Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 257 of 378
Found at i:77102288 original size:178 final size:178
Alignment explanation
Indices: 77102064--77102393 Score: 457
Period size: 178 Copynumber: 1.9 Consensus size: 178
77102054 TACAATCTTT
* *
77102064 CTCAGGAAGATAAGACTACAATCTCTAGCCTTCTCCTTTACTACCTCAAAAAGATAAGGCTAGTG
1 CTCAGGAAGATAAGACTACAATCTCTAGCCTGCTCCCTTACTACCTCAAAAAGATAAGGCTAGTG
* * * * * *
77102129 GTTAAAATTTGCTCCCCTGCTACATCG-GGAAGATAAGATTTGCCATTTTTGATCTGCTCCACTG
66 GCTAAAATCTGCTCCCCTGCTACATCGAGCAA-ATAAGATTCGCCATCTTCGATCTGCTCCACTG
**
77102193 CTATCTGGAGGAGACAAAATCTACAATCTTTAGTCTGCTCCCTCGCTAC
130 CTATCTCAAGGAGACAAAATCTACAATCTTTAGTCTGCTCCCTCGCTAC
* * * * *
77102242 CTCAGGAAGATAAGACTACAATCT-TCAGCCTGCTCCCTTGCTACCTCAGAGAGATAAGGTTGGT
1 CTCAGGAAGATAAGACTACAATCTCT-AGCCTGCTCCCTTACTACCTCAAAAAGATAAGGCTAGT
* * *
77102306 GGCTAAAATCTGCTCCCCTGCTACCTCGAGCAAATAAGATTCGTCATCTTCGATTTGCTCCACTG
65 GGCTAAAATCTGCTCCCCTGCTACATCGAGCAAATAAGATTCGCCATCTTCGATCTGCTCCACTG
*
77102371 CTATTTCAAGGAGACAAAATCTA
130 CTATCTCAAGGAGACAAAATCTA
77102394 AATTCACCGA
Statistics
Matches: 131, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
177 1 0.01
178 127 0.97
179 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (178 bp):
CTCAGGAAGATAAGACTACAATCTCTAGCCTGCTCCCTTACTACCTCAAAAAGATAAGGCTAGTG
GCTAAAATCTGCTCCCCTGCTACATCGAGCAAATAAGATTCGCCATCTTCGATCTGCTCCACTGC
TATCTCAAGGAGACAAAATCTACAATCTTTAGTCTGCTCCCTCGCTAC
Found at i:77110824 original size:17 final size:19
Alignment explanation
Indices: 77110782--77110825 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
77110772 ATGAAATTTT
*
77110782 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
77110801 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
77110819 AA-TATTA
1 AATTATTA
77110826 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:77110952 original size:2 final size:2
Alignment explanation
Indices: 77110945--77110981 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
77110935 TAGATAGGAA
*
77110945 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
77110982 AAAGTATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:77112670 original size:20 final size:20
Alignment explanation
Indices: 77112638--77112681 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
77112628 TGTTTTGTTG
*
77112638 TGGG-CCAACTGTATTGAA-A
1 TGGGCCCAAATGTATT-AATA
77112657 TGGGCCCAAATGTATTAATA
1 TGGGCCCAAATGTATTAATA
77112677 TGGGC
1 TGGGC
77112682 AAGGCCCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (20 bp):
TGGGCCCAAATGTATTAATA
Found at i:77115346 original size:71 final size:71
Alignment explanation
Indices: 77115262--77115425 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
77115252 CGATTTGTCT
77115262 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
77115327 CTTTCA
66 CTTTCA
77115333 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
77115398 CTTTCA
66 CTTTCA
77115404 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
77115426 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:77115463 original size:71 final size:70
Alignment explanation
Indices: 77115262--77115459 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
77115252 CGATTTGTCT
* * * *
77115262 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
77115327 CTTTCA
65 CTTTCA
* * * *
77115333 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
77115398 CTTTCA
65 CTTTCA
* *
77115404 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
77115460 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:77122443 original size:71 final size:71
Alignment explanation
Indices: 77122357--77122520 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
77122347 CGATTTGTCT
77122357 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
77122422 CTTTCA
66 CTTTCA
77122428 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
77122493 CTTTCA
66 CTTTCA
77122499 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
77122521 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:77122558 original size:71 final size:70
Alignment explanation
Indices: 77122357--77122554 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
77122347 CGATTTGTCT
* * * *
77122357 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
77122422 CTTTCA
65 CTTTCA
* * * *
77122428 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
77122493 CTTTCA
65 CTTTCA
* *
77122499 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
77122555 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:77125332 original size:2 final size:2
Alignment explanation
Indices: 77125325--77125361 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
77125315 TTGATAGAAA
*
77125325 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
77125362 GTGGTTTCGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:77125432 original size:29 final size:29
Alignment explanation
Indices: 77125398--77125471 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
77125388 AATCAACCAT
* *
77125398 GCACACTTAGTGCCATGTACTTT-AAACTC
1 GCACACTTAGTGCCATGCA-TTTCAAACCC
*
77125427 GCACACTTAGTGCCATGCATTTCAAGCCC
1 GCACACTTAGTGCCATGCATTTCAAACCC
77125456 GCACACTTAGTGCCAT
1 GCACACTTAGTGCCAT
77125472 TCTCTCAACC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 3 0.07
29 38 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATGCATTTCAAACCC
Found at i:77131441 original size:20 final size:21
Alignment explanation
Indices: 77131416--77131457 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
77131406 ATAAAGTAAG
* *
77131416 TTTGAGATAAG-TATTATGTT
1 TTTGAGAAAAGTTAATATGTT
77131436 TTTGAGAAAAGTTAATATGTT
1 TTTGAGAAAAGTTAATATGTT
77131457 T
1 T
77131458 AGGTTGAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (21 bp):
TTTGAGAAAAGTTAATATGTT
Found at i:77135815 original size:45 final size:45
Alignment explanation
Indices: 77135750--77135925 Score: 257
Period size: 45 Copynumber: 4.0 Consensus size: 45
77135740 TATTGTACAG
* *
77135750 TACTAATCGGGCCTTCGAGCCTAGTAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
77135795 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
77135840 TATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
77135885 TATTATTCAGGCC-TCGAGCCTAGCAGACGA-AATGCCGGTGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
77135926 ATGAATTCGG
Statistics
Matches: 123, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
43 11 0.09
44 14 0.11
45 98 0.80
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:77138829 original size:24 final size:24
Alignment explanation
Indices: 77138802--77138916 Score: 212
Period size: 24 Copynumber: 4.8 Consensus size: 24
77138792 GCTGGAAATA
77138802 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
77138826 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
77138850 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
77138874 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
77138898 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
77138917 ACATAATAAG
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 89 1.00
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:77138930 original size:72 final size:72
Alignment explanation
Indices: 77138802--77138938 Score: 204
Period size: 72 Copynumber: 1.9 Consensus size: 72
77138792 GCTGGAAATA
* ** * *
77138802 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGC
1 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATAATATAGCACTATGTGTGC
77138867 GATTTAC
66 GATTTAC
*
77138874 TATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTGCGAACATAATA-AGCACTATGTGTG
1 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ACATAATATAGCACTATGTGTG
77138938 C
65 C
77138939 CACATTCGGT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
72 53 0.91
73 5 0.09
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (72 bp):
TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATAATATAGCACTATGTGTGC
GATTTAC
Found at i:77146713 original size:24 final size:24
Alignment explanation
Indices: 77146685--77146798 Score: 203
Period size: 24 Copynumber: 4.8 Consensus size: 24
77146675 GCTGGAAATA
77146685 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
77146709 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
77146733 TATGGCACTATGTGTGCGA-TTAC
1 TATGGCACTATGTGTGCGATTTAC
**
77146756 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
77146780 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
77146799 ACATAATAAG
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
23 23 0.26
24 64 0.74
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:77146772 original size:47 final size:48
Alignment explanation
Indices: 77146685--77146798 Score: 203
Period size: 47 Copynumber: 2.4 Consensus size: 48
77146675 GCTGGAAATA
*
77146685 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCAC
*
77146733 TATGGCACTATGTGTGCGA-TTACTATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCAC
77146780 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
77146799 ACATAATAAG
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
47 45 0.70
48 19 0.30
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (48 bp):
TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCAC
Found at i:77146812 original size:71 final size:71
Alignment explanation
Indices: 77146685--77146820 Score: 202
Period size: 71 Copynumber: 1.9 Consensus size: 71
77146675 GCTGGAAATA
* ** * *
77146685 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGC
1 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATAATATAGCACTATGTGTGC
77146750 GATTAC
66 GATTAC
*
77146756 TATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTGCGAACATAATA-AGCACTATGTGTG
1 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ACATAATATAGCACTATGTGTG
77146820 C
65 C
77146821 CACATTCGGT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
71 53 0.91
72 5 0.09
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (71 bp):
TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATAATATAGCACTATGTGTGC
GATTAC
Found at i:77149342 original size:28 final size:30
Alignment explanation
Indices: 77149283--77149342 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
77149273 TAAATTATAT
77149283 ATAGATTTTAAAAGAAAATATATAAACATAA
1 ATAGATTTTAAAAGAAAATATAT-AACATAA
77149314 ATAGA-TTTAAAAGAAAATATAT-ACATAA
1 ATAGATTTTAAAAGAAAATATATAACATAA
77149342 A
1 A
77149343 ATAATTGGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
28 7 0.24
30 17 0.59
31 5 0.17
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (30 bp):
ATAGATTTTAAAAGAAAATATATAACATAA
Found at i:77149562 original size:19 final size:18
Alignment explanation
Indices: 77149535--77149605 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 18
77149525 CTATGTTAAG
*
77149535 ATAACTTAAAAAACAAATA
1 ATAAATTAAAAAACAAA-A
77149554 ATAAATTAAAAAA-ATAAA
1 ATAAATTAAAAAACA-AAA
77149572 A-AAATTACAAAGAACAAAAA
1 ATAAATTA-AAA-AAC-AAAA
*
77149592 CATAAACTAAAAAA
1 -ATAAATTAAAAAA
77149606 AAACTTGATT
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
17 6 0.14
18 6 0.14
19 16 0.37
20 5 0.12
21 5 0.12
22 5 0.12
ACGTcount: A:0.73, C:0.08, G:0.01, T:0.17
Consensus pattern (18 bp):
ATAAATTAAAAAACAAAA
Found at i:77163635 original size:43 final size:42
Alignment explanation
Indices: 77163582--77163701 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 42
77163572 ATCGAGAAGT
* * *
77163582 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATATCTGGGATA-TGGCATCGAT-ATGC
* * *
77163625 GATTTCATGTAAGACCTTATCTGGGATAGTGGCATCGATATGT
1 GATTACATGTAAGACCATATCTGGGATA-TGGCATCGATATGC
*
77163668 GATAACATGTAAGACCATATCTGGGATATGGCAT
1 GATTACATGTAAGACCATATCTGGGATATGGCAT
77163702 TGTACAAGCT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
42 8 0.12
43 58 0.88
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (42 bp):
GATTACATGTAAGACCATATCTGGGATATGGCATCGATATGC
Found at i:77175187 original size:23 final size:22
Alignment explanation
Indices: 77175101--77175185 Score: 75
Period size: 21 Copynumber: 3.9 Consensus size: 22
77175091 CCTGATCGGT
*
77175101 ATACGACACATAAAGTGCCTAA
1 ATACGACACACAAAGTGCCTAA
* *
77175123 A-ATGACACACAAGGTGCCT-A
1 ATACGACACACAAAGTGCCTAA
* * * *
77175143 ATACGGCACACGAGGTGACTGAA
1 ATACGACACACAAAGTGCCT-AA
*
77175166 ATACGACACATAAAGTGCCT
1 ATACGACACACAAAGTGCCT
77175186 GATCGGTAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
20 2 0.04
21 29 0.60
22 1 0.02
23 16 0.33
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (22 bp):
ATACGACACACAAAGTGCCTAA
Found at i:77178805 original size:8 final size:9
Alignment explanation
Indices: 77178780--77178806 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
77178770 CGAATGCACA
77178780 ACCTCCCCC
1 ACCTCCCCC
77178789 ACCTCCCCC
1 ACCTCCCCC
77178798 ACCTCCCCC
1 ACCTCCCCC
77178807 GATTCCTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.78, G:0.00, T:0.11
Consensus pattern (9 bp):
ACCTCCCCC
Found at i:77184548 original size:40 final size:40
Alignment explanation
Indices: 77184504--77184613 Score: 159
Period size: 40 Copynumber: 2.8 Consensus size: 40
77184494 GAAATTATAA
* *
77184504 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGCTAAAT
* *
77184544 CCGGGCTAAGACCCGAAGGC-ATATGTGCAAGTTGTTAAAT
1 CCGGGCTAAGACCCGAAGGCAAT-TGTGCAAGTAGCTAAAT
*
77184584 CCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAA
77184614 ATCGTGATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
39 2 0.03
40 60 0.95
41 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGCTAAAT
Found at i:77184626 original size:40 final size:38
Alignment explanation
Indices: 77184456--77184643 Score: 146
Period size: 40 Copynumber: 4.8 Consensus size: 38
77184446 TGAGAAATTG
* * *
77184456 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGA
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * * *
77184496 AAT-TATAACCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* * *
77184533 AGTAGCTAAATCCGGGCTAAGACCCGAAGGCATATGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
77184573 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* * *
77184613 AATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 AAT-GT-ATATCCGGGCTAAGACCCGAAGGC
77184644 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 22, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
37 4 0.03
38 2 0.02
39 4 0.03
40 108 0.91
41 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:77193949 original size:27 final size:28
Alignment explanation
Indices: 77193918--77193984 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 28
77193908 CCCTGATTGG
*
77193918 TGGTAAAATGACT-TTTTTGCCCTTATA
1 TGGTAAAATGACTCGTTTTGCCCTTATA
*
77193945 TGGTAAAATGA-TCGTTTTGCCCTTATG
1 TGGTAAAATGACTCGTTTTGCCCTTATA
*
77193972 TGGTAAGATGACT
1 TGGTAAAATGACT
77193985 GAAATGCCCC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 33 0.94
28 1 0.03
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.40
Consensus pattern (28 bp):
TGGTAAAATGACTCGTTTTGCCCTTATA
Found at i:77198017 original size:40 final size:40
Alignment explanation
Indices: 77197972--77198101 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
77197962 CGGAATATAA
77197972 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
77198012 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
77198052 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
77198092 CCGGATATAA
1 CCGGATATAA
77198102 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:77198116 original size:40 final size:39
Alignment explanation
Indices: 77197988--77198138 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
77197978 ATAACCATGT
* * *
77197988 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
77198028 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
77198068 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
77198107 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
77198139 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:77198122 original size:80 final size:79
Alignment explanation
Indices: 77197972--77198138 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
77197962 CGGAATATAA
*
77197972 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
77198037 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
77198052 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
77198114 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
77198131 CCGGATAT
1 CCGGATAT
77198139 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:77202273 original size:32 final size:34
Alignment explanation
Indices: 77202200--77202277 Score: 101
Period size: 35 Copynumber: 2.4 Consensus size: 34
77202190 AGTTTTTTTT
77202200 TTTAAATGTTTATGTTAGTTATGATAATCATAAAC
1 TTTAAATGTTTATGTTAGTTATGAT-ATCATAAAC
*
77202235 TTTAAATGTTTATG-TAGGTTATGAT-T-ATCAAC
1 TTTAAATGTTTATGTTA-GTTATGATATCATAAAC
77202267 TTTAAAT-TTTA
1 TTTAAATGTTTA
77202278 ACTTTAAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
31 4 0.10
32 12 0.29
33 1 0.02
34 2 0.05
35 22 0.54
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.49
Consensus pattern (34 bp):
TTTAAATGTTTATGTTAGTTATGATATCATAAAC
Found at i:77202282 original size:13 final size:13
Alignment explanation
Indices: 77202264--77202292 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
77202254 TATGATTATC
77202264 AACTTTAAATTTT
1 AACTTTAAATTTT
77202277 AACTTTAAATTTT
1 AACTTTAAATTTT
77202290 AAC
1 AAC
77202293 CCTTTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (13 bp):
AACTTTAAATTTT
Found at i:77203462 original size:18 final size:19
Alignment explanation
Indices: 77203441--77203484 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
77203431 TATTAGAAGA
*
77203441 AAATTTAAAAT-TAATTTT
1 AAATTTAAAATATAATATT
*
77203459 AAATTCAAAATATAATATT
1 AAATTTAAAATATAATATT
77203478 -AATTTAA
1 AAATTTAA
77203485 GCCATTTTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
AAATTTAAAATATAATATT
Found at i:77206865 original size:38 final size:37
Alignment explanation
Indices: 77206822--77206905 Score: 122
Period size: 34 Copynumber: 2.4 Consensus size: 37
77206812 CACATGAGAT
77206822 ACATAAATTCCATAAGTATGAATGAACACATTTATCAA
1 ACAT-AATTCCATAAGTATGAATGAACACATTTATCAA
*
77206860 ACATAATT---TATGTATGAATGAACACATTTATCAA
1 ACATAATTCCATAAGTATGAATGAACACATTTATCAA
77206894 ACAT-ATTCCATA
1 ACATAATTCCATA
77206906 TTCATATATC
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
33 3 0.07
34 29 0.69
36 2 0.05
37 4 0.10
38 4 0.10
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (37 bp):
ACATAATTCCATAAGTATGAATGAACACATTTATCAA
Found at i:77207288 original size:42 final size:42
Alignment explanation
Indices: 77207227--77207340 Score: 158
Period size: 42 Copynumber: 2.7 Consensus size: 42
77207217 CTTCGTTTTC
** * *
77207227 TCGATGCCATAGTTCAACTATGGTCTTACACGTCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
*
77207270 T-GATGCCATAGCCCAACTATGGTCTCACACATATTCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
*
77207311 TCGATGCCATAGCCCAACTATGGCCTTACA
1 TCGATGCCATAGCCCAACTATGGTCTTACA
77207341 TGTAATCAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 2 0.03
42 60 0.95
43 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:77207400 original size:53 final size:54
Alignment explanation
Indices: 77207297--77207401 Score: 160
Period size: 53 Copynumber: 2.0 Consensus size: 54
77207287 TATGGTCTCA
**
77207297 CACATATTCACATATCGATGCCATAGCCCAACTATGGCCTTACATGTAATCAAT
1 CACATATTCACATATCGATGCCATAGCCCAACTATGGCCTTACACATAATCAAT
*
77207351 CACATA-TCACATATCGATGCCATAGCCCATCTAT-GCTCTTACACATAATCA
1 CACATATTCACATATCGATGCCATAGCCCAACTATGGC-CTTACACATAATCA
77207402 TATATCTCAC
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
52 2 0.04
53 39 0.83
54 6 0.13
ACGTcount: A:0.33, C:0.30, G:0.10, T:0.28
Consensus pattern (54 bp):
CACATATTCACATATCGATGCCATAGCCCAACTATGGCCTTACACATAATCAAT
Found at i:77209979 original size:29 final size:29
Alignment explanation
Indices: 77209951--77210052 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
77209941 CCTCCGAGCT
** * * *
77209951 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
77209980 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
77210009 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
77210038 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
77210053 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:77217785 original size:29 final size:29
Alignment explanation
Indices: 77217751--77217823 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
77217741 TACTCGATTT
* *
77217751 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATGCCATTCAAGCC
** * * *
77217780 CGCACACACAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCCATTCAAGCC
77217809 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
77217824 TATATTTCCA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.22, C:0.37, G:0.21, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCCATTCAAGCC
Found at i:77217870 original size:29 final size:29
Alignment explanation
Indices: 77217809--77217881 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
77217799 CCTTCGAGCT
77217809 CGCACACTTAGTGCC-TATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
77217837 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
77217866 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
77217882 ATCTCGTCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
28 14 0.33
29 28 0.67
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:77225637 original size:26 final size:29
Alignment explanation
Indices: 77225608--77225682 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
77225598 CATACCCTCG
*
77225608 AGCTCGCACAC-CAGTGCCGTAT-TTT-C
1 AGCTCGCACACTCAGTGCCATATATTTCC
*
77225634 AGCT-GCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTCAGTGCCATATATTTCC
* *
77225662 AGCACGCACACTTAGTGCCAT
1 AGCTCGCACACTCAGTGCCAT
77225683 CTCGTCACCG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 6 0.14
26 13 0.31
27 3 0.07
28 4 0.10
29 16 0.38
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTCAGTGCCATATATTTCC
Found at i:77228253 original size:21 final size:21
Alignment explanation
Indices: 77228215--77228254 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
77228205 AAGCTCCAAG
**
77228215 AAAACTCTATTTTTAAGTTCT
1 AAAACTCTATTTCCAAGTTCT
77228236 AAAACTCTATTTCCAAGTT
1 AAAACTCTATTTCCAAGTT
77228255 AAAATTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.17, G:0.05, T:0.42
Consensus pattern (21 bp):
AAAACTCTATTTCCAAGTTCT
Found at i:77231130 original size:48 final size:46
Alignment explanation
Indices: 77231018--77231142 Score: 153
Period size: 46 Copynumber: 2.7 Consensus size: 46
77231008 TGATACGTGT
*
77231018 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAAA
* * * *
77231064 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTC-GCGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGC-AT-GA-AA
*
77231112 GCTAGTGTAAGACTTGTCTGGGACATAGCAT
1 GCTAGTGTAAGACATGTCTGGGACAT-GCAT
77231143 TGACACCGAT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
45 2 0.03
46 36 0.53
47 1 0.01
48 25 0.37
49 4 0.06
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAAA
Found at i:77231221 original size:49 final size:49
Alignment explanation
Indices: 77231071--77231244 Score: 136
Period size: 49 Copynumber: 3.6 Consensus size: 49
77231061 AGAGCTAGTG
* * * * *
77231071 TAAGACATGTCTAGGACAT-GCATCGGCCTCGCGATAT-ACAAGCTAGTG
1 TAAGACATGTCTAGGACATGGCATTGGCATCGCTATATGA-AAGCCAGTA
* * * * * * * * * *
77231119 TAAGACTTGTCTGGGACATAGCATTGACACCGATAGATGAGAGCCAATC
1 TAAGACATGTCTAGGACATGGCATTGGCATCGCTATATGAAAGCCAGTA
* * *
77231168 TAAGACCTGTCTAGGATATGGCATTGGCGTCGCTATATGAAAGCCAGTA
1 TAAGACATGTCTAGGACATGGCATTGGCATCGCTATATGAAAGCCAGTA
* *
77231217 TAAGAGCATGTCTGGGACATGGCGTTGG
1 TAAGA-CATGTCTAGGACATGGCATTGG
77231245 TATCTTAACC
Statistics
Matches: 94, Mismatches: 29, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
48 17 0.18
49 58 0.62
50 19 0.20
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
TAAGACATGTCTAGGACATGGCATTGGCATCGCTATATGAAAGCCAGTA
Found at i:77233453 original size:29 final size:29
Alignment explanation
Indices: 77233323--77233445 Score: 201
Period size: 29 Copynumber: 4.2 Consensus size: 29
77233313 GTGACGAGAT
*
77233323 TGGCACTAAGTGTGCATGCTAGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
77233352 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
77233381 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* *
77233410 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
77233439 CGGCACT
1 TGGCACT
77233446 GGGTGTGCGA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 88 1.00
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:77233470 original size:87 final size:86
Alignment explanation
Indices: 77233323--77233513 Score: 197
Period size: 87 Copynumber: 2.2 Consensus size: 86
77233313 GTGACGAGAT
* * * * *
77233323 TGGCACTAAGTGTGCATGCTAGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATATGGCACT
1 TGGCACTAAGTGTGCAAGCTAGAAAAATACGGCACTAAGTGTGCGAGCTGGAAAGATATGGCACT
*
77233388 AAGTGTGCATGCTGGAAATATA-
66 AAGTGTGCAGGCT-GAAAT-TAC
* ** * *
77233410 TGGCACTAAGTGTGCAAGCTGGAAAAATACGGCACTGGGTGTGCGAGCTCGG-AGGGTATGGCAC
1 TGGCACTAAGTGTGCAAGCTAGAAAAATACGGCACTAAGTGTGCGAGCT-GGAAAGATATGGCAC
** * *
77233474 TGTGTGTGCGGGCTTAAATTAC
65 TAAGTGTGCAGGCTGAAATTAC
77233496 GTGGCACTAAGTGTGCAA
1 -TGGCACTAAGTGTGCAA
77233514 AATCGAGTAG
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
85 2 0.02
86 4 0.05
87 78 0.91
88 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (86 bp):
TGGCACTAAGTGTGCAAGCTAGAAAAATACGGCACTAAGTGTGCGAGCTGGAAAGATATGGCACT
AAGTGTGCAGGCTGAAATTAC
Found at i:77242937 original size:48 final size:49
Alignment explanation
Indices: 77242879--77243006 Score: 134
Period size: 49 Copynumber: 2.6 Consensus size: 49
77242869 TTGAGACGAG
* * * *
77242879 AGCTAGTGTAAGGCATGTTTGGGACAT-GCATC-AGCCTCGCGATATACA
1 AGCTAGTGTAAGACATGTCTAGGACATGGCATCGA-CCTCGCGATATAAA
* * *
77242927 AGCTAGTGTAAGACCTGTCTAGGACATGGCATCGACGTCGCTATATAAA
1 AGCTAGTGTAAGACATGTCTAGGACATGGCATCGACCTCGCGATATAAA
* * *
77242976 AGCCAGTGTAAGATAATGTCTGGGACATGGC
1 AGCTAGTGTAAGA-CATGTCTAGGACATGGC
77243007 GTCGGCATCT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
48 23 0.35
49 28 0.42
50 15 0.23
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
AGCTAGTGTAAGACATGTCTAGGACATGGCATCGACCTCGCGATATAAA
Found at i:77256781 original size:42 final size:42
Alignment explanation
Indices: 77256719--77256799 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
77256709 ATGTCAATGC
77256719 CGATGCCATGTCCCAAACATGGTCTAACACGGGACCTCACAT
1 CGATGCCATGTCCCAAACATGGTCTAACACGGGACCTCACAT
* * *
77256761 CGATGCCATGTCCCAGACATGGTCTTACACGGGATCTCA
1 CGATGCCATGTCCCAAACATGGTCTAACACGGGACCTCA
77256800 TTAATCGTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.26, C:0.32, G:0.21, T:0.21
Consensus pattern (42 bp):
CGATGCCATGTCCCAAACATGGTCTAACACGGGACCTCACAT
Found at i:77268325 original size:42 final size:42
Alignment explanation
Indices: 77268264--77268352 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
77268254 AATGCAATTG
* *
77268264 CATTAATTGATCCTGGTTCTACTCATTCTTATGTGTGTGAGA
1 CATTAATGGATCCTAGTTCTACTCATTCTTATGTGTGTGAGA
*
77268306 CATTAATGGATCCTAGTTCTACTTATTCTTATGTGTGTGAGA
1 CATTAATGGATCCTAGTTCTACTCATTCTTATGTGTGTGAGA
77268348 CATTA
1 CATTA
77268353 GTATTCAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.43
Consensus pattern (42 bp):
CATTAATGGATCCTAGTTCTACTCATTCTTATGTGTGTGAGA
Found at i:77273960 original size:2 final size:2
Alignment explanation
Indices: 77273953--77274001 Score: 71
Period size: 2 Copynumber: 24.0 Consensus size: 2
77273943 ATGTTTAACT
* *
77273953 TA TA TA TA TA TA TA TA TA TA TA TA TA AA CA TGA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
77273996 TA TA TA
1 TA TA TA
77274002 CATTTTGGGT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
2 41 0.95
3 2 0.05
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:77273990 original size:21 final size:21
Alignment explanation
Indices: 77273964--77274004 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
77273954 ATATATATAT
77273964 ATATATATATATATAAACATG
1 ATATATATATATATAAACATG
*
77273985 ATATATATATATATATACAT
1 ATATATATATATATAAACAT
77274005 TTTGGGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (21 bp):
ATATATATATATATAAACATG
Found at i:77279527 original size:55 final size:55
Alignment explanation
Indices: 77279458--77279580 Score: 158
Period size: 55 Copynumber: 2.2 Consensus size: 55
77279448 AAGCCTCACA
** * * *
77279458 CCCGTGTTAATTTAACAGGTTCGACCATGAG-TGTTCCACAAGGGTATGTCGCACG
1 CCCGTGTTGTTTTAACAGGTTCGACCAAG-GTTCTTCCACAAGGGCATGTCGCACG
* * *
77279513 CCCGTGTTGTTTTAACAGGTTCGCCCAAGGTTCTTCCACACGGGCGTGTCGCACG
1 CCCGTGTTGTTTTAACAGGTTCGACCAAGGTTCTTCCACAAGGGCATGTCGCACG
77279568 CCCGTGTTGTTTT
1 CCCGTGTTGTTTT
77279581 GGCAGGCTTG
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
54 1 0.02
55 58 0.98
ACGTcount: A:0.17, C:0.27, G:0.26, T:0.30
Consensus pattern (55 bp):
CCCGTGTTGTTTTAACAGGTTCGACCAAGGTTCTTCCACAAGGGCATGTCGCACG
Found at i:77285340 original size:46 final size:46
Alignment explanation
Indices: 77285232--77285405 Score: 154
Period size: 46 Copynumber: 3.7 Consensus size: 46
77285222 ACATTATGAG
* * * *
77285232 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGGG
1 AGCCAGTGTAAGA-CATGTTTAGGACAT-GCATCAGCATCGAGACGGA
* * * *
77285280 AGCTAGTGCAAGACATGTTTAGGACATGCATCAGCCTCGAGACGTA
1 AGCCAGTGTAAGACATGTTTAGGACATGCATCAGCATCGAGACGGA
* * *
77285326 AGCCAGTGTTAGACATGTTTGGGACATGCATCAGC-TACGAGA-TGA
1 AGCCAGTGTAAGACATGTTTAGGACATGCATCAGCAT-CGAGACGGA
* * *
77285371 TAGTCAGTGTAAGACCATGCTTGGGACATGGCATC
1 -AGCCAGTGTAAGA-CATGTTTAGGACAT-GCATC
77285406 GACTTGAGAT
Statistics
Matches: 105, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
45 2 0.02
46 61 0.58
47 26 0.25
48 16 0.15
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTTTAGGACATGCATCAGCATCGAGACGGA
Found at i:77285415 original size:47 final size:48
Alignment explanation
Indices: 77285232--77285455 Score: 178
Period size: 47 Copynumber: 4.8 Consensus size: 48
77285222 ACATTATGAG
* * * * **
77285232 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACG-GG
1 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGAC-TCGAGACGATA
* * * *
77285280 AGCTAGTGCAAGA-CATGTTTAGGACAT-GCATCAGCCTCGAGACG-TA
1 AGCCAGTGTAAGACCATGTTTGGGACATGGCATC-GACTCGAGACGATA
* *
77285326 AGCCAGTGTTAGA-CATGTTTGGGACAT-GCATC-AGCTACGAGATGAT-
1 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGA-CT-CGAGACGATA
* * * * *
77285372 AGTCAGTGTAAGACCATGCTTGGGACATGGCATCGACTTGAGA-TATG
1 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACTCGAGACGATA
* *
77285419 AGCCAGTGTAAGACCATATCTGGGACATGGCATCGAC
1 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGAC
77285456 ACCTTACCCA
Statistics
Matches: 146, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
45 2 0.01
46 59 0.40
47 66 0.45
48 18 0.12
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACTCGAGACGATA
Found at i:77285445 original size:140 final size:141
Alignment explanation
Indices: 77285190--77285452 Score: 318
Period size: 140 Copynumber: 1.9 Consensus size: 141
77285180 AATGTGAGCT
* *
77285190 AGTGTAAGACATGTCTGGGACTTGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTAG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTCTAG
* * * * *
77285255 GACATGGCATCGGCATTGAGACGGGAGCTAGTGCAAGACATGTTTAGGACAT-GCATCAGCCTCG
66 GACATGGCATCGACATTGAGACAGGAGCCAGTGCAAGACATATCTAGGACATGGCATCAGCCTCG
77285319 AGACGTAAGCC
131 AGACGTAAGCC
* * * * *
77285330 AGTGTTAGACATGTTTGGGACATGCATCAGCTACGA-GATGATAGTCAGTGTAAGACCATG-CTT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATGAGAGCCAGTGTAAGACCATGTC-T
* * * * *
77285393 GGGACATGGCATCGAC-TTGAGATATGAGCCAGTGTAAGACCATATCTGGGACATGGCATC
64 AGGACATGGCATCGACATTGAGACAGGAGCCAGTGCAAGA-CATATCTAGGACATGGCATC
77285453 GACACCTTAC
Statistics
Matches: 102, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
139 19 0.19
140 77 0.75
141 6 0.06
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTCTAG
GACATGGCATCGACATTGAGACAGGAGCCAGTGCAAGACATATCTAGGACATGGCATCAGCCTCG
AGACGTAAGCC
Found at i:77289779 original size:47 final size:48
Alignment explanation
Indices: 77289634--77289854 Score: 156
Period size: 47 Copynumber: 4.7 Consensus size: 48
77289624 TTTGTGCGCT
* *
77289634 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCC--ACAT-TATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTA-ATCAAT--GAGCC
* * * * * * * *
77289680 ATTATAAGACCATGTCTGGGACATGGCTTTGGCATTGAAACGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTT-AATCAATGAGCC
* *
77289728 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGATCTCAAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTT-A-ATCAATGAGCC
* * * * **
77289775 AGTGTAAAATCATGTCTGGGACTTGGCATC-GACTTAATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTAATCAATGAGCC
77289822 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
77289855 ATTACACCTT
Statistics
Matches: 133, Mismatches: 30, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
46 20 0.15
47 70 0.53
48 35 0.26
49 5 0.04
50 1 0.01
51 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTAATCAATGAGCC
Found at i:77290125 original size:84 final size:85
Alignment explanation
Indices: 77289984--77290150 Score: 327
Period size: 84 Copynumber: 2.0 Consensus size: 85
77289974 CCTATTTGAA
77289984 GTGAGCTCAATATATATATGCTATGTGAATTGCATTAGTTATTGATGAGTAAGTTGTGCTTATGC
1 GTGAGCTCAATATATATATGCTATGTGAATTGCATTAGTTATTGATGAGTAAGTTGTGCTTATGC
77290049 CTACTTTAGTAC-ATGAGAC
66 CTACTTTAGTACTATGAGAC
77290068 GTGAGCTCAATATATATATGCTATGTGAATTGCATTAGTTATTGATGAGTAAGTTGTGCTTATGC
1 GTGAGCTCAATATATATATGCTATGTGAATTGCATTAGTTATTGATGAGTAAGTTGTGCTTATGC
77290133 CTACTTTAGTACTATGAG
66 CTACTTTAGTACTATGAG
77290151 CATGATGATG
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 77 0.94
85 5 0.06
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (85 bp):
GTGAGCTCAATATATATATGCTATGTGAATTGCATTAGTTATTGATGAGTAAGTTGTGCTTATGC
CTACTTTAGTACTATGAGAC
Found at i:77292158 original size:40 final size:40
Alignment explanation
Indices: 77292114--77292337 Score: 228
Period size: 40 Copynumber: 5.7 Consensus size: 40
77292104 GCTACTCGTT
* * * *
77292114 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAGCTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
77292154 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
77292194 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
77292234 CAAATGCCTTC-GGATCTTAGTCC-GATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
** * * *
77292274 CAAA-GCCTTC--GATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
77292313 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
77292338 CATCATTCGA
Statistics
Matches: 167, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
38 11 0.07
39 45 0.27
40 107 0.64
41 4 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:77300326 original size:40 final size:40
Alignment explanation
Indices: 77300238--77300460 Score: 255
Period size: 39 Copynumber: 5.7 Consensus size: 40
77300228 GCTACTCGTT
* *
77300238 CAAATGCCTTCGGGACATAGCCCGG-TTATA-TAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
77300277 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
77300317 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
77300357 CAAATGCCTTC-GGATCTTAGTCC-GATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
* * * *
77300397 CAAA-GCCTTC-GGATCTTAGTCCGGA-TAAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
77300436 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
77300461 CATCATTCGA
Statistics
Matches: 169, Mismatches: 9, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
39 89 0.53
40 80 0.47
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:77300384 original size:79 final size:80
Alignment explanation
Indices: 77300238--77300408 Score: 226
Period size: 79 Copynumber: 2.2 Consensus size: 80
77300228 GCTACTCGTT
* *
77300238 CAAATGCCTTCGGGACATAGCCCGGTTATATAGCTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACATAACCCGGTTATATAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
*
77300303 TTTAGTAAC-TCGCA
66 TTTAGTAACTTAGCA
* **
77300317 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAACCCGG-TTATA-TAACTCGCACAAATGCCTTCGGGA-CTTAACCC
77300380 -GATTTAGTAACTTAGCA
63 GGATTTAGTAACTTAGCA
77300397 CAAA-GCCTTCGG
1 CAAATGCCTTCGG
77300409 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
79 47 0.57
80 35 0.43
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAACCCGGTTATATAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TTTAGTAACTTAGCA
Found at i:77300422 original size:79 final size:78
Alignment explanation
Indices: 77300238--77300460 Score: 222
Period size: 79 Copynumber: 2.8 Consensus size: 78
77300228 GCTACTCGTT
* * * *
77300238 CAAATGCCTTCGGGACATAGCCCGGTTATA-TAGCTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATA-AGTAACTCGCACAAATGCCTTC-GGACTTAACCCGG
*
77300302 ATTTAGTAACTCGCA
64 ATTTAGTAACTAGCA
* **
77300317 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCC-G
1 CAAATGCCTTCGGGACTTAACCCGGA-TAAGTAACTCGCACAAATGCCTTCGGA-CTTAACCCGG
77300381 ATTTAGTAACTTAGCA
64 ATTTAGTAAC-TAGCA
** * * *
77300397 CAAA-GCCTTC-GGATCTTAGTCCGGATAAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGGATAAGTAAC-TCGCACAAATGCCTTC-GGACTTAACCCG
77300459 GA
63 GA
77300461 CATCATTCGA
Statistics
Matches: 122, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
78 22 0.18
79 66 0.54
80 34 0.28
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAACCCGGATAAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGAT
TTAGTAACTAGCA
Found at i:77306771 original size:90 final size:93
Alignment explanation
Indices: 77306677--77306889 Score: 243
Period size: 96 Copynumber: 2.3 Consensus size: 93
77306667 TCATGTCAGT
* * * *
77306677 GCCGATGCCATGTCCCAAACATGGTCTTAAACGAAATCTCATATCAA-C-T-TCATATCTCAGAT
1 GCCGATGCCATGTCCCAAACATGGTCTTAAACGAAACCTCATATCAACCATGCCATATCCCAGAC
*
77306739 ATGGTCTTACACTAGCACGCATATCAAC
66 ATGGTCATACACTAGCACGCATATCAAC
* * * * ** *
77306767 GCCGATGCCATGTCCCAGACATGGTCATACACTAGCCCTCATATCAACGCCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAAACATGGTCTTAAACGAAACCTCATATCAA--CC-ATGCCATATCCCA
* *
77306832 GACATGGTCATACACTAGCCCTCATATCAAC
63 GACATGGTCATACACTAGCACGCATATCAAC
*
77306863 GCTGATGCCATGTCCCAAACATGGTCT
1 GCCGATGCCATGTCCCAAACATGGTCT
77306890 GACACTAGCT
Statistics
Matches: 100, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
90 40 0.40
93 1 0.01
95 1 0.01
96 58 0.58
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (93 bp):
GCCGATGCCATGTCCCAAACATGGTCTTAAACGAAACCTCATATCAACCATGCCATATCCCAGAC
ATGGTCATACACTAGCACGCATATCAAC
Found at i:77306810 original size:48 final size:48
Alignment explanation
Indices: 77306734--77306943 Score: 280
Period size: 48 Copynumber: 4.4 Consensus size: 48
77306724 CTTCATATCT
* * * *
77306734 CAGATATGGTCTTACACTAGCACGCATATCAACGCCGATGCCATGTCC
1 CAGACATGGTCATACACTAGCCCTCATATCAACGCCGATGCCATGTCC
77306782 CAGACATGGTCATACACTAGCCCTCATATCAACGCCGATGCCATGTCC
1 CAGACATGGTCATACACTAGCCCTCATATCAACGCCGATGCCATGTCC
*
77306830 CAGACATGGTCATACACTAGCCCTCATATCAACGCTGATGCCATGTCC
1 CAGACATGGTCATACACTAGCCCTCATATCAACGCCGATGCCATGTCC
* * * *
77306878 CAAACATGGTC-TGACACTAGCTCTCATCA-CGGATGCCGATGCCATGTCC
1 CAGACATGGTCAT-ACACTAGCCCTCAT-ATC-AACGCCGATGCCATGTCC
* *
77306927 CAAACATGGTCTTACAC
1 CAGACATGGTCATACAC
77306944 GGGATCTCGT
Statistics
Matches: 148, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
47 1 0.01
48 115 0.78
49 31 0.21
50 1 0.01
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (48 bp):
CAGACATGGTCATACACTAGCCCTCATATCAACGCCGATGCCATGTCC
Found at i:77309674 original size:18 final size:17
Alignment explanation
Indices: 77309641--77309674 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
77309631 ATTTTAATGC
*
77309641 AATTTATATATTTTTTA
1 AATTTATATATATTTTA
77309658 AATTTATTATATATTTT
1 AATTTA-TATATATTTT
77309675 GAAAAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
AATTTATATATATTTTA
Found at i:77312286 original size:15 final size:16
Alignment explanation
Indices: 77312264--77312305 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
77312254 TGTTAATTTA
77312264 AGAAGAAAAGAGAGAA-
1 AGAAGAAAAGAGA-AAG
77312280 A-AAGAAAAGAGAAAG
1 AGAAGAAAAGAGAAAG
77312295 AGAAGAAAAGA
1 AGAAGAAAAGA
77312306 AACGGTTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 2 0.08
15 12 0.50
16 10 0.42
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (16 bp):
AGAAGAAAAGAGAAAG
Found at i:77312292 original size:22 final size:21
Alignment explanation
Indices: 77312266--77312307 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
77312256 TTAATTTAAG
77312266 AAGA-AAAGAG-AGAAAAAGAA
1 AAGAGAAAGAGAAG-AAAAGAA
77312286 AAGAGAAAGAGAAGAAAAGAA
1 AAGAGAAAGAGAAGAAAAGAA
77312307 A
1 A
77312308 CGGTTGATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 14 0.70
22 2 0.10
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (21 bp):
AAGAGAAAGAGAAGAAAAGAA
Found at i:77322371 original size:12 final size:12
Alignment explanation
Indices: 77322354--77322378 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
77322344 TTGTGCGTTG
77322354 ACATGTCTCGTC
1 ACATGTCTCGTC
77322366 ACATGTCTCGTC
1 ACATGTCTCGTC
77322378 A
1 A
77322379 TTTTTCTAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (12 bp):
ACATGTCTCGTC
Found at i:77325202 original size:28 final size:29
Alignment explanation
Indices: 77325104--77325202 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
77325094 TCACAAATTG
* *
77325104 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* * *
77325133 GCACTAAGTGTGCAAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
77325161 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
77325189 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
77325203 GGCTTATTAC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:77332891 original size:28 final size:29
Alignment explanation
Indices: 77332793--77332891 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
77332783 TCACAAATTG
* *
77332793 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* * *
77332822 GCACTAAGTGTGCAAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
77332850 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
77332878 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
77332892 GGCTTATTAC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:77337140 original size:30 final size:30
Alignment explanation
Indices: 77337085--77337146 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
77337075 CACTAAGCAA
77337085 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
77337114 GTTTCAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCCAT
77337145 GT
1 GT
77337147 ATTTCATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 12 0.41
32 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:77337357 original size:25 final size:25
Alignment explanation
Indices: 77337314--77337404 Score: 76
Period size: 25 Copynumber: 3.6 Consensus size: 25
77337304 ACGAGTTATG
*
77337314 AATCAGTATGCTCTCATGAACTAAA
1 AATCAGTAAGCTCTCATGAACTAAA
* *
77337339 AATCAGTAAGCTCAT-ATGAGCTAAG
1 AATCAGTAAGCTC-TCATGAACTAAA
* * * * **
77337364 AATCGGTAAGCTTTCACGAGCTGCA
1 AATCAGTAAGCTCTCATGAACTAAA
*
77337389 AATCGGTAAGCTCTCA
1 AATCAGTAAGCTCTCA
77337405 CGAGATGCAA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
24 1 0.02
25 52 0.96
26 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (25 bp):
AATCAGTAAGCTCTCATGAACTAAA
Found at i:77337405 original size:25 final size:25
Alignment explanation
Indices: 77337364--77337426 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
77337354 ATGAGCTAAG
* *
77337364 AATCGGTAAGCTTTCACGAGCTGCA
1 AATCGGTAAGCTCTCACGAGATGCA
77337389 AATCGGTAAGCTCTCACGAGATGCA
1 AATCGGTAAGCTCTCACGAGATGCA
77337414 AATCGGTAAGCTC
1 AATCGGTAAGCTC
77337427 ATACGGGCTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (25 bp):
AATCGGTAAGCTCTCACGAGATGCA
Found at i:77343826 original size:47 final size:45
Alignment explanation
Indices: 77343715--77343843 Score: 159
Period size: 47 Copynumber: 2.8 Consensus size: 45
77343705 CTGCGAATAA
* * * * * *
77343715 TACCTTGATCTAGCTACGGGCCATGATATAGGTATTTTTGAAGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA-CTCTGAAAAGT
*
77343761 TACCCTGATTTGGCTACGGGCCATGGTATAGGTACTCTGAGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGA-A-AAGT
*
77343808 TACCTTGATTTGGCTACGGGCCGTGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
77343844 TATTGATTAT
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
45 4 0.06
46 31 0.43
47 37 0.51
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (45 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGAAAAGT
Found at i:77349049 original size:41 final size:42
Alignment explanation
Indices: 77348957--77349051 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 42
77348947 AAATATTCAG
*
77348957 CCAAAGCTATATCGATATCACACACTTAGTGCTATCACATTAAA
1 CCAAAGCTATATCGATATCACACACTTAGTGC--TCACATAAAA
* * * *
77349001 CTAAAGCTATCTCGGTATCGCACACTTAGTGC-CACATAAAA
1 CCAAAGCTATATCGATATCACACACTTAGTGCTCACATAAAA
*
77349042 CCGAAGCTAT
1 CCAAAGCTAT
77349052 TTCAATTCGC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 16 0.36
44 28 0.64
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (42 bp):
CCAAAGCTATATCGATATCACACACTTAGTGCTCACATAAAA
Found at i:77354325 original size:16 final size:16
Alignment explanation
Indices: 77354304--77354346 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
77354294 GTTATTCACC
77354304 GGCATAAAGCCTGCTA
1 GGCATAAAGCCTGCTA
77354320 GGCATAAAGCCTGCTA
1 GGCATAAAGCCTGCTA
77354336 GGCATAAAGCC
1 GGCATAAAGCC
77354347 CGTATCACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.33, C:0.26, G:0.26, T:0.16
Consensus pattern (16 bp):
GGCATAAAGCCTGCTA
Found at i:77359157 original size:6 final size:6
Alignment explanation
Indices: 77359138--77359225 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
77359128 AAGAAACATT
* * *
77359138 ATCAGA A-CTAGA ATTAGA ATCAGA ATCAGA ATCAG- GTGACAAA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
77359187 ATCAGA ATTAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
77359226 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
5 4 0.06
6 51 0.82
7 5 0.08
8 2 0.03
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:77359188 original size:31 final size:31
Alignment explanation
Indices: 77359153--77359225 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
77359143 AACTAGAATT
*
77359153 AGAATCAGAATCAGAATCAGGTGACAAAATC
1 AGAATCAGAATCAGAATCAGGTAACAAAATC
* * *
77359184 AGAATCAGAATTAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAAAATC
*
77359215 AAAATCAGAAT
1 AGAATCAGAAT
77359226 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAAAATC
Found at i:77359701 original size:27 final size:27
Alignment explanation
Indices: 77359636--77359701 Score: 62
Period size: 27 Copynumber: 2.4 Consensus size: 27
77359626 CAGTCACTTG
* *
77359636 CCCACAAGGGCAAAATAGTCATTTAAC
1 CCCACAAGGGTAAAATAGTAATTTAAC
* * * *
77359663 ACC-CTAGTGGTAAAATGGTAATTTTAC
1 CCCACAAG-GGTAAAATAGTAATTTAAC
77359690 CCCACAAGGGTA
1 CCCACAAGGGTA
77359702 TCTCGGTAAT
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
26 3 0.10
27 23 0.79
28 3 0.10
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (27 bp):
CCCACAAGGGTAAAATAGTAATTTAAC
Found at i:77359709 original size:27 final size:27
Alignment explanation
Indices: 77359680--77359930 Score: 256
Period size: 27 Copynumber: 9.3 Consensus size: 27
77359670 TGGTAAAATG
* * *
77359680 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTTTACCCTACAAGGGTATTTCA
* * *
77359707 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCA
*
77359734 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCA
* * *
77359761 GT-ATTTCTACCCTATAAGGGTATATCG
1 GTAATTT-TACCCTACAAGGGTATTTCA
* * *
77359788 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCTACAAGGGTATTTCA
* *
77359815 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCA
* *
77359842 AT-ATTTCTACCCTACAGGGGTATTTCA
1 GTAATTT-TACCCTACAAGGGTATTTCA
* *
77359869 AT-ATTTCTACCCTACAAGGGTATTTCG
1 GTAATTT-TACCCTACAAGGGTATTTCA
* **
77359896 GTATTTTTACCCTACAAGGGTATTTTG
1 GTAATTTTACCCTACAAGGGTATTTCA
77359923 GTAATTTT
1 GTAATTTT
77359931 GTAAATTGAG
Statistics
Matches: 193, Mismatches: 27, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
26 6 0.03
27 181 0.94
28 6 0.03
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (27 bp):
GTAATTTTACCCTACAAGGGTATTTCA
Found at i:77359738 original size:54 final size:54
Alignment explanation
Indices: 77359680--77359920 Score: 286
Period size: 54 Copynumber: 4.5 Consensus size: 54
77359670 TGGTAAAATG
* * * * *
77359680 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCA
* * * * *
77359734 GTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTATAAGGGTATATCG
1 GTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCA
* * * *
77359788 GTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCA
* * * * *
77359842 AT-ATTTCTACCCTACAGGGGTATTTCAATATTTCTACCCTACAAGGGTATTTCG
1 GTAATTT-TACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCA
*
77359896 GTATTTTTACCCTACAAGGGTATTT
1 GTAATTTTACCCTACAAGGGTATTT
77359921 TGGTAATTTT
Statistics
Matches: 160, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
53 3 0.02
54 154 0.96
55 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (54 bp):
GTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCA
Found at i:77359822 original size:81 final size:81
Alignment explanation
Indices: 77359683--77359920 Score: 325
Period size: 81 Copynumber: 3.0 Consensus size: 81
77359673 TAAAATGGTA
* * *
77359683 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATATCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
*
77359747 ACAAGGGTATTTCAGT
66 ACAAGGGTATTTCAAT
* *
77359763 ATTTCTACCCTATAAGGGTATATCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATATCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
*
77359828 ACAGGGGTATTTCAAT
66 ACAAGGGTATTTCAAT
* * ** * * * * *
77359844 ATTTCTACCCTACAGGGGTATTTCAATATTTCTACCCTACAAGGGTATTTCGGTATTTTTACCCT
1 ATTTCTACCCTACAAGGGTATATCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
77359909 ACAAGGGTATTT
66 ACAAGGGTATTT
77359921 TGGTAATTTT
Statistics
Matches: 138, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 4 0.03
81 134 0.97
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATATCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
ACAAGGGTATTTCAAT
Found at i:77360008 original size:27 final size:27
Alignment explanation
Indices: 77359978--77360042 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
77359968 GGTACTTTGG
77359978 TAATTTTACAAGTCGAGCGTATTTCAA
1 TAATTTTACAAGTCGAGCGTATTTCAA
* * * *
77360005 TAATTTTAGAGGTCGAGGGTATTTCAG
1 TAATTTTACAAGTCGAGCGTATTTCAA
*
77360032 TAATTTCACAA
1 TAATTTTACAA
77360043 ATTAGGGGTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGCGTATTTCAA
Found at i:77360082 original size:81 final size:79
Alignment explanation
Indices: 77359960--77360307 Score: 336
Period size: 81 Copynumber: 4.3 Consensus size: 79
77359950 ATAATTCTGT
* * * * * * * ** *
77359960 AAATCAGGGGTACTTTGGTAATTTTACAAGTCGAGCGTATTTCAATAATTTTAGAGGTCGAGGGT
1 AAATTAGGGGTATTTTGGTAATTTTACAA-ACAAGGGTATTTTAATAATTTTACA-AACAAGGGT
** *
77360025 ATTTCAGTAATTTCAC
64 ATTTTGGTAATTTTAC
* * *
77360041 AAATTAGGGGTATTTTTGTAATTTTACAAACTAGGGTTATTTTGATAATTTTACAAACCAAGGGT
1 AAATTAGGGGTATTTTGGTAATTTTACAAACAAGGG-TATTTTAATAATTTTACAAA-CAAGGGT
77360106 ATTTTGGTAATTTTAC
64 ATTTTGGTAATTTTAC
** * * *
77360122 AAGCTAGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACTAGGGGT
1 AAATTAGGGGTATTTTGGTAATTTTACAAAC-AAGGGTATTTTAATAATTTTACAAAC-AAGGGT
*
77360187 ATTTTGGTAATTTTAT
64 ATTTTGGTAATTTTAC
* * * * ** * *
77360203 GAATAAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGT
1 AAATTAGGGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTTAATAATTTTACAAA-CAAGGGT
77360268 ATTTTGGTAATTTTAC
64 ATTTTGGTAATTTTAC
**
77360284 AAACCAGGGGTATTTTGGTAATTT
1 AAATTAGGGGTATTTTGGTAATTT
77360308 GGTAAACTAA
Statistics
Matches: 221, Mismatches: 40, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
80 5 0.02
81 210 0.95
82 6 0.03
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (79 bp):
AAATTAGGGGTATTTTGGTAATTTTACAAACAAGGGTATTTTAATAATTTTACAAACAAGGGTAT
TTTGGTAATTTTAC
Found at i:77360314 original size:27 final size:27
Alignment explanation
Indices: 77360021--77360307 Score: 349
Period size: 27 Copynumber: 10.6 Consensus size: 27
77360011 TAGAGGTCGA
** * **
77360021 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
77360048 GGGTATTTTTGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
77360075 GGTTATTTTGATAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
77360102 GGGTATTTTGGTAATTTTACAAGCTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
77360129 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
77360156 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** **
77360183 GGGTATTTTGGTAATTTTATGAATAAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
77360210 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
77360237 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
77360264 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
77360291 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
77360308 GGTAAACTAA
Statistics
Matches: 221, Mismatches: 39, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 221 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:77360314 original size:54 final size:54
Alignment explanation
Indices: 77360048--77360307 Score: 387
Period size: 54 Copynumber: 4.8 Consensus size: 54
77360038 CACAAATTAG
* * * *
77360048 GGGTATTTTTGTAATTTTACAAACTAGGGTTATTTTGATAATTTTACAAACCAA
1 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
* * *
77360102 GGGTATTTTGGTAATTTTACAAGCTAGGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
* *
77360156 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATGAA-TAA
1 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
* *
77360209 GGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 -GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
* *
77360264 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTT
77360308 GGTAAACTAA
Statistics
Matches: 188, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
53 2 0.01
54 184 0.98
55 2 0.01
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.42
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
Found at i:77364965 original size:28 final size:29
Alignment explanation
Indices: 77364898--77364998 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
77364888 ATAGTGAATC
*
77364898 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
77364927 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
77364955 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
77364985 CGCACACTTAGTGC
1 CGCACACTTAGTGC
77364999 CAATCTTGTC
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:77368137 original size:40 final size:40
Alignment explanation
Indices: 77367971--77368127 Score: 233
Period size: 40 Copynumber: 3.9 Consensus size: 40
77367961 TTCGAATGAT
* * *
77367971 ATCCGGGTTAATTCCTGAAGGAATTTGAGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
77368011 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
* * *
77368051 ATCCGGGGTAATTCCCAAAGGCAATTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
* * *
77368091 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTAC
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTAC
77368128 TATAACCGGG
Statistics
Matches: 105, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (40 bp):
ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
Found at i:77368146 original size:40 final size:40
Alignment explanation
Indices: 77367987--77368150 Score: 181
Period size: 40 Copynumber: 4.1 Consensus size: 40
77367977 GTTAATTCCT
* * *
77367987 GAAGGAATTTGAGCGAGTTACCAAATCCGGGTTAAT-TCCC
1 GAAGGCATTTGTGCGAGTTACCAAATCCGGGCT-ATGTCCC
*
77368027 GAAGGCATTTGTGCGAGTTACCAAATCCGGGGTAAT-TCCC
1 GAAGGCATTTGTGCGAGTTACCAAATCCGGGCT-ATGTCCC
* * * *
77368067 AAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACCAAATCCGGGCTATGTCCC
* * *
77368107 GAAGGCATTTGCGCGAATTACTATAA-CCGGGCTATGTCCC
1 GAAGGCATTTGTGCGAGTTACCA-AATCCGGGCTATGTCCC
77368147 GAAG
1 GAAG
77368151 ACAATCGAGC
Statistics
Matches: 108, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 105 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
GAAGGCATTTGTGCGAGTTACCAAATCCGGGCTATGTCCC
Found at i:77368163 original size:80 final size:80
Alignment explanation
Indices: 77367997--77368164 Score: 223
Period size: 80 Copynumber: 2.1 Consensus size: 80
77367987 GAAGGAATTT
* * * *
77367997 GAGCGAGTTACCAAATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAAATCCGGGGTAA
1 GAGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACCAAATCCGGGCTAA
* *
77368062 TTCCCAAAGGCAATT
66 TTCCCAAAGACAATC
* *
77368077 GTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTATAA-CCGGGCT-
1 GAGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACCA-AATCCGGGCTA
*
77368140 ATGTCCCGAAGACAATC
65 AT-TCCCAAAGACAATC
77368157 GAGCGAGT
1 GAGCGAGT
77368165 AGCTATATCC
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
79 2 0.03
80 72 0.95
81 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (80 bp):
GAGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACCAAATCCGGGCTAA
TTCCCAAAGACAATC
Found at i:77368175 original size:80 final size:80
Alignment explanation
Indices: 77367997--77368190 Score: 216
Period size: 80 Copynumber: 2.4 Consensus size: 80
77367987 GAAGGAATTT
* * * *
77367997 GAGCGAGTTACCAAATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAAATCCGGGGTAA
1 GAGCGAGTTACCAAATCCGGGTTAAATCCCGAAGGCATTTGCGCGAATTACCAAATCCGGGCTAA
* *
77368062 TTCCCAAAGGCAATT
66 TTCCCAAAGACAATC
* * *
77368077 GTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTATAA-CCGGGCT-
1 GAGCGAGTTACCAAATCCGGGTTAAATCCCGAAGGCATTTGCGCGAATTACCA-AATCCGGGCTA
*
77368140 ATGTCCCGAAGACAATC
65 AT-TCCCAAAGACAATC
* * *
77368157 GAGCGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 GAGCGAGTTA-CCAAATCCGGGTTAAATCCCGAAGG
77368191 TACGTGATTC
Statistics
Matches: 97, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
79 18 0.19
80 77 0.79
81 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (80 bp):
GAGCGAGTTACCAAATCCGGGTTAAATCCCGAAGGCATTTGCGCGAATTACCAAATCCGGGCTAA
TTCCCAAAGACAATC
Found at i:77375247 original size:40 final size:40
Alignment explanation
Indices: 77375069--77375224 Score: 269
Period size: 40 Copynumber: 3.9 Consensus size: 40
77375059 TTCGAATGAT
77375069 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
77375109 ATCC-GGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
* *
77375148 ATCCGAGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
* *
77375188 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTAC
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTAC
77375225 TATAACCGGG
Statistics
Matches: 109, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
39 39 0.36
40 70 0.64
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
Found at i:77375247 original size:80 final size:79
Alignment explanation
Indices: 77375077--77375224 Score: 251
Period size: 79 Copynumber: 1.9 Consensus size: 79
77375067 ATATCCGGGT
* * *
77375077 TAATTCCCGAAGGCATTTGTGCGAGTTACCAAATCCGGTTAATTCCCGAAGGCATTTGTGCGAGT
1 TAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGTTAAGTCCCGAAGGCATTTGTGCGAAT
*
77375142 TACCAAATCCGAGT
66 TACCAAATCCGAGC
77375156 TAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAA
1 TAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCC-GGTTAAGTCCCGAAGGCATTTGTGCGAA
77375221 TTAC
65 TTAC
77375225 TATAACCGGG
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
79 35 0.54
80 30 0.46
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (79 bp):
TAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGTTAAGTCCCGAAGGCATTTGTGCGAAT
TACCAAATCCGAGC
Found at i:77375273 original size:80 final size:79
Alignment explanation
Indices: 77375077--77375261 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 79
77375067 ATATCCGGGT
* * * * * *
77375077 TAATTCCCGAAGGCATTTGTGCGAGTTACCAAATCCGGTTAATTCCCGAAGGCATTTGTGCGAGT
1 TAATTCCCGAAGACAATCGAGCGAGTTACCAAATCCGGTTAAGTCCCGAAGGCATTTGTGCGAAT
*
77375142 TACCAAATCCGAGT
66 TACCAAATCCGAGC
* * *
77375156 TAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAA
1 TAATTCCCGAAGACAATCGAGCGAGTTACCAAATCC-GGTTAAGTCCCGAAGGCATTTGTGCGAA
* *
77375221 TTACTATAA-CCGGGC
65 TTACCA-AATCCGAGC
77375236 T-ATGTCCCGAAGACAATCGAGCGAGT
1 TAAT-TCCCGAAGACAATCGAGCGAGT
77375262 AGCTATATCC
Statistics
Matches: 94, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
79 37 0.39
80 55 0.59
81 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (79 bp):
TAATTCCCGAAGACAATCGAGCGAGTTACCAAATCCGGTTAAGTCCCGAAGGCATTTGTGCGAAT
TACCAAATCCGAGC
Found at i:77393497 original size:41 final size:40
Alignment explanation
Indices: 77393440--77393619 Score: 204
Period size: 40 Copynumber: 4.5 Consensus size: 40
77393430 TCGAATGATG
* * * * *
77393440 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGTTAATTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
77393481 TCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 TCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTA-CTAAA
*
77393522 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
77393561 TCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACTATAA
1 TCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
77393602 -CCGGGCT-ATGTCCCGAAG
1 TCCGGGTTAAT-TCCCGAAG
77393620 ACAATCGAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
39 7 0.06
40 82 0.68
41 32 0.26
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:77393581 original size:80 final size:81
Alignment explanation
Indices: 77393441--77393619 Score: 252
Period size: 80 Copynumber: 2.2 Consensus size: 81
77393431 CGAATGATGT
* *
77393441 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
*
77393506 GTGCGAGTTACCAAAA
66 GTGCGAATTACCAAAA
* * * * *
77393522 TCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
77393586 GTGCGAATTACTATAA
66 GTGCGAATTACCAAAA
*
77393602 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
77393620 ACAATCGAGC
Statistics
Matches: 85, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 60 0.71
81 25 0.29
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATTACCAAAA
Found at i:77393644 original size:80 final size:80
Alignment explanation
Indices: 77393475--77393649 Score: 199
Period size: 80 Copynumber: 2.2 Consensus size: 80
77393465 GTGCTAAGTG
* * * * *
77393475 ACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAATCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
* * * * *
77393540 GCATTTGTGCGAGTT
66 ACAATCGAGCGAGTC
* * *
77393555 ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
*
77393620 ACAATCGAGCTAGTC
66 ACAATCGAGCGAGTC
* *
77393635 GCTATATCC-GGTTAA
1 ACTAAATCCGGGTTAA
77393650 ATTCTGAAGG
Statistics
Matches: 79, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
79 6 0.08
80 73 0.92
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (80 bp):
ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
ACAATCGAGCGAGTC
Found at i:77398067 original size:40 final size:40
Alignment explanation
Indices: 77397991--77398110 Score: 154
Period size: 40 Copynumber: 3.0 Consensus size: 40
77397981 ATGAGAAGAA
* *
77397991 CATTTGTGCGAGTTACCAAAATCCGGGTTAAGTCCCGAAGG
1 CATTTGTGCGAGTTA-CTAAATCCGGGTTAATTCCCGAAGG
77398032 CATTTGTGCGAGTTACTAAATCCGGGTTAATTCCCGAAGG
1 CATTTGTGCGAGTTACTAAATCCGGGTTAATTCCCGAAGG
* * *
77398072 CAATTGTGCGAATTACTATAA-CCGGGCT-ATGTCCCGAAG
1 CATTTGTGCGAGTTACTA-AATCCGGGTTAAT-TCCCGAAG
77398111 ACAATCGAGC
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
39 2 0.03
40 53 0.74
41 17 0.24
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (40 bp):
CATTTGTGCGAGTTACTAAATCCGGGTTAATTCCCGAAGG
Found at i:77402516 original size:40 final size:40
Alignment explanation
Indices: 77402420--77402598 Score: 214
Period size: 40 Copynumber: 4.5 Consensus size: 40
77402410 CGAATGATGT
* * * * *
77402420 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* * *
77402461 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
77402501 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
77402541 CCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
77402581 CCGGGCTATGTCCCGAAG
1 CCGGGTTAAGTCCCGAAG
77402599 ACAATCGAGC
Statistics
Matches: 118, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 94 0.80
41 24 0.20
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:77402560 original size:80 final size:81
Alignment explanation
Indices: 77402420--77402598 Score: 261
Period size: 80 Copynumber: 2.2 Consensus size: 81
77402410 CGAATGATGT
* *
77402420 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
*
77402485 GTGCGAGTTACCAAAA
66 GTGCGAATTACCAAAA
* * * *
77402501 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
77402565 GTGCGAATTACTATAA
66 GTGCGAATTACCAAAA
*
77402581 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
77402599 ACAATCGAGC
Statistics
Matches: 87, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
80 61 0.70
81 26 0.30
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATTACCAAAA
Found at i:77402623 original size:80 final size:80
Alignment explanation
Indices: 77402454--77402638 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 80
77402444 GTGCTAAGTG
* * * *
77402454 ACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
* * * * *
77402519 GCATTTGTGCGAGTT
66 ACAATCGAGCGAGTC
* * *
77402534 ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
*
77402599 ACAATCGAGCTAGTC
66 ACAATCGAGCGAGTC
* *
77402614 GCTATATCC-GGTTAAATT-CCGAAGG
1 ACTAAATCCGGGTT-AATTCCCGAAGG
77402639 TACGTGATTC
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 11 0.12
80 78 0.88
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (80 bp):
ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
ACAATCGAGCGAGTC
Found at i:77410590 original size:40 final size:39
Alignment explanation
Indices: 77410489--77410667 Score: 187
Period size: 40 Copynumber: 4.4 Consensus size: 39
77410479 CGAATGATGT
* * * *
77410489 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGG-TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
77410530 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
77410570 CTGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGG-TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
77410610 CCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACTATAA
1 CCGGG-TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
77410650 CCGGGCTATGTCCCGAAG
1 CCGGG-TAAGTCCCGAAG
77410668 ACAATCGAGC
Statistics
Matches: 116, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 91 0.78
41 25 0.22
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
CCGGGTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:77410629 original size:80 final size:81
Alignment explanation
Indices: 77410489--77410667 Score: 243
Period size: 80 Copynumber: 2.2 Consensus size: 81
77410479 CGAATGATGT
* * *
77410489 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGATAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
*
77410554 GTGCGAGTTACCAAAA
66 GTGCGAATTACCAAAA
* * * *
77410570 CTGGGATAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAATTCCCGAAGGCAATT
1 CCGGGATAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
77410634 GTGCGAATTACTATAA
66 GTGCGAATTACCAAAA
* *
77410650 CCGGGCTATGTCCCGAAG
1 CCGGGATAAGTCCCGAAG
77410668 ACAATCGAGC
Statistics
Matches: 85, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 60 0.71
81 25 0.29
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (81 bp):
CCGGGATAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATTACCAAAA
Found at i:77410692 original size:80 final size:80
Alignment explanation
Indices: 77410523--77410707 Score: 203
Period size: 80 Copynumber: 2.3 Consensus size: 80
77410513 GTGCTAAGTG
* * * *
77410523 ACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACTGGGATAAGTCCCGAAG
1 ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGATAAGTCCCGAAG
* * * * *
77410588 GCATTTGTGCGAGTT
66 ACAATCGAGCGAGTC
* * * *
77410603 ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGATAAGTCCCGAAG
*
77410668 ACAATCGAGCTAGTC
66 ACAATCGAGCGAGTC
* *
77410683 GCTATATCC-GGTTAAATT-CCGAAGG
1 ACTAAATCCGGGTT-AATTCCCGAAGG
77410708 TACGTGATTC
Statistics
Matches: 88, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 11 0.12
80 77 0.88
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (80 bp):
ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGATAAGTCCCGAAG
ACAATCGAGCGAGTC
Found at i:77414378 original size:27 final size:27
Alignment explanation
Indices: 77414348--77414660 Score: 378
Period size: 27 Copynumber: 11.6 Consensus size: 27
77414338 TTAGTTTACC
*
77414348 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
** * *
77414375 AAATTATTAAAATACCCTTAGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
77414402 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * **
77414429 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTA
77414456 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * * *
77414483 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
77414510 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
77414537 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
77414564 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
77414591 AAATTACCAAAATATCCCT-GATTTGTG
1 AAATTACCAAAATACCCCTAG-TTTGTA
** * *
77414618 AAATTACTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
*
77414645 AAATTACCAAAGTACC
1 AAATTACCAAAATACC
77414661 ATTGATTTAC
Statistics
Matches: 241, Mismatches: 42, Indels: 5
0.84 0.15 0.02
Matches are distributed among these distances:
26 5 0.02
27 235 0.98
28 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:77414413 original size:54 final size:54
Alignment explanation
Indices: 77414338--77414660 Score: 425
Period size: 54 Copynumber: 6.0 Consensus size: 54
77414328 TTAGAATACT
** * **
77414338 TTAGTTTACCAAATTACCAAAATACCCCTGGTTTGTAAAATTATTAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC
*
77414392 TTAGTTTATAAAATCACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC
* * *
77414446 TTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC
*
77414500 TTTGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC
* * *
77414554 TTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATATCCC
1 TTAGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA-CCC
* * * ** * * *
77414609 TGA-TTTGTGAAATTACTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACC
1 TTAGTTTATAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACC
77414661 ATTGATTTAC
Statistics
Matches: 242, Mismatches: 25, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
53 7 0.03
54 231 0.95
55 4 0.02
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (54 bp):
TTAGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC
Found at i:77414730 original size:27 final size:27
Alignment explanation
Indices: 77414700--77415751 Score: 1323
Period size: 27 Copynumber: 39.3 Consensus size: 27
77414690 CGATTTACAA
*
77414700 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
77414727 AATTACC-AGAATACCCCTGTTGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
77414754 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
77414781 AATTACTGAAATACCCC--TAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
77414806 AATTACCGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
77414833 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
77414860 AATTATCGCAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
77414887 AATTACCAAAATACCCCTGTAGGGAAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* **
77414914 AAATAGTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
77414941 AATTACCGGAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
77414968 AATTACCGGAATACCCCTGAAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
77414995 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
77415022 AAATACCGAAATACCCTTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
77415049 AATTACCGAAATACCCCTGTAGGGTA-
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
77415075 AATTTACTGAAATACCCCTGTATGGTAG
1 AA-TTACCGAAATACCCCTGTAGGGTAG
* *
77415103 AATTATCGAAATACCCCTGTAGGCTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
77415130 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
77415157 AATCACTGAAATACCCTTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * * *
77415184 AATTATTGAAATACACTTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
77415211 AATTACCG-----CCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
77415233 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
77415260 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
77415287 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
77415314 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
77415341 AATTACCAAAATACACCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
77415368 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
77415395 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
77415422 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
77415449 AATTATTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
77415476 AATTATCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
77415503 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
77415530 AATTACCG-AATACCCATGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
77415556 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
77415583 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
77415610 AATTATCTATATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
77415637 AATTACCGAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
77415664 AATTACCGAAATACTCATGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
77415691 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
77415718 AGTTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
77415745 AATTACC
1 AATTACC
77415752 ATTTTGCCCC
Statistics
Matches: 897, Mismatches: 116, Indels: 24
0.86 0.11 0.02
Matches are distributed among these distances:
22 20 0.02
25 23 0.03
26 26 0.03
27 825 0.92
28 3 0.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:77415227 original size:22 final size:22
Alignment explanation
Indices: 77415199--77415240 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
77415189 TTGAAATACA
77415199 CTTGTAGGATAGAATTACCGCC
1 CTTGTAGGATAGAATTACCGCC
*
77415221 CTTGTAGGGTAGAATTACCG
1 CTTGTAGGATAGAATTACCG
77415241 AAATACCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (22 bp):
CTTGTAGGATAGAATTACCGCC
Found at i:77416327 original size:27 final size:27
Alignment explanation
Indices: 77416297--77416361 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
77416287 ATTCTGTTAA
*
77416297 GTGGCTTTGCCAC-ATTATCTGATTCTG
1 GTGGCTTTGCCACAAATATCTG-TTCTG
*
77416324 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTTTGCCACAAATATCTGTTCTG
* *
77416351 GAGGTTTTGCC
1 GTGGCTTTGCC
77416362 TCAACTTACT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 25 0.78
28 7 0.22
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.37
Consensus pattern (27 bp):
GTGGCTTTGCCACAAATATCTGTTCTG
Found at i:77416532 original size:25 final size:25
Alignment explanation
Indices: 77416504--77416601 Score: 99
Period size: 25 Copynumber: 3.7 Consensus size: 25
77416494 TTGCATTCAC
* *
77416504 ATTCTGATTTTGATTCTG-CTACTTG
1 ATTCTGATTCTGATTCTGTC-ACCTG
*
77416529 ATTCTGATTCTAATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCA-C-----CTG
77416560 ATTCTGATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
77416585 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
77416602 AGTTCTGATA
Statistics
Matches: 62, Mismatches: 4, Indels: 14
0.77 0.05 0.17
Matches are distributed among these distances:
25 37 0.60
26 2 0.03
30 1 0.02
31 22 0.35
ACGTcount: A:0.17, C:0.20, G:0.14, T:0.48
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTG
Found at i:77416536 original size:6 final size:6
Alignment explanation
Indices: 77416504--77416610 Score: 85
Period size: 6 Copynumber: 17.3 Consensus size: 6
77416494 TTGCATTCAC
* * * * *
77416504 ATTCTG ATTTTG ATTCTG CTACTTG ATTCTG ATTCTA ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG ATTC-TG ATTCTG ATTCTG ATTCTG AT--TCTG
*
77416554 ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCT-
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
77416602 AGTTCTG AT
1 A-TTCTG AT
77416611 AATGTTTCTT
Statistics
Matches: 80, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
5 3 0.04
6 64 0.80
7 11 0.14
8 2 0.03
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:77416562 original size:31 final size:31
Alignment explanation
Indices: 77416527--77416608 Score: 146
Period size: 31 Copynumber: 2.6 Consensus size: 31
77416517 TTCTGCTACT
77416527 TGATTCTGATTCTAATTCTGTCACCTGATTC
1 TGATTCTGATTCTAATTCTGTCACCTGATTC
*
77416558 TGATTCTGATTCTGATTCTGTCACCTGATTC
1 TGATTCTGATTCTAATTCTGTCACCTGATTC
*
77416589 TGATTCTGATTCTAGTTCTG
1 TGATTCTGATTCTAATTCTG
77416609 ATAATGTTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.17, C:0.21, G:0.16, T:0.46
Consensus pattern (31 bp):
TGATTCTGATTCTAATTCTGTCACCTGATTC
Found at i:77417874 original size:43 final size:42
Alignment explanation
Indices: 77417773--77417879 Score: 108
Period size: 43 Copynumber: 2.5 Consensus size: 42
77417763 TGTAGGACTA
* * * * * *
77417773 TGTCTGGGACATCGGCATCGTATTTGATTTCGTGTAATACCC
1 TGTCTAGGACATTGGCATTGTATTTGATTACATGTAAGACCC
* * *
77417815 TGTCTTGGATAGTGGCATTGATATTTGATTACATGTAAGACCAC
1 TGTCTAGGACATTGGCATTG-TATTTGATTACATGTAAGACC-C
77417859 -GTCTAGGACATTGGCATTGTA
1 TGTCTAGGACATTGGCATTGTA
77417880 CTAGCTATCC
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
42 17 0.33
43 34 0.65
44 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (42 bp):
TGTCTAGGACATTGGCATTGTATTTGATTACATGTAAGACCC
Found at i:77419570 original size:28 final size:28
Alignment explanation
Indices: 77419538--77419607 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
77419528 AATGAGATTG
*
77419538 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
77419566 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
77419594 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
77419608 GACTTACTAC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:77422729 original size:27 final size:27
Alignment explanation
Indices: 77422665--77422731 Score: 98
Period size: 31 Copynumber: 2.3 Consensus size: 27
77422655 TTCGATTTTC
77422665 CTTGATCTAAATCCGAATTCTTTCTTT
1 CTTGATCTAAATCCGAATTCTTTCTTT
77422692 CTCCCTCGATCTAAATCCGAATTCTTTCTTT
1 CT---T-GATCTAAATCCGAATTCTTTCTTT
77422723 CTTGATCTA
1 CTTGATCTA
77422732 TATATATTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
27 8 0.22
28 1 0.03
30 1 0.03
31 26 0.72
ACGTcount: A:0.21, C:0.27, G:0.07, T:0.45
Consensus pattern (27 bp):
CTTGATCTAAATCCGAATTCTTTCTTT
Found at i:77425079 original size:31 final size:29
Alignment explanation
Indices: 77425023--77425081 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
77425013 GTGCATTATA
*
77425023 TATATATATGCTGAATTAAGTTGTAAAAG
1 TATATAAATGCTGAATTAAGTTGTAAAAG
77425052 TATATAAATG-TGAAGTTGAAGTATGTAAAA
1 TATATAAATGCTGAA-TT-AAGT-TGTAAAA
77425082 TATGAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 4 0.15
29 11 0.42
30 4 0.15
31 7 0.27
ACGTcount: A:0.44, C:0.02, G:0.19, T:0.36
Consensus pattern (29 bp):
TATATAAATGCTGAATTAAGTTGTAAAAG
Found at i:77428646 original size:47 final size:47
Alignment explanation
Indices: 77428593--77428793 Score: 368
Period size: 47 Copynumber: 4.3 Consensus size: 47
77428583 ACAAGATATG
77428593 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
77428640 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
77428687 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
77428734 TATATGTGATAAGGCCGAATGGCCAATGTGAT-AGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGA-ATGTGAAAGTGTA
*
77428781 TAAATGTGATAAG
1 TATATGTGATAAG
77428794 TCCCGAAGGG
Statistics
Matches: 150, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
46 1 0.01
47 149 0.99
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:77430713 original size:93 final size:93
Alignment explanation
Indices: 77430601--77430771 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
77430591 GCCCATAAGT
* *
77430601 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
77430666 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
77430694 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
77430759 CGAGTTCGGATGC
66 CGAGTTCGGATGC
77430772 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:77430787 original size:46 final size:46
Alignment explanation
Indices: 77430593--77430773 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
77430583 TGTAACCCGC
* * *
77430593 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
77430639 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
77430689 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
77430732 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
77430774 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:77433190 original size:30 final size:30
Alignment explanation
Indices: 77433146--77433234 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
77433136 CAAAGATAAC
77433146 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
77433175 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
77433205 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
77433235 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:77433194 original size:15 final size:15
Alignment explanation
Indices: 77433146--77433225 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
77433136 CAAAGATAAC
*
77433146 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
77433160 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
77433175 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
77433190 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
77433205 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
77433220 AAGAAA
1 AAGAAA
77433226 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:77433234 original size:15 final size:15
Alignment explanation
Indices: 77433157--77433234 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
77433147 AGAAAACCGA
77433157 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
77433172 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
77433186 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
77433201 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
77433217 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
77433232 ATA
1 ATA
77433235 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:77436300 original size:93 final size:93
Alignment explanation
Indices: 77436188--77436358 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
77436178 GCCCATAAGT
* *
77436188 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
77436253 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
77436281 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
77436346 CGAGTTCGGATGC
66 CGAGTTCGGATGC
77436359 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:77436374 original size:46 final size:46
Alignment explanation
Indices: 77436180--77436360 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
77436170 TGTAACCCGC
* * *
77436180 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
77436226 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
77436276 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
77436319 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
77436361 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Done.