Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 251 of 438
Found at i:77810227 original size:119 final size:119
Alignment explanation
Indices: 77810034--77810260 Score: 375
Period size: 119 Copynumber: 1.9 Consensus size: 119
77810024 GCTACTTGCT
* *
77810034 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGAGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGAGAATTAGCCCGG
* * *
77810099 TTATAGTAACTCGCACAATTACCTTCGGGACTTGGCCCGGTTATAGTAACTGGCA
66 ATATAGTAACTCGCACAAATACCTTC-GGACTTAGCCCGGTTATAGTAACTGGCA
* *
77810154 CAAATGCCTTCGGGACTTGGCCCGGTTATAGTAACT-GCACAAATGCCTTCGGGAATTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGAGAATTAGCCCGG
77810218 ATATAGTAACTCGCACAAATACCTTCGGACTTAGCCCGGTTAT
66 ATATAGTAACTCGCACAAATACCTTCGGACTTAGCCCGGTTAT
77810261 CAATCCGAAT
Statistics
Matches: 100, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
118 16 0.16
119 49 0.49
120 35 0.35
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGAGAATTAGCCCGG
ATATAGTAACTCGCACAAATACCTTCGGACTTAGCCCGGTTATAGTAACTGGCA
Found at i:77818266 original size:39 final size:39
Alignment explanation
Indices: 77818188--77818330 Score: 205
Period size: 39 Copynumber: 3.6 Consensus size: 39
77818178 CCGCACAAAG
* * * *
77818188 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTAGCACAATT
* *
77818228 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTAGCACAATT
* *
77818267 GTCTTCGGGCTTAGCCCAGATATCATAACTAGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTAGCACAATT
77818306 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
77818331 CTCGAACATT
Statistics
Matches: 92, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 83 0.90
40 9 0.10
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTAGCACAATT
Found at i:77820415 original size:40 final size:40
Alignment explanation
Indices: 77820190--77820387 Score: 276
Period size: 40 Copynumber: 5.0 Consensus size: 40
77820180 TCGAATGATG
* * * *
77820190 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAATTGACTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTT-ACTAAA
*
77820230 TTCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
77820270 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
77820310 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
** *
77820350 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
77820388 TAACCGGGCT
Statistics
Matches: 146, Mismatches: 9, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 134 0.92
41 11 0.08
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:77820429 original size:40 final size:40
Alignment explanation
Indices: 77820191--77820434 Score: 135
Period size: 40 Copynumber: 6.1 Consensus size: 40
77820181 CGAATGATGT
** * ** *
77820191 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAATTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGCT-ACTATAA
* * ** *
77820231 TCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGAACGAGCTACTATAA
* ** *
77820270 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
1 -CCGGGCTAAG-TCCCGAAGGCATTTGAACGAGCTACTATAA
* ** *
77820310 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
1 -CCGGGCTAAG-TCCCGAAGGCATTTGAACGAGCTACTATAA
* **
77820350 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGCTACTATAA
* * *
77820391 CCGGGCTATGTCCCGAAGGTATTTGAACGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGCTA-CTATAA
77820431 CCGG
1 CCGG
77820435 TTAAACTCCG
Statistics
Matches: 183, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
39 4 0.02
40 166 0.91
41 13 0.07
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGCTACTATAA
Found at i:77820433 original size:80 final size:79
Alignment explanation
Indices: 77820197--77820438 Score: 251
Period size: 80 Copynumber: 3.0 Consensus size: 79
77820187 ATGTCCGGGC
* ** * * **
77820197 TAAGTCCCGAAGGC-TTTGTGCTAATTGACTATATTCGGACTAAGATCCGAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGCATTTGTGCGAGCT-ACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGA
*
77820261 GTTACTAAATCCGGAC
65 GTTACTAAATCCGG-T
* **
77820277 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGA
1 TAAG-TCCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGA
77820341 GTTACTAAATCCGGGT
65 GTTACTAAATCC-GGT
* * *
77820357 TAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACG
1 TAAGTCCCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACG
*
77820420 AG-TAGCTATATCCGGT
64 AGTTA-CTAAATCCGGT
77820436 TAA
1 TAA
77820439 ACTCCGAAGG
Statistics
Matches: 143, Mismatches: 12, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
79 10 0.07
80 118 0.83
81 15 0.10
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG
TTACTAAATCCGGT
Found at i:77826142 original size:38 final size:37
Alignment explanation
Indices: 77825977--77826153 Score: 219
Period size: 37 Copynumber: 4.8 Consensus size: 37
77825967 GCTCAGGCGA
* * ** *
77825977 AATCTCCACACGAAGTTATCGGGTCTTACCTAGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
77826014 AATCTCCACACGTAGTCATCGGGTCTTACCCAGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* *
77826051 AATCTCCACACGTAGTCATCGAGTCTTACTCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
77826088 AATCTCCACACGTAGTCATCGGGTCTTAACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTT-ACCCGGACAT
* * * ** *
77826126 AGTCACAACATATAGTCATCGGGCCTTA
1 AATCTCCACACGTAGTCATCGGGTCTTA
77826154 AATCCCGGAT
Statistics
Matches: 124, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
37 94 0.76
38 30 0.24
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:77826466 original size:51 final size:49
Alignment explanation
Indices: 77826382--77826718 Score: 447
Period size: 51 Copynumber: 6.9 Consensus size: 49
77826372 TCGCATTAGT
*
77826382 CATTCGGCCTTA-C-CACATATATACATGTTCACATTCATCACATTGGC
1 CATTCGGCCTTATCACGCATATATACATGTTCACATTCATCACATTGGC
*
77826429 CATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCACATTGGC
1 CATTCGGCCTTATCACGC--ATATATACATGTTCACATTCATCACATTGGC
* ** *
77826480 CATTCGGCCTTATCA--CACATACGCATGTTCACATTCATCACATTGGT
1 CATTCGGCCTTATCACGCATATATACATGTTCACATTCATCACATTGGC
*
77826527 CATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCACATTGGC
1 CATTCGGCCTTATCACGC--ATATATACATGTTCACATTCATCACATTGGC
**
77826578 CATTCGGCCTTATCACGC--ATACGCATGTTCACATTCATCACATTGGC
1 CATTCGGCCTTATCACGCATATATACATGTTCACATTCATCACATTGGC
* *
77826625 CATTCGGCCTTATCACCCATATATATACAGGTTCACATTCATCACATTGGC
1 CATTCGGCCTTATCACGC--ATATATACATGTTCACATTCATCACATTGGC
* *
77826676 CATTCGGCCTTAT--CTCATATATGCATGTTCACATTCATCACAT
1 CATTCGGCCTTATCACGCATATATACATGTTCACATTCATCACAT
77826719 AAAATCCTAA
Statistics
Matches: 256, Mismatches: 22, Indels: 24
0.85 0.07 0.08
Matches are distributed among these distances:
47 121 0.47
48 1 0.00
49 6 0.02
51 128 0.50
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (49 bp):
CATTCGGCCTTATCACGCATATATACATGTTCACATTCATCACATTGGC
Found at i:77826485 original size:98 final size:98
Alignment explanation
Indices: 77826382--77826718 Score: 584
Period size: 98 Copynumber: 3.4 Consensus size: 98
77826372 TCGCATTAGT
* * **
77826382 CATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGC
1 CATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGC
77826447 ATATATATACAGGTTCACATTCATCACATTGGC
66 ATATATATACAGGTTCACATTCATCACATTGGC
*
77826480 CATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGTCATTCGGCCTTATCACGC
1 CATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGC
77826545 ATATATATACAGGTTCACATTCATCACATTGGC
66 ATATATATACAGGTTCACATTCATCACATTGGC
* *
77826578 CATTCGGCCTTATCACGCATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACCC
1 CATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGC
77826643 ATATATATACAGGTTCACATTCATCACATTGGC
66 ATATATATACAGGTTCACATTCATCACATTGGC
* * *
77826676 CATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACAT
1 CATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
77826719 AAAATCCTAA
Statistics
Matches: 227, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 227 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (98 bp):
CATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGC
ATATATATACAGGTTCACATTCATCACATTGGC
Found at i:77836141 original size:45 final size:46
Alignment explanation
Indices: 77836062--77836285 Score: 161
Period size: 46 Copynumber: 4.8 Consensus size: 46
77836052 CGTAAGGTGT
* * *
77836062 CGATGCGATGTCCCAGACATGGTCTTACGCTAGCTCATATCTC-AAGC
1 CGATGC-ATGTCCCTGACAT-GTCTTACACTAGCTCACATCTCGAAGC
* * * * *
77836109 TGATGCATGTCCCTGACATGTCTTACCCTAGCTTACGTCTCGAGGC
1 CGATGCATGTCCCTGACATGTCTTACACTAGCTCACATCTCGAAGC
* * * * *
77836155 CGATGCATGT-CCTAAACATGTCTTACACTAGCACTCGTCTCGATGC
1 CGATGCATGTCCCT-GACATGTCTTACACTAGCTCACATCTCGAAGC
* * * * ** *
77836201 AGATGCCATGTCCCAGACATGGTCTTACACT-GCCTCTCATAAT-GTGGT
1 CGATG-CATGTCCCTGACAT-GTCTTACACTAG-CTCACAT-CTCGAAGC
77836249 CGATGCATGT-CCTAGACATGTCTTACACTAGCTCACA
1 CGATGCATGTCCCT-GACATGTCTTACACTAGCTCACA
77836286 ATAACCCATA
Statistics
Matches: 142, Mismatches: 26, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
45 21 0.15
46 71 0.50
47 26 0.18
48 23 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCTGACATGTCTTACACTAGCTCACATCTCGAAGC
Found at i:77836160 original size:46 final size:47
Alignment explanation
Indices: 77836062--77836231 Score: 168
Period size: 46 Copynumber: 3.6 Consensus size: 47
77836052 CGTAAGGTGT
* * **
77836062 CGATGCGATGTCCCAGACATGGTCTTACGCTAGCTCATATCTC-AAGC
1 CGATGC-ATGTCCCAGACATGGTCTTACACTAGCTTACGTCTCGAAGC
* * * *
77836109 TGATGCATGTCCCTGACAT-GTCTTACCCTAGCTTACGTCTCGAGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTAGCTTACGTCTCGAAGC
* * * *
77836155 CGATGCATGTCCTAAACAT-GTCTTACACTAGCACT-CGTCTCGATGC
1 CGATGCATGTCCCAGACATGGTCTTACACTAGC-TTACGTCTCGAAGC
*
77836201 AGATGCCATGTCCCAGACATGGTCTTACACT
1 CGATG-CATGTCCCAGACATGGTCTTACACT
77836232 GCCTCTCATA
Statistics
Matches: 102, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
45 18 0.18
46 56 0.55
47 18 0.18
48 10 0.10
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGGTCTTACACTAGCTTACGTCTCGAAGC
Found at i:77838365 original size:20 final size:21
Alignment explanation
Indices: 77838340--77838378 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
77838330 ATTTCATGGA
*
77838340 AAAATTTT-CTAAGTTTTTCC
1 AAAATTTTCCAAAGTTTTTCC
77838360 AAAATTTTCCAAAGTTTTT
1 AAAATTTTCCAAAGTTTTT
77838379 AGTTTAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.13, G:0.05, T:0.49
Consensus pattern (21 bp):
AAAATTTTCCAAAGTTTTTCC
Found at i:77842759 original size:15 final size:15
Alignment explanation
Indices: 77842735--77842778 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
77842725 TATGATATCG
77842735 TATCTTGGATTTCTC
1 TATCTTGGATTTCTC
* *
77842750 TATTTTGGATTCCTC
1 TATCTTGGATTTCTC
*
77842765 TATCTTGGTTTTCT
1 TATCTTGGATTTCT
77842779 TGTCATCTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.11, C:0.18, G:0.14, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:77844426 original size:22 final size:23
Alignment explanation
Indices: 77844398--77844460 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
77844388 GCAAATACAT
*
77844398 TTGGCACACAGCCATAATCT-GG
1 TTGGCACAAAGCCATAATCTAGG
* *
77844420 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAATCTAGG
*
77844442 TTGGCGCAAAGCCATAATC
1 TTGGCACAAAGCCATAATC
77844461 AAAACAATTG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 3 0.09
22 29 0.85
23 2 0.06
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (23 bp):
TTGGCACAAAGCCATAATCTAGG
Found at i:77844666 original size:41 final size:41
Alignment explanation
Indices: 77844604--77844685 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
77844594 TAAAAGCCAC
77844604 CGGTGGATCCACGAGCATCAAGCAACCATAAGATCCTTAAT
1 CGGTGGATCCACGAGCATCAAGCAACCATAAGATCCTTAAT
* **
77844645 CGGTGGATCCAC-AGTCGTCAAGCAACCATGCGATCCTTAAT
1 CGGTGGATCCACGAG-CATCAAGCAACCATAAGATCCTTAAT
77844686 TTCTTCCTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 2 0.05
41 35 0.95
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (41 bp):
CGGTGGATCCACGAGCATCAAGCAACCATAAGATCCTTAAT
Found at i:77844955 original size:27 final size:27
Alignment explanation
Indices: 77844903--77845275 Score: 236
Period size: 27 Copynumber: 13.8 Consensus size: 27
77844893 TTTAACCCTA
* * * * *
77844903 CAAGGGTGTTTTGGTAAATTTACAAAC
1 CAAGGGTATTTCGATAATTTTACAAAT
*
77844930 CAAGGGTATTTCGATAATTTTGCAAAT
1 CAAGGGTATTTCGATAATTTTACAAAT
* * **
77844957 CAATGGTACTTC-AGTAATTTTTTAAAGT
1 CAAGGGTATTTCGA-TAATTTTACAAA-T
* * **
77844985 TAAAGGTATTTCTG-TAATTTTGTAAAT
1 CAAGGGTATTTC-GATAATTTTACAAAT
* * *
77845012 CAGGGGTATTTTTG-TAATTTTCCAAAT
1 CAAGGGTA-TTTCGATAATTTTACAAAT
**
77845039 CAAGGGTATTTCGATAATTTCCCAAAT
1 CAAGGGTATTTCGATAATTTTACAAAT
* *
77845066 C-AGGAGTATTTTGGTAATTTTACAAAT
1 CAAGG-GTATTTCGATAATTTTACAAAT
* *
77845093 CAAGGGTAATTCGATAATTTTACAAGT
1 CAAGGGTATTTCGATAATTTTACAAAT
* * **
77845120 CGAGGGTATTTCGGTAATTTTACAGGT
1 CAAGGGTATTTCGATAATTTTACAAAT
* *
77845147 CGAGGGTATTTCGATAATTTCACAAAT
1 CAAGGGTATTTCGATAATTTTACAAAT
* * * *
77845174 -TAGGAGTATTTTGGTAATTTCACAAAT
1 CAAGG-GTATTTCGATAATTTTACAAAT
* * *
77845201 CAGGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTCGATAATTTTACAAAT
* * * * *
77845227 CTAGGGGTATTTTGGTAATTTTGCTAAT
1 C-AAGGGTATTTCGATAATTTTACAAAT
* * * *
77845255 CGAGTGTATTTTGGTAATTTT
1 CAAGGGTATTTCGATAATTTT
77845276 GTAAACCAAA
Statistics
Matches: 284, Mismatches: 50, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
26 12 0.04
27 242 0.85
28 30 0.11
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCGATAATTTTACAAAT
Found at i:77845066 original size:54 final size:54
Alignment explanation
Indices: 77844906--77845275 Score: 332
Period size: 54 Copynumber: 6.8 Consensus size: 54
77844896 AACCCTACAA
* * * * *
77844906 GGGTGTTTTGGTAAATTTACAAACCAAGGGTATTTCGATAATTTTGCAAATCAA
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCAG
* * ** ** * * **
77844960 TGGTACTTCAGTAATTTTTTAAAGTTAAAGGTATTTCTG-TAATTTTGTAAATCAG
1 GGGTATTTTGGTAATTTTACAAA-TCAAGGGTATTTC-GATAATTTTACAAATCAG
* * **
77845015 GGGTATTTTTGTAATTTTCCAAATCAAGGGTATTTCGATAATTTCCCAAATCAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCAG
* * *
77845069 GAGTATTTTGGTAATTTTACAAATCAAGGGTAATTCGATAATTTTACAAGTC-G
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCAG
* ** * * *
77845122 AGGGTATTTCGGTAATTTTACAGGTCGAGGGTATTTCGATAATTTCACAAATTAG
1 -GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCAG
* * * * *
77845177 GAGTATTTTGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATC-AG
* * * * * *
77845231 GGGTATTTTGGTAATTTTGCTAATCGAGTGTATTTTGGTAATTTT
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTT
77845276 GTAAACCAAA
Statistics
Matches: 252, Mismatches: 58, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
53 2 0.01
54 207 0.82
55 42 0.17
56 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCAG
Found at i:77845289 original size:27 final size:26
Alignment explanation
Indices: 77845206--77845317 Score: 91
Period size: 27 Copynumber: 4.2 Consensus size: 26
77845196 CAAATCAGGG
** * * *
77845206 GTATTTTGGTAATTTTACAAACTAGGG
1 GTATTTTGGTAATTTT-GTAACCAAGT
* *
77845233 GTATTTTGGTAATTTTGCTAATCGAGT
1 GTATTTTGGTAATTTTG-TAACCAAGT
*
77845260 GTATTTTGGTAATTTTGTAAACCAAAT
1 GTATTTTGGTAATTTTGT-AACCAAGT
** *
77845287 GTA-TTCAGTAATTTTGTAACCAAGG
1 GTATTTTGGTAATTTTGTAACCAAGT
77845312 GTATTT
1 GTATTT
77845318 CAGTAATTCT
Statistics
Matches: 68, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
25 9 0.13
26 15 0.22
27 44 0.65
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.44
Consensus pattern (26 bp):
GTATTTTGGTAATTTTGTAACCAAGT
Found at i:77845315 original size:25 final size:27
Alignment explanation
Indices: 77845268--77845325 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
77845258 GTGTATTTTG
*
77845268 GTAATTTTGTAAACCAAATGTA-TTCA
1 GTAATTTTGTAAACCAAAGGTATTTCA
*
77845294 GTAATTTTGT-AACCAAGGGTATTTCA
1 GTAATTTTGTAAACCAAAGGTATTTCA
77845320 GTAATT
1 GTAATT
77845326 CTACCCTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 9 0.31
26 20 0.69
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTGTAAACCAAAGGTATTTCA
Found at i:77845349 original size:27 final size:27
Alignment explanation
Indices: 77845307--77845414 Score: 153
Period size: 27 Copynumber: 4.0 Consensus size: 27
77845297 ATTTTGTAAC
77845307 CAAGGGTATTTCAGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* * * *
77845334 TAGGGGTATTTTAGTAATTCTATCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
*
77845361 CAAGGGCATTTCAGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* *
77845388 CAAGGGTATTTCAGTAATACTAGCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
77845415 TAGATATGAG
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTCTACCCTA
Found at i:77859989 original size:5 final size:5
Alignment explanation
Indices: 77859979--77860026 Score: 51
Period size: 5 Copynumber: 8.6 Consensus size: 5
77859969 TAAAGACTTT
77859979 TTTTA TTTTA TTTTA TTTTTA TTTTTA TTTTCAA TTTTA TCTTTA TTT
1 TTTTA TTTTA TTTTA -TTTTA -TTTTA TTTT--A TTTTA T-TTTA TTT
77860027 ATCTTCTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
5 18 0.46
6 16 0.41
7 5 0.13
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:77859998 original size:6 final size:6
Alignment explanation
Indices: 77859978--77860026 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
77859968 TTAAAGACTT
* * *
77859978 TTTTTA -TTTTA -TTTTA TTTTTA TTTTTA TTTTCA ATTTTA TCTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
77860024 TTT
1 TTT
77860027 ATCTTCTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
5 10 0.28
6 26 0.72
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:77860015 original size:24 final size:22
Alignment explanation
Indices: 77859978--77860026 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 22
77859968 TTAAAGACTT
*
77859978 TTTTTATTTTATTTTATTTTTA
1 TTTTTATTTTATTTTATCTTTA
77860000 TTTTTATTTTCAATTTTATCTTTA
1 TTTTTATTTT--ATTTTATCTTTA
77860024 TTT
1 TTT
77860027 ATCTTCTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 10 0.42
24 14 0.58
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTTATTTTATTTTATCTTTA
Found at i:77860054 original size:24 final size:25
Alignment explanation
Indices: 77860020--77860076 Score: 75
Period size: 24 Copynumber: 2.3 Consensus size: 25
77860010 CAATTTTATC
77860020 TTTA-TTTATCTTC-TTTAAGTACT-
1 TTTATTTTATCTTCATTTAA-TACTA
77860043 TTTATTTTATCTTCATTTAATACTA
1 TTTATTTTATCTTCATTTAATACTA
77860068 TTTCATTTT
1 TTT-ATTTT
77860077 TAGGTTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 4 0.13
24 13 0.43
25 8 0.27
26 5 0.17
ACGTcount: A:0.23, C:0.12, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTATTTTATCTTCATTTAATACTA
Found at i:77863460 original size:17 final size:18
Alignment explanation
Indices: 77863418--77863466 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
77863408 AGTTGAAAAG
77863418 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
77863437 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
77863454 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
77863467 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:77864345 original size:39 final size:40
Alignment explanation
Indices: 77864287--77864387 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
77864277 AAATTGAATG
* *
77864287 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
77864326 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
77864366 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
77864388 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:77864380 original size:40 final size:40
Alignment explanation
Indices: 77864287--77864469 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
77864277 AAATTGAATG
* * * * *
77864287 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
77864326 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
77864366 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
77864406 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
77864446 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
77864470 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:77871493 original size:17 final size:18
Alignment explanation
Indices: 77871451--77871499 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
77871441 AGTTGAAAAG
77871451 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
77871470 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
77871487 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
77871500 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:77872422 original size:40 final size:40
Alignment explanation
Indices: 77872320--77872503 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
77872310 AAATTGAATG
* * * * *
77872320 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
77872360 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
77872400 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
77872440 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
77872480 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
77872504 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:77878261 original size:24 final size:24
Alignment explanation
Indices: 77878234--77878323 Score: 146
Period size: 24 Copynumber: 3.8 Consensus size: 24
77878224 CTCCTTGATT
*
77878234 AGCTCCTAAATCTTCT-CCTCTATC
1 AGCTCCTAAATCCTCTCCCT-TATC
77878258 AGCTCCTAAATCCTCTCCCTTATC
1 AGCTCCTAAATCCTCTCCCTTATC
77878282 AGCTCCTAAATCCTCTCCCTTATC
1 AGCTCCTAAATCCTCTCCCTTATC
*
77878306 AGCTCCTAAATCTTCTCC
1 AGCTCCTAAATCCTCTCC
77878324 TGACAGCCTT
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
24 60 0.95
25 3 0.05
ACGTcount: A:0.21, C:0.40, G:0.04, T:0.34
Consensus pattern (24 bp):
AGCTCCTAAATCCTCTCCCTTATC
Found at i:77884361 original size:24 final size:23
Alignment explanation
Indices: 77884328--77884432 Score: 147
Period size: 24 Copynumber: 4.4 Consensus size: 23
77884318 GCCGGCCAAT
77884328 TCTTGCTCCTTGATCAGCTCCTAAA
1 TCTT-CTCCTT-ATCAGCTCCTAAA
*
77884353 TCTTCTCCTTTATCAGCTCTTAAA
1 TCTTCTCC-TTATCAGCTCCTAAA
*
77884377 TCCTCTCCCTTATCAGCTCCTAAA
1 TCTTCT-CCTTATCAGCTCCTAAA
*
77884401 TCCTCTCCTTATCAGCTCCTAAA
1 TCTTCTCCTTATCAGCTCCTAAA
77884424 TCTTCTCCT
1 TCTTCTCCT
77884433 GACAGCCTTT
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
23 25 0.34
24 41 0.55
25 8 0.11
ACGTcount: A:0.19, C:0.36, G:0.06, T:0.39
Consensus pattern (23 bp):
TCTTCTCCTTATCAGCTCCTAAA
Found at i:77885685 original size:30 final size:30
Alignment explanation
Indices: 77885651--77885708 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
77885641 AATTGATTTT
* *
77885651 CAAGTCTAGGGGTAAAATGGTCATTTTGTG
1 CAAGTCTAAGGGCAAAATGGTCATTTTGTG
77885681 CAAGTCTAAGGGCAAAATGGTCATTTTG
1 CAAGTCTAAGGGCAAAATGGTCATTTTG
77885709 CCCAATTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.31
Consensus pattern (30 bp):
CAAGTCTAAGGGCAAAATGGTCATTTTGTG
Found at i:77886192 original size:48 final size:50
Alignment explanation
Indices: 77886132--77886256 Score: 130
Period size: 48 Copynumber: 2.5 Consensus size: 50
77886122 GAGATGTGTC
* ** * *
77886132 AGTGTAATACCATGTCTAGGACATGGCATCAGCACTTATA-GAG-GTGTT
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCACGAATATGAGAGAGCT
* * * *
77886180 TGTGTAAGACCATGTCT-GAGATATGGCATCGGCACGAATATGTGAGAGCT
1 AGTGTAAGACCATGTCTAG-GACATGGCATCAGCACGAATATGAGAGAGCT
*
77886230 AGTGTAAGACCATGTCTACGACATGGC
1 AGTGTAAGACCATGTCTAGGACATGGC
77886257 GTTGACCTCA
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
47 1 0.02
48 32 0.52
49 2 0.03
50 26 0.43
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCAGCACGAATATGAGAGAGCT
Found at i:77888543 original size:15 final size:13
Alignment explanation
Indices: 77888512--77888536 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77888502 TATTTAAAAA
77888512 TTATTTTTTGTGT
1 TTATTTTTTGTGT
77888525 TTATTTTTTGTG
1 TTATTTTTTGTG
77888537 AATTTATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.16, T:0.76
Consensus pattern (13 bp):
TTATTTTTTGTGT
Found at i:77893087 original size:27 final size:27
Alignment explanation
Indices: 77893057--77893143 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
77893047 CGATTTACAA
*
77893057 AATTATTAAAATACCCCTGTAGGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
77893084 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
* * * * *
77893111 AATTACTGAGATACCCTTGTGGGGTAA
1 AATTACTAAAATACCCCTGTAGGGTAG
77893138 AATTAC
1 AATTAC
77893144 CATTTTGCCC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (27 bp):
AATTACTAAAATACCCCTGTAGGGTAG
Found at i:77893610 original size:25 final size:26
Alignment explanation
Indices: 77893579--77893641 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
77893569 TTGTGCCACG
* *
77893579 TATTCTGTTAAGTGGCTTTGCCACAT
1 TATTCTGTTAAGTGGCTCTGCCACAA
*
77893605 TA-TCTGGTTCTAGTGGCTCTGCCACAA
1 TATTCT-GTT-AAGTGGCTCTGCCACAA
77893632 TATTCTGTTA
1 TATTCTGTTA
77893642 TTAGCAGCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
25 3 0.10
26 5 0.17
27 19 0.63
28 3 0.10
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (26 bp):
TATTCTGTTAAGTGGCTCTGCCACAA
Found at i:77893789 original size:25 final size:25
Alignment explanation
Indices: 77893761--77893822 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
77893751 CATTCACATT
77893761 CTGATTCTGATTATGGT-ACCTAATA
1 CTGATTCTGATT-TGGTCACCTAATA
* *
77893786 CTGATTCTGATTTTGTCACCTAATT
1 CTGATTCTGATTTGGTCACCTAATA
77893811 CTGATTCTGATT
1 CTGATTCTGATT
77893823 CTGATTCTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
24 3 0.09
25 31 0.91
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.45
Consensus pattern (25 bp):
CTGATTCTGATTTGGTCACCTAATA
Found at i:77893819 original size:6 final size:6
Alignment explanation
Indices: 77893808--77893857 Score: 66
Period size: 6 Copynumber: 8.3 Consensus size: 6
77893798 TTGTCACCTA
* *
77893808 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
77893856 AT
1 AT
77893858 AATGTTTCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
5 1 0.03
6 36 0.95
7 1 0.03
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.52
Consensus pattern (6 bp):
ATTCTG
Found at i:77895949 original size:27 final size:27
Alignment explanation
Indices: 77895926--77896060 Score: 162
Period size: 27 Copynumber: 5.0 Consensus size: 27
77895916 CAAAATTATT
* * *
77895926 GAAATATCCCTGTAAGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
77895953 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
77895980 GAAATACCCTTGTCGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
77896007 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
77896034 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
77896061 ATTTTGCCCC
Statistics
Matches: 91, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:77896463 original size:20 final size:20
Alignment explanation
Indices: 77896416--77896463 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
77896406 TGAAGGCTGT
*
77896416 GTGCCGTTATTGTAGGCTTC
1 GTGCCGATATTGTAGGCTTC
**
77896436 GTATCGATATTGT-GGACTTC
1 GTGCCGATATTGTAGG-CTTC
77896456 GTGCCGAT
1 GTGCCGAT
77896464 TATAGACCCG
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.15, C:0.19, G:0.29, T:0.38
Consensus pattern (20 bp):
GTGCCGATATTGTAGGCTTC
Found at i:77896629 original size:6 final size:6
Alignment explanation
Indices: 77896620--77896719 Score: 80
Period size: 6 Copynumber: 16.3 Consensus size: 6
77896610 TTGCATTCAC
* * *
77896620 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
77896669 ATTCT- ATCACCTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
77896718 AT
1 AT
77896720 AATTTTTCTT
Statistics
Matches: 74, Mismatches: 12, Indels: 16
0.73 0.12 0.16
Matches are distributed among these distances:
5 4 0.05
6 62 0.84
7 5 0.07
8 3 0.04
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:77896671 original size:37 final size:37
Alignment explanation
Indices: 77896620--77896711 Score: 148
Period size: 37 Copynumber: 2.5 Consensus size: 37
77896610 TTGCATTCAC
* *
77896620 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTG
1 ATTCTGATTTTGATTCTATCACCTAATTCTGATTCTG
*
77896657 ATTCTGATTTTGATTCTATCACCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTATCACCTAATTCTGATTCTG
*
77896694 ATTCTCATTTTGATTCTA
1 ATTCTGATTTTGATTCTA
77896712 GTTCTGATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.49
Consensus pattern (37 bp):
ATTCTGATTTTGATTCTATCACCTAATTCTGATTCTG
Found at i:77902417 original size:46 final size:46
Alignment explanation
Indices: 77902270--77902489 Score: 155
Period size: 46 Copynumber: 4.7 Consensus size: 46
77902260 TTATTTGTGT
* * * * **
77902270 GCCAGTGCAAGACATGTCTAGGACATGCATCGACCACATTATG-AGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTA-A
* * * * ** *
77902316 GCCAGTGTGAGACCATTTCTGGGACATGGCATCGACATTGAGA--CAA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGATGTAA
*
77902362 GATCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAA
1 G--CCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAA
* * * *
77902410 GCCAGTGTAAGACATGCCTGGGACATGTATCGG-TTACGAGATGT--
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAAGATGTAA
*
77902454 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
77902490 ACGTATAGAG
Statistics
Matches: 137, Mismatches: 26, Indels: 21
0.74 0.14 0.11
Matches are distributed among these distances:
44 11 0.08
45 14 0.10
46 65 0.47
47 26 0.19
48 21 0.15
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAA
Found at i:77902514 original size:48 final size:45
Alignment explanation
Indices: 77902367--77902521 Score: 156
Period size: 46 Copynumber: 3.4 Consensus size: 45
77902357 GACAAGATCT
*
77902367 AGTGTAAGACATGTCTGGGACATGCATCGGC-C-TCAAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCACGT-AAGATGT--GTC
* * *
77902413 AGTGTAAGACATGCCTGGGACATGTATCGGTTACG--AGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CACGTAAGATGTGTC
* *
77902457 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGTG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACGTA-AGATGTGTC
77902505 AGTGTAAGACCATGTCT
1 AGTGTAAGA-CATGTCT
77902522 AAAATATGGC
Statistics
Matches: 92, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
44 11 0.12
45 16 0.17
46 40 0.43
48 25 0.27
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCACGTAAGATGTGTC
Found at i:77905101 original size:21 final size:21
Alignment explanation
Indices: 77905077--77905118 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
77905067 GAAAGAAGAA
77905077 GACTAAGATAGGGTTCGACAC
1 GACTAAGATAGGGTTCGACAC
77905098 GACTAAGATAGGGTTCGACAC
1 GACTAAGATAGGGTTCGACAC
77905119 TCATTTTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (21 bp):
GACTAAGATAGGGTTCGACAC
Found at i:77912248 original size:31 final size:31
Alignment explanation
Indices: 77912210--77912284 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
77912200 ACGGTTACTG
77912210 GGCCGAAGCCTTTTCATAAATCATATCACTA
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
* *
77912241 GGCCGAAGCCTTTTCATAAATCATATCATTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
77912272 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
77912285 ACTGTAAACG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTA
Found at i:77912355 original size:42 final size:42
Alignment explanation
Indices: 77912308--77912399 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
77912298 TGGCCCTTAG
* ** *
77912308 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
77912350 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
77912392 GCCGATTT
1 GCCCATTT
77912400 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:77912623 original size:52 final size:53
Alignment explanation
Indices: 77912544--77912668 Score: 218
Period size: 52 Copynumber: 2.4 Consensus size: 53
77912534 CCTCTTTAAT
* *
77912544 AACTGGGGCA-AAGCTCTTTTCGGTAAACTGGGGCATAAGCCC-TTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTTTCAATA
77912595 AACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTTTCAATA
77912648 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
77912669 GCACTTCCTC
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
51 10 0.14
52 30 0.43
53 30 0.43
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (53 bp):
AACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTTTCAATA
Found at i:77912650 original size:27 final size:26
Alignment explanation
Indices: 77912544--77912668 Score: 198
Period size: 26 Copynumber: 4.8 Consensus size: 26
77912534 CCTCTTTAAT
* **
77912544 AACTGGGGCA-AAGCTCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
77912569 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
77912595 AACTGGGGCATAAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCAATA
77912621 AACTGGGGCATAAGCCCTTTTTCAATA
1 AACTGGGGCATAAGCCC-TTTTCAATA
77912648 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
77912669 GCACTTCCTC
Statistics
Matches: 93, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
25 10 0.11
26 58 0.62
27 25 0.27
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:77913531 original size:27 final size:27
Alignment explanation
Indices: 77913469--77913546 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
77913459 GGGCATATTC
77913469 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
77913496 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
77913523 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
77913547 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:77913682 original size:56 final size:54
Alignment explanation
Indices: 77913565--77913764 Score: 170
Period size: 56 Copynumber: 3.7 Consensus size: 54
77913555 TTCATCCTAT
* * * * **
77913565 AAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAATC
1 AAGGGTATTTTGATAATTTTACAAATTAAGGGTATTTCAGTAATTTTGTAAATC
* * * *
77913619 AATGGTATTTCT-ATAATTTTTAGAAAGTTAAGGGTATTTCTGTAATTTTGTAAATT
1 AAGGGTATTT-TGATAA-TTTTACAAA-TTAAGGGTATTTCAGTAATTTTGTAAATC
* * * * ***
77913675 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-C
1 AAGGGTATTTTGATAATTTTACAAATTAAGGGTATTTCAGTAATTTTGTAAATC
* * * *
77913728 TAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTT
1 AAGGGTATTTTGATAATTTTACAAATTAAGGGTATTT
77913765 TGGTAATTCT
Statistics
Matches: 117, Mismatches: 25, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
53 32 0.27
54 33 0.28
55 16 0.14
56 36 0.31
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.41
Consensus pattern (54 bp):
AAGGGTATTTTGATAATTTTACAAATTAAGGGTATTTCAGTAATTTTGTAAATC
Found at i:77913690 original size:27 final size:27
Alignment explanation
Indices: 77913650--77913772 Score: 153
Period size: 27 Copynumber: 4.6 Consensus size: 27
77913640 AGAAAGTTAA
** *
77913650 GGGTATTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
*
77913677 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
77913703 AGGGTATTTCGGTAATTTCACAAACTA-
1 -GGGTATTTTGGTAATTTTACAAACTAG
77913730 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
77913757 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
77913773 CTATCCTACA
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
26 27 0.32
27 56 0.67
28 1 0.01
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:77913799 original size:53 final size:53
Alignment explanation
Indices: 77913649--77913772 Score: 160
Period size: 53 Copynumber: 2.3 Consensus size: 53
77913639 TAGAAAGTTA
* *** * *
77913649 AGGGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTCACAAACTA-GGGTATTTTGGTAATTTTACAAATAG
77913703 AGGGTATTTCGGTAATTTCACAAACTAGGGTATTTTGGTAATTTTACAAACTAG
1 AGGGTATTTCGGTAATTTCACAAACTAGGGTATTTTGGTAATTTTACAAA-TAG
*
77913757 -GGGTATTTTGGTAATT
1 AGGGTATTTCGGTAATT
77913773 CTATCCTACA
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
53 38 0.61
54 24 0.39
ACGTcount: A:0.28, C:0.06, G:0.23, T:0.43
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTCACAAACTAGGGTATTTTGGTAATTTTACAAATAG
Found at i:77913869 original size:27 final size:27
Alignment explanation
Indices: 77913803--77913999 Score: 222
Period size: 27 Copynumber: 7.3 Consensus size: 27
77913793 GTAATTTCAC
* *
77913803 AATCGAGAGTAAAACGGTAATTTT-TA
1 AATCGAGGGTAAAATGGTAATTTTATA
*
77913829 AA-CTGAAGGG-AAAATGGTAATTTTGTA
1 AATC-G-AGGGTAAAATGGTAATTTTATA
* * *
77913856 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTATA
77913883 AATCGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTTTATA
*
77913910 AATCGAGGGTAAAACT-GTAATTTTGTA
1 AATCGAGGGTAAAA-TGGTAATTTTATA
* ** *
77913937 AATCGAGGGTGAAACAGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTATA
* *
77913964 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTTTATA
77913991 AATCGAGGG
1 AATCGAGGG
77914000 CATTTTAGTA
Statistics
Matches: 148, Mismatches: 16, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
25 1 0.01
26 20 0.14
27 125 0.84
28 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTATA
Found at i:77913914 original size:54 final size:54
Alignment explanation
Indices: 77913803--77913999 Score: 247
Period size: 54 Copynumber: 3.7 Consensus size: 54
77913793 GTAATTTCAC
* * *
77913803 AATCGAGAGTAAAACGGTAATT-TTTAAA-CTGAAGGG-AAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATC-G-AGGGTAAAATGGTAATTTTATA
77913856 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTATA
* * * ** *
77913910 AATCGAGGGTAAAACTGTAATTTTGTAAATCGAGGGTGAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTATA
* **
77913964 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGG
77914000 CATTTTAGTA
Statistics
Matches: 127, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
53 25 0.20
54 101 0.80
55 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTATA
Found at i:77913957 original size:81 final size:80
Alignment explanation
Indices: 77913803--77913999 Score: 274
Period size: 81 Copynumber: 2.5 Consensus size: 80
77913793 GTAATTTCAC
* *
77913803 AATCGAGAGTAAAACGGTAATTTT-TAAA-CTGAAGGGAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTTTATAAATC-G-AGGGAAAATGGTAATTTTGTAAATCGAGGGT
* *
77913866 AAAACGGTAATTCTGTA
64 AAAACAGTAATTCTATA
77913883 AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACT-GTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGG-AAAA-TGGTAATTTTGTAAATCGAGGGT
*
77913947 GAAACAGTAATTCTATA
64 AAAACAGTAATTCTATA
* *
77913964 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGG
77914000 CATTTTAGTA
Statistics
Matches: 106, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
80 26 0.25
81 78 0.74
82 2 0.02
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (80 bp):
AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGAAAATGGTAATTTTGTAAATCGAGGGTAA
AACAGTAATTCTATA
Found at i:77918198 original size:20 final size:20
Alignment explanation
Indices: 77918173--77918218 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
77918163 AGCATATAAA
77918173 TTATAACCCATAATTATTTT
1 TTATAACCCATAATTATTTT
****
77918193 TTATAATTTTTAATTATTTT
1 TTATAACCCATAATTATTTT
77918213 TTATAA
1 TTATAA
77918219 TTTTTAATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.59
Consensus pattern (20 bp):
TTATAACCCATAATTATTTT
Found at i:77918219 original size:20 final size:20
Alignment explanation
Indices: 77918183--77918231 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
77918173 TTATAACCCA
77918183 TAATTATTTTTTATAATTTT
1 TAATTATTTTTTATAATTTT
77918203 TAATTATTTTTTATAATTTT
1 TAATTATTTTTTATAATTTT
77918223 TAATTATTT
1 TAATTATTT
77918232 CCAAAATCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TAATTATTTTTTATAATTTT
Found at i:77918231 original size:10 final size:10
Alignment explanation
Indices: 77918183--77918231 Score: 62
Period size: 10 Copynumber: 4.9 Consensus size: 10
77918173 TTATAACCCA
77918183 TAATTATTTT
1 TAATTATTTT
* *
77918193 TTATAATTTT
1 TAATTATTTT
77918203 TAATTATTTT
1 TAATTATTTT
* *
77918213 TTATAATTTT
1 TAATTATTTT
77918223 TAATTATTT
1 TAATTATTT
77918232 CCAAAATCAG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TAATTATTTT
Found at i:77918754 original size:52 final size:51
Alignment explanation
Indices: 77918677--77918774 Score: 178
Period size: 52 Copynumber: 1.9 Consensus size: 51
77918667 CATAGTAGTG
77918677 AAAGCTACCTTCTTCACAAAGTGGCCTTCACATAGTACCACACTTGTGACC
1 AAAGCTACCTTCTTCACAAAGTGGCCTTCACATAGTACCACACTTGTGACC
*
77918728 AAAGCTATCTTTCTTCACAAAGTGGCCTTCACATAGTACCACACTTG
1 AAAGCTA-CCTTCTTCACAAAGTGGCCTTCACATAGTACCACACTTG
77918775 AGTCACTAGT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 7 0.16
52 38 0.84
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.28
Consensus pattern (51 bp):
AAAGCTACCTTCTTCACAAAGTGGCCTTCACATAGTACCACACTTGTGACC
Found at i:77920035 original size:49 final size:48
Alignment explanation
Indices: 77919950--77920064 Score: 146
Period size: 49 Copynumber: 2.4 Consensus size: 48
77919940 TGAGTAATGC
*
77919950 GATCCCATGTACGACCATGTTTGGGACATGAAATTGGCATCGA-TATGT
1 GATCCCATGTAAGACCATGTTTGGGACATGAAATTGGCATC-ATTATGT
* *
77919998 GAGGTCCCATGTAGGACCAT-TTTGGGACAT-AGCATTGGCATCATTATGT
1 GA--TCCCATGTAAGACCATGTTTGGGACATGA-AATTGGCATCATTATGT
77920047 GATCCCATGTAAGACCAT
1 GATCCCATGTAAGACCAT
77920065 ATCTGGGATG
Statistics
Matches: 60, Mismatches: 3, Indels: 9
0.83 0.04 0.12
Matches are distributed among these distances:
47 15 0.25
48 4 0.07
49 26 0.43
50 15 0.25
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTTTGGGACATGAAATTGGCATCATTATGT
Found at i:77922868 original size:93 final size:93
Alignment explanation
Indices: 77922709--77922928 Score: 232
Period size: 93 Copynumber: 2.4 Consensus size: 93
77922699 TTTGTGAGCT
* *
77922709 AGTGTAAGACATGTCTGAGACATGGCATCGGCATTGAGACAAGAGCTAGAGTAAGACATGTCTGG
1 AGTGTAAGACATGTCTGAGACATGGCATCGACATCGAGACAAGAGCTAGAGTAAGACATGTCTGG
* *
77922774 GACAT-GCATCGGCCTCAAGACGTAAGCC
66 GAAATGGCATC-GACTCAAGACGTAAGCC
** * * *
77922802 AGTGTAAGACATGTCTGAGACATGG-ATCGAC-TACGAGATGATAG-TCAGTGTAAGACCATGTT
1 AGTGTAAGACATGTCTGAGACATGGCATCGACAT-CGAGACAAGAGCT-AGAGTAAGA-CATGTC
** * * *
77922864 TGGGAAATGGCATCGACTTGAGATGTGAGCT
63 TGGGAAATGGCATCGACTCAAGACGTAAGCC
*
77922895 AGTGTAAGACCATGTCTGGGACATGGCATCGACA
1 AGTGTAAGA-CATGTCTGAGACATGGCATCGACA
77922929 CCTTACCCAT
Statistics
Matches: 105, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
91 2 0.02
92 20 0.19
93 57 0.54
94 20 0.19
95 6 0.06
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGAGACATGGCATCGACATCGAGACAAGAGCTAGAGTAAGACATGTCTGG
GAAATGGCATCGACTCAAGACGTAAGCC
Found at i:77922926 original size:47 final size:46
Alignment explanation
Indices: 77922701--77922927 Score: 219
Period size: 47 Copynumber: 4.9 Consensus size: 46
77922691 GTCATTTGTT
* * *
77922701 TGTGAGCTAGTGTAAGACATGTCTGAGACATGGCATCGGCATTGAGA
1 TGTGAGCTAGTGTAAGACATGTCTGGGACATGGCATCGAC-TCGAGA
*** * * *
77922748 CAAGAGCTAGAGTAAGACATGTCTGGGACAT-GCATCGGCCTCAAGA
1 TGTGAGCTAGTGTAAGACATGTCTGGGACATGGCATC-GACTCGAGA
* * * *
77922794 CGTAAGCCAGTGTAAGACATGTCTGAGACATGG-ATCGACTACGAGA
1 TGTGAGCTAGTGTAAGACATGTCTGGGACATGGCATCGACT-CGAGA
* * *
77922840 TGAT-AG-TCAGTGTAAGACCATGTTTGGGAAATGGCATCGACTTGAGA
1 TG-TGAGCT-AGTGTAAGA-CATGTCTGGGACATGGCATCGACTCGAGA
77922887 TGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 TGTGAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGAC
77922928 ACCTTACCCA
Statistics
Matches: 147, Mismatches: 24, Indels: 18
0.78 0.13 0.10
Matches are distributed among these distances:
45 3 0.02
46 54 0.37
47 82 0.56
48 8 0.05
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (46 bp):
TGTGAGCTAGTGTAAGACATGTCTGGGACATGGCATCGACTCGAGA
Found at i:77924045 original size:20 final size:21
Alignment explanation
Indices: 77924007--77924045 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
77923997 CCGAGTCGGT
*
77924007 CACACGGGCGTGTTGCCCTTC
1 CACACGGGCGTGATGCCCTTC
77924028 CACACGGGCGT-ATGCCCT
1 CACACGGGCGTGATGCCCT
77924046 GTTTTAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.13, C:0.38, G:0.28, T:0.21
Consensus pattern (21 bp):
CACACGGGCGTGATGCCCTTC
Found at i:77928156 original size:138 final size:138
Alignment explanation
Indices: 77927899--77928159 Score: 337
Period size: 138 Copynumber: 1.9 Consensus size: 138
77927889 CCTGGGTTTC
* * * * *
77927899 ATTTTTCTCCTACTCACATTTGTATTTTTTATTTTATATTGTTTTAAACTTTTAAACTTTTTAAT
1 ATTTTTCTCCTACTCAAATTTATATTTTTTATTATATATTGCTTCAAACTTTTAAACTTTTTAAT
* * * *
77927964 TAATTTTTTAACATATTAGTTCTTTAGTTAGATGATTAGATAGTTGCAAATACATCATTGATTCT
66 TAATTTTTTAACATATTAGTACTTTAGTTAGATGACTAGATAGCTACAAATACATCATTGATTCT
77928029 CGTGTTCA
131 CGTGTTCA
* * **
77928037 ATTTTT-TCCTATTCAAATTTATATTTTTTATTATATGTTGCTTCAAGTTTTTTAAA-TTTTTAA
1 ATTTTTCTCCTACTCAAATTTATATTTTTTATTATATATTGCTTCAA-ACTTTTAAACTTTTTAA
* * * *
77928100 TTAATTTTTTTAACATATTAGTACTTTTGTTAGATGACTATATTGCTACAATTACATCAT
65 TTAA-TTTTTTAACATATTAGTACTTTAGTTAGATGACTAGATAGCTACAAATACATCAT
77928160 CAAGTCGGAG
Statistics
Matches: 104, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
137 44 0.42
138 60 0.58
ACGTcount: A:0.28, C:0.11, G:0.08, T:0.53
Consensus pattern (138 bp):
ATTTTTCTCCTACTCAAATTTATATTTTTTATTATATATTGCTTCAAACTTTTAAACTTTTTAAT
TAATTTTTTAACATATTAGTACTTTAGTTAGATGACTAGATAGCTACAAATACATCATTGATTCT
CGTGTTCA
Found at i:77934228 original size:15 final size:14
Alignment explanation
Indices: 77934210--77934259 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
77934200 ATTATAAAAC
77934210 TAATTATTATATTAT
1 TAATTA-TATATTAT
77934225 TAA-TATATATTAT
1 TAATTATATATTAT
*
77934238 ATCATTATATATT-T
1 -TAATTATATATTAT
77934252 TATATTAT
1 TA-ATTAT
77934260 CATTAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 9 0.30
14 10 0.33
15 11 0.37
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (14 bp):
TAATTATATATTAT
Found at i:77934255 original size:7 final size:7
Alignment explanation
Indices: 77934212--77934259 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
77934202 TATAAAACTA
77934212 ATTATTAT
1 ATTA-TAT
77934220 ATTAT-T
1 ATTATAT
*
77934226 AATATAT
1 ATTATAT
77934233 ATTATAT
1 ATTATAT
77934240 CATTATAT
1 -ATTATAT
*
77934248 ATTTTAT
1 ATTATAT
77934255 ATTAT
1 ATTAT
77934260 CATTAAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
6 5 0.15
7 18 0.53
8 11 0.32
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTATAT
Found at i:77939768 original size:22 final size:22
Alignment explanation
Indices: 77939742--77939783 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
77939732 AAGGACAAAT
* *
77939742 AGAATAAGATAAGATACATAAC
1 AGAATAACATAAAATACATAAC
77939764 AGAATAACATAAAATACATA
1 AGAATAACATAAAATACATA
77939784 CCTCATTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.19
Consensus pattern (22 bp):
AGAATAACATAAAATACATAAC
Found at i:77942327 original size:20 final size:19
Alignment explanation
Indices: 77942297--77942338 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
77942287 ATTTTCATAA
77942297 TTAAAATAATTT-ATATTAT
1 TTAAAATAATTTAATATT-T
77942316 TTAAATATAATTTAATATTT
1 TTAAA-ATAATTTAATATTT
77942336 TTA
1 TTA
77942339 TTAAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 11 0.52
21 5 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTAAAATAATTTAATATTT
Found at i:77942334 original size:18 final size:18
Alignment explanation
Indices: 77942281--77942335 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
77942271 AAAAATTTAA
* * *
77942281 AAATATATTTTCATAATT
1 AAATATAATTTAATATTT
77942299 AAA-ATAATTTATATTATTT
1 AAATATAATTTA-A-TATTT
77942318 AAATATAATTTAATATTT
1 AAATATAATTTAATATTT
77942336 TTATTAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 6 0.19
18 9 0.29
19 8 0.26
20 8 0.26
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
AAATATAATTTAATATTT
Found at i:77942488 original size:2 final size:2
Alignment explanation
Indices: 77942481--77942516 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
77942471 CTCTATCAAT
77942481 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
77942517 CATTTGTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:77948491 original size:19 final size:19
Alignment explanation
Indices: 77948467--77948503 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
77948457 ACACTTGGGT
77948467 TTGGTGTTTCTAACACTTA
1 TTGGTGTTTCTAACACTTA
77948486 TTGGTGTTTCTAACACTT
1 TTGGTGTTTCTAACACTT
77948504 CTACACTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (19 bp):
TTGGTGTTTCTAACACTTA
Found at i:77951167 original size:25 final size:25
Alignment explanation
Indices: 77951061--77951189 Score: 98
Period size: 25 Copynumber: 5.2 Consensus size: 25
77951051 AAGCTCTTCG
* * * *
77951061 GAGCCATATAACGAGAAGCTCATGT
1 GAGCCAAATATCGGGAAGCTCATGA
* * * * *
77951086 GAGCTAAGTAACGGGAAGTTCATGT
1 GAGCCAAATATCGGGAAGCTCATGA
** * * *
77951111 GAGTTATATATCAGGAAGCTC-TTA
1 GAGCCAAATATCGGGAAGCTCATGA
77951135 CGAGCCAAATATCGGGAAGCTCATGA
1 -GAGCCAAATATCGGGAAGCTCATGA
* *
77951161 GAGCCAAGTATCGGGAAGCTCAAGA
1 GAGCCAAATATCGGGAAGCTCATGA
77951186 GAGC
1 GAGC
77951190 TGTAGTTTGT
Statistics
Matches: 82, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
24 1 0.01
25 79 0.96
26 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (25 bp):
GAGCCAAATATCGGGAAGCTCATGA
Found at i:77955891 original size:93 final size:93
Alignment explanation
Indices: 77955732--77955913 Score: 310
Period size: 93 Copynumber: 2.0 Consensus size: 93
77955722 CAAAAGCATA
* * *
77955732 TTTGGAGTCAAACTCCATCCTACTCTCTAAATGGTCGAAATTTGTTGAAGAAGACGCATGCCCTA
1 TTTGGAGTCAAACTCCATCCCAATCTCTAAATGATCGAAATTTGTTGAAGAAGACGCATGCCCTA
77955797 GTCTTCTACGAGGGAGGTCTAGAACATC
66 GTCTTCTACGAGGGAGGTCTAGAACATC
* *
77955825 TTTGGAGTCAAGCTCCATCCCAATCTCTAAATGATCGAAATTTGTTGAAGAAGATGCATGCCCTA
1 TTTGGAGTCAAACTCCATCCCAATCTCTAAATGATCGAAATTTGTTGAAGAAGACGCATGCCCTA
*
77955890 GTCTTCTATGAGGGAGGTCTAGAA
66 GTCTTCTACGAGGGAGGTCTAGAA
77955914 ATACTAGACC
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 83 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (93 bp):
TTTGGAGTCAAACTCCATCCCAATCTCTAAATGATCGAAATTTGTTGAAGAAGACGCATGCCCTA
GTCTTCTACGAGGGAGGTCTAGAACATC
Found at i:77958606 original size:20 final size:20
Alignment explanation
Indices: 77958583--77958623 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
77958573 AATGTCTAAT
*
77958583 TAGAGGCACCGAAGTGAAAA
1 TAGAGGCACCAAAGTGAAAA
* *
77958603 TAGAGGCGCCAAAGTGCAAA
1 TAGAGGCACCAAAGTGAAAA
77958623 T
1 T
77958624 CCCATACAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.17, G:0.29, T:0.12
Consensus pattern (20 bp):
TAGAGGCACCAAAGTGAAAA
Found at i:77962842 original size:65 final size:67
Alignment explanation
Indices: 77962771--77962917 Score: 153
Period size: 66 Copynumber: 2.2 Consensus size: 67
77962761 TGGGCTAGGC
* *
77962771 ACACACGAGCGTGTGAT-TGGCCGTG-TGATCCAAGTCAGTA-GTAT-CCCTAATTTTCACACAG
1 ACACACGAGCGTGTCATATGGCCGTGCGGA--CAAGTCAGTATGTATGCCCT-ATTTTCACACAG
77962832 CCTAG
63 CCTAG
* * *
77962837 -CACACG-GACGTGTCTTATGGCCGTGCGGACAAGTCAGTATGTATGCCCTATTTTGACACGGCC
1 ACACACGAG-CGTGTCATATGGCCGTGCGGACAAGTCAGTATGTATGCCCTATTTTCACACAGCC
77962900 TAG
65 TAG
* *
77962903 ATACACGAACGTGTC
1 ACACACGAGCGTGTC
77962918 TAAAGCCATG
Statistics
Matches: 67, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
64 1 0.01
65 22 0.33
66 27 0.40
67 17 0.25
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.25
Consensus pattern (67 bp):
ACACACGAGCGTGTCATATGGCCGTGCGGACAAGTCAGTATGTATGCCCTATTTTCACACAGCCT
AG
Found at i:77964201 original size:52 final size:51
Alignment explanation
Indices: 77964144--77964275 Score: 176
Period size: 50 Copynumber: 2.6 Consensus size: 51
77964134 ATGAACAAAT
* *
77964144 GAGTTACTTAATGCATGACTTAATTTAATGATACAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACTTAATTTAATGATACAAAC-TTAACTAACATGA
* * * *
77964196 GAGTTACATAATGCATGTCATAATTT-ATGATGCAAACTTAACTTACATGA
1 GAGTTACATAATGCATGACTTAATTTAATGATACAAACTTAACTAACATGA
* *
77964246 GAGTTACATAATGCATGACTTTATTAAATG
1 GAGTTACATAATGCATGACTTAATTTAATG
77964276 CAGAACACAT
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
50 33 0.48
51 13 0.19
52 23 0.33
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (51 bp):
GAGTTACATAATGCATGACTTAATTTAATGATACAAACTTAACTAACATGA
Found at i:77964350 original size:39 final size:39
Alignment explanation
Indices: 77964283--77964358 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
77964273 ATGCAGAACA
* *
77964283 CATATTAATGATATTCAAACTATGACATAATTAAAGACT
1 CATACTAATGATATTCAAACTATAACATAATTAAAGACT
* *
77964322 CATACTAATGATGTTCAAATTATAACATAATTAAAGA
1 CATACTAATGATATTCAAACTATAACATAATTAAAGA
77964359 TAATTAAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (39 bp):
CATACTAATGATATTCAAACTATAACATAATTAAAGACT
Found at i:77975114 original size:22 final size:22
Alignment explanation
Indices: 77975072--77975116 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
77975062 CCCCCACATG
*
77975072 GAGTGTAGGGCTGGATGGAGTA
1 GAGTATAGGGCTGGATGGAGTA
*
77975094 GAGTATAGAGGCTGG-TTGAGTA
1 GAGTATAG-GGCTGGATGGAGTA
77975116 G
1 G
77975117 GATTCTGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.24, C:0.04, G:0.47, T:0.24
Consensus pattern (22 bp):
GAGTATAGGGCTGGATGGAGTA
Found at i:77976219 original size:8 final size:8
Alignment explanation
Indices: 77976206--77976230 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
77976196 CTAAAGTGAA
77976206 AAAATGTG
1 AAAATGTG
77976214 AAAATGTG
1 AAAATGTG
77976222 AAAATGTG
1 AAAATGTG
77976230 A
1 A
77976231 GGGCTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (8 bp):
AAAATGTG
Found at i:77976598 original size:42 final size:41
Alignment explanation
Indices: 77976539--77976670 Score: 131
Period size: 42 Copynumber: 3.1 Consensus size: 41
77976529 CATCATAAAA
77976539 GTACTTGATTTCATGTAAGACCACGTCTGCGATGTTGGCATC
1 GTACTTGATTTCATGTAAGACCACGTCTG-GATGTTGGCATC
* ***
77976581 GTACTTGATTTCTTGTAAGACTTTGTCTGGGATAG-TGGCATC
1 GTACTTGATTTCATGTAAGACCACGTCT-GGAT-GTTGGCATC
* * * * *
77976623 GATATTTAATTACGTGTAAGACCACGTCTAGGATGTTGGCATT
1 G-TACTTGATTTCATGTAAGACCACGTCT-GGATGTTGGCATC
77976666 GTACT
1 GTACT
77976671 AGCTTTCTGA
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
42 39 0.54
43 33 0.46
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (41 bp):
GTACTTGATTTCATGTAAGACCACGTCTGGATGTTGGCATC
Found at i:77976663 original size:43 final size:41
Alignment explanation
Indices: 77976552--77976670 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 41
77976542 CTTGATTTCA
* * *
77976552 TGTAAGACCACGTCTGCGATGTTGGCATCGTACTTGATTTCT
1 TGTAAGACCACGTCTG-GATGTTGGCATCGTACTTAATTACG
*** *
77976594 TGTAAGACTTTGTCTGGGATAG-TGGCATCGATATTTAATTACG
1 TGTAAGACCACGTCT-GGAT-GTTGGCATCG-TACTTAATTACG
*
77976637 TGTAAGACCACGTCTAGGATGTTGGCATTGTACT
1 TGTAAGACCACGTCT-GGATGTTGGCATCGTACT
77976671 AGCTTTCTGA
Statistics
Matches: 60, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
42 27 0.45
43 33 0.55
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGATGTTGGCATCGTACTTAATTACG
Found at i:77982471 original size:39 final size:39
Alignment explanation
Indices: 77982380--77982508 Score: 170
Period size: 39 Copynumber: 3.3 Consensus size: 39
77982370 ACTTTGAGTC
* * * *
77982380 TTTAATTTTTTCATAATTTGAACATCCTTAATATGAA-T
1 TTTAATTTTGTCATAATCTGAACATCATTAATAAGAATT
77982418 TTTAATTTTGTCATAATCTGAACATCATTAATAAGAATT
1 TTTAATTTTGTCATAATCTGAACATCATTAATAAGAATT
* * * *
77982457 TTTAATTCTGTCATAATCAGAACATCATTAATAATAGTT
1 TTTAATTTTGTCATAATCTGAACATCATTAATAAGAATT
*
77982496 TTTAATTATGTCA
1 TTTAATTTTGTCA
77982509 CACTTTGGAC
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
38 33 0.41
39 48 0.59
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (39 bp):
TTTAATTTTGTCATAATCTGAACATCATTAATAAGAATT
Found at i:77984656 original size:21 final size:21
Alignment explanation
Indices: 77984631--77984688 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
77984621 TGTTAATGAG
77984631 AGAAAATGAGA-AAAAAATAAA
1 AGAAAATGAGAGAAAAAA-AAA
* *
77984652 AGAAATTGAGAGAAGAAAAAA
1 AGAAAATGAGAGAAAAAAAAA
*
77984673 AG-AAATGAAAGAAAAA
1 AGAAAATGAGAGAAAAA
77984689 GAAATTGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 11 0.35
21 15 0.48
22 5 0.16
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (21 bp):
AGAAAATGAGAGAAAAAAAAA
Found at i:77984672 original size:20 final size:19
Alignment explanation
Indices: 77984649--77984696 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 19
77984639 AGAAAAAAAT
77984649 AAAAGAAATTGAGAGAAGAAA
1 AAAAGAAATTGAGA-AAG-AA
77984670 AAAAGAAA-T--GAAAG-A
1 AAAAGAAATTGAGAAAGAA
77984685 AAAAGAAATTGA
1 AAAAGAAATTGA
77984697 AAGCAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 9
0.73 0.00 0.27
Matches are distributed among these distances:
15 9 0.38
16 1 0.04
17 3 0.12
18 2 0.08
20 1 0.04
21 8 0.33
ACGTcount: A:0.69, C:0.00, G:0.21, T:0.10
Consensus pattern (19 bp):
AAAAGAAATTGAGAAAGAA
Found at i:77984689 original size:15 final size:17
Alignment explanation
Indices: 77984669--77984704 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
77984659 GAGAGAAGAA
77984669 AAAAAGAAA-TGAAAG-
1 AAAAAGAAATTGAAAGC
77984684 AAAAAGAAATTGAAAGC
1 AAAAAGAAATTGAAAGC
77984701 AAAA
1 AAAA
77984705 TAGAGCTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.47
16 6 0.32
17 4 0.21
ACGTcount: A:0.72, C:0.03, G:0.17, T:0.08
Consensus pattern (17 bp):
AAAAAGAAATTGAAAGC
Found at i:77984697 original size:16 final size:16
Alignment explanation
Indices: 77984669--77984725 Score: 62
Period size: 18 Copynumber: 3.5 Consensus size: 16
77984659 GAGAGAAGAA
77984669 AAAAAGAAA-TGAAAG
1 AAAAAGAAATTGAAAG
77984684 AAAAAGAAATTGAAAG
1 AAAAAGAAATTGAAAG
**
77984700 CAAAATAGAGCTTGAAAG
1 -AAAA-AGAAATTGAAAG
*
77984718 AAAGAGAA
1 AAAAAGAA
77984726 TGAAAAAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 9 0.26
16 9 0.26
17 7 0.20
18 10 0.29
ACGTcount: A:0.65, C:0.04, G:0.21, T:0.11
Consensus pattern (16 bp):
AAAAAGAAATTGAAAG
Found at i:77984775 original size:48 final size:48
Alignment explanation
Indices: 77984721--77984830 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
77984711 TTGAAAGAAA
* *
77984721 GAGAATGAAAAAGAATACGAGCGAGAAAAGAATTTTGAAAAAGAGTTT
1 GAGAATGAAAAAGAATACGAGCGACAAAAGAAATTTGAAAAAGAGTTT
* *
77984769 GAGAATGAAAAATAATACGAGTGACAAAAGAAATTTGAAAAAGAGTTT
1 GAGAATGAAAAAGAATACGAGCGACAAAAGAAATTTGAAAAAGAGTTT
*
77984817 GCGAATGAAAAAGA
1 GAGAATGAAAAAGA
77984831 GGAAAAAGGA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.54, C:0.05, G:0.24, T:0.18
Consensus pattern (48 bp):
GAGAATGAAAAAGAATACGAGCGACAAAAGAAATTTGAAAAAGAGTTT
Found at i:77988119 original size:39 final size:39
Alignment explanation
Indices: 77988019--77988172 Score: 193
Period size: 39 Copynumber: 4.0 Consensus size: 39
77988009 AATTTAGTTT
* * * *
77988019 GAGTCTTTAATTTTGTCATAATTTGAACATCATTAATAC
1 GAGTTTTTAATTATGTCATAATCTGAACATCATTAATAA
* * *
77988058 GAG-TTCTAATTTTGTTATAATCTGAACATCATTAATAA
1 GAGTTTTTAATTATGTCATAATCTGAACATCATTAATAA
*
77988096 GAGTTTTTAATTATGTCACAATCTGAACATCATTAATAA
1 GAGTTTTTAATTATGTCATAATCTGAACATCATTAATAA
* * * *
77988135 GAGTTTTTAATTATGTCATAGTTTGGACATCTTTAATA
1 GAGTTTTTAATTATGTCATAATCTGAACATCATTAATA
77988173 TATGTTTTTA
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 33 0.33
39 67 0.67
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (39 bp):
GAGTTTTTAATTATGTCATAATCTGAACATCATTAATAA
Found at i:77990573 original size:46 final size:45
Alignment explanation
Indices: 77990506--77990634 Score: 181
Period size: 46 Copynumber: 2.8 Consensus size: 45
77990496 TGTAACCCGC
*
77990506 CCATAAGTGAACTCGGACTCAAATCAACGAGCTCAGGCATC-C-GCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GG-A-CGCTGCAT
*
77990552 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGC-TGCAT
*
77990598 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
77990635 TGCCCATATA
Statistics
Matches: 78, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
43 1 0.01
44 2 0.03
45 2 0.03
46 73 0.94
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTGCAT
Found at i:77992224 original size:29 final size:30
Alignment explanation
Indices: 77992177--77992244 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
77992167 TGGCCCAAGA
* * *
77992177 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
77992207 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
77992237 GCAAATAT
1 GTAAATAT
77992245 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:77993146 original size:33 final size:32
Alignment explanation
Indices: 77993107--77993233 Score: 105
Period size: 33 Copynumber: 3.9 Consensus size: 32
77993097 GCAATATATG
*
77993107 TGTAAGACCATAGCTAGGCTATGGCATCCTGA
1 TGTAAGACCATAGCTAGGCTATGACATCCTGA
* * *
77993139 TGATAAGACCATATCTGGGATATGACA-CCATGA
1 TG-TAAGACCATAGCTAGGCTATGACATCC-TGA
* * *
77993172 GTGTAAGACCATGGCTAGGCCATGACAATACATG-
1 -TGTAAGACCATAGCTAGGCTATGAC-AT-CCTGA
* * *
77993206 TGTAAGACCATAGTTAGACTATGGCATC
1 TGTAAGACCATAGCTAGGCTATGACATC
77993234 ATACCAGAAA
Statistics
Matches: 74, Mismatches: 15, Indels: 13
0.73 0.15 0.13
Matches are distributed among these distances:
31 1 0.01
32 6 0.08
33 61 0.82
34 3 0.04
35 2 0.03
36 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (32 bp):
TGTAAGACCATAGCTAGGCTATGACATCCTGA
Found at i:77993332 original size:45 final size:45
Alignment explanation
Indices: 77993248--77993357 Score: 139
Period size: 45 Copynumber: 2.4 Consensus size: 45
77993238 CAGAAATGAG
* ** *
77993248 TAAGACCATAGCTGAAAAGACGCTATGGCATCAGGATTCAGACGAC
1 TAAGACCATAGTTG-AAAGACGCTATGGCATCACAATTCAAACGAC
* **
77993294 TAAGACCATAGTTGAAAGACGCTATGGCATCACAATTCAAATGTG
1 TAAGACCATAGTTGAAAGACGCTATGGCATCACAATTCAAACGAC
*
77993339 TAAGACCATGGTTGAAAGA
1 TAAGACCATAGTTGAAAGA
77993358 TACCATGGCA
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 43 0.77
46 13 0.23
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACGCTATGGCATCACAATTCAAACGAC
Found at i:77993392 original size:46 final size:46
Alignment explanation
Indices: 77993332--77993603 Score: 366
Period size: 46 Copynumber: 5.9 Consensus size: 46
77993322 ATCACAATTC
* *
77993332 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
*
77993378 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* * *
77993424 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* **
77993470 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATGGGG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT-ATG
* * *
77993517 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACA-G
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* * * * *
77993562 AAAATGAGTAAGACTATAGTTGAAAGACACTATGGCATCATG
1 -AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
77993604 TCGAAGATAA
Statistics
Matches: 205, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
45 1 0.00
46 162 0.79
47 42 0.20
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.22
Consensus pattern (46 bp):
AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
Found at i:77993450 original size:92 final size:93
Alignment explanation
Indices: 77993332--77993603 Score: 404
Period size: 92 Copynumber: 2.9 Consensus size: 93
77993322 ATCACAATTC
* *
77993332 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGTGTAAGACCATGGT
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAGTAAGACCATGGT
*
77993397 TGAAAGATACCATGGCAACATGAT-ATG
66 TGAAAGATACCATGGCAACATGATGAGG
*
77993424 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGT
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAGTAAGACCATGGT
*
77993489 TGAAAGATACCATGGCAACATGATGGGG
66 TGAAAGATACCATGGCAACATGATGAGG
** * * *
77993517 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACA-GAAAATGAGTAAGACTATAG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG-AAATGAGTAAGACCATGG
* * *
77993581 TTGAAAGACACTATGGCATCATG
65 TTGAAAGATACCATGGCAACATG
77993604 TCGAAGATAA
Statistics
Matches: 164, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
92 87 0.53
93 77 0.47
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.22
Consensus pattern (93 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAGTAAGACCATGGT
TGAAAGATACCATGGCAACATGATGAGG
Found at i:77993553 original size:139 final size:138
Alignment explanation
Indices: 77993339--77993598 Score: 387
Period size: 139 Copynumber: 1.9 Consensus size: 138
77993329 TTCAAATGTG
* * **
77993339 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATAGGAAATGAATAAGACCATGGTTGAAAGA
* * * *
77993404 TACCATGGCAACATGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACA
66 TACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAACGTGACA
77993468 TGAAATGAA
130 TGAAATGAA
*
77993477 TAAGACCATGGTTGAAAGATACCATGGCAACATGATGGGGAAATGAATAAGACCATGGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAT-AGGAAATGAATAAGACCATGGTTGAAAG
* * *
77993542 ATACCATGGCAACCTGACAGAAAATGAGTAAGACTATAGTTGAAAGACACTATGGCA
65 ATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCA
77993599 TCATGTCGAA
Statistics
Matches: 108, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
138 36 0.33
139 72 0.67
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGATAGGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAACGTGACAT
GAAATGAA
Found at i:77995621 original size:29 final size:27
Alignment explanation
Indices: 77995587--77995689 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
77995577 TACTCAATCA
*
77995587 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
77995616 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
77995645 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
77995674 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
77995690 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:78003410 original size:29 final size:27
Alignment explanation
Indices: 78003376--78003478 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
78003366 TACTCAATCA
*
78003376 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
78003405 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
78003434 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
78003463 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
78003479 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:78005430 original size:30 final size:30
Alignment explanation
Indices: 78005394--78005494 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
78005384 GACAAGATTG
* * *
78005394 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
78005424 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
78005452 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
78005481 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
78005495 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:78005506 original size:29 final size:28
Alignment explanation
Indices: 78005423--78005498 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
78005413 AAAATTGTAC
* *
78005423 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
78005451 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
78005480 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
78005499 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:78008055 original size:2 final size:2
Alignment explanation
Indices: 78008048--78008090 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
78008038 ATCGTACTGA
78008048 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
78008090 A
1 A
78008091 AGAAAGAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:78010374 original size:40 final size:41
Alignment explanation
Indices: 78010330--78010416 Score: 113
Period size: 40 Copynumber: 2.1 Consensus size: 41
78010320 TCAAATACAT
78010330 TTAAAACAAATATTAAAACAAGAAACAAA-TAAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATA
* * * * *
78010370 TTAAAACAATTCTTAAAACAATACACAAATTGAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATA
*
78010411 ATAAAA
1 TTAAAA
78010417 TTGATTATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 25 0.62
41 15 0.38
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (41 bp):
TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATA
Found at i:78011739 original size:27 final size:27
Alignment explanation
Indices: 78011709--78011860 Score: 137
Period size: 27 Copynumber: 5.6 Consensus size: 27
78011699 TTAGTTTACC
*
78011709 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * **
78011736 AAATTACCAAAATATCCTTGTTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
78011763 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** *
78011790 AAATTACTGAAATA-CCCTCGATTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
** * **
78011817 AAATTACTGAAATA-CTCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
78011844 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
78011861 TCGATTTACA
Statistics
Matches: 103, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
26 4 0.04
27 98 0.95
28 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:78011820 original size:54 final size:53
Alignment explanation
Indices: 78011703--78011878 Score: 174
Period size: 54 Copynumber: 3.3 Consensus size: 53
78011693 AATACTTTAG
* * * * *
78011703 TTTACCAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATATCCTTGT
1 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTA-CAAAATACCCTCGA
*
78011757 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTGAAATACCCTCGA
1 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTAC-AAAATACCCTCGA
** ** * ** *
78011811 TTTGTAAAATTACTGAAATA-CTCTCGACTTGTAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACCAAAATACCCCT-GGTTTGTAAAATTA-CAAAATACCCTCGA
*
78011865 TTTACAGAATTACC
1 TTTACAAAATTACC
78011879 GTTTTACCCT
Statistics
Matches: 100, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
53 4 0.04
54 95 0.95
55 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (53 bp):
TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACAAAATACCCTCGA
Found at i:78011913 original size:27 final size:27
Alignment explanation
Indices: 78011789--78011915 Score: 114
Period size: 27 Copynumber: 4.7 Consensus size: 27
78011779 CCTGGTTTGT
* *
78011789 AAAATTACTGAAATACCCTCGATTTGT
1 AAAATTACTGAAATACCCTCGACTTGC
* *
78011816 AAAATTACTGAAATACTCTCGACTTGT
1 AAAATTACTGAAATACCCTCGACTTGC
* * *
78011843 AAAATTAC-CAAAGTACCCTCGATTTAC
1 AAAATTACTGAAA-TACCCTCGACTTGC
* * ***
78011870 AGAATTACCGTTTTACCCTCGA-TTGAC
1 AAAATTACTGAAATACCCTCGACTTG-C
78011897 AAAATTACTGAAATACCCT
1 AAAATTACTGAAATACCCT
78011916 TGTAGGGTAG
Statistics
Matches: 79, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
26 5 0.06
27 74 0.94
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTCGACTTGC
Found at i:78011914 original size:54 final size:54
Alignment explanation
Indices: 78011757--78011915 Score: 144
Period size: 54 Copynumber: 2.9 Consensus size: 54
78011747 ATATCCTTGT
* ** *
78011757 TTTACAAAATTACCAAAATACCC-CTGGTTTGTAAAATTACTGAAATACCCTCGA
1 TTTACAAAATTACCGAAATACCCTC-GACTTGCAAAATTACTGAAATACCCTCGA
** * * * *
78011811 TTTGTAAAATTACTGAAATACTCTCGACTTGTAAAATTAC-CAAAGTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTCGACTTGCAAAATTACTGAAA-TACCCTCGA
* ***
78011865 TTTACAGAATTACCGTTTTACCCTCGA-TTGACAAAATTACTGAAATACCCT
1 TTTACAAAATTACCGAAATACCCTCGACTTG-CAAAATTACTGAAATACCCT
78011916 TGTAGGGTAG
Statistics
Matches: 83, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
53 6 0.07
54 73 0.88
55 4 0.05
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.31
Consensus pattern (54 bp):
TTTACAAAATTACCGAAATACCCTCGACTTGCAAAATTACTGAAATACCCTCGA
Found at i:78011969 original size:53 final size:53
Alignment explanation
Indices: 78011898--78012004 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
78011888 TCGATTGACA
78011898 AAATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGT
1 AAATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGT
*
78011951 AAATTATTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGT
1 AAATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGT
78012004 A
1 A
78012005 GGGCTACCGA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (53 bp):
AAATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGT
Found at i:78012014 original size:27 final size:27
Alignment explanation
Indices: 78011899--78012005 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 27
78011889 CGATTGACAA
* * *
78011899 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
78011926 AATTACCGAAATACCCCTATAGGGTA-
1 AATTACCGAAATACCCCTATAGGGTAG
** * *
78011952 AATTATTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
78011979 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
78012006 GGCTACCGAT
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 22 0.32
27 46 0.68
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCCTATAGGGTAG
Found at i:78012704 original size:27 final size:26
Alignment explanation
Indices: 78012660--78012711 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
78012650 CTCGCTGCAA
*
78012660 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
78012687 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
78012712 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:78012806 original size:27 final size:26
Alignment explanation
Indices: 78012754--78012813 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
78012744 ATATATATAT
*
78012754 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
78012780 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
78012807 ATATCTG
1 ATATCTG
78012814 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:78019469 original size:27 final size:27
Alignment explanation
Indices: 78019431--78019503 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
78019421 TGTAGAATTA
*
78019431 CTGTAAGGTAGAATTACCAAAATACCC
1 CTGTAGGGTAGAATTACCAAAATACCC
* *
78019458 CTGTAGGGTAGAATTACCGAGATACCC
1 CTGTAGGGTAGAATTACCAAAATACCC
* * *
78019485 TTGTGGGGTAAAATTACCA
1 CTGTAGGGTAGAATTACCA
78019504 TTTTGCCCCT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACCAAAATACCC
Found at i:78020268 original size:26 final size:27
Alignment explanation
Indices: 78020239--78020298 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
78020229 CCACATATAT
*
78020239 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
78020265 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
78020292 ATATCTG
1 ATATCTG
78020299 GCAGCCTTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:78029571 original size:40 final size:40
Alignment explanation
Indices: 78029492--78029708 Score: 296
Period size: 40 Copynumber: 5.5 Consensus size: 40
78029482 CGGATGATAA
* * *
78029492 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * *
78029532 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
*
78029572 CCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
78029612 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
78029652 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
78029692 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
78029709 ATACTTGGGT
Statistics
Matches: 156, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
38 1 0.01
39 14 0.09
40 139 0.89
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:78029976 original size:22 final size:22
Alignment explanation
Indices: 78029936--78029977 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
78029926 GAATGTGCAT
*
78029936 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
78029958 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
78029978 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:78037878 original size:26 final size:26
Alignment explanation
Indices: 78037848--78037956 Score: 137
Period size: 27 Copynumber: 4.1 Consensus size: 26
78037838 CATTGCTGCT
* *
78037848 AGAACAGATAATGTGACAGAGTCACC
1 AGAACAGATAATGTGGCAGAGCCACC
78037874 AGAACAGATAATTGTGGCAGAGCCACC
1 AGAACAGATAA-TGTGGCAGAGCCACC
*
78037901 AGAACAGATATATGTGGTAGAGCCACC
1 AGAACAGATA-ATGTGGCAGAGCCACC
** *
78037928 AGATTAGATAAATGTGGCATAGCCACC
1 AGAACAGAT-AATGTGGCAGAGCCACC
78037955 AG
1 AG
78037957 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 11 0.15
27 60 0.82
28 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17
Consensus pattern (26 bp):
AGAACAGATAATGTGGCAGAGCCACC
Found at i:78039401 original size:24 final size:24
Alignment explanation
Indices: 78039368--78039462 Score: 136
Period size: 24 Copynumber: 4.0 Consensus size: 24
78039358 AACACTGTTC
* * * *
78039368 TCCCTAATCAGCTTCTAAATCCTC
1 TCCCTTATCAACTCCTAAATCCTA
**
78039392 TCCCTTATCAGGTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
78039416 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
78039440 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
78039463 TTCCTGACAG
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.26, C:0.37, G:0.03, T:0.34
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:78041777 original size:17 final size:17
Alignment explanation
Indices: 78041755--78041789 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
78041745 TCTAAATCTG
78041755 TACGAGGATTAACTTGA
1 TACGAGGATTAACTTGA
*
78041772 TACGAGGCTTAACTTGA
1 TACGAGGATTAACTTGA
78041789 T
1 T
78041790 CTAAATAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (17 bp):
TACGAGGATTAACTTGA
Found at i:78043900 original size:40 final size:40
Alignment explanation
Indices: 78043835--78044046 Score: 173
Period size: 40 Copynumber: 5.3 Consensus size: 40
78043825 ACTGACCGAA
* * * *
78043835 GTATGTGCATTCAGGGGTACTAAAGTACAAATAGAGGCAC
1 GTATATGCATTCAAGGGTACCAAAGTACAAATAGAGGCAT
78043875 GTATATGCATTCAAGGGTACCAAAGTACAAATAGAGGCAT
1 GTATATGCATTCAAGGGTACCAAAGTACAAATAGAGGCAT
* * *** *
78043915 GTAAATGCATTCAGGGGTATTGAAGTACAAATAGGGGCAT
1 GTATATGCATTCAAGGGTACCAAAGTACAAATAGAGGCAT
* * * * *
78043955 GTATCA-GTATT-TAGGGATACCGAAGTACAAACAGGGGCAT
1 GTAT-ATGCATTCAAGGG-TACCAAAGTACAAATAGAGGCAT
* * * *
78043995 GTA-A-GTCATTCAGGGGTACCAAAGTTCAAACA-AGGCAC
1 GTATATG-CATTCAAGGGTACCAAAGTACAAATAGAGGCAT
* *
78044033 ATATGTGCATTCAA
1 GTATATGCATTCAA
78044047 CAATAATTAT
Statistics
Matches: 139, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
38 8 0.06
39 26 0.19
40 104 0.75
41 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.23
Consensus pattern (40 bp):
GTATATGCATTCAAGGGTACCAAAGTACAAATAGAGGCAT
Found at i:78043946 original size:80 final size:80
Alignment explanation
Indices: 78043840--78044032 Score: 223
Period size: 80 Copynumber: 2.4 Consensus size: 80
78043830 CCGAAGTATG
78043840 TGCATTCAGGGGTACTAAAGTACAAATAGAGGCACGTAT-ATGCATTCAAGGG-TACCAAAGTAC
1 TGCATTCAGGGGTACTAAAGTACAAATAGAGGCACGTATCA-GCATT-AAGGGATACCAAAGTAC
*
78043903 AAATAGAGGCATGTAAA
64 AAACAGAGGCATGTAAA
* * * * * * *
78043920 TGCATTCAGGGGTATTGAAGTACAAATAGGGGCATGTATCAGTATTTAGGGATACCGAAGTACAA
1 TGCATTCAGGGGTACTAAAGTACAAATAGAGGCACGTATCAGCATTAAGGGATACCAAAGTACAA
* *
78043985 ACAGGGGCATGTAAG
66 ACAGAGGCATGTAAA
* * *
78044000 T-CATTCAGGGGTACCAAAGTTCAAACA-AGGCAC
1 TGCATTCAGGGGTACTAAAGTACAAATAGAGGCAC
78044033 ATATGTGCAT
Statistics
Matches: 94, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
78 4 0.04
79 25 0.27
80 64 0.68
81 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.22
Consensus pattern (80 bp):
TGCATTCAGGGGTACTAAAGTACAAATAGAGGCACGTATCAGCATTAAGGGATACCAAAGTACAA
ACAGAGGCATGTAAA
Found at i:78050786 original size:34 final size:34
Alignment explanation
Indices: 78050735--78050838 Score: 97
Period size: 34 Copynumber: 3.1 Consensus size: 34
78050725 GCAGTGCAAA
* * * *
78050735 CAGTCTGGGCCTAAGCCC-TTAACAGTAGCATTAT
1 CAGTGTGGGCCTTAGCCCATT-ACAGTAACAATAT
**
78050769 CAGTGTGGGCCTTAGCCCATTATGGTAACAATAT
1 CAGTGTGGGCCTTAGCCCATTACAGTAACAATAT
* *
78050803 CAGTGTGGGTCTTAGCCCAATT-CAGT-ACAGTAT
1 CAGTGTGGGCCTTAGCCC-ATTACAGTAACAATAT
78050836 CAG
1 CAG
78050839 AGATTCAAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
33 9 0.16
34 44 0.76
35 5 0.09
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (34 bp):
CAGTGTGGGCCTTAGCCCATTACAGTAACAATAT
Found at i:78052953 original size:34 final size:34
Alignment explanation
Indices: 78052910--78052984 Score: 132
Period size: 34 Copynumber: 2.2 Consensus size: 34
78052900 ACACTCAACC
78052910 ACTAAAGCAAGCATACATTTACGCAACACAACAT
1 ACTAAAGCAAGCATACATTTACGCAACACAACAT
*
78052944 ACTAAAGCAAGCATACATTTACGTAACACAACAT
1 ACTAAAGCAAGCATACATTTACGCAACACAACAT
*
78052978 ACAAAAG
1 ACTAAAG
78052985 TAAATACCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.49, C:0.24, G:0.09, T:0.17
Consensus pattern (34 bp):
ACTAAAGCAAGCATACATTTACGCAACACAACAT
Done.