCATATTGGGATGTTTTTCGAGTATTCGCTGGAATTTTACAGCAAGCTCATTCA
89533095 TTACCAAATC
131 TTACCAAATC
89533105 CCGTACCTTC
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
144 140 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (144 bp):
GGTAGCTCGTTTATCAACTGAGCGAACATTTATTTGTAAGGGCTCGATTAATATTCAACACATAC
GTAACATATCCCCATATTGGGATGTTTTTCGAGTATTCGCTGGAATTTTACAGCAAGCTCATTCA
TTACCAAATCACGT
Found at i:89533243 original size:40 final size:40
Alignment explanation
Indices: 89533143--89533407 Score: 338
Period size: 40 Copynumber: 6.7 Consensus size: 40
89533133 GCTCCTCGTT
* * ** *
89533143 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
*
89533183 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
89533222 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
**
89533262 CGTATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
*
89533302 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
* * * * * *
89533342 CGAATGCCTTCGGAACTTAATCCGGATATATTC-ACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCA
* *
89533383 TAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
89533408 CAGCATTCAA
Statistics
Matches: 204, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 162 0.79
41 7 0.03
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
Found at i:89544195 original size:30 final size:30
Alignment explanation
Indices: 89544161--89544229 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
89544151 TGTGGACTGA
89544161 CCATGTGTCACGCACGGCCTAGATACACAC
1 CCATGTGTCACGCACGGCCTAGATACACAC
89544191 CCATGTGTCACGCACGGCCTAGATACACAC
1 CCATGTGTCACGCACGGCCTAGATACACAC
*
89544221 CCGTGTGTC
1 CCATGTGTC
89544230 TACCCGTGTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.23, C:0.36, G:0.22, T:0.19
Consensus pattern (30 bp):
CCATGTGTCACGCACGGCCTAGATACACAC
Found at i:89548791 original size:48 final size:48
Alignment explanation
Indices: 89548739--89548929 Score: 265
Period size: 48 Copynumber: 4.0 Consensus size: 48
89548729 ATAGTTTTAT
* * *
89548739 ATGGGACCTCATATCGATTCCAATTCCATATCCCAGATATGGTCTTAC
1 ATGGGATCTCATATCGATGCCAATGCCATATCCCAGATATGGTCTTAC
*
89548787 ATGGGATCTCATGTCGATGCCAATGCCATATCCCAGATATGGTCTTAC
1 ATGGGATCTCATATCGATGCCAATGCCATATCCCAGATATGGTCTTAC
* * * * *
89548835 ACGGGATCTCATCTCGATGCCTATGTCATATCCCAAATATGGTCTTAC
1 ATGGGATCTCATATCGATGCCAATGCCATATCCCAGATATGGTCTTAC
* * * *
89548883 AAGGGATCTCATATTGATGCCGATGCCAAATCCCAGATATGGTCTTA
1 ATGGGATCTCATATCGATGCCAATGCCATATCCCAGATATGGTCTTA
89548930 TACAAGATTT
Statistics
Matches: 127, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 127 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (48 bp):
ATGGGATCTCATATCGATGCCAATGCCATATCCCAGATATGGTCTTAC
Found at i:89548796 original size:96 final size:96
Alignment explanation
Indices: 89548662--89548917 Score: 237
Period size: 96 Copynumber: 2.7 Consensus size: 96
89548652 GATCACACAT
* * * ** ** *
89548662 CAATGTCAATAGCCCAGCTATGGTCTTACACGAAATCTCATAAC-AGTGCTGATGCCATGTCCCA
1 CAATGTC-ATATCCCAGATATGGTCTTACAAGGGATCTCATAACGA-TGCCAATGCCATATCCCA
* * * *
89548726 AAAATAGTTTTATATGGGACCTCATATCGATTC
64 AAAATAGTCTTACACGGGACCTCATATCGATGC
* ** *
89548759 CAAT-TCCATATCCCAGATATGGTCTTACATGGGATCTCATGTCGATGCCAATGCCATATCCCAG
1 CAATGT-CATATCCCAGATATGGTCTTACAAGGGATCTCATAACGATGCCAATGCCATATCCCAA
* * * *
89548823 ATATGGTCTTACACGGGATCTCATCTCGATGC
65 AAATAGTCTTACACGGGACCTCATATCGATGC
* * ** * *
89548855 CTATGTCATATCCCAAATATGGTCTTACAAGGGATCTCATATTGATGCCGATGCCAAATCCCA
1 CAATGTCATATCCCAGATATGGTCTTACAAGGGATCTCATAACGATGCCAATGCCATATCCCA
89548918 GATATGGTCT
Statistics
Matches: 130, Mismatches: 26, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
96 123 0.95
97 7 0.05
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (96 bp):
CAATGTCATATCCCAGATATGGTCTTACAAGGGATCTCATAACGATGCCAATGCCATATCCCAAA
AATAGTCTTACACGGGACCTCATATCGATGC
Found at i:89563043 original size:29 final size:29
Alignment explanation
Indices: 89563010--89563106 Score: 88
Period size: 29 Copynumber: 3.3 Consensus size: 29
89563000 ATCGATTAAA
*
89563010 GAAAAGGGATAGTTTCGATTATCGACTAT
1 GAAAAGGGATAGTTTCGAATATCGACTAT
* ** ** *
89563039 GAAAAGGGATGGTGACGACCATCGAAC-AC
1 GAAAAGGGATAGTTTCGAATATCG-ACTAT
* **
89563068 GAAAAGGGATAGTTTTGAATATCGGTTAT
1 GAAAAGGGATAGTTTCGAATATCGACTAT
89563097 GAAAAGGGAT
1 GAAAAGGGAT
89563107 GGTGATGACC
Statistics
Matches: 51, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
29 49 0.96
30 2 0.04
ACGTcount: A:0.37, C:0.10, G:0.29, T:0.24
Consensus pattern (29 bp):
GAAAAGGGATAGTTTCGAATATCGACTAT
Found at i:89563091 original size:58 final size:58
Alignment explanation
Indices: 89563010--89563135 Score: 182
Period size: 58 Copynumber: 2.2 Consensus size: 58
89563000 ATCGATTAAA
*
89563010 GAAAAGGGATAGTTTCGATTATCGACTATGAAAAGGGATGGTGACGACCATCGAAC-AC
1 GAAAAGGGATAGTTTCGAATATCGACTATGAAAAGGGATGGTGACGACCATC-AACTAC
* ** * *
89563068 GAAAAGGGATAGTTTTGAATATCGGTTATGAAAAGGGATGGTGATGACCATCAACTAT
1 GAAAAGGGATAGTTTCGAATATCGACTATGAAAAGGGATGGTGACGACCATCAACTAC
89563126 GAAAAGGGAT
1 GAAAAGGGAT
89563136 GGTGACGACC
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 3 0.05
58 58 0.95
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.23
Consensus pattern (58 bp):
GAAAAGGGATAGTTTCGAATATCGACTATGAAAAGGGATGGTGACGACCATCAACTAC
Found at i:89563126 original size:29 final size:28
Alignment explanation
Indices: 89563094--89563236 Score: 153
Period size: 29 Copynumber: 5.0 Consensus size: 28
89563084 GAATATCGGT
*
89563094 TATGAAAAGGGATGGTGATGACCATCAA
1 TATGAAAAGGGATGGTGACGACCATCAA
*
89563122 CTATGAAAAGGGATGGTGACGACCATCGA
1 -TATGAAAAGGGATGGTGACGACCATCAA
* ** *
89563151 T-TGACAAAAGGAATGGTTTCGGCCATCGAA
1 TATG--AAAAGGGATGGTGACGACCATC-AA
*
89563181 TATGAAAAGGGATGGTGACGACCCTCGAA
1 TATGAAAAGGGATGGTGACGACCATC-AA
* *
89563210 TATGGAAAGGGATGGTTACGACCATCA
1 TATGAAAAGGGATGGTGACGACCATCA
89563237 TTTAGCACAC
Statistics
Matches: 95, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
27 2 0.02
28 2 0.02
29 87 0.92
30 2 0.02
31 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.20
Consensus pattern (28 bp):
TATGAAAAGGGATGGTGACGACCATCAA
Found at i:89563160 original size:87 final size:88
Alignment explanation
Indices: 89563030--89563235 Score: 249
Period size: 87 Copynumber: 2.4 Consensus size: 88
89563020 AGTTTCGATT
* * * **
89563030 ATCG-ACTATGAAAAGGGATGGTGACGACCATCGAACACGAAAAGGGATAGTTTTGAATATCGGT
1 ATCGAACTATGAAAAGGGATGGTGACGACCATCGAACACGAAAAGGAATAGTTTCGAACATCGAA
*
89563094 TATGAAAAGGGATGGTGATGACC
66 TATGAAAAGGGATGGTGACGACC
** * **
89563117 ATC-AACTATGAAAAGGGATGGTGACGACCATCGATTGAC-AAAAGGAATGGTTTCGGCCATCGA
1 ATCGAACTATGAAAAGGGATGGTGACGACCATCGA-ACACGAAAAGGAATAGTTTCGAACATCGA
89563180 ATATGAAAAGGGATGGTGACGACC
65 ATATGAAAAGGGATGGTGACGACC
* * *
89563204 CTCGAA-TATGGAAAGGGATGGTTACGACCATC
1 ATCGAACTATGAAAAGGGATGGTGACGACCATC
89563236 ATTTAGCACA
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
87 98 0.96
88 4 0.04
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.21
Consensus pattern (88 bp):
ATCGAACTATGAAAAGGGATGGTGACGACCATCGAACACGAAAAGGAATAGTTTCGAACATCGAA
TATGAAAAGGGATGGTGACGACC
Found at i:89568973 original size:42 final size:46
Alignment explanation
Indices: 89568914--89569014 Score: 129
Period size: 48 Copynumber: 2.2 Consensus size: 46
89568904 TGTCCCAGAC
* *
89568914 ATGGTCTTACATAAAATCTCATATC-A-A-CGA-CATATCCTAGAT
1 ATGGTCTTACATAAAATCACATACCGATATCGATCATATCCTAGAT
*
89568956 ATGGTCTTACATGAAATCACATACCGATATCGATGTCATATCCTAGAT
1 ATGGTCTTACATAAAATCACATACCGATATCGA--TCATATCCTAGAT
89569004 ATGGTCTTACA
1 ATGGTCTTACA
89569015 CTTGCATAGG
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
42 22 0.44
43 1 0.02
44 1 0.02
45 3 0.06
48 23 0.46
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.32
Consensus pattern (46 bp):
ATGGTCTTACATAAAATCACATACCGATATCGATCATATCCTAGAT
Found at i:89576909 original size:16 final size:16
Alignment explanation
Indices: 89576880--89576919 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
89576870 TAAACTTACT
*
89576880 TTTTTATTTTATTTTA
1 TTTTTATTTAATTTTA
*
89576896 TTTTTCTTTAATTTTA
1 TTTTTATTTAATTTTA
89576912 TTTTTATT
1 TTTTTATT
89576920 GCATCCTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTATTTAATTTTA
Found at i:89578985 original size:13 final size:13
Alignment explanation
Indices: 89578963--89579002 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
89578953 GAAGCAATCG
*
89578963 CACACGGGCGTGT
1 CACACAGGCGTGT
89578976 CACACAGGCGTGT
1 CACACAGGCGTGT
89578989 CACACAGGCGTGT
1 CACACAGGCGTGT
89579002 C
1 C
89579003 CCTGTCGAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.20, C:0.33, G:0.33, T:0.15
Consensus pattern (13 bp):
CACACAGGCGTGT
Found at i:89582441 original size:13 final size:13
Alignment explanation
Indices: 89582423--89582456 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
89582413 AATATTATCT
89582423 ATTTAATCAATTA
1 ATTTAATCAATTA
*
89582436 ATTTAATTAATTA
1 ATTTAATCAATTA
*
89582449 AATTAATC
1 ATTTAATC
89582457 TCTCAATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTTAATCAATTA
Found at i:89582623 original size:19 final size:19
Alignment explanation
Indices: 89582582--89582621 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
89582572 ATGACTAATT
*
89582582 AATTTAATTATTATTTAAA
1 AATTTAATTATTAATTAAA
89582601 AATTTAATTATTTAATTAAA
1 AATTTAATTA-TTAATTAAA
89582621 A
1 A
89582622 TTAATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AATTTAATTATTAATTAAA
Found at i:89593414 original size:27 final size:27
Alignment explanation
Indices: 89593366--89593443 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
89593356 AGGGCAAAAT
* * *
89593366 AGTCATTTTACCCTATAGGGGTATGTC
1 AGTCATTTTACACTACAAGGGTATGTC
* *
89593393 GGTCATTTTACACTACAAGGGTATTTC
1 AGTCATTTTACACTACAAGGGTATGTC
* *
89593420 AGTAATATTACACTACAAGGGTAT
1 AGTCATTTTACACTACAAGGGTAT
89593444 TTCGATAGTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (27 bp):
AGTCATTTTACACTACAAGGGTATGTC
Found at i:89593468 original size:27 final size:27
Alignment explanation
Indices: 89593437--89593802 Score: 308
Period size: 27 Copynumber: 13.7 Consensus size: 27
89593427 TTACACTACA
* *
89593437 AGGGTATTTCGATAGTTTTATAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
89593464 GGGGTGTTTC-ATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
89593490 AGGGTATTTCAATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
*
89593517 AGGGTATTTC-AGT-ATTGTACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * *
89593543 AGGGTGTTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
89593570 AGGGTGTTTCGGTAATTTCACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
89593597 -GTGGTATTT-TAGTAATTTTACAAATTG
1 AG-GGTATTTCGA-TAATTTTACAAATCG
* *
89593624 AGGTTATTTC-AGTAATTTCAC-AATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * *
89593650 AAGGTATTTCGGTAATTTTACAAATCA
1 AGGGTATTTCGATAATTTTACAAATCG
* *
89593677 AGGGTATTTCGGTAATTTTACAAATCA
1 AGGGTATTTCGATAATTTTACAAATCG
*
89593704 AGGGTGA-TTC-AGTAATTTTGCAAATCG
1 AGGGT-ATTTCGA-TAATTTTACAAATCG
89593731 AGGGTATTTCTG-TAATTTTACAAA-CTG
1 AGGGTATTTC-GATAATTTTACAAATC-G
* * *
89593758 AAGGTATTTC-AGTAATTTTATAAA-CT
1 AGGGTATTTCGA-TAATTTTACAAATCG
89593784 AGGGGTATTTCGATAATTT
1 A-GGGTATTTCGATAATTT
89593803 CTCTTTATTA
Statistics
Matches: 282, Mismatches: 37, Indels: 40
0.79 0.10 0.11
Matches are distributed among these distances:
26 66 0.23
27 213 0.76
28 3 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:89593497 original size:53 final size:53
Alignment explanation
Indices: 89593437--89593777 Score: 275
Period size: 53 Copynumber: 6.4 Consensus size: 53
89593427 TTACACTACA
* * * *
89593437 AGGGTATTTCGATAGTTTTATAAATCGGGGGTGTTTCATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCATAATTTTACAAATCG
* * * *
89593490 AGGGTATTTCAATAATTTTACAAATTGAGGGTATTTCAGT-ATTGTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCA-TAATTTTACAAATCG
* * * * *
89593543 AGGGTGTTTTGGTAATTTTACAAATCGAGGGTGTTTCGGTAATTTCACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTC-ATAATTTTACAAATCG
* * * * *
89593597 -GTGGTATTT-TAGTAATTTTACAAATTGAGGTTATTTCAGTAATTTCAC-AATCG
1 AG-GGTATTTCGA-TAATTTTACAAATCGAGGGTGTTTCA-TAATTTTACAAATCG
* * * * * *
89593650 AAGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCA
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTC-ATAATTTTACAAATCG
* * *
89593704 AGGGTGA-TTC-AGTAATTTTGCAAATCGAGGGTATTTCTGTAATTTTACAAA-CTG
1 AGGGT-ATTTCGA-TAATTTTACAAATCGAGGGTGTTTC-ATAATTTTACAAATC-G
*
89593758 AAGGTATTTC-AGTAATTTTA
1 AGGGTATTTCGA-TAATTTTA
89593778 TAAACTAGGG
Statistics
Matches: 233, Mismatches: 41, Indels: 27
0.77 0.14 0.09
Matches are distributed among these distances:
53 120 0.52
54 112 0.48
55 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (53 bp):
AGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCATAATTTTACAAATCG
Found at i:89593497 original size:80 final size:82
Alignment explanation
Indices: 89593410--89593777 Score: 380
Period size: 80 Copynumber: 4.6 Consensus size: 82
89593400 TTACACTACA
* * * * *
89593410 AGGGTATTTCAGTAATATTAC-ACTACAAGGGTATTTCGA-TAGTTTTATAAATCGGGGGTGTTT
1 AGGGTATTTCAGTAATTTTACAAAT-CAAGGGTATTTCGAGTAATTTTACAAATCGAGGGTGTTT
*
89593473 CA-TAATTTTACAAATTG
65 CAGTAATTTTACAAATCG
* ** * *
89593490 AGGGTATTTCAATAATTTTACAAATTGAGGGTATTTC-AGT-ATTGTACAAATCGAGGGTGTTTT
1 AGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTCGAGTAATTTTACAAATCGAGGGTGTTTC
*
89593553 GGTAATTTTACAAATCG
66 AGTAATTTTACAAATCG
* * * * * * * *
89593570 AGGGTGTTTCGGTAATTTCACAAATC-GGTGGTATTT-TAGTAATTTTACAAATTGAGGTTATTT
1 AGGGTATTTCAGTAATTTTACAAATCAAG-GGTATTTCGAGTAATTTTACAAATCGAGGGTGTTT
*
89593633 CAGTAATTTCAC-AATCG
65 CAGTAATTTTACAAATCG
* * * *
89593650 AAGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCG-GTAATTTTACAAATCAAGGGTGATTC
1 AGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTCGAGTAATTTTACAAATCGAGGGTGTTTC
*
89593714 AGTAATTTTGCAAATCG
66 AGTAATTTTACAAATCG
* *
89593731 AGGGTATTTCTGTAATTTTACAAACTGAA-GGTATTTC-AGTAATTTTA
1 AGGGTATTTCAGTAATTTTACAAA-TCAAGGGTATTTCGAGTAATTTTA
89593778 TAAACTAGGG
Statistics
Matches: 237, Mismatches: 40, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
79 20 0.08
80 140 0.59
81 74 0.31
82 3 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (82 bp):
AGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTCGAGTAATTTTACAAATCGAGGGTGTTTC
AGTAATTTTACAAATCG
Found at i:89593586 original size:107 final size:107
Alignment explanation
Indices: 89593410--89593777 Score: 410
Period size: 107 Copynumber: 3.4 Consensus size: 107
89593400 TTACACTACA
* * * * *
89593410 AGGGTATTTCAGTAATATTAC-ACTAC-AAGGGTATTTCGATAGTTTTATAAATCGGGGGTGTTT
1 AGGGTATTTCAGTAAT-TTACAAAT-CGAA-GGTATTTCGGTAATTTTACAAATCGAGGGTGTTT
* * *
89593473 C-ATAATTTTACAAATTGAGGGTATTTCAATAATTTTACAAATTG
63 CGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATTG
* * *
89593517 AGGGTATTTCAGT-ATTGTACAAATCGAGGGTGTTTTGGTAATTTTACAAATCGAGGGTGTTTCG
1 AGGGTATTTCAGTAATT-TACAAATCGAAGGTATTTCGGTAATTTTACAAATCGAGGGTGTTTCG
* *
89593581 GTAATTTCACAAATCG-GTGGTATTTTAGTAATTTTACAAATTG
65 GTAATTTTACAAATCGAG-GGTATTTCAGTAATTTTACAAATTG
* * *
89593624 AGGTTATTTCAGTAATTT-CACAATCGAAGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCG
1 AGGGTATTTCAGTAATTTACA-AATCGAAGGTATTTCGGTAATTTTACAAATCGAGGGTGTTTCG
* * *
89593688 GTAATTTTACAAATCAAGGGTGA-TTCAGTAATTTTGCAAATCG
65 GTAATTTTACAAATCGAGGGT-ATTTCAGTAATTTTACAAATTG
* *
89593731 AGGGTATTTCTGTAATTTTACAAA-CTGAAGGTATTTCAGTAATTTTA
1 AGGGTATTTCAGTAA-TTTACAAATC-GAAGGTATTTCGGTAATTTTA
89593778 TAAACTAGGG
Statistics
Matches: 222, Mismatches: 27, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
105 1 0.00
106 38 0.17
107 151 0.68
108 30 0.14
109 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (107 bp):
AGGGTATTTCAGTAATTTACAAATCGAAGGTATTTCGGTAATTTTACAAATCGAGGGTGTTTCGG
TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATTG
Found at i:89593632 original size:134 final size:133
Alignment explanation
Indices: 89593458--89593794 Score: 396
Period size: 134 Copynumber: 2.5 Consensus size: 133
89593448 ATAGTTTTAT
* * *
89593458 AAATCGGGGGTGTTTCA-TAATTTTACAAATTGAGGGTATTTCAATAATTTTACAAATTGAGGGT
1 AAATC-GGGGTATTTTAGTAATTTTACAAATTGA-GGTATTTCAGTAATTTTACAAATTGAGGGT
* * * * * *
89593522 ATTTCAGT-ATTGTACAAATCGAGGGTGTTTTGGTAATTTTACAAATCGAGGGTGTTTCGGTAAT
64 ATTTCAGTAATTGTACAAATCAAGGGTATTTCGGTAATTTTACAAATCAAGGGTGATTCAGTAAT
89593586 TTCAC
129 TTCAC
* * *
89593591 AAATCGGTGGTATTTTAGTAATTTTACAAATTGAGGTTATTTCAGTAATTTCAC-AATCGAAGGT
1 AAATCGG-GGTATTTTAGTAATTTTACAAATTGAGG-TATTTCAGTAATTTTACAAATTGAGGGT
* *
89593655 ATTTCGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCAAGGGTGATTCAGTAAT
64 ATTTCAGTAATTGTACAAATCAAGGGTATTTCGGTAATTTTACAAATCAAGGGTGATTCAGTAAT
**
89593720 TTTGC
129 TTCAC
* * *
89593725 AAATCGAGGGTATTTCT-GTAATTTTACAAACTGAAGGTATTTCAGTAATTTTATAAACT-AGGG
1 AAATCG-GGGTATTT-TAGTAATTTTACAAATTG-AGGTATTTCAGTAATTTTACAAATTGA-GG
89593788 GTATTTC
62 GTATTTC
89593795 GATAATTTCT
Statistics
Matches: 173, Mismatches: 22, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
132 2 0.01
133 29 0.17
134 127 0.73
135 15 0.09
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (133 bp):
AAATCGGGGTATTTTAGTAATTTTACAAATTGAGGTATTTCAGTAATTTTACAAATTGAGGGTAT
TTCAGTAATTGTACAAATCAAGGGTATTTCGGTAATTTTACAAATCAAGGGTGATTCAGTAATTT
CAC
Found at i:89594167 original size:28 final size:28
Alignment explanation
Indices: 89594118--89594181 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
89594108 TGGCCCCTTT
* *
89594118 AAGCCCAATCTCGTCCACATGGCCCATC
1 AAGCCCAATCACATCCACATGGCCCATC
* * *
89594146 AAGCCCAATCACATTCATATGGCCCATT
1 AAGCCCAATCACATCCACATGGCCCATC
*
89594174 AGGCCCAA
1 AAGCCCAA
89594182 CTACTTCCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.14, T:0.19
Consensus pattern (28 bp):
AAGCCCAATCACATCCACATGGCCCATC
Found at i:89602691 original size:22 final size:22
Alignment explanation
Indices: 89602651--89602692 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
89602641 AGGACCTAGT
*
89602651 TGTAAAAATGTTATAAAATGTG
1 TGTAAAAATGTGATAAAATGTG
* *
89602673 TGTAAAAGTGTGATTAAATG
1 TGTAAAAATGTGATAAAATG
89602693 AAAAATGTGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (22 bp):
TGTAAAAATGTGATAAAATGTG
Found at i:89611966 original size:16 final size:16
Alignment explanation
Indices: 89611945--89611980 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
89611935 GGCAAATCCC
89611945 GAAATGCCGAAAAGCT
1 GAAATGCCGAAAAGCT
*
89611961 GAAATGTCGAAAAGCT
1 GAAATGCCGAAAAGCT
89611977 GAAA
1 GAAA
89611981 GTCTAGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.14, G:0.25, T:0.14
Consensus pattern (16 bp):
GAAATGCCGAAAAGCT
Found at i:89612274 original size:28 final size:29
Alignment explanation
Indices: 89612213--89612281 Score: 104
Period size: 28 Copynumber: 2.4 Consensus size: 29
89612203 TTCTTTCCAG
* *
89612213 ATGGGCCATATGAATGTGATTTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCGA
89612242 ATGGGCCATATGAATGAGA-TTGGGCCGA
1 ATGGGCCATATGAATGAGATTTGGGCCGA
*
89612270 GTGGGCCATATG
1 ATGGGCCATATG
89612282 CATGTATGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.25, C:0.14, G:0.35, T:0.26
Consensus pattern (29 bp):
ATGGGCCATATGAATGAGATTTGGGCCGA
Found at i:89612368 original size:4 final size:4
Alignment explanation
Indices: 89612359--89612387 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
89612349 GACATAACAC
89612359 TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
89612388 CGTGACTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:89614423 original size:543 final size:543
Alignment explanation
Indices: 89613396--89614481 Score: 2154
Period size: 543 Copynumber: 2.0 Consensus size: 543
89613386 AGATTTACAA
89613396 TCATACATGAACGTATACCTATAATGATATTAGCAACAAATTGACATTTTTAACTATCCATTAAA
1 TCATACATGAACGTATACCTATAATGATATTAGCAACAAATTGACATTTTTAACTATCCATTAAA
89613461 ATTAAACCAAAACATACTTAATCATTACCATTATTTACCATTTGAACCCATACCAAAACAACCAA
66 ATTAAACCAAAACATACTTAATCATTACCATTATTTACCATTTGAACCCATACCAAAACAACCAA
89613526 CCAAAACAATCATAAAACATATTCATTACTTACCACTTAGCAACCGAACCTGTTAAGTTAATATA
131 CCAAAACAATCATAAAACATATTCATTACTTACCACTTAGCAACCGAACCTGTTAAGTTAATATA
89613591 CCACATTTCATATTCCAAAATGAGCTAACTATTAAAATGACTACCAGAACCAAACTCATTAAACA
196 CCACATTTCATATTCCAAAATGAGCTAACTATTAAAATGACTACCAGAACCAAACTCATTAAACA
89613656 TTTTAATTAAGAACATGTAAAACCAAACTTAAGCATAATAAGCAAGCCATTTTCGCATGGATTTA
261 TTTTAATTAAGAACATGTAAAACCAAACTTAAGCATAATAAGCAAGCCATTTTCGCATGGATTTA
89613721 AATACATACTCATTCAAAATAATTAACTCTAAGATTAATCTATACATGCCACATAACCGAGTCTC
326 AATACATACTCATTCAAAATAATTAACTCTAAGATTAATCTATACATGCCACATAACCGAGTCTC
89613786 AAAACATTATTTACTGAAATGATAACCGGATAGTGTGATGTCGTCTCCATCGACTTCCAACCTGA
391 AAAACATTATTTACTGAAATGATAACCGGATAGTGTGATGTCGTCTCCATCGACTTCCAACCTGA
89613851 GCAGATCTCCGAAAATCTATAAACATAGGAAAAACACAGAATAAGCTTTGAGAGCTTAGTAAGTT
456 GCAGATCTCCGAAAATCTATAAACATAGGAAAAACACAGAATAAGCTTTGAGAGCTTAGTAAGTT
89613916 ATAAGCAAATAAATAACTCAATG
521 ATAAGCAAATAAATAACTCAATG
89613939 TCATACATGAACGTATACCTATAATGATATTAGCAACAAATTGACATTTTTAACTATCCATTAAA
1 TCATACATGAACGTATACCTATAATGATATTAGCAACAAATTGACATTTTTAACTATCCATTAAA
89614004 ATTAAACCAAAACATACTTAATCATTACCATTATTTACCATTTGAACCCATACCAAAACAACCAA
66 ATTAAACCAAAACATACTTAATCATTACCATTATTTACCATTTGAACCCATACCAAAACAACCAA
89614069 CCAAAACAATCATAAAACATATTCATTACTTACCACTTAGCAACCGAACCTGTTAAGTTAATATA
131 CCAAAACAATCATAAAACATATTCATTACTTACCACTTAGCAACCGAACCTGTTAAGTTAATATA
*
89614134 CCCCATTTCATATTCCAAAATGAGCTAACTATTAAAATGACTACCAGAACCAAACTCATTAAACA
196 CCACATTTCATATTCCAAAATGAGCTAACTATTAAAATGACTACCAGAACCAAACTCATTAAACA
89614199 TTTTAATTAAGAACATGTAAAACCAAACTTAAGCATAATAAGCAAGCCATTTTCGCATGGATTTA
261 TTTTAATTAAGAACATGTAAAACCAAACTTAAGCATAATAAGCAAGCCATTTTCGCATGGATTTA
89614264 AATACATACTCATTCAAAATAATTAACTCTAAGATTAATCTATACATGCCACATAACCGAGTCTC
326 AATACATACTCATTCAAAATAATTAACTCTAAGATTAATCTATACATGCCACATAACCGAGTCTC
*
89614329 AAAACATTATTTACTGAAATGATAACCGGATAGTGTGATGTCGTCTCCATCGACTTCCAACTTGA
391 AAAACATTATTTACTGAAATGATAACCGGATAGTGTGATGTCGTCTCCATCGACTTCCAACCTGA
89614394 GCAGATCTCCGAAAATCTATAAACATAGGAAAAACACAGAATAAGCTTTGAGAGCTTAGTAAGTT
456 GCAGATCTCCGAAAATCTATAAACATAGGAAAAACACAGAATAAGCTTTGAGAGCTTAGTAAGTT
89614459 ATAAGCAAATAAATAACTCAATG
521 ATAAGCAAATAAATAACTCAATG
89614482 ACAATAACAA
Statistics
Matches: 541, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
543 541 1.00
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.28
Consensus pattern (543 bp):
TCATACATGAACGTATACCTATAATGATATTAGCAACAAATTGACATTTTTAACTATCCATTAAA
ATTAAACCAAAACATACTTAATCATTACCATTATTTACCATTTGAACCCATACCAAAACAACCAA
CCAAAACAATCATAAAACATATTCATTACTTACCACTTAGCAACCGAACCTGTTAAGTTAATATA
CCACATTTCATATTCCAAAATGAGCTAACTATTAAAATGACTACCAGAACCAAACTCATTAAACA
TTTTAATTAAGAACATGTAAAACCAAACTTAAGCATAATAAGCAAGCCATTTTCGCATGGATTTA
AATACATACTCATTCAAAATAATTAACTCTAAGATTAATCTATACATGCCACATAACCGAGTCTC
AAAACATTATTTACTGAAATGATAACCGGATAGTGTGATGTCGTCTCCATCGACTTCCAACCTGA
GCAGATCTCCGAAAATCTATAAACATAGGAAAAACACAGAATAAGCTTTGAGAGCTTAGTAAGTT
ATAAGCAAATAAATAACTCAATG
Found at i:89617117 original size:39 final size:40
Alignment explanation
Indices: 89617061--89617160 Score: 166
Period size: 40 Copynumber: 2.5 Consensus size: 40
89617051 ATGTAGCTTG
* *
89617061 CGGACCTTAAGTTCGGATATAA-TTCCAGCACATAGCCTA
1 CGGACCCTAAGTCCGGATATAATTTCCAGCACATAGCCTA
*
89617100 CGGACCCTAAGTCCGGATATAATTTCCAGCACATAGCCTG
1 CGGACCCTAAGTCCGGATATAATTTCCAGCACATAGCCTA
89617140 CGGACCCTAAGTCCGGATATA
1 CGGACCCTAAGTCCGGATATA
89617161 CATCACTGAA
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 20 0.35
40 37 0.65
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CGGACCCTAAGTCCGGATATAATTTCCAGCACATAGCCTA
Found at i:89624752 original size:39 final size:39
Alignment explanation
Indices: 89624709--89624863 Score: 283
Period size: 39 Copynumber: 4.0 Consensus size: 39
89624699 TCGTACATAT
* * *
89624709 TTCCAACACGTAGCCTGCGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
89624748 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
89624787 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
89624826 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
89624864 CATCACTGAA
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 113 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
Found at i:89632448 original size:615 final size:614
Alignment explanation
Indices: 89631458--89632686 Score: 2395
Period size: 615 Copynumber: 2.0 Consensus size: 614
89631448 TTTATCATAA
89631458 CTAAGCGAAGTTGATTGCGTGTCTAGAAATAGGGTGACAAGATTTTGCCGGATTAGGGTGAAATC
1 CTAAGCGAAGTTGATTGCGTGTCTAGAAATAGGGTGACAAGATTTTGCCGGATTAGGGTGAAATC
89631523 TAATAAGGGGATCCATAGATCGAGTTAATGCAACCCTAGAGTGTTAATTAGAGAAAAGTCTCAAT
66 TAATAAGGGGATCCATAGATCGAGTTAATGCAACCCTAGAGTGTTAATTAGAGAAAAGTCTCAAT
*
89631588 TATTCAATCTAGGGATTAGACGTTATTTGTCTTGAATAGGGATAATAACATAACTTAGGGATTCT
131 TATTCAATCTAGGGATTAGACGTTATTAGTCTTGAATAGGGATAATAACATAACTTAGGGATTCT
* *
89631653 ACGGAACAAGTTGAATGAATAAATCGTCTGATTCGGAGCCAGAATAACAAGTAATGTCTAGGTGG
196 ACGGAACAAGTTGAATGAATAAATCGTCCGATTCGGAGCCAGAATAACAAGTAAAGTCTAGGTGG
89631718 ATTTTTCCTTAGGTATTGTCTTAAGTCAATCGATTTTTCCCAAAAGCAATTCCCTAATTCTTTTC
261 ATTTTTCCTTAGGTATTGTCTTAAGTCAATCGATTTTTCCCAAAAGCAATTCCCTAATTCTTTTC
89631783 TCTGTGCGTTCTTAGTTTAGATAATTAGTTAATTAAAACAAAACCCTTTATTCTTAGGCTGTATA
326 TCTGTGCGTTCTTAGTTTAGATAATTAGTTAATTAAAACAAAACCCTTTATTCTTAGGCTGTATA
89631848 ATAAAAAAGACAGTCATTACTTGTACTTTTAGTTCCTTTGGGTTCGACAATCCGGTCTTGCTAAA
391 ATAAAAAAGACAGTCATTACTTGTACTTTTAGTTCCTTTGGGTTCGACAATCCGGTCTTGCTAAA
89631913 ACTATACTAGTGTTTGATAGGTACACTTGCCTACGTCGCGATAATAGTTAGTTCAAGAATGAGTA
456 ACTATACTAGTGTTTGATAGGTACACTTGCCTACGTCGCGATAATAGTTAGTTCAAGAATGAGTA
89631978 ATTATAAATATTTAAAACCTATCACCAGAGCTAAACGCAATCAAGTTTTTGGCGCCGTTGTCGGG
521 ATTATAAATATTTAAAACCTATCACCAGAGCTAAACGCAATCAAGTTTTTGGCGCCGTTGTCGGG
89632043 GAACTGAAATATTAGGAACGCTCAATTTT
586 GAACTGAAATATTAGGAACGCTCAATTTT
89632072 CTAAGCGAAGTTGATTGCGTGTCTAGAAATAGGGTGACAAGATTTTGCCGGATTAGGGTGAAATC
1 CTAAGCGAAGTTGATTGCGTGTCTAGAAATAGGGTGACAAGATTTTGCCGGATTAGGGTGAAATC
**
89632137 TAATAAGGGGATCCATAGATCGAGTTAATGCAACCCTAGAGTGTTAATTAGAGAAAAGTCTCGGT
66 TAATAAGGGGATCCATAGATCGAGTTAATGCAACCCTAGAGTGTTAATTAGAGAAAAGTCTCAAT
*
89632202 TATTCAATCTAGGGATTAGATGTTATTAGTCTTGAATAGGGATAATAACATAACTTAGGGATCTC
131 TATTCAATCTAGGGATTAGACGTTATTAGTCTTGAATAGGGATAATAACATAACTTAGGGAT-TC
89632267 TACGGAACAAGTTGAATGAATAAATCGTCCGATTCGGAGCCAGAATAACAAGTAAAGTCTAGGTG
195 TACGGAACAAGTTGAATGAATAAATCGTCCGATTCGGAGCCAGAATAACAAGTAAAGTCTAGGTG
89632332 GATTTTTCCTTAGGTATTGTCTTAAGTCAATCGATTTTTCCCAAAAGCAATTCCCTAATTCTTTT
260 GATTTTTCCTTAGGTATTGTCTTAAGTCAATCGATTTTTCCCAAAAGCAATTCCCTAATTCTTTT
89632397 CTCTGTGCGTTCTTAGTTTAGATAATTAGTTAATTAAAACAAAACCCTTTATTCTTAGGCTGTAT
325 CTCTGTGCGTTCTTAGTTTAGATAATTAGTTAATTAAAACAAAACCCTTTATTCTTAGGCTGTAT
89632462 AATAAAAAAGACAGTCATTACTTGTACTTTTAGTTCCTTTGGGTTCGACAATCCGGTCTTGCTAA
390 AATAAAAAAGACAGTCATTACTTGTACTTTTAGTTCCTTTGGGTTCGACAATCCGGTCTTGCTAA
89632527 AACTATACTAGTGTTTGATAGGTACACTTGCCTACGTCGCGATAATAGTTAGTTCAAGAATGAGT
455 AACTATACTAGTGTTTGATAGGTACACTTGCCTACGTCGCGATAATAGTTAGTTCAAGAATGAGT
89632592 AATTATAAATATTTAAAACCTATCACCAGAGCTAAACGCAATCAAGTTTTTGGCGCCGTTGTCGG
520 AATTATAAATATTTAAAACCTATCACCAGAGCTAAACGCAATCAAGTTTTTGGCGCCGTTGTCGG
89632657 GGAACTGAAATATTAGGAACGCTCAATTTT
585 GGAACTGAAATATTAGGAACGCTCAATTTT
89632687 TATTACTTTA
Statistics
Matches: 608, Mismatches: 6, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
614 188 0.31
615 420 0.69
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (614 bp):
CTAAGCGAAGTTGATTGCGTGTCTAGAAATAGGGTGACAAGATTTTGCCGGATTAGGGTGAAATC
TAATAAGGGGATCCATAGATCGAGTTAATGCAACCCTAGAGTGTTAATTAGAGAAAAGTCTCAAT
TATTCAATCTAGGGATTAGACGTTATTAGTCTTGAATAGGGATAATAACATAACTTAGGGATTCT
ACGGAACAAGTTGAATGAATAAATCGTCCGATTCGGAGCCAGAATAACAAGTAAAGTCTAGGTGG
ATTTTTCCTTAGGTATTGTCTTAAGTCAATCGATTTTTCCCAAAAGCAATTCCCTAATTCTTTTC
TCTGTGCGTTCTTAGTTTAGATAATTAGTTAATTAAAACAAAACCCTTTATTCTTAGGCTGTATA
ATAAAAAAGACAGTCATTACTTGTACTTTTAGTTCCTTTGGGTTCGACAATCCGGTCTTGCTAAA
ACTATACTAGTGTTTGATAGGTACACTTGCCTACGTCGCGATAATAGTTAGTTCAAGAATGAGTA
ATTATAAATATTTAAAACCTATCACCAGAGCTAAACGCAATCAAGTTTTTGGCGCCGTTGTCGGG
GAACTGAAATATTAGGAACGCTCAATTTT
Found at i:89637994 original size:19 final size:19
Alignment explanation
Indices: 89637972--89638009 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
89637962 GATGATTTCT
89637972 CATTAGAATTGGTGAATTC
1 CATTAGAATTGGTGAATTC
89637991 CATTAGAATTGGTGAATTC
1 CATTAGAATTGGTGAATTC
89638010 AATGCTCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (19 bp):
CATTAGAATTGGTGAATTC
Found at i:89652293 original size:134 final size:134
Alignment explanation
Indices: 89652053--89652320 Score: 536
Period size: 134 Copynumber: 2.0 Consensus size: 134
89652043 GAAATAGTTT
89652053 AAATTGAATCTAGTGATTTGAATGGGTTACCAGTTGTGAGTTCGTCAATGAAAGCTCTGAGTATT
1 AAATTGAATCTAGTGATTTGAATGGGTTACCAGTTGTGAGTTCGTCAATGAAAGCTCTGAGTATT
89652118 GTGAGAAAAGGTTGTGAAGCTTACTTTGCTTATGTGATCGATTCAAAAGTGAAAGAAAAAAAAGT
66 GTGAGAAAAGGTTGTGAAGCTTACTTTGCTTATGTGATCGATTCAAAAGTGAAAGAAAAAAAAGT
89652183 TGAA
131 TGAA
89652187 AAATTGAATCTAGTGATTTGAATGGGTTACCAGTTGTGAGTTCGTCAATGAAAGCTCTGAGTATT
1 AAATTGAATCTAGTGATTTGAATGGGTTACCAGTTGTGAGTTCGTCAATGAAAGCTCTGAGTATT
89652252 GTGAGAAAAGGTTGTGAAGCTTACTTTGCTTATGTGATCGATTCAAAAGTGAAAGAAAAAAAAGT
66 GTGAGAAAAGGTTGTGAAGCTTACTTTGCTTATGTGATCGATTCAAAAGTGAAAGAAAAAAAAGT
89652317 TGAA
131 TGAA
89652321 TTAGTGCCTG
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
134 134 1.00
ACGTcount: A:0.35, C:0.09, G:0.25, T:0.31
Consensus pattern (134 bp):
AAATTGAATCTAGTGATTTGAATGGGTTACCAGTTGTGAGTTCGTCAATGAAAGCTCTGAGTATT
GTGAGAAAAGGTTGTGAAGCTTACTTTGCTTATGTGATCGATTCAAAAGTGAAAGAAAAAAAAGT
TGAA
Found at i:89653390 original size:93 final size:93
Alignment explanation
Indices: 89653246--89653414 Score: 220
Period size: 93 Copynumber: 1.8 Consensus size: 93
89653236 TGAGAGCTAG
* * * * *
89653246 TGTAAGACCTGTTTGGGACATGGCATCAGCCTCAATATATGCAAGCTAGTGTAAGACTTGTCTAG
1 TGTAAGACCTGTTTGGAACATGGCATCAGACACAATATATGCAAGCCAGTGTAAGACCTGTCT-G
89653311 GG-CATGGCATCAGCTTGAGGTGTGTTAA
65 GGACATGGCATCAGCTTGAGGTGTGTTAA
*
89653339 TGTAAGACCTGTTTGGAATATGGCATC-GACACAGATA-AGTG-AGAGCCAGTGTAAGACCTGTC
1 TGTAAGACCTGTTTGGAACATGGCATCAGACACA-ATATA-TGCA-AGCCAGTGTAAGACCTGTC
89653401 TGGGACATGGCATC
63 TGGGACATGGCATC
89653415 GGCCTCGATG
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
92 9 0.14
93 57 0.86
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (93 bp):
TGTAAGACCTGTTTGGAACATGGCATCAGACACAATATATGCAAGCCAGTGTAAGACCTGTCTGG
GACATGGCATCAGCTTGAGGTGTGTTAA
Found at i:89653413 original size:49 final size:48
Alignment explanation
Indices: 89653195--89653415 Score: 177
Period size: 49 Copynumber: 4.6 Consensus size: 48
89653185 AATGTTTGTC
* * *
89653195 AGTGTAAGACCTATCTGGTACATGGCACCGACACAGATAAGTGAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACA-ATAAGTGAGAGCT
* * *
89653244 AGTGTAAGACCTGTTTGGGACATGGCATCAGCCTCAATATA-TGCA-AGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GACACAATA-AGTG-AGAGCT
* * * * * * *
89653293 AGTGTAAGACTTGTCTAGGG-CATGGCATC-A-GC-TTGAG-GTGTGTT
1 AGTGTAAGACCTGTCT-GGGACATGGCATCGACACAATAAGTGAGAGCT
* * * * *
89653337 AATGTAAGACCTGTTTGGAATATGGCATCGACACAGATAAGTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACA-ATAAGTGAGAGCT
89653386 AGTGTAAGACCTGTCTGGGACATGGCATCG
1 AGTGTAAGACCTGTCTGGGACATGGCATCG
89653416 GCCTCGATGC
Statistics
Matches: 129, Mismatches: 31, Indels: 24
0.70 0.17 0.13
Matches are distributed among these distances:
43 2 0.02
44 25 0.19
45 2 0.02
46 2 0.02
48 3 0.02
49 86 0.67
50 9 0.07
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACACAATAAGTGAGAGCT
Found at i:89653453 original size:142 final size:142
Alignment explanation
Indices: 89653197--89653462 Score: 372
Period size: 142 Copynumber: 1.9 Consensus size: 142
89653187 TGTTTGTCAG
* * *
89653197 TGTAAGACCTATCTGGTACATGGCACCGACACAGATAAGTGAGAGCTAGTGTAAGACCTGTTTGG
1 TGTAAGACCTATCTGGAACATGGCACCGACACAGATAAGTGAGAGCCAGTGTAAGACCTGTCTGG
* * * *
89653262 GACATGGCATCAGCCTCAATATATGCAAGCTAGTGTAAGACTTGTCTAGGGCATGGCATCAGCTT
66 GACATGGCATCAGCCTCAATACATGCAAGCTAATGTAAGACCTGTCTAGGACATGGCATCAGCTT
89653327 GAGGTGTGTTAA
131 GAGGTGTGTTAA
* * * *
89653339 TGTAAGACCTGTTTGGAATATGGCATCGACACAGATAAGTGAGAGCCAGTGTAAGACCTGTCTGG
1 TGTAAGACCTATCTGGAACATGGCACCGACACAGATAAGTGAGAGCCAGTGTAAGACCTGTCTGG
* * * * *
89653404 GACATGGCATCGGCCTCGATGCATGGAAG-TCAATGTAAGGCCTGTCTAGGACATGGCAT
66 GACATGGCATCAGCCTCAATACATGCAAGCT-AATGTAAGACCTGTCTAGGACATGGCAT
89653463 TGATTTAGAT
Statistics
Matches: 107, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
141 1 0.01
142 106 0.99
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (142 bp):
TGTAAGACCTATCTGGAACATGGCACCGACACAGATAAGTGAGAGCCAGTGTAAGACCTGTCTGG
GACATGGCATCAGCCTCAATACATGCAAGCTAATGTAAGACCTGTCTAGGACATGGCATCAGCTT
GAGGTGTGTTAA
Found at i:89661262 original size:49 final size:47
Alignment explanation
Indices: 89661190--89661294 Score: 111
Period size: 49 Copynumber: 2.2 Consensus size: 47
89661180 GGTGTGTCAA
* * *
89661190 TGTAAGACCTATCTGGGACATGGCATCAACACAAATAAGTAAGAGCCAG
1 TGTAAGACCTACCTAGGACATGGCACCAACACAAAT--GTAAGAGCCAG
* * * ** *
89661239 TGTAAGACCTGCCTAGGATATGGCACCGACTTAGATGTAAGAGCCAG
1 TGTAAGACCTACCTAGGACATGGCACCAACACAAATGTAAGAGCCAG
89661286 TGTAAGACC
1 TGTAAGACC
89661295 ATGTTTGGAA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
47 20 0.43
49 27 0.57
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (47 bp):
TGTAAGACCTACCTAGGACATGGCACCAACACAAATGTAAGAGCCAG
Found at i:89662283 original size:39 final size:39
Alignment explanation
Indices: 89662227--89662304 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
89662217 GCAGAGACAA
* * * * *
89662227 TGTAACACCCCGTACCCGAGTCGGTCGCCGGAGTCGGAC
1 TGTAACACCCCGAACCCGAGACCGACACCGGAGTCGGAC
89662266 TGTAACACCCCGAACCCGAGACCGACACCGGAGTCGGAC
1 TGTAACACCCCGAACCCGAGACCGACACCGGAGTCGGAC
89662305 ACGAGATGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.23, C:0.37, G:0.28, T:0.12
Consensus pattern (39 bp):
TGTAACACCCCGAACCCGAGACCGACACCGGAGTCGGAC
Found at i:89663749 original size:40 final size:40
Alignment explanation
Indices: 89663649--89663913 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
89663639 GCTCCTCGTT
* * * *
89663649 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
89663689 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
89663728 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
89663768 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
89663808 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
89663848 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
89663889 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
89663914 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:89663873 original size:80 final size:80
Alignment explanation
Indices: 89663616--89663913 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
89663606 AAATCACGTA
* ** * * *
89663616 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
89663678 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
89663694 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
89663757 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
89663774 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
89663838 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
89663854 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
89663914 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:89663922 original size:41 final size:41
Alignment explanation
Indices: 89663845--89663922 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
89663835 TTTGTATCTC
* * *
89663845 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
89663886 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
89663923 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:89677371 original size:56 final size:56
Alignment explanation
Indices: 89677310--89677443 Score: 202
Period size: 54 Copynumber: 2.4 Consensus size: 56
89677300 ACCATGGCTT
*
89677310 CGATATATGTGTGCGAGTAAGACC-TCGTTTTATATGTTGGCATCAATATGTGACTC
1 CGATATATGTGTGCGAGTAAGACCAT-GTTTTATACGTTGGCATCAATATGTGACTC
* *
89677366 CGATATA--TGTGCGAGTAAGTCCATGTTTTATACGTTGGCATCGATATGTGACTC
1 CGATATATGTGTGCGAGTAAGACCATGTTTTATACGTTGGCATCAATATGTGACTC
*
89677420 TGATATATGTGTGCGAGTAAGACC
1 CGATATATGTGTGCGAGTAAGACC
89677444 CTGTCTGGGA
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
54 48 0.69
55 1 0.01
56 21 0.30
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCATGTTTTATACGTTGGCATCAATATGTGACTC
Found at i:89678109 original size:89 final size:89
Alignment explanation
Indices: 89678004--89678272 Score: 538
Period size: 89 Copynumber: 3.0 Consensus size: 89
89677994 CTAAATGTGA
89678004 TAATGATATTATAATTTGATTTAGTTTAATTGAGATGAATATATCATTGGTTTGTTTATTTGCTT
1 TAATGATATTATAATTTGATTTAGTTTAATTGAGATGAATATATCATTGGTTTGTTTATTTGCTT
89678069 ATGACTTACTAAGCTATAAAAGCT
66 ATGACTTACTAAGCTATAAAAGCT
89678093 TAATGATATTATAATTTGATTTAGTTTAATTGAGATGAATATATCATTGGTTTGTTTATTTGCTT
1 TAATGATATTATAATTTGATTTAGTTTAATTGAGATGAATATATCATTGGTTTGTTTATTTGCTT
89678158 ATGACTTACTAAGCTATAAAAGCT
66 ATGACTTACTAAGCTATAAAAGCT
89678182 TAATGATATTATAATTTGATTTAGTTTAATTGAGATGAATATATCATTGGTTTGTTTATTTGCTT
1 TAATGATATTATAATTTGATTTAGTTTAATTGAGATGAATATATCATTGGTTTGTTTATTTGCTT
89678247 ATGACTTACTAAGCTATAAAAGCT
66 ATGACTTACTAAGCTATAAAAGCT
89678271 TA
1 TA
89678273 CTCTGTATGT
Statistics
Matches: 180, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 180 1.00
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.46
Consensus pattern (89 bp):
TAATGATATTATAATTTGATTTAGTTTAATTGAGATGAATATATCATTGGTTTGTTTATTTGCTT
ATGACTTACTAAGCTATAAAAGCT
Found at i:89679914 original size:79 final size:79
Alignment explanation
Indices: 89679803--89680026 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 79
89679793 GCTACTCGTT
* * *
89679803 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
89679868 ATTTAGTAACTCGCA
65 AATTAGTAACTCACA
* **
89679883 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCAA
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
89679946 AATTAGTATCTCACA
65 AATTAGTAACTCACA
* * * * *
89679961 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
89680025 GA
64 GA
89680027 CATCATTCAA
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
78 33 0.27
79 57 0.47
80 32 0.26
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCACA
Done.