Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 204 of 425
Found at i:62205272 original size:4 final size:4
Alignment explanation
Indices: 62205250--62205322 Score: 119
Period size: 4 Copynumber: 18.2 Consensus size: 4
62205240 CAATGATTGT
* * *
62205250 ATAC ATGC ATGC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
62205298 ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC A
62205323 AATCTACTTA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 67 1.00
ACGTcount: A:0.47, C:0.25, G:0.04, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:62205372 original size:16 final size:17
Alignment explanation
Indices: 62205351--62205386 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
62205341 TTATATAGAT
*
62205351 TTTGACAT-ATTATTTA
1 TTTGACATAATTATATA
62205367 TTTGACATAATTATATA
1 TTTGACATAATTATATA
62205384 TTT
1 TTT
62205387 TTATTATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (17 bp):
TTTGACATAATTATATA
Found at i:62208149 original size:28 final size:28
Alignment explanation
Indices: 62208118--62208194 Score: 109
Period size: 28 Copynumber: 2.8 Consensus size: 28
62208108 TACTCAATGC
62208118 CTCGCACACTAAGTGCCATACTCGATAT
1 CTCGCACACTAAGTGCCATACTCGATAT
* ***
62208146 CTCGAACACTAAGTGCTGCACTCGATAT
1 CTCGCACACTAAGTGCCATACTCGATAT
*
62208174 CTCACACACTAAGTGCCATAC
1 CTCGCACACTAAGTGCCATAC
62208195 ATAGTCAAAG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.23
Consensus pattern (28 bp):
CTCGCACACTAAGTGCCATACTCGATAT
Found at i:62208303 original size:40 final size:40
Alignment explanation
Indices: 62208175--62208311 Score: 159
Period size: 40 Copynumber: 3.4 Consensus size: 40
62208165 ACTCGATATC
* * * *
62208175 TCACACACTAAGTGCCATACATAGTCAAAGGTATCTCAAA
1 TCACACACTAAGTGCCATATATAGTCGAAGCTATGTCAAA
* *
62208215 T-AGCACACTAAGTGTCATATATAGCCGAAGCTATGTCAAA
1 TCA-CACACTAAGTGCCATATATAGTCGAAGCTATGTCAAA
* * **
62208255 TCGCACACTAAGTGCCATATATAGTCGAAGTTATGTCGTA
1 TCACACACTAAGTGCCATATATAGTCGAAGCTATGTCAAA
*
62208295 TCATACACTAAGTGCCA
1 TCACACACTAAGTGCCA
62208312 AAAATAATCG
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 80 0.99
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.26
Consensus pattern (40 bp):
TCACACACTAAGTGCCATATATAGTCGAAGCTATGTCAAA
Found at i:62213288 original size:49 final size:49
Alignment explanation
Indices: 62213125--62213434 Score: 439
Period size: 49 Copynumber: 6.4 Consensus size: 49
62213115 TTATCACCTT
* * * * * *
62213125 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCAC--ATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
* * *
62213172 TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTGTCAC--ATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
62213219 TATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
62213268 TATACACTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
* *
62213317 TATACACTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATATG
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
** *
62213366 TATATGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
62213415 TATACACATTCACATTCATC
1 TATACACTTTCACATTCATC
62213435 TCGTAAAATC
Statistics
Matches: 241, Mismatches: 20, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
47 82 0.34
49 159 0.66
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (49 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
Found at i:62216156 original size:40 final size:40
Alignment explanation
Indices: 62216112--62216223 Score: 197
Period size: 40 Copynumber: 2.8 Consensus size: 40
62216102 CCAGCATGAT
* * *
62216112 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
62216152 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
62216192 TGCTCTTCGGAACTTAGTCCGGATACATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
62216224 CTCAATTCTC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:62218508 original size:49 final size:49
Alignment explanation
Indices: 62218345--62218652 Score: 430
Period size: 47 Copynumber: 6.4 Consensus size: 49
62218335 TTATCACCTT
* * * * * *
62218345 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCAC--ATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
* * *
62218392 TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTGTCAC--ATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
* *
62218439 TATACACCTGCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
62218488 TATACACTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
62218537 TATAC-CTTTCACATTCATCAC-TCGGCCATTAGGCCTTATCACATATG
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
* *
62218584 TATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
62218633 TATACACATTCACATTCATC
1 TATACACTTTCACATTCATC
62218653 GCGTAAAATC
Statistics
Matches: 239, Mismatches: 18, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
47 111 0.46
48 32 0.13
49 96 0.40
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (49 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
Found at i:62218525 original size:96 final size:95
Alignment explanation
Indices: 62218334--62218652 Score: 410
Period size: 96 Copynumber: 3.3 Consensus size: 95
62218324 CCCTTCGGGA
* * * * * * * *
62218334 CTTATCACCTTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCAC--ATATATAC
1 CTTATCACATATATACACCTTCACATTCATCAC-TCGGCCATTAGGCCTTATCACATATATATAC
*
62218397 ACTTTCACATTCATCACATT-GGCCATTCGGC
65 ACTTTCACATTCATCAC-TTCGGCCATTAGGC
* *
62218428 CTTGTCACATATATACACCTGCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACCTTCACATTCATCAC-TCGGCCATTAGGCCTTATCACATATATATAC
62218493 ACTTTCACATTCATCACTTCGGCCATTAGGC
65 ACTTTCACATTCATCACTTCGGCCATTAGGC
* *
62218524 CTTATCACATATATATACCTTTCACATTCATCACTCGGCCATTAGGCCTTATCACATATGTATAC
1 CTTATCACATATATACACC-TTCACATTCATCACTCGGCCATTAGGCCTTATCACATATATATAC
* *
62218589 GCTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACTTCGGCCATTAGGC
* *
62218620 CTTATCTCATATATATACACATTCACATTCATC
1 CTTA--TCACATATATACACCTTCACATTCATC
62218653 GCGTAAAATC
Statistics
Matches: 198, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
94 44 0.22
95 2 0.01
96 115 0.58
97 25 0.13
98 12 0.06
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (95 bp):
CTTATCACATATATACACCTTCACATTCATCACTCGGCCATTAGGCCTTATCACATATATATACA
CTTTCACATTCATCACTTCGGCCATTAGGC
Found at i:62223335 original size:18 final size:18
Alignment explanation
Indices: 62223304--62223338 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62223294 ATAACATACG
*
62223304 AAAATTTTGGAAACTTAA
1 AAAATTTTGCAAACTTAA
*
62223322 AAAATTTTTCAAACTTA
1 AAAATTTTGCAAACTTA
62223339 CAGGGGTCAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.37
Consensus pattern (18 bp):
AAAATTTTGCAAACTTAA
Found at i:62223692 original size:29 final size:29
Alignment explanation
Indices: 62223650--62223707 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
62223640 CCGTATGTGA
62223650 GACCATGTGGAGCATACTGATTTCAATTC
1 GACCATGTGGAGCATACTGATTTCAATTC
62223679 GACCATGTGGAGCATACTGATTTCAATTC
1 GACCATGTGGAGCATACTGATTTCAATTC
62223708 AATTTCATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (29 bp):
GACCATGTGGAGCATACTGATTTCAATTC
Found at i:62224635 original size:40 final size:40
Alignment explanation
Indices: 62224576--62224672 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
62224566 ACTCGATATC
* * *
62224576 TCACACACTAAGTGCCATATGTAGTCGAAGCTATGTCGAA
1 TCACACACTAAGTGCCATATATACTCGAAGCAATGTCGAA
* * *
62224616 TCGCACACTAAGTGGCATATATACTCGAAGCAATGTCGTA
1 TCACACACTAAGTGCCATATATACTCGAAGCAATGTCGAA
62224656 TCACACACTAAGTGCCA
1 TCACACACTAAGTGCCA
62224673 CAAATAACCG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (40 bp):
TCACACACTAAGTGCCATATATACTCGAAGCAATGTCGAA
Found at i:62227464 original size:71 final size:71
Alignment explanation
Indices: 62227380--62227543 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
62227370 CGATTTGTCT
62227380 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62227445 CTTTCA
66 CTTTCA
62227451 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62227516 CTTTCA
66 CTTTCA
62227522 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
62227544 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:62227581 original size:71 final size:70
Alignment explanation
Indices: 62227380--62227577 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
62227370 CGATTTGTCT
* * * *
62227380 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
62227445 CTTTCA
65 CTTTCA
* * * *
62227451 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
62227516 CTTTCA
65 CTTTCA
* *
62227522 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
62227578 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:62235038 original size:71 final size:71
Alignment explanation
Indices: 62234954--62235117 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
62234944 CGATTTGTCT
62234954 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62235019 CTTTCA
66 CTTTCA
62235025 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62235090 CTTTCA
66 CTTTCA
62235096 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
62235118 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:62235155 original size:71 final size:70
Alignment explanation
Indices: 62234954--62235151 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
62234944 CGATTTGTCT
* * * *
62234954 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
62235019 CTTTCA
65 CTTTCA
* * * *
62235025 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
62235090 CTTTCA
65 CTTTCA
* *
62235096 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
62235152 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:62254581 original size:45 final size:45
Alignment explanation
Indices: 62254517--62254691 Score: 225
Period size: 45 Copynumber: 4.0 Consensus size: 45
62254507 TATCGTACAG
*
62254517 TACTATTCGGGCCTTT-GAGCCTAGCAGGCTAAAATGTCGGTGAGA
1 TACTATTCGGG-CTTTCGAGCCTAGCAGGCTAAAATGCCGGTGAGA
* * *
62254562 TACTATTCGGGCTTTTGAGCCTAGCAGGCTATAATACCGGTGAGA
1 TACTATTCGGGCTTTCGAGCCTAGCAGGCTAAAATGCCGGTGAGA
* * *
62254607 TACTATTCGGGCTTTCAAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCTTTCGAGCCTAGCAGGCTAAAATGCCGGTGAGA
*
62254652 TGA-TA-TCGGGC-TTCGAGCCTAGCAGGC-GAAATGCCGGTGA
1 T-ACTATTCGGGCTTTCGAGCCTAGCAGGCTAAAATGCCGGTGA
62254692 ATGAATTCGA
Statistics
Matches: 118, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
42 11 0.09
43 15 0.13
44 10 0.08
45 81 0.69
46 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCTTTCGAGCCTAGCAGGCTAAAATGCCGGTGAGA
Found at i:62263581 original size:45 final size:45
Alignment explanation
Indices: 62263514--62263774 Score: 306
Period size: 45 Copynumber: 6.0 Consensus size: 45
62263504 TATCGTACAG
* *
62263514 TACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
62263559 TACTATTCGGGCTTTTGGGCCTAGCAGGCTATAATGCCGATGAGA
1 TACTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
62263604 TACTATTCGGGCTTTTGGGCCTAGGAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
62263649 TACTATTCGAGCTTTTGAGCCTAGCTGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
62263694 TGA-TA-TCGGGC-TTCGAGCCTAGCAGGC-AAAATGCCGGTGA-A
1 T-ACTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
62263735 TGA--ATTCAGG-TTTTAAACCTAGCAGGCT-GAATGCCGGTGA
1 T-ACTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGA
62263775 TTTGATAAAA
Statistics
Matches: 192, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
40 1 0.01
41 32 0.17
42 12 0.06
43 14 0.07
44 5 0.03
45 127 0.66
46 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (45 bp):
TACTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:62265338 original size:42 final size:41
Alignment explanation
Indices: 62265279--62265406 Score: 123
Period size: 42 Copynumber: 3.0 Consensus size: 41
62265269 AGGGTTAGAC
62265279 GAGATTACGTGTAAGACCATATCCAGGATATGACATTGATAT
1 GAGATTACGTGTAAGACCATAT-CAGGATATGACATTGATAT
* * * *
62265321 GAGATTTCGTGTAAGACCATAGT-TGGACTATTGGCATCGATAT
1 GAGATTACGTGTAAGACCATA-TCAGGA-TA-TGACATTGATAT
** * * *
62265364 GAGATCCCATGTAAGACCATATCTGGGATATGCCATTGATAT
1 GAGATTACGTGTAAGACCATATC-AGGATATGACATTGATAT
62265406 G
1 G
62265407 GTACTATTTA
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
41 3 0.04
42 34 0.48
43 31 0.44
44 3 0.04
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (41 bp):
GAGATTACGTGTAAGACCATATCAGGATATGACATTGATAT
Found at i:62265512 original size:20 final size:20
Alignment explanation
Indices: 62265482--62265527 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
62265472 GGCAATGTTA
62265482 AAGTTGGGAAAAACTATGGT
1 AAGTTGGGAAAAACTATGGT
* * *
62265502 ATGTTGTGAAAGACTATGGT
1 AAGTTGGGAAAAACTATGGT
62265522 AAGTTG
1 AAGTTG
62265528 CAAGTTGGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.30
Consensus pattern (20 bp):
AAGTTGGGAAAAACTATGGT
Found at i:62268159 original size:32 final size:32
Alignment explanation
Indices: 62268113--62268177 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
62268103 GGTAAAACCA
* * *
62268113 TAAAGTTAGTAGTGAAGTTGATCCCTTGGACT
1 TAAAGTTAGCAGTGAAGTAGATCCATTGGACT
*
62268145 TAAAGTTAGCAGTGAAGTAGATTCATTGGACT
1 TAAAGTTAGCAGTGAAGTAGATCCATTGGACT
62268177 T
1 T
62268178 CCCAACCCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.34
Consensus pattern (32 bp):
TAAAGTTAGCAGTGAAGTAGATCCATTGGACT
Found at i:62272657 original size:40 final size:40
Alignment explanation
Indices: 62272602--62272776 Score: 296
Period size: 40 Copynumber: 4.4 Consensus size: 40
62272592 TATGTGCATA
* *
62272602 GCATTCGTGTGGGTTATTATAACTGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
62272642 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
62272682 GCATTCTTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
62272722 GCATTTGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
62272762 GCATTCATGCTGGTT
1 GCATTCGTGCGGGTT
62272777 GTTACATCCG
Statistics
Matches: 127, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 127 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:62284545 original size:16 final size:17
Alignment explanation
Indices: 62284526--62284558 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
62284516 AAAAAAGAAA
*
62284526 GAAAA-AAAATTCAACC
1 GAAAACAAAATCCAACC
62284542 GAAAACAAAATCCAACC
1 GAAAACAAAATCCAACC
62284559 TTTCTCTGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.61, C:0.24, G:0.06, T:0.09
Consensus pattern (17 bp):
GAAAACAAAATCCAACC
Found at i:62289382 original size:21 final size:21
Alignment explanation
Indices: 62289358--62289399 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
62289348 TTTTATCCTT
*
62289358 TATAAAT-TTTATACTAAAATA
1 TATAAATATATATA-TAAAATA
*
62289379 TATATATATATATATAAAATA
1 TATAAATATATATATAAAATA
62289400 ATTTTAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TATAAATATATATATAAAATA
Found at i:62290715 original size:35 final size:35
Alignment explanation
Indices: 62290648--62290825 Score: 155
Period size: 35 Copynumber: 5.1 Consensus size: 35
62290638 TGAGGAAAAT
* * *
62290648 TCCCACCACAACACCAATATATCAATT-GTTTAACA
1 TCCCACCACAACACCGATATCTC-ATTCATTTAACA
* * * *
62290683 TCCTACCTCAACACCGATATTTCATTTATTTAACA
1 TCCCACCACAACACCGATATCTCATTCATTTAACA
* * **
62290718 TCCCGA-CATAATACCGATATCTCATTCATTTAGTA
1 TCCC-ACCACAACACCGATATCTCATTCATTTAACA
* * *
62290753 TCCCGCCACAACACCAACATCTCATTCATTTAACA
1 TCCCACCACAACACCGATATCTCATTCATTTAACA
* * *
62290788 TCCCGCCACAACTCCGATA-CTTCATTCATTTAATA
1 TCCCACCACAACACCGATATC-TCATTCATTTAACA
62290823 TCC
1 TCC
62290826 TTGTAACATC
Statistics
Matches: 115, Mismatches: 24, Indels: 8
0.78 0.16 0.05
Matches are distributed among these distances:
34 4 0.03
35 110 0.96
36 1 0.01
ACGTcount: A:0.33, C:0.33, G:0.04, T:0.30
Consensus pattern (35 bp):
TCCCACCACAACACCGATATCTCATTCATTTAACA
Found at i:62293801 original size:93 final size:93
Alignment explanation
Indices: 62293689--62293861 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
62293679 CGCCCATAAG
** * *
62293689 CGAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGCATCCATAAGTGAACTCGGAATCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGAACCAACTCA
62293754 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* * *
62293782 CGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCATAAGTGAACTCGGACCCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGAACCAACTCA
*
62293847 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
62293862 CAAATATCCC
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGAACCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:62293855 original size:46 final size:46
Alignment explanation
Indices: 62293682--62293851 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
62293672 TGTAACCCGC
* * *
62293682 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGACCATTTGCAT
* * * *
62293728 CCATAAGTGAACTCGGAATCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GA--CC-ATTTGCAT
* *
62293778 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGCTCGACCATTTGCAT
* *
62293821 CCATAAGTGAACTCGGACCCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
62293852 TTCGGATGCC
Statistics
Matches: 100, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
46 56 0.56
47 25 0.25
49 2 0.02
50 6 0.06
51 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGACCATTTGCAT
Found at i:62295870 original size:5 final size:5
Alignment explanation
Indices: 62295778--62295854 Score: 102
Period size: 5 Copynumber: 15.4 Consensus size: 5
62295768 TGTTGGTTAA
* * * *
62295778 ATATT AAATT ATATT ATTTT ATCA-T ATTTT AAATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT AT-ATT ATATT ATATT ATATT ATATT ATATT
62295828 ATATT ATATT ATATT ATATT ATATT AT
1 ATATT ATATT ATATT ATATT ATATT AT
62295855 TATAAATAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
5 62 1.00
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:62295919 original size:15 final size:16
Alignment explanation
Indices: 62295891--62295921 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
62295881 TGTATGGTGT
62295891 TAATAAATTACATGTG
1 TAATAAATTACATGTG
62295907 TAATAAA-TACATGTG
1 TAATAAATTACATGTG
62295922 GACAATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.35
Consensus pattern (16 bp):
TAATAAATTACATGTG
Found at i:62296167 original size:2 final size:2
Alignment explanation
Indices: 62296156--62296190 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
62296146 GTATAGTTAT
62296156 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62296191 AGATATAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:62297214 original size:21 final size:21
Alignment explanation
Indices: 62297180--62297255 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
62297170 CAGACACTTT
62297180 ATGTGTCGTATATCAGGCACCTC
1 ATGTGTCG--TATCAGGCACCTC
*
62297203 GTGTGTCGTATCAGGCACCTC
1 ATGTGTCGTATCAGGCACCTC
* * * * *
62297224 ATGCGTCGTTTTAGGCACTTT
1 ATGTGTCGTATCAGGCACCTC
62297245 ATGTGTCGTAT
1 ATGTGTCGTAT
62297256 ACTGCTTTTG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 37 0.84
23 7 0.16
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (21 bp):
ATGTGTCGTATCAGGCACCTC
Found at i:62299968 original size:44 final size:45
Alignment explanation
Indices: 62299899--62300011 Score: 140
Period size: 46 Copynumber: 2.5 Consensus size: 45
62299889 GCCAATGTAG
62299899 TGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTA-GCCGATACA
1 TGTCCCAGACAT-GTCTTACACTGACTACATCTCG-AGGCCGATACA
** * *
62299944 TGTCCCAGACATGTCTTACACTGACTTATGTCTCGAGGCCGGTGCA
1 TGTCCCAGACATGTCTTACACTGAC-TACATCTCGAGGCCGATACA
*
62299990 TGTCCCAGACCTGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
62300012 AGCACTCGTC
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
44 13 0.22
45 13 0.22
46 34 0.57
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.27
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGACTACATCTCGAGGCCGATACA
Found at i:62301630 original size:35 final size:34
Alignment explanation
Indices: 62301578--62301698 Score: 179
Period size: 35 Copynumber: 3.5 Consensus size: 34
62301568 GTTACAATTC
* *
62301578 CGCCACAACATCAATATCTCATTCATTTAACATGT
1 CGCCACAACACCGATATCTCATTCATTTAACAT-T
* *
62301613 CGCCACAACACCGATATCTCATTCATTTAGCATC
1 CGCCACAACACCGATATCTCATTCATTTAACATT
62301647 CTGCCACAACACCGATATCTCATTCATTTAACATCT
1 C-GCCACAACACCGATATCTCATTCATTTAACAT-T
62301683 CGCCACAACACCGATA
1 CGCCACAACACCGATA
62301699 CTTCTTTCGC
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
34 1 0.01
35 76 0.97
36 1 0.01
ACGTcount: A:0.32, C:0.34, G:0.07, T:0.26
Consensus pattern (34 bp):
CGCCACAACACCGATATCTCATTCATTTAACATT
Found at i:62317472 original size:40 final size:40
Alignment explanation
Indices: 62317417--62317597 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 40
62317407 CATTTGAATG
*
62317417 ATATCCGGGCTAAGACCCGAAGGTATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
62317457 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* *
62317497 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
62317537 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
62317577 ATA-CCCGGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
62317598 AAACTTGGGT
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 1 0.01
39 14 0.11
40 111 0.88
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:62324576 original size:28 final size:29
Alignment explanation
Indices: 62324509--62324609 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
62324499 ATAGTGAATC
*
62324509 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
62324538 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
62324566 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
62324596 CGCACACTTAGTGC
1 CGCACACTTAGTGC
62324610 CAATTTGTCA
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:62328021 original size:23 final size:20
Alignment explanation
Indices: 62327974--62328012 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
62327964 ATTATATGTT
*
62327974 GAATTAATTTTGTCCTAGCC
1 GAATTAAATTTGTCCTAGCC
62327994 GAATTAAATTTGTCCTAGC
1 GAATTAAATTTGTCCTAGC
62328013 TGCCGAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (20 bp):
GAATTAAATTTGTCCTAGCC
Found at i:62335098 original size:20 final size:20
Alignment explanation
Indices: 62335073--62335120 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
62335063 GCCTACCCAT
62335073 ACGGGCGTGTCCCAAGCCAC
1 ACGGGCGTGTCCCAAGCCAC
62335093 ACGGGCGTGTCCCAAGCCAC
1 ACGGGCGTGTCCCAAGCCAC
*
62335113 ACAGGCGT
1 ACGGGCGT
62335121 ATGGCTCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.38, G:0.31, T:0.10
Consensus pattern (20 bp):
ACGGGCGTGTCCCAAGCCAC
Found at i:62338289 original size:24 final size:24
Alignment explanation
Indices: 62338262--62338468 Score: 342
Period size: 24 Copynumber: 8.6 Consensus size: 24
62338252 CTTATTATGT
* * *
62338262 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
62338286 TCGCACACATAGTGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
*
62338310 TCGCACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
62338334 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
62338358 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
62338382 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
62338406 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
62338430 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
62338454 TCGCACACATAGTGC
1 TCGCACACATAGTGC
62338469 ATTTGAGATA
Statistics
Matches: 177, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 177 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:62340310 original size:14 final size:13
Alignment explanation
Indices: 62340276--62340328 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
62340266 AGAGTGAGCA
*
62340276 AAAAAAGAAGAATG
1 AAAAAA-AAGAAAG
62340290 -AAAAAAAGAAAG
1 AAAAAAAAGAAAG
*
62340302 AAAAGAAAAGTAAG
1 AAAA-AAAAGAAAG
62340316 AAAAAGAAAGAAA
1 AAAAA-AAAGAAA
62340329 AACAAGTGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 6 0.18
13 9 0.27
14 18 0.55
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:62343616 original size:40 final size:40
Alignment explanation
Indices: 62343562--62343762 Score: 273
Period size: 40 Copynumber: 5.0 Consensus size: 40
62343552 GGATTTAACT
* * *
62343562 GGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGCCC
1 GGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCC
*
62343602 GGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
62343642 GGATATAGCAACT-GCACAAACGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
*
62343681 GGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* * *
62343721 GGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCC
1 GGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
62343761 GG
1 GG
62343763 TTATCATCCA
Statistics
Matches: 145, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 38 0.26
40 107 0.74
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (40 bp):
GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:62343679 original size:79 final size:80
Alignment explanation
Indices: 62343584--62343762 Score: 274
Period size: 79 Copynumber: 2.2 Consensus size: 80
62343574 TCGCTCGAAT
* * *
62343584 GCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGATA-T
1 GCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGA-ACT
62343648 AG-CAACT-GCACAAAC
65 AGTC-ACTAGCACAAAC
62343663 GCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGAACTA
1 GCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGAACTA
* *
62343728 GTCACTAGCGCAAAT
66 GTCACTAGCACAAAC
62343743 GCCTTCGGGACTTAGCCCGG
1 GCCTTCGGGACTTAGCCCGG
62343763 TTATCATCCA
Statistics
Matches: 92, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
78 1 0.01
79 64 0.70
80 27 0.29
ACGTcount: A:0.26, C:0.30, G:0.24, T:0.20
Consensus pattern (80 bp):
GCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGAACTA
GTCACTAGCACAAAC
Found at i:62347036 original size:20 final size:20
Alignment explanation
Indices: 62347013--62347051 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62347003 ATTATATGTT
* *
62347013 GAATTAATTTTGTCCTAGCC
1 GAATTAAATTTGTACTAGCC
62347033 GAATTAAATTTGTACTAGC
1 GAATTAAATTTGTACTAGC
62347052 TACCAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (20 bp):
GAATTAAATTTGTACTAGCC
Found at i:62349866 original size:6 final size:6
Alignment explanation
Indices: 62349848--62349904 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
62349838 AAGAAACATT
* *
62349848 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
62349897 ATCAGA AT
1 ATCAGA AT
62349905 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
5 2 0.05
6 35 0.83
7 4 0.10
8 1 0.02
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:62350100 original size:31 final size:32
Alignment explanation
Indices: 62350043--62350104 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
62350033 ACGAAGTCAC
*
62350043 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCTAAGCCACCAGAA
*
62350075 CAGATATATATA-TGTGG-TGAAGCCACCAGA
1 CAGATATAGATATTGTGGCT-AAGCCACCAGA
62350105 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 1 0.04
31 15 0.56
32 11 0.41
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCTAAGCCACCAGAA
Found at i:62350127 original size:71 final size:67
Alignment explanation
Indices: 62350050--62350190 Score: 183
Period size: 67 Copynumber: 2.0 Consensus size: 67
62350040 CACCAGATAT
* * * *
62350050 AGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGTGAAGCCACCAGATTGCAGCGAG
1 AGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCGAG
62350115 GCTGCC
62 GCTGCC
* * *
62350121 AGATATTGTGACGAAGTCACCATAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTG
1 AGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCTG
62350186 CC
66 CC
62350188 AGA
1 AGA
62350191 ACGCTTCCTC
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
67 40 0.63
71 23 0.37
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.20
Consensus pattern (67 bp):
AGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCTG
CC
Found at i:62350454 original size:27 final size:27
Alignment explanation
Indices: 62350435--62350827 Score: 481
Period size: 27 Copynumber: 14.6 Consensus size: 27
62350425 ACCCCACAAC
*
62350435 GGTATCTCGATAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
62350462 GGTATTTC-AGTAATTCTACCCTACAGG
1 GGTATTTCGA-TAATTCTACCCTACAGG
* * * *
62350489 GGTATTTCGGTATTTCTACCTTACAAG
1 GGTATTTCGATAATTCTACCCTACAGG
*
62350516 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
*
62350543 GGTATTT-TAGTAATTCTACCCTACAGG
1 GGTATTTCGA-TAATTCTACCCTACAGG
* *
62350570 GGTATTTCGGTATTTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* * *
62350597 GGTATTTCGGTATTTCTATCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* * *
62350624 GGTATTTCGGTATTTCTACCCTACAAG
1 GGTATTTCGATAATTCTACCCTACAGG
*
62350651 GGTATTTC-AGTAATTCTACCCTATAGG
1 GGTATTTCGA-TAATTCTACCCTACAGG
62350678 GGTATTTC-AGTAATTCTACCCTACAGG
1 GGTATTTCGA-TAATTCTACCCTACAGG
* *
62350705 GGTATTTCGATAATTCTACCCTATAAG
1 GGTATTTCGATAATTCTACCCTACAGG
* *
62350732 GGTATTTCGATATTTCTACCCTACAAG
1 GGTATTTCGATAATTCTACCCTACAGG
* *
62350759 GGTATTTC-AGTATTTCTACCCTACAAG
1 GGTATTTCGA-TAATTCTACCCTACAGG
* *
62350786 GGTTTTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
*
62350813 GGTATTTCAATAATT
1 GGTATTTCGATAATT
62350828 TTGTAAATCG
Statistics
Matches: 326, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
26 2 0.01
27 323 0.99
28 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTATTTCGATAATTCTACCCTACAGG
Found at i:62350540 original size:81 final size:81
Alignment explanation
Indices: 62350420--62350820 Score: 554
Period size: 81 Copynumber: 5.0 Consensus size: 81
62350410 TAAAATTACC
* * * *
62350420 ATTT-TACCCCACAACGGTATCTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
62350484 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
* *
62350500 ATTTCTACCTTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
62350565 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
* * * * *
62350581 ATTTCTACCCTACAGGGGTATTTCGGTATTTCTATCCTACAGGGGTATTTCGGTATTTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
* *
62350646 ACAAGGGTATTTCAGT
66 ACAGGGGTATTTCGGT
* * * *
62350662 AATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC-GATAATTCTACCC
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACCC
* * *
62350726 TATAAGGGTATTTCGAT
65 TACAGGGGTATTTCGGT
* * * * *
62350743 ATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTTTTTCGGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
62350808 ACAGGGGTATTTC
66 ACAGGGGTATTTC
62350821 AATAATTTTG
Statistics
Matches: 286, Mismatches: 32, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
80 5 0.02
81 280 0.98
82 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
ACAGGGGTATTTCGGT
Found at i:62350842 original size:27 final size:27
Alignment explanation
Indices: 62350812--62351051 Score: 130
Period size: 27 Copynumber: 8.9 Consensus size: 27
62350802 TACCCTACAG
**
62350812 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAATAATTTTACAAATCGA
*** * * * *
62350839 GGGTAAAACGATAATTCTATAAATCAA
1 GGGTATTTCAATAATTTTACAAATCGA
** *
62350866 GGGTACTTT-GGTAATTTTACAAGTCGA
1 GGGTA-TTTCAATAATTTTACAAATCGA
*
62350893 GGGTATTTCAATAATTTTACAAGTCGA
1 GGGTATTTCAATAATTTTACAAATCGA
* *
62350920 GGGTATTTTCAGTAATTTCACAAATC-A
1 GGGTA-TTTCAATAATTTTACAAATCGA
*** *
62350947 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTCAATAATTTTACAAATCGA
** *
62350974 GGGGTATTTTGATAATTTTACAAA-CCA
1 -GGGTATTTCAATAATTTTACAAATCGA
* *** *
62351001 GATGTATTTTGGTAATTTTACAAA-CTA
1 G-GGTATTTCAATAATTTTACAAATCGA
**
62351028 GGGGTATTTTGATAATTTTACAAA
1 -GGGTATTTCAATAATTTTACAAA
62351052 CTAGGGGTAT
Statistics
Matches: 176, Mismatches: 30, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
26 5 0.03
27 148 0.84
28 23 0.13
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAATAATTTTACAAATCGA
Found at i:62351160 original size:27 final size:27
Alignment explanation
Indices: 62350866--62351153 Score: 285
Period size: 27 Copynumber: 10.6 Consensus size: 27
62350856 TATAAATCAA
* **
62350866 GGGTACTTTGGTAATTTTACAAGTC-G
1 GGGTATTTTGGTAATTTTACAAACCAG
*** **
62350892 AGGGTATTTCAATAATTTTACAAGTC-G
1 -GGGTATTTTGGTAATTTTACAAACCAG
* * *
62350919 AGGGTATTTTCAGTAATTTCACAAATCAG
1 -GGGTATTTT-GGTAATTTTACAAACCAG
*
62350948 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
62350975 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
62351002 ATGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
62351029 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
62351056 GGGTATTTTGGGT-ATTTTATAAACCAA
1 GGGTATTTT-GGTAATTTTACAAACCAG
***
62351083 GGGTATTCCAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
62351110 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
62351137 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
62351154 CGTAAACTAA
Statistics
Matches: 221, Mismatches: 36, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.01
27 194 0.88
28 24 0.11
29 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:62357809 original size:21 final size:21
Alignment explanation
Indices: 62357768--62357809 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
62357758 AAGTTGTTTA
* *
62357768 TCTATCAATAATCTTTCATTT
1 TCTACCAATAATCTTTAATTT
62357789 TCTACCAATAAT-TTCTAATTT
1 TCTACCAATAATCTT-TAATTT
62357810 CTAGCATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (21 bp):
TCTACCAATAATCTTTAATTT
Found at i:62361321 original size:48 final size:48
Alignment explanation
Indices: 62361173--62361403 Score: 231
Period size: 48 Copynumber: 4.9 Consensus size: 48
62361163 TAGGGTTATG
* *
62361173 TATGATCCCATGTAAGACCATGTATGGGACATGGCTTTGGCATCGATA
1 TATGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * **** *
62361221 TGTAATTTTGTGTAAGACCATAG-CTGGG-C-T---ATTGGCATTGATA
1 TATGATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATA
* **
62361264 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACC
1 TATGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
*
62361312 TATGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATA
1 TATGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * ** * *
62361360 TGTGATCCAATGTAAGACCATATCCAGGATATGGAATTGGCATC
1 TATGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
62361404 CTACCATGTA
Statistics
Matches: 147, Mismatches: 29, Indels: 14
0.77 0.15 0.07
Matches are distributed among these distances:
42 1 0.01
43 32 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 109 0.74
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (48 bp):
TATGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:62361330 original size:91 final size:93
Alignment explanation
Indices: 62361175--62361403 Score: 243
Period size: 91 Copynumber: 2.5 Consensus size: 93
62361165 GGGTTATGTA
* * ****
62361175 TGATCCCATGTAAGACCATGTATGGGACATGGCTTTGGCATCGATATGTAATTTTGTGTAAGACC
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG-AATCCCATGTAAGACC
*
62361240 ATAG-CTGGG-C-T-ATTGGCATTGATATG
65 AT-GTCTGGGACATGATTGGCATCGATATG
62361266 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACCTATG-ATCCCATGTAAGAC
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA--TATGAATCCCATGTAAGAC
*
62361330 CATGTTTGGGACATGGCATTGGCATCGATATG
64 CATGTCTGGGACAT-G-ATTGGCATCGATATG
* * ** * *
62361362 TGATCCAATGTAAGACCATATCCAGGATATGGAATTGGCATC
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
62361404 CTACCATGTA
Statistics
Matches: 116, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
90 1 0.01
91 59 0.51
92 1 0.01
93 5 0.04
96 50 0.43
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (93 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAATCCCATGTAAGACCA
TGTCTGGGACATGATTGGCATCGATATG
Found at i:62368603 original size:48 final size:48
Alignment explanation
Indices: 62368545--62368681 Score: 159
Period size: 48 Copynumber: 2.9 Consensus size: 48
62368535 ATCAATATGT
* *
62368545 GATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCATTGACCTAC
1 GATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCATCGACATAC
** * * **
62368593 GATCCCATGTAAGACCATGTTTGAGACATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCATCGACATAC
* * *
62368641 GATCCCATGTAAGACCATATCC-GGGATATGACATTGGCATC
1 GATCCCATGTAAGACCAT-GCCTGGGACATGGCATTGGCATC
62368682 CTACCATGTA
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCATCGACATAC
Found at i:62368609 original size:91 final size:92
Alignment explanation
Indices: 62368454--62368680 Score: 214
Period size: 91 Copynumber: 2.4 Consensus size: 92
62368444 GGCTATGTAC
* * * * ** *
62368454 GATCCCATGTAAAACCATGTCTGGGACATGGCTTTGGCATAGATATGTAATTTCGTGTAAGACCA
1 GATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCATAGATACG-AATCCCATGTAAGACCA
62368519 -T-AG-C-TGGGCTATCGGCATCAATATGT
65 TTGAGACAT-GGC-ATCGGCATCAATATGT
*
62368545 GATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCATTGACCTACG-ATCCCATGTAAGACC
1 GATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCATAGA--TACGAATCCCATGTAAGACC
* *
62368609 ATGTTTGAGACATGGCATTGGCATCGATATGT
64 A---TTGAGACATGGCATCGGCATCAATATGT
* * *
62368641 GATCCCATGTAAGACCATATCC-GGGATATGACATTGGCAT
1 GATCCCATGTAAGACCAT-GCCTGGGACATGGCATTGGCAT
62368681 CCTACCATGT
Statistics
Matches: 113, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
91 52 0.46
93 3 0.03
95 1 0.01
96 50 0.44
97 6 0.05
98 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (92 bp):
GATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCATAGATACGAATCCCATGTAAGACCAT
TGAGACATGGCATCGGCATCAATATGT
Found at i:62374609 original size:56 final size:55
Alignment explanation
Indices: 62374490--62374644 Score: 154
Period size: 56 Copynumber: 2.8 Consensus size: 55
62374480 CATGACATAG
* *
62374490 CATGCCTCTCAACAGGGCTACATATGAGCACCCAGACCTAGCATGCATCACATTAT
1 CATGCCTCTCAACAGGGCTACATA-GAGCACCCAGACCTAGCATGCACCACATAAT
* * *** * *
62374546 CACGCCTCTCAACAGGGCTACATA-AGCTCTTGGACCTAGCGTGTACCACATAATT
1 CATGCCTCTCAACAGGGCTACATAGAGCACCCAGACCTAGCATGCACCACATAA-T
* *
62374601 ACATGCCTCTCAACGGGGCTACACT--AGCTCCCAGACCTAGCATG
1 -CATGCCTCTCAACAGGGCTACA-TAGAGCACCCAGACCTAGCATG
62374645 TATCATGTCA
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
54 21 0.26
55 1 0.01
56 58 0.72
57 1 0.01
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (55 bp):
CATGCCTCTCAACAGGGCTACATAGAGCACCCAGACCTAGCATGCACCACATAAT
Found at i:62394011 original size:19 final size:19
Alignment explanation
Indices: 62393963--62394012 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
62393953 AAATGAGAAT
* *
62393963 CAGAATCAAAATCAGGTGA
1 CAGAATCAGAATTAGGTGA
62393982 CAGAATCAGAATTAGGTGA
1 CAGAATCAGAATTAGGTGA
*
62394001 CAGAATTAGAAT
1 CAGAATCAGAAT
62394013 CAGAATCAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.20
Consensus pattern (19 bp):
CAGAATCAGAATTAGGTGA
Found at i:62394017 original size:31 final size:31
Alignment explanation
Indices: 62393982--62394049 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
62393972 AATCAGGTGA
* * * *
62393982 CAGAATCAGAATTAGGTGACAGAATTAGAAT
1 CAGAATCAGAATCAGGTAACAGAATCAAAAT
*
62394013 CAGAATCAGTATCAGGTAACAGAATCAAAAT
1 CAGAATCAGAATCAGGTAACAGAATCAAAAT
62394044 CAGAAT
1 CAGAAT
62394050 GTGAATGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (31 bp):
CAGAATCAGAATCAGGTAACAGAATCAAAAT
Found at i:62394036 original size:25 final size:25
Alignment explanation
Indices: 62393958--62394046 Score: 76
Period size: 25 Copynumber: 3.6 Consensus size: 25
62393948 AACCAAAATG
** *
62393958 AGAATCAGAATCAAAATCAGGTGAC
1 AGAATCAGAATCAGTATCAGGTAAC
* *
62393983 AGAATCAGAATTAGGTGA-CA-G-AATT
1 AGAATCAGAATCA-GT-ATCAGGTAA-C
62394008 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAAC
*
62394033 AGAATCAAAATCAG
1 AGAATCAGAATCAG
62394047 AATGTGAATG
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
23 1 0.02
24 5 0.10
25 39 0.78
26 4 0.08
27 1 0.02
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGTATCAGGTAAC
Found at i:62394230 original size:2 final size:2
Alignment explanation
Indices: 62394223--62394248 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
62394213 ACCAGAACAA
62394223 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
62394249 GTGGCGAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62394329 original size:27 final size:26
Alignment explanation
Indices: 62394281--62394332 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
62394271 GCGAGGCTGC
*
62394281 CAGATATTGTGATGAAGTCACCAGAA
1 CAGATATTGTGATGAAGCCACCAGAA
* *
62394307 CAGATATATGTGGTGAGGCCACCAGA
1 CAGATAT-TGTGATGAAGCCACCAGA
62394333 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGATGAAGCCACCAGAA
Found at i:62394598 original size:27 final size:27
Alignment explanation
Indices: 62394568--62394761 Score: 289
Period size: 27 Copynumber: 7.2 Consensus size: 27
62394558 AACACCCTAG
** *
62394568 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
62394595 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
62394622 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
62394649 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
62394676 GGGTAAAACAGTAATTCTGTAAATCAA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
62394703 GGGTAAAACAGTAATTCTGTAAATCAA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
62394730 GGGTAAAATAGTAATTTTGTAATTCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
62394757 GGGTA
1 GGGTA
62394762 CTTTGATAAT
Statistics
Matches: 156, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 156 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
GGGTAAAACAGTAATTTTGTAAATCGA
Found at i:62394771 original size:27 final size:27
Alignment explanation
Indices: 62394741--62394818 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
62394731 GGTAAAATAG
* * *
62394741 TAATTTTGTAATTCGAGGGTACTTT-GA
1 TAATTTTGCAAGTCGAGGGTA-TTTCAA
*
62394768 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTGCAAGTCGAGGGTATTTCAA
*
62394795 TAATTTTGCAA-ACTGAGGGTATTT
1 TAATTTTGCAAGTC-GAGGGTATTT
62394819 TGGTAGTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
26 4 0.09
27 39 0.91
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
TAATTTTGCAAGTCGAGGGTATTTCAA
Found at i:62394787 original size:54 final size:54
Alignment explanation
Indices: 62394568--62394788 Score: 246
Period size: 54 Copynumber: 4.1 Consensus size: 54
62394558 AACACCCTAG
** * * *
62394568 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGATAATTTTATAAATCGA
* *
62394622 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGATAATTTTATAAATCGA
* * * * *
62394676 GGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAC-AGTAATTCTGTAAATCAA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGA-TAATTTTATAAATCGA
* * **** * *
62394730 GGGTAAAATAGTAATTTTGTAATTCGAGGGTACTTTGATAATTTTACAAGTCGA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGATAATTTTATAAATCGA
62394784 GGGTA
1 GGGTA
62394789 TTTCAATAAT
Statistics
Matches: 144, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
54 143 0.99
55 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (54 bp):
GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGATAATTTTATAAATCGA
Found at i:62394787 original size:81 final size:78
Alignment explanation
Indices: 62394568--62394788 Score: 253
Period size: 81 Copynumber: 2.7 Consensus size: 78
62394558 AACACCCTAG
* *
62394568 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACAG
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAA-GATAA-TTT-TAAATCGAGGGTAAAACAG
* *
62394633 TAATTTTGTAAATCGA
63 TAATTCTGTAAATCAA
* * *
62394649 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAG
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAAGA-TAATT-T-TAAATCGAGGGTAAAACAG
62394714 TAATTCTGTAAATCAA
63 TAATTCTGTAAATCAA
* * ***
62394730 GGGTAAAATAGTAATTTTGTAATTCGAGGGTACTTTGATAATTTTACAAGTCGAGGGTA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTA-AAAGATAATTTTA-AA-TCGAGGGTA
62394789 TTTCAATAAT
Statistics
Matches: 120, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
79 2 0.02
80 5 0.04
81 112 0.93
82 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (78 bp):
GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAAGATAATTTTAAATCGAGGGTAAAACAGTAA
TTCTGTAAATCAA
Found at i:62394799 original size:54 final size:52
Alignment explanation
Indices: 62394739--62394914 Score: 167
Period size: 54 Copynumber: 3.3 Consensus size: 52
62394729 AGGGTAAAAT
* *
62394739 AGTAATTTTGTAATTCGAGGGTACTTTGATAATTTTACAAGTCGAGGGTATTTC
1 AGTAATTTTGTAA-ACGAGGGTACTTTGGTAATTTTACAA-TCGAGGGTATTTC
* * * * * *
62394793 AATAATTTTGCAAACTGAGGGTATTTTGGTAGTTTTACGAATCGAGGATATTTG
1 AGTAATTTTGTAAAC-GAGGGTACTTTGGTAATTTTAC-AATCGAGGGTATTTC
* * *
62394847 GGTAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAA-CTG-GGGTTATTTC
1 AGTAATTTTGTAAA-CGAGGGTACTTTGGTAATTTTACAATC-GAGGG-TATTTC
*
62394900 AGTAATTTGGTAAAC
1 AGTAATTTTGTAAAC
62394915 TAAAGTATTC
Statistics
Matches: 97, Mismatches: 20, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
52 4 0.04
53 20 0.21
54 70 0.72
55 3 0.03
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.39
Consensus pattern (52 bp):
AGTAATTTTGTAAACGAGGGTACTTTGGTAATTTTACAATCGAGGGTATTTC
Found at i:62394839 original size:27 final size:27
Alignment explanation
Indices: 62394754--62394886 Score: 113
Period size: 27 Copynumber: 4.9 Consensus size: 27
62394744 TTTTGTAATT
* * **
62394754 CGAGGGTACTTTGATAATTTTACAAGT
1 CGAGGGTATTTTGGTAATTTTACAAAC
*** *
62394781 CGAGGGTATTTCAATAATTTTGCAAAC
1 CGAGGGTATTTTGGTAATTTTACAAAC
* * * *
62394808 TGAGGGTATTTTGGTAGTTTTACGAAT
1 CGAGGGTATTTTGGTAATTTTACAAAC
* * *
62394835 CGAGGATATTTGGGTAATTTTATAAAC
1 CGAGGGTATTTTGGTAATTTTACAAAC
* *
62394862 CGGGGGTACTTTGGTAATTTTACAA
1 CGAGGGTATTTTGGTAATTTTACAA
62394887 CTGGGGTTAT
Statistics
Matches: 80, Mismatches: 26, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (27 bp):
CGAGGGTATTTTGGTAATTTTACAAAC
Found at i:62399715 original size:2 final size:2
Alignment explanation
Indices: 62399703--62399739 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
62399693 GCTCTTGCAC
62399703 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62399740 GTTTGCACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:62400509 original size:40 final size:39
Alignment explanation
Indices: 62400441--62400584 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 39
62400431 TACTCGAATG
*
62400441 ATATCCGGGCTAAG-TCCGAAGGCTTTTGTGCTAAGCGAC
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCT-AGCGAC
* *
62400480 ACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGAC
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGAC
* *
62400519 TATATCCGGGCTAA-AGTCCCGAAGGCATTTATGCTAGTGACC
1 -ATATCCGGGCTAAGA-T-CCGAAGGCATTTGTGCTAGCGA-C
*
62400561 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
62400585 CTGTGCGAGT
Statistics
Matches: 91, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
39 19 0.21
40 37 0.41
41 33 0.36
42 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGAC
Found at i:62404004 original size:29 final size:29
Alignment explanation
Indices: 62403972--62404071 Score: 109
Period size: 29 Copynumber: 3.5 Consensus size: 29
62403962 ATAGTGAATC
* *
62403972 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAAATTTTCAACT
62404001 CGCACACTTAGTGCTATAGAA---TCAAACT
1 CGCACACTTAGTGCTATA-AATTTTC-AACT
* *
62404029 CGCACACTTAGTGCTGTACAATTTT-AACC
1 CGCACACTTAGTGCTATA-AATTTTCAACT
62404058 CGCACACTTAGTGC
1 CGCACACTTAGTGC
62404072 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
27 2 0.03
28 22 0.36
29 35 0.57
30 1 0.02
31 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCTATAAATTTTCAACT
Found at i:62411943 original size:30 final size:29
Alignment explanation
Indices: 62411849--62411950 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
62411839 TATAGTGAAT
* * *
62411849 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
62411878 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
62411906 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
62411936 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
62411951 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:62415821 original size:14 final size:14
Alignment explanation
Indices: 62415802--62415829 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
62415792 TAAGATTTGC
62415802 AACACTAGTCTTTT
1 AACACTAGTCTTTT
62415816 AACACTAGTCTTTT
1 AACACTAGTCTTTT
62415830 GTTATCATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (14 bp):
AACACTAGTCTTTT
Found at i:62418161 original size:46 final size:46
Alignment explanation
Indices: 62418111--62418286 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
62418101 TGGTTGAGCA
62418111 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62418157 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
62418202 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62418250 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62418287 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:62418267 original size:93 final size:93
Alignment explanation
Indices: 62418108--62418279 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
62418098 GGATGGTTGA
* *
62418108 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62418173 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
62418201 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62418266 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
62418280 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62425597 original size:46 final size:46
Alignment explanation
Indices: 62425547--62425722 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
62425537 TGGTTGAGCA
62425547 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62425593 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
62425638 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
62425686 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62425723 CGGGTTACAT
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:62425703 original size:93 final size:93
Alignment explanation
Indices: 62425544--62425715 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
62425534 GGATGGTTGA
* *
62425544 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62425609 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
62425637 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
62425702 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
62425716 CTTATGGCGG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62428965 original size:24 final size:24
Alignment explanation
Indices: 62428938--62429000 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
62428928 CTTATTATGT
62428938 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
62428962 TCGCACACATAGTGCCATTGTAAA
1 TCGCACACATAGTGCCATAGTAAA
62428986 TCGCACACATAGTGC
1 TCGCACACATAGTGC
62429001 ATTTGAGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:62434307 original size:40 final size:40
Alignment explanation
Indices: 62434203--62434406 Score: 263
Period size: 40 Copynumber: 5.2 Consensus size: 40
62434193 AAACCAAGTA
* * *
62434203 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
62434242 TCTTCGGGAC-TAGCCCAGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
62434281 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
62434321 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
62434361 ACTTCGGGACTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
62434401 CCTTCG
1 CCTTCG
62434407 TTATCATCCA
Statistics
Matches: 145, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
38 3 0.02
39 40 0.28
40 102 0.70
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:62440557 original size:25 final size:25
Alignment explanation
Indices: 62440514--62440572 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
62440504 TAGCTATTCG
* * *
62440514 AGGCATGTATGCTTAATTCTAGTGA
1 AGGCATGAATGCTTAATTCTAATCA
* *
62440539 AGGCATGAATGGTTGATTCTAATCA
1 AGGCATGAATGCTTAATTCTAATCA
62440564 A-GCATGAAT
1 AGGCATGAAT
62440573 TGGTAAGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 8 0.28
25 21 0.72
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (25 bp):
AGGCATGAATGCTTAATTCTAATCA
Found at i:62442911 original size:11 final size:11
Alignment explanation
Indices: 62442895--62442937 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
62442885 AAATATAATT
62442895 TATTATTTTAA
1 TATTATTTTAA
62442906 TATTATTTT-A
1 TATTATTTTAA
62442916 -A-TATTTTAA
1 TATTATTTTAA
62442925 TATTATTTTAA
1 TATTATTTTAA
62442936 TA
1 TA
62442938 ATAGATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 6 0.21
9 2 0.07
10 2 0.07
11 19 0.66
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TATTATTTTAA
Found at i:62442918 original size:33 final size:35
Alignment explanation
Indices: 62442881--62442960 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 35
62442871 ATTATTAATA
*
62442881 TAATAAATATAATTTATTATTTTAAT-AT-TATTT
1 TAATAAATATAATTTATTATTTTAATAATAGATTT
* *
62442914 TAAT-ATTTTAA--TATTATTTTAATAATAGATTT
1 TAATAAATATAATTTATTATTTTAATAATAGATTT
62442946 TAA-AAATTATAATTT
1 TAATAAA-TATAATTT
62442961 TAAATAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
30 12 0.33
31 2 0.06
32 13 0.36
33 8 0.22
35 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (35 bp):
TAATAAATATAATTTATTATTTTAATAATAGATTT
Found at i:62442920 original size:19 final size:19
Alignment explanation
Indices: 62442893--62442937 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
62442883 ATAAATATAA
*
62442893 TTTATTATTTTAATATTAT
1 TTTAATATTTTAATATTAT
62442912 TTTAATATTTTAATATTAT
1 TTTAATATTTTAATATTAT
62442931 TTTAATA
1 TTTAATA
62442938 ATAGATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTAATATTTTAATATTAT
Found at i:62458171 original size:12 final size:12
Alignment explanation
Indices: 62458154--62458183 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
62458144 TGCAAATGGA
62458154 TCATTTCCATTT
1 TCATTTCCATTT
*
62458166 TCATTTCTATTT
1 TCATTTCCATTT
62458178 TCATTT
1 TCATTT
62458184 TTGAAAACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.63
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:62460652 original size:33 final size:33
Alignment explanation
Indices: 62460563--62460654 Score: 98
Period size: 33 Copynumber: 2.8 Consensus size: 33
62460553 GGTTATGTAC
**
62460563 ACTTTGTGTGTA-CACTTGGAAAGGTTAGGTAT
1 ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
*** * *
62460595 ACTAAATGTATACCA-TATGAAAAGGAAAGGTAT
1 ACTTTGTGTGTACCACT-TGGAAAGGAAAGGTAT
62460628 ACTTTGTGTGTACCACTTGGAAAGGAA
1 ACTTTGTGTGTACCACTTGGAAAGGAA
62460655 TGTACACCTC
Statistics
Matches: 45, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
32 9 0.20
33 35 0.78
34 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (33 bp):
ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
Found at i:62460682 original size:65 final size:63
Alignment explanation
Indices: 62460538--62460690 Score: 146
Period size: 65 Copynumber: 2.4 Consensus size: 63
62460528 GTACCCAAAT
* ** * * *
62460538 TGTACAACTTGAAAAGGTTATGTACACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTAAA
1 TGTACAACTAGAAAAGGAAAGGTACACTTTGTGTGTACACTTGGAAAGGTAAGGTACACTAAA
* * * *
62460601 TGTATACCATATGAAAAGGAAAGGTATACTTTGTGTGTACCACTTGGAAAGG-AATGTACACCTC
1 TGTACAAC-TA-GAAAAGGAAAGGTACACTTTGTGTGTA-CACTTGGAAAGGTAAGGTACA-CT-
*
62460665 AAG
61 AAA
*
62460668 TGTACAACTAGAAAAGAAAAGGT
1 TGTACAACTAGAAAAGGAAAGGT
62460691 CCATCGGAAT
Statistics
Matches: 71, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
63 6 0.08
64 1 0.01
65 40 0.56
66 16 0.23
67 8 0.11
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.28
Consensus pattern (63 bp):
TGTACAACTAGAAAAGGAAAGGTACACTTTGTGTGTACACTTGGAAAGGTAAGGTACACTAAA
Found at i:62466948 original size:48 final size:48
Alignment explanation
Indices: 62466892--62467141 Score: 297
Period size: 48 Copynumber: 5.2 Consensus size: 48
62466882 CAGTGTTGAT
* * *
62466892 GACATGGCATTGGCGTTGATATATGTGTCTGTGTAAGACCATGTATGG
1 GACATGGCATCGGCGTTGATATATGTGCCTGTGTAAGACCATGTCTGG
* *
62466940 TACATGGCATCGGGGTTGATATATGTGCCTGTGTAAGACCATGTCTGG
1 GACATGGCATCGGCGTTGATATATGTGCCTGTGTAAGACCATGTCTGG
* * * * *
62466988 AACATGGCATCAGCATTAATATATGTGCCTATGTAAGACCATGTCTGG
1 GACATGGCATCGGCGTTGATATATGTGCCTGTGTAAGACCATGTCTGG
* ** * *
62467036 GGCATGGCATCGATGTTGATATGTGTGCCAGTGTAAGACCATGTCTGG
1 GACATGGCATCGGCGTTGATATATGTGCCTGTGTAAGACCATGTCTGG
* ** *
62467084 GACATGGCATCGGC-TATGATATGTG-GATTCATGTAAGACCATGTCTGG
1 GACATGGCATCGGCGT-TGATATATGTGCCT-GTGTAAGACCATGTCTGG
62467132 GACATGGCAT
1 GACATGGCAT
62467142 TGGTACTTTA
Statistics
Matches: 172, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
47 2 0.01
48 170 0.99
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.30
Consensus pattern (48 bp):
GACATGGCATCGGCGTTGATATATGTGCCTGTGTAAGACCATGTCTGG
Found at i:62477756 original size:47 final size:46
Alignment explanation
Indices: 62477687--62477859 Score: 199
Period size: 47 Copynumber: 3.7 Consensus size: 46
62477677 GGTAAGGTGC
62477687 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTC-AAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GCT-ATATCTCGAAGT
* * *
62477734 CGATGTCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTG-CTAT-ATCTCGAAGT
* * * *
62477782 CGATG-CATGTCCTAGACAT-GTTTTACACTGGCTTACATCTCGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GC-TATATCTCGAAGT
*
62477828 TGATGCCATGTCCCAGACATGGTCTTACACTG
1 CGATGCCATGTCCCAGACATGGTCTTACACTG
62477860 ACATATGGGT
Statistics
Matches: 107, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
46 24 0.22
47 67 0.63
48 16 0.15
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGCTATATCTCGAAGT
Found at i:62477854 original size:94 final size:95
Alignment explanation
Indices: 62477685--62477861 Score: 259
Period size: 94 Copynumber: 1.9 Consensus size: 95
62477675 GGGGTAAGGT
* *
62477685 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATGTCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGTCGATGCCATGTCCCAG
62477750 ACATGGTCTTACACTGACTATCATCTCGTA
66 ACATGGTCTTACACTGACTATCATCTCGTA
* * * * * *
62477780 GCCGATG-CATGTCCTAGACAT-GTTTTACACTGGCTTACATCTCGAGGTTGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTC-AAGTCGATGCCATGTCCCA
62477843 GACATGGTCTTACACTGAC
65 GACATGGTCTTACACTGAC
62477862 ATATGGGTTA
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
93 18 0.25
94 48 0.66
95 7 0.10
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGTCGATGCCATGTCCCAG
ACATGGTCTTACACTGACTATCATCTCGTA
Found at i:62487674 original size:40 final size:39
Alignment explanation
Indices: 62487629--62487835 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
62487619 CGGAATACAA
*
62487629 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
62487669 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
62487709 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
62487749 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTA-A
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
62487788 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
62487828 CCGGATAT
1 CCGGATAT
62487836 CATTCAATTG
Statistics
Matches: 139, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 31 0.22
40 108 0.78
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:62487769 original size:80 final size:79
Alignment explanation
Indices: 62487627--62487834 Score: 231
Period size: 80 Copynumber: 2.6 Consensus size: 79
62487617 TTCGGAATAC
* * *
62487627 AACCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAA
1 AACCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AA
62487692 T-GCCTTCGGGTATT
65 TGGCCTTCGGGTATT
* * * **
62487706 AGCCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACA
1 A-ACCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACA
*
62487770 ATGGCCTTCGGGTCTT
64 ATGGCCTTCGGGTATT
** * ** * *
62487786 AACCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 AACCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
62487835 TCATTCAATT
Statistics
Matches: 107, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
79 42 0.39
80 63 0.59
81 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (79 bp):
AACCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAT
GGCCTTCGGGTATT
Found at i:62496719 original size:47 final size:47
Alignment explanation
Indices: 62496667--62497171 Score: 654
Period size: 47 Copynumber: 11.0 Consensus size: 47
62496657 TTTCACACTA
* * * *
62496667 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
62496714 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * * * *
62496761 GCCATTTGGCCTTATCACATATATACATGTTCATATTCACCCCATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
62496808 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
62496855 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
62496902 GCCATTCGGACTCATCACATATATGCATGTTCACATTCATCACA-T-
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
62496947 ---A---GGCCAT-TC-CATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
62496986 GCCATTCGGCCTTATCACACATATGCATGCTT-ACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATG-TTCACATTCATCACATTG
* * * *
62497033 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCCCATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
62497080 GCCATTCGGCTTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* **
62497127 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
62497172 AAAATCCTAA
Statistics
Matches: 395, Mismatches: 51, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
37 25 0.06
38 3 0.01
39 3 0.01
42 2 0.01
45 5 0.01
46 5 0.01
47 350 0.89
48 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:62496780 original size:94 final size:94
Alignment explanation
Indices: 62496667--62497150 Score: 745
Period size: 94 Copynumber: 5.3 Consensus size: 94
62496657 TTTCACACTA
* *
62496667 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
1 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
62496732 ACATATGCATGCTCACATTCATCACATTG
66 ACATATGCATGCTCACATTCATCACATTG
* * *
62496761 GCCATTTGGCCTTATCACATATATACATGTTCATATTCACCCCATTGGCCATTCGGCCTTATCAC
1 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
62496826 ACATATGCATGCTCACATTCATCACATTG
66 ACATATGCATGCTCACATTCATCACATTG
* * * * *
62496855 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTGGCCATTCGGACTCATCAC
1 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
* *
62496920 ATATATGCATGTTCACATTCATCACA-T-
66 ACATATGCATGCTCACATTCATCACATTG
*
62496947 ---A---GGCCAT-TC-CATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
1 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
*
62497004 ACATATGCATGCTTACATTCATCACATTG
66 ACATATGCATGCTCACATTCATCACATTG
* * *
62497033 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCCCATTGGCCATTCGGCTTTATCAC
1 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
62497098 ACATATGCATGCTCACATTCATCACATTG
66 ACATATGCATGCTCACATTCATCACATTG
62497127 GCCATTCGGCCTTATCACATATAT
1 GCCATTCGGCCTTATCACATATAT
62497151 ACACATTCAC
Statistics
Matches: 351, Mismatches: 29, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
84 66 0.19
85 3 0.01
86 5 0.01
89 2 0.01
92 5 0.01
93 3 0.01
94 267 0.76
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (94 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
ACATATGCATGCTCACATTCATCACATTG
Found at i:62496947 original size:25 final size:25
Alignment explanation
Indices: 62496868--62496947 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
62496858 ATTCGGCCTT
*
62496868 ATCACATATATGCATGCTCACATTC
1 ATCACATATATGCATGTTCACATTC
* ** *
62496893 ATCACAT-T-GGCCA--TTCGGACTC
1 ATCACATATATG-CATGTTCACATTC
62496915 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATGTTCACATTC
62496940 ATCACATA
1 ATCACATA
62496948 GGCCATTCCA
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 12 0.29
23 4 0.10
24 4 0.10
25 21 0.51
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.31
Consensus pattern (25 bp):
ATCACATATATGCATGTTCACATTC
Found at i:62496962 original size:37 final size:37
Alignment explanation
Indices: 62496919--62496992 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
62496909 GGACTCATCA
*
62496919 CATATATGCATGTTCACATTCATCACATAGGCCATTC
1 CATATATGCATGTTCACATTCACCACATAGGCCATTC
* *
62496956 CATATATGCATGTTCATATTCACCACATTGGCCATTC
1 CATATATGCATGTTCACATTCACCACATAGGCCATTC
62496993 GGCCTTATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.34
Consensus pattern (37 bp):
CATATATGCATGTTCACATTCACCACATAGGCCATTC
Found at i:62497035 original size:225 final size:225
Alignment explanation
Indices: 62496734--62497172 Score: 664
Period size: 225 Copynumber: 2.0 Consensus size: 225
62496724 CTTATCACAC
* * * *
62496734 ATATGCATGCTCACATTCATCACATTGGCCATTTGGCCTTATCACATATATACATGTTCATATTC
1 ATATGCATGCTCACATTCACCACATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTC
* * *
62496799 ACCCCATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGG
66 ACCACATTGGCCATTCGGCCTTATCACACATATACATGCTCACATTCACCACATTGGCCATTCGG
* *
62496864 CCTTATCACATATATGCATGCTCACATTCATCACATTGGCCATTCGGACTCATCACATATATGCA
131 CCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGACTCATCACATATATACA
**
62496929 TGTTCACATTCATCACATAGGCCATTCCAT
196 CATTCACATTCATCACATAGGCCATTCCAT
* * *
62496959 ATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTT-ACATT
1 ATATGCATGCTCACATTCACCACATTGGCCATTCGGCCTTATCACACATATACATG-TTCACATT
* * * * *
62497023 CATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCATATTCACCCCATTGGCCATTCG
65 CACCACATTGGCCATTCGGCCTTATCACACATATACATGCTCACATTCACCACATTGGCCATTCG
* * *
62497088 GCTTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
130 GCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGACTCATCACATATATAC
62497153 ACATTCACATTCATCACATA
195 ACATTCACATTCATCACATA
62497173 AAATCCTAAA
Statistics
Matches: 191, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
225 189 0.99
226 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.32
Consensus pattern (225 bp):
ATATGCATGCTCACATTCACCACATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTC
ACCACATTGGCCATTCGGCCTTATCACACATATACATGCTCACATTCACCACATTGGCCATTCGG
CCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGACTCATCACATATATACA
CATTCACATTCATCACATAGGCCATTCCAT
Found at i:62505402 original size:19 final size:19
Alignment explanation
Indices: 62505378--62505425 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
62505368 TGGGTTTGGG
62505378 ACACGGGCGTGTCCCTAGC
1 ACACGGGCGTGTCCCTAGC
62505397 ACACGGGCGTGTCCCTAGC
1 ACACGGGCGTGTCCCTAGC
62505416 ACACGGGCGT
1 ACACGGGCGT
62505426 ATGAAGCCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.17, C:0.35, G:0.33, T:0.15
Consensus pattern (19 bp):
ACACGGGCGTGTCCCTAGC
Found at i:62515019 original size:25 final size:27
Alignment explanation
Indices: 62514982--62515034 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
62514972 TCAAACATGC
62514982 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
62515008 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
62515034 A
1 A
62515035 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:62516555 original size:26 final size:26
Alignment explanation
Indices: 62516525--62516606 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
62516515 TGAAATGCCC
62516525 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
62516551 ATCATGGAACATTTACGTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
*
62516577 ATCATGGAACATTTACCTAACCCACT
1 ATCATGGAACATTTACCTAACCCATT
62516603 ATCA
1 ATCA
62516607 ATTTTTATCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:62520418 original size:47 final size:47
Alignment explanation
Indices: 62520349--62520833 Score: 790
Period size: 47 Copynumber: 10.3 Consensus size: 47
62520339 CCCTTCGGGA
* * *
62520349 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
62520396 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
62520443 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
62520490 CTTATCACACATATGCACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
62520537 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
62520584 CTTATCACACATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
62520631 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
62520678 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
62520725 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
62520772 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
62520819 CTTATCACACATATA
1 CTTATCACATATATA
62520834 TGTATATCAT
Statistics
Matches: 413, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 413 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:62520616 original size:25 final size:25
Alignment explanation
Indices: 62520587--62520664 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
62520577 ATTCGGCCTT
62520587 ATCACACATATGCACTTTCACATTC
1 ATCACACATATGCACTTTCACATTC
* * *
62520612 AT--CACAT-TGGC-CATTCGGCCTT-
1 ATCACACATAT-GCACTTTC-ACATTC
62520634 ATCACACATATGCACTTTCACATTC
1 ATCACACATATGCACTTTCACATTC
62520659 ATCACA
1 ATCACA
62520665 TCGGCCATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 7 0.17
23 10 0.25
24 10 0.25
25 13 0.32
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCACTTTCACATTC
Found at i:62524778 original size:40 final size:40
Alignment explanation
Indices: 62524723--62524890 Score: 241
Period size: 40 Copynumber: 4.2 Consensus size: 40
62524713 TGAATGATAC
* * *
62524723 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTTATAT
*
62524763 CCGGGCTAAGACCCGAAGGCATTTGTG-TGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTGGTTATAT
* * *
62524803 CCGGGTTGAGACCCGAAGGCATTTGTGCGAGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTTATAT
*
62524843 CCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTTATAT
62524883 CC-GGCTAA
1 CCGGGCTAA
62524891 ATTCCAAAGA
Statistics
Matches: 114, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 7 0.06
40 107 0.94
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTTATAT
Found at i:62530815 original size:25 final size:27
Alignment explanation
Indices: 62530778--62530827 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
62530768 TCAAACATGC
62530778 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
62530804 ATTTCGGT-AATTTATCTCCTAGGG
1 ATTTAGGTCAATTTAACTCCTAGGG
62530828 TAAAACTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:62532348 original size:26 final size:26
Alignment explanation
Indices: 62532318--62532399 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
62532308 TGAAATGCCC
*
62532318 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
62532344 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
*
62532370 ATCATGGAACATTTACCTAACCCAGT
1 ATCATGGAACATTTACCTAACCCATT
62532396 ATCA
1 ATCA
62532400 ATTTTTATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:62541924 original size:8 final size:8
Alignment explanation
Indices: 62541898--62541964 Score: 73
Period size: 8 Copynumber: 8.4 Consensus size: 8
62541888 ATGTATCAAC
62541898 AAAAGCCG
1 AAAAGCCG
* *
62541906 AAATGCAG
1 AAAAGCCG
62541914 AAAAGCCG
1 AAAAGCCG
62541922 AAAAGCCG
1 AAAAGCCG
*
62541930 AAATGCCG
1 AAAAGCCG
62541938 AAAAGCC-
1 AAAAGCCG
*
62541945 AAAATGCCA
1 AAAA-GCCG
*
62541954 AAAAGTCG
1 AAAAGCCG
62541962 AAA
1 AAA
62541965 GTTTGGCTAC
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
7 4 0.08
8 41 0.84
9 4 0.08
ACGTcount: A:0.52, C:0.21, G:0.21, T:0.06
Consensus pattern (8 bp):
AAAAGCCG
Found at i:62541930 original size:24 final size:23
Alignment explanation
Indices: 62541897--62541948 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 23
62541887 TATGTATCAA
62541897 CAAAAGCCGAAATGCAGAAAAGC
1 CAAAAGCCGAAATGCAGAAAAGC
*
62541920 CGAAAAGCCGAAATGCCGAAAAGC
1 C-AAAAGCCGAAATGCAGAAAAGC
62541944 CAAAA
1 CAAAA
62541949 TGCCAAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.52, C:0.23, G:0.21, T:0.04
Consensus pattern (23 bp):
CAAAAGCCGAAATGCAGAAAAGC
Found at i:62542211 original size:28 final size:29
Alignment explanation
Indices: 62542175--62542268 Score: 75
Period size: 29 Copynumber: 3.3 Consensus size: 29
62542165 GTGAGCATGA
*
62542175 ATATGAATGT-AACTGGGCCTAACGGACC
1 ATATAAATGTGAACTGGGCCTAACGGACC
** * *
62542203 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGAACTGGGCCTAACGGACC
** * * *
62542232 ATATACAA-GTGATTTGGACCTAATGGGCC
1 ATATA-AATGTGAACTGGGCCTAACGGACC
62542261 ATATAAAT
1 ATATAAAT
62542269 ATGATTGGGC
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 11 0.19
29 44 0.77
30 2 0.04
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (29 bp):
ATATAAATGTGAACTGGGCCTAACGGACC
Found at i:62542225 original size:29 final size:29
Alignment explanation
Indices: 62542188--62542287 Score: 123
Period size: 29 Copynumber: 3.5 Consensus size: 29
62542178 TGAATGTAAC
* *
62542188 TGGGCCTAACGGACCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
62542217 TGGGCCTAATGGGCCATATACAA-GTGATT
1 TGGGCCTAATGGGCCATATA-AATGTGATT
* *
62542246 TGGACCTAATGGGCCATATAAATATGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
62542274 TGGGCTTAGTGGGC
1 TGGGCCTAATGGGC
62542288 TAGATACAGG
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 14 0.23
29 46 0.74
30 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:62557199 original size:26 final size:26
Alignment explanation
Indices: 62557168--62557221 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
62557158 TATAGATCAA
*
62557168 GAAAAACAAAGTTTGAGTCTAGATCG
1 GAAAAACAAAGTTCGAGTCTAGATCG
62557194 GAAAAACAAAGTTCGAGTCTAGATCG
1 GAAAAACAAAGTTCGAGTCTAGATCG
62557220 GA
1 GA
62557222 GGAAAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (26 bp):
GAAAAACAAAGTTCGAGTCTAGATCG
Found at i:62563291 original size:12 final size:12
Alignment explanation
Indices: 62563274--62563302 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
62563264 ACAGGTTTAG
62563274 CACGGCCTAGCA
1 CACGGCCTAGCA
62563286 CACGGCCTAGCA
1 CACGGCCTAGCA
62563298 CACGG
1 CACGG
62563303 GCGTGTGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.41, G:0.28, T:0.07
Consensus pattern (12 bp):
CACGGCCTAGCA
Found at i:62566414 original size:28 final size:28
Alignment explanation
Indices: 62566382--62566439 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
62566372 TTTGTCATGT
62566382 TATGTTTTTATTGAATTGCTAAATGAGA
1 TATGTTTTTATTGAATTGCTAAATGAGA
62566410 TATGTTTTTATTGAATTGCTAAATGAGA
1 TATGTTTTTATTGAATTGCTAAATGAGA
62566438 TA
1 TA
62566440 GTGAATGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (28 bp):
TATGTTTTTATTGAATTGCTAAATGAGA
Found at i:62575363 original size:17 final size:19
Alignment explanation
Indices: 62575332--62575370 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
62575322 GTTCGGTTTT
62575332 TCTTTTGGTCATTTTTC-C
1 TCTTTTGGTCATTTTTCTC
62575350 TCTTTTGG-CATTTTTCTC
1 TCTTTTGGTCATTTTTCTC
62575368 TCT
1 TCT
62575371 AGCCGAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.05, C:0.23, G:0.10, T:0.62
Consensus pattern (19 bp):
TCTTTTGGTCATTTTTCTC
Found at i:62577767 original size:27 final size:27
Alignment explanation
Indices: 62577737--62577790 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
62577727 ATGACCAAAA
*
62577737 TACCCCTATAGGGTAAAATGACT-ATTT
1 TACCCCTAGAGGGT-AAATGACTGATTT
*
62577764 TACCCCTCGAGGGTAAATGACTGATTT
1 TACCCCTAGAGGGTAAATGACTGATTT
62577791 GTGCTATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (27 bp):
TACCCCTAGAGGGTAAATGACTGATTT
Found at i:62577957 original size:26 final size:26
Alignment explanation
Indices: 62577928--62577998 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 26
62577918 CATATACTAA
* * *
62577928 TACTGGTAGCTTTGCTGC-ATTACTGT
1 TACTGGCAGCTTTGCTGCGATGA-TAT
62577954 TACTGGCAGCTTTGCTGCGATGATAT
1 TACTGGCAGCTTTGCTGCGATGATAT
*
62577980 TACTAGCAGCTTTGCTGCG
1 TACTGGCAGCTTTGCTGCG
62577999 TTTTTGGTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 37 0.93
27 3 0.08
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCGATGATAT
Found at i:62582092 original size:39 final size:39
Alignment explanation
Indices: 62581828--62582081 Score: 402
Period size: 39 Copynumber: 6.5 Consensus size: 39
62581818 ACAAAGCATG
*
62581828 CGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
62581869 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
62581908 C-GGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
62581946 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
62581985 CAGGACTTAGCCCGGATATAATACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
62582024 CAGGACTTAGCCTGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
62582063 CGGGACTTAGCCTGGATAT
1 CGGGACTTAGCCCGGATAT
62582082 TTTTCCAGCA
Statistics
Matches: 202, Mismatches: 10, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
38 37 0.18
39 157 0.78
40 2 0.01
41 6 0.03
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:62582117 original size:117 final size:116
Alignment explanation
Indices: 62581828--62582160 Score: 393
Period size: 117 Copynumber: 2.8 Consensus size: 116
62581818 ACAAAGCATG
* * * *
62581828 CGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACAC
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTGCAGAACTTAGCCCGGATATAATAC
* *
62581893 CAGCACGAATGCCTTCGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
64 CAGCATGAATGCCTTCGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
62581946 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAATACCA
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTGCAGAACTTAGCCCGGATATAATACCA
*
62582011 GCATGAATGCCTTCAGGACTTAGCCTGGATATAACACCAGCACGAATGCCTT
66 GCATGAATGCCTTC-GGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* ** * ** * * *
62582063 CGGGACTTAGCCTGGATATTTTTCCAGCACTTA-GCCTGC-GAACTTTAAGTCCGGATATATTTC
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTGCAGAAC-TT-AGCCCGGATATAATAC
* * *
62582126 CAGCAT-AAAGCCTGCGGACTTCAAGTCCGGATATA
64 CAGCATGAATGCCTTCGGACTT--AGCCCGGATATA
62582161 TTTCCAGCAT
Statistics
Matches: 190, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
115 9 0.05
116 82 0.43
117 93 0.49
118 6 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (116 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTGCAGAACTTAGCCCGGATATAATACCA
GCATGAATGCCTTCGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:62582119 original size:39 final size:39
Alignment explanation
Indices: 62582076--62582205 Score: 172
Period size: 39 Copynumber: 3.3 Consensus size: 39
62582066 GACTTAGCCT
* * * *
62582076 GGATATTTTTCCAGCACT-TAGCCTGCGAACTTTAAGTCC
1 GGATATATTTCCAGCA-TAAAGCCTGCGGACTTCAAGTCC
62582115 GGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGTCC
1 GGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGTCC
**
62582154 GGATATATTTCCAGCATAAAGCCTATGGACTTCAAGTCC
1 GGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGTCC
* *
62582193 AGATATTTTTCCA
1 GGATATATTTCCA
62582206 ATACCATGCA
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 1 0.01
39 81 0.99
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (39 bp):
GGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGTCC
Found at i:62586080 original size:16 final size:18
Alignment explanation
Indices: 62586055--62586089 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
62586045 CGGTTTTTCT
62586055 TTTGGTCATTTTTC-CTC
1 TTTGGTCATTTTTCTCTC
62586072 TTTGG-CATTTTTCTCTC
1 TTTGGTCATTTTTCTCTC
62586089 T
1 T
62586090 GGCCGAATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.06, C:0.23, G:0.11, T:0.60
Consensus pattern (18 bp):
TTTGGTCATTTTTCTCTC
Found at i:62586087 original size:15 final size:15
Alignment explanation
Indices: 62586048--62586092 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
62586038 CCTTGTTCGG
62586048 TTTTTCT-TTTGGTCA
1 TTTTTCTCTTTGG-CA
62586063 TTTTTCCTCTTTGGCA
1 TTTTT-CTCTTTGGCA
*
62586079 TTTTTCTCTCTGGC
1 TTTTTCTCTTTGGC
62586093 CGAATACACT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 13 0.48
16 9 0.33
17 5 0.19
ACGTcount: A:0.04, C:0.22, G:0.13, T:0.60
Consensus pattern (15 bp):
TTTTTCTCTTTGGCA
Found at i:62587376 original size:27 final size:27
Alignment explanation
Indices: 62587346--62587399 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
62587336 ATGACCAAAA
* *
62587346 TACCCTTATAGGGTAAAATGACT-ATTT
1 TACCCCTAGAGGGT-AAATGACTGATTT
*
62587373 TACCCCTCGAGGGTAAATGACTGATTT
1 TACCCCTAGAGGGTAAATGACTGATTT
62587400 GTGCTATGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (27 bp):
TACCCCTAGAGGGTAAATGACTGATTT
Found at i:62591525 original size:24 final size:24
Alignment explanation
Indices: 62591480--62591526 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
62591470 AATGGATGTT
* *
62591480 GGAGTGATATGTGGAGAGAATCAG
1 GGAGAGATATGTGGAGAAAATCAG
62591504 GGAGAGATAT-TGAGAGAAAATCA
1 GGAGAGATATGTG-GAGAAAATCA
62591527 AGGAATTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.40, C:0.04, G:0.36, T:0.19
Consensus pattern (24 bp):
GGAGAGATATGTGGAGAAAATCAG
Found at i:62591658 original size:17 final size:19
Alignment explanation
Indices: 62591627--62591665 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
62591617 GATCAGTTTT
62591627 TCTTTTGGTCATTTTTC-C
1 TCTTTTGGTCATTTTTCTC
62591645 TCTTTTGG-CATTTTTCTC
1 TCTTTTGGTCATTTTTCTC
62591663 TCT
1 TCT
62591666 GTCCGAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.05, C:0.23, G:0.10, T:0.62
Consensus pattern (19 bp):
TCTTTTGGTCATTTTTCTC
Found at i:62604954 original size:22 final size:22
Alignment explanation
Indices: 62604929--62605004 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
62604919 AGATATGTAT
62604929 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
62604951 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
62604975 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
62604998 ATGTGAT
1 ATGTGAT
62605005 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Done.