Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 252 of 433
Found at i:78668325 original size:37 final size:37
Alignment explanation
Indices: 78668284--78668375 Score: 98
Period size: 37 Copynumber: 2.5 Consensus size: 37
78668274 ACATTAGTTC
78668284 ATATAACAGTAAGATTTGCTTAG-TTAAGCTCCATTCA
1 ATATAACAGTAAGATTTGC-TAGATTAAGCTCCATTCA
** * *
78668321 ATATAATGGTATA-ATTTGCTCGATTAAGCTTCATTCA
1 ATATAACAGTA-AGATTTGCTAGATTAAGCTCCATTCA
* *
78668358 GTAGAACAGTAAGATTTG
1 ATATAACAGTAAGATTTG
78668376 GGTCGATAGA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
36 3 0.07
37 40 0.91
38 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (37 bp):
ATATAACAGTAAGATTTGCTAGATTAAGCTCCATTCA
Found at i:78669210 original size:22 final size:22
Alignment explanation
Indices: 78669182--78669235 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
78669172 TTCAACTTTC
* *
78669182 TTAATTAAGCTTTAA-TAAATCA
1 TTAATTAAGC-CTAATTAAACCA
78669204 TTAATTAAGCCTAATTAAACCA
1 TTAATTAAGCCTAATTAAACCA
78669226 TTAATTAAGC
1 TTAATTAAGC
78669236 ATAACCTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 3 0.10
22 26 0.90
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (22 bp):
TTAATTAAGCCTAATTAAACCA
Found at i:78669833 original size:46 final size:46
Alignment explanation
Indices: 78669766--78669857 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
78669756 CTGATCCCAA
78669766 GTTGTAACAGAACCCCATGGAAGTGAATTCAACCATTATTTTGCCT
1 GTTGTAACAGAACCCCATGGAAGTGAATTCAACCATTATTTTGCCT
* *
78669812 GTTGTAACAGAACCCTATGGAAGTGAATTCAACCATTGTTTTGCCT
1 GTTGTAACAGAACCCCATGGAAGTGAATTCAACCATTATTTTGCCT
78669858 TACTCCTCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (46 bp):
GTTGTAACAGAACCCCATGGAAGTGAATTCAACCATTATTTTGCCT
Found at i:78670386 original size:25 final size:25
Alignment explanation
Indices: 78670357--78670405 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
78670347 GAAAAACTTT
* * *
78670357 AAAATGTAAAAATTAAAATCAAAAC
1 AAAATATAAAAATAAAAATAAAAAC
*
78670382 AAAATATTAAAATAAAAATAAAAA
1 AAAATATAAAAATAAAAATAAAAA
78670406 TGACTAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (25 bp):
AAAATATAAAAATAAAAATAAAAAC
Found at i:78670392 original size:19 final size:18
Alignment explanation
Indices: 78670364--78670406 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
78670354 TTTAAAATGT
*
78670364 AAAAATTAAAATCAAAAC
1 AAAAATTAAAATAAAAAC
*
78670382 AAAATATTAAAATAAAAAT
1 AAAA-ATTAAAATAAAAAC
78670401 AAAAAT
1 AAAAAT
78670407 GACTAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAAATTAAAATAAAAAC
Found at i:78670931 original size:22 final size:22
Alignment explanation
Indices: 78670915--78670955 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
78670905 TATAATAATA
78670915 AAAGAAATAAAACATAAAGAAT
1 AAAGAAATAAAACATAAAGAAT
78670937 AAAGAAAT-AAA-ATAAAGAA
1 AAAGAAATAAAACATAAAGAA
78670956 AAGAAAGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 3 0.16
22 8 0.42
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAGAAATAAAACATAAAGAAT
Found at i:78670962 original size:22 final size:22
Alignment explanation
Indices: 78670915--78670964 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
78670905 TATAATAATA
*
78670915 AAAGAAATAAAACATAAAGAAT
1 AAAGAAATAAAACATAAAGAAG
78670937 AAAGAAAT-AAA-ATAAAGAAAAG
1 AAAGAAATAAAACATAAAG--AAG
78670959 AAAGAA
1 AAAGAA
78670965 GGACGAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 6 0.24
21 3 0.12
22 16 0.64
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (22 bp):
AAAGAAATAAAACATAAAGAAG
Found at i:78675173 original size:40 final size:39
Alignment explanation
Indices: 78675128--78675335 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
78675118 CGGAATACAA
*
78675128 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
78675168 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
78675208 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
78675248 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
78675288 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
78675328 CCGGATAT
1 CCGGATAT
78675336 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:78675268 original size:80 final size:81
Alignment explanation
Indices: 78675128--78675333 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
78675118 CGGAATACAA
* * *
78675128 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
78675192 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
78675208 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
78675271 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
78675288 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
78675334 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:78683617 original size:40 final size:39
Alignment explanation
Indices: 78683452--78683635 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
78683442 AAATTGAATG
* * *
78683452 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
78683492 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
78683532 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
78683572 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
78683611 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
78683636 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:78683660 original size:80 final size:81
Alignment explanation
Indices: 78683492--78683680 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
78683482 GCTGGAAATT
* * * *
78683492 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
78683557 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
78683573 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
78683636 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
78683652 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
78683681 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:78691718 original size:40 final size:40
Alignment explanation
Indices: 78691612--78691795 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
78691602 TGCTGGAAAT
* * * * * **
78691612 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
78691652 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
78691692 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
78691730 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
78691771 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
78691796 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:78710605 original size:40 final size:40
Alignment explanation
Indices: 78710466--78710609 Score: 157
Period size: 40 Copynumber: 3.6 Consensus size: 40
78710456 GCTACTCGTT
* * ** *
78710466 CAAATGTCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTAGCA
* * * *
78710506 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTAGCA
* *
78710546 CAAATGCCTTC-GGATCTTAGTCCGAATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGAATATAGTAAC-TAGCA
78710587 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
78710610 GACATCATTC
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
39 3 0.03
40 75 0.84
41 11 0.12
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTAGCA
Found at i:78714262 original size:40 final size:40
Alignment explanation
Indices: 78714218--78714327 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
78714208 TTCACAATTT
* *
78714218 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
78714258 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
78714298 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
78714328 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:78722646 original size:40 final size:40
Alignment explanation
Indices: 78722601--78722768 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
78722591 CGGAATATAA
78722601 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
78722641 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
78722681 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
78722721 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
78722761 CCGGATAT
1 CCGGATAT
78722769 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:78722751 original size:80 final size:80
Alignment explanation
Indices: 78722617--78722766 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
78722607 ATAACCACGT
* *
78722617 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
78722682 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
78722697 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
78722760 CCCGGAT
64 CCCGGAT
78722767 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:78727131 original size:40 final size:40
Alignment explanation
Indices: 78727076--78727221 Score: 231
Period size: 40 Copynumber: 3.7 Consensus size: 40
78727066 ACTTGAGGTA
*
78727076 TTATCCGGGCTTAAAGACCCACAGGCTTCGTGCTGGAATG
1 TTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATG
* *
78727116 TTATCCGGGCTTAAAGACCCGCAGGCTTCATGCTAGAATG
1 TTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATG
*
78727156 TTATCCGGGCTTAAAAACCCGCAGGCTTCGTGCTGGAATG
1 TTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATG
* *
78727196 TTATCCAGGC-TAGAGACCCGCAGGCT
1 TTATCCGGGCTTAAAGACCCGCAGGCT
78727222 ACCAGCTGGT
Statistics
Matches: 97, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 14 0.14
40 83 0.86
ACGTcount: A:0.23, C:0.26, G:0.27, T:0.24
Consensus pattern (40 bp):
TTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATG
Found at i:78729347 original size:25 final size:25
Alignment explanation
Indices: 78729263--78729347 Score: 91
Period size: 25 Copynumber: 3.4 Consensus size: 25
78729253 GATGATTTTG
* * *
78729263 TAGAGAGTTCACCACAAAGGCCTTAC
1 TAGAGAATTCGCCACAAAGG-CTTTC
* * *
78729289 -AGAGTATTAGCCATAAAGGCTTTC
1 TAGAGAATTCGCCACAAAGGCTTTC
*
78729313 GAGAGAATTCGCCACAAAGGCTTTC
1 TAGAGAATTCGCCACAAAGGCTTTC
78729338 TAGAGAATTC
1 TAGAGAATTC
78729348 TCTTACATGG
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
24 4 0.08
25 44 0.92
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (25 bp):
TAGAGAATTCGCCACAAAGGCTTTC
Found at i:78732190 original size:28 final size:28
Alignment explanation
Indices: 78732121--78732221 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
78732111 GACAAGATTG
* * * *
78732121 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
78732151 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
78732179 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
78732208 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
78732222 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:78750072 original size:40 final size:39
Alignment explanation
Indices: 78749907--78750090 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
78749897 AAATTGAATG
* * *
78749907 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
78749947 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
78749987 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
78750027 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
78750066 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
78750091 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:78750115 original size:80 final size:81
Alignment explanation
Indices: 78749947--78750135 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
78749937 GCTGGAAATT
* * * *
78749947 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
78750012 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
78750028 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
78750091 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
78750107 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
78750136 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:78753090 original size:40 final size:39
Alignment explanation
Indices: 78753045--78753251 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
78753035 CGGAATACAA
*
78753045 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
78753085 CCGGATAGAACGACTTGCACAAATGCCTTC-GGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
78753124 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
78753164 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
78753204 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
78753244 CCGGATAT
1 CCGGATAT
78753252 CATTCAATTG
Statistics
Matches: 140, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
39 35 0.25
40 105 0.75
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:78753163 original size:79 final size:80
Alignment explanation
Indices: 78753045--78753250 Score: 238
Period size: 79 Copynumber: 2.6 Consensus size: 80
78753035 CGGAATACAA
* * *
78753045 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAA-CGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAGC-ACTAGCACAAAT
*
78753109 GCCTTC-GGTATTAGC
65 GCCTTCGGGTATTAAC
* * *
78753124 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGTCACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAG-CACTAGCACAAAT
*
78753188 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
78753204 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
78753251 TCATTCAATT
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 2 0.02
79 59 0.55
80 46 0.43
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAGCACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:78757321 original size:25 final size:25
Alignment explanation
Indices: 78757271--78757322 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
78757261 ATATTTAAAA
* * *
78757271 ATTAAATATAATAATTTATCTTTAT
1 ATTAAATAAAATAATTAATCTATAT
78757296 ATTAAATAAATATAATTAATC-ATAT
1 ATTAAATAAA-ATAATTAATCTATAT
78757321 AT
1 AT
78757323 GTAATAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (25 bp):
ATTAAATAAAATAATTAATCTATAT
Found at i:78757483 original size:34 final size:34
Alignment explanation
Indices: 78757445--78757514 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
78757435 ATAATTTTAT
*
78757445 ACATTAAACTGAAATTTAATTTTTAAGTAATTAG
1 ACATTAAACTAAAATTTAATTTTTAAGTAATTAG
78757479 ACATTAAACTAAAATTTAATTTTTAAGTAATTAG
1 ACATTAAACTAAAATTTAATTTTTAAGTAATTAG
78757513 AC
1 AC
78757515 CATCTTTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (34 bp):
ACATTAAACTAAAATTTAATTTTTAAGTAATTAG
Found at i:78757662 original size:19 final size:19
Alignment explanation
Indices: 78757640--78757678 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
78757630 TAATTTTTTA
78757640 TTTTTCATAAATTTTAAAT
1 TTTTTCATAAATTTTAAAT
* *
78757659 TTTTTTATCAATTTTAAAT
1 TTTTTCATAAATTTTAAAT
78757678 T
1 T
78757679 GTTTACTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTCATAAATTTTAAAT
Found at i:78759326 original size:40 final size:39
Alignment explanation
Indices: 78759260--78759335 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 39
78759250 TAAAGTTATT
* *
78759260 CATAACATGCCCGAGCTTTGCCAACTTCCTTTCATGAAC
1 CATAACATGCCAGAGCTATGCCAACTTCCTTTCATGAAC
*
78759299 CATAACATGCCTAGAGCTATGTCAACTTCCTTTCATG
1 CATAACATGCC-AGAGCTATGCCAACTTCCTTTCATG
78759336 CTTAGAGGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 11 0.33
40 22 0.67
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.30
Consensus pattern (39 bp):
CATAACATGCCAGAGCTATGCCAACTTCCTTTCATGAAC
Found at i:78768938 original size:2 final size:2
Alignment explanation
Indices: 78768931--78768960 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
78768921 TATTACTCTC
78768931 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
78768961 TTGTAAAGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78769511 original size:15 final size:15
Alignment explanation
Indices: 78769491--78769529 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
78769481 GCCTAGGCCA
**
78769491 CCTCGCATGCTGCCT
1 CCTCGCATGCCACCT
78769506 CCTCGCATGCCACCT
1 CCTCGCATGCCACCT
78769521 CCTC-CATGC
1 CCTCGCATGC
78769530 GTCACACGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.10, C:0.51, G:0.15, T:0.23
Consensus pattern (15 bp):
CCTCGCATGCCACCT
Found at i:78770708 original size:21 final size:19
Alignment explanation
Indices: 78770679--78770717 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
78770669 TATCATTTAA
78770679 AATTGTTTTATTACTTATTTT
1 AATTGTTTTA--ACTTATTTT
*
78770700 AATTTTTTTAACTTATTT
1 AATTGTTTTAACTTATTT
78770718 CGAACTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.67
Consensus pattern (19 bp):
AATTGTTTTAACTTATTTT
Found at i:78770759 original size:26 final size:29
Alignment explanation
Indices: 78770730--78770794 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
78770720 AACTCTTTTG
*
78770730 ATTTATTTTAA-ATT-GTTTTTAT-TATT
1 ATTTATTTTAAGATTCGTTTTTATATAAT
* * *
78770756 ATTTATTCTAAGTTTCTTTTTTATATAAT
1 ATTTATTTTAAGATTCGTTTTTATATAAT
78770785 ATTTATTTTA
1 ATTTATTTTA
78770795 TACTTTTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 10 0.32
27 2 0.06
28 7 0.23
29 12 0.39
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (29 bp):
ATTTATTTTAAGATTCGTTTTTATATAAT
Found at i:78770866 original size:27 final size:26
Alignment explanation
Indices: 78770814--78770868 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
78770804 ATTTATACAC
* **
78770814 ATATATTATCTATTTTAAATTTTTTT
1 ATATATAATCTATTTTAAATCGTTTT
78770840 ATATATAATCTATTTTTAAATCGTTTT
1 ATATATAATCTA-TTTTAAATCGTTTT
78770867 AT
1 AT
78770869 GCATCATTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (26 bp):
ATATATAATCTATTTTAAATCGTTTT
Found at i:78770866 original size:28 final size:26
Alignment explanation
Indices: 78770814--78770866 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
78770804 ATTTATACAC
* *
78770814 ATATATTATCTATTTTAAATTTTTTT
1 ATATATAATCTATTTTAAATGTTTTT
78770840 ATATATAATCTATTTTTAAATCGTTTT
1 ATATATAATCTA-TTTTAAAT-GTTTT
78770867 ATGCATCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 11 0.48
27 8 0.35
28 4 0.17
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (26 bp):
ATATATAATCTATTTTAAATGTTTTT
Found at i:78774718 original size:19 final size:19
Alignment explanation
Indices: 78774694--78774740 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
78774684 AACGCCTTTT
78774694 TTTGCATT-CATTTCATTCA
1 TTTGCATTACATTTCA-TCA
78774713 TTTGCATTACATTTCATCA
1 TTTGCATTACATTTCATCA
*
78774732 TATGCATTA
1 TTTGCATTA
78774741 AGTTTCATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.49
Consensus pattern (19 bp):
TTTGCATTACATTTCATCA
Found at i:78781995 original size:6 final size:6
Alignment explanation
Indices: 78781984--78782019 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
78781974 CACTTTACCT
78781984 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
78782020 GGGAGAGGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:78783128 original size:44 final size:44
Alignment explanation
Indices: 78782962--78783430 Score: 330
Period size: 44 Copynumber: 10.5 Consensus size: 44
78782952 CAAAGAATCC
* * * *
78782962 ACAAACCTTATCTCCTTGAAGTTACAGTGGAGCATG-TTGAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGCT
* * * *
78783006 ACAAATCTTATCTTCCTGAAGTTGCAGTAGAGCAAATTGAAGCC
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT
* * * *
78783050 ACAAACCTTATTTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT
* * *
78783094 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAACC
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT
* * * * * * * *
78783138 ACTAGTCTCATCTCCTTGAAATTGCAGTGGAGCATACTGAAGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT
* * * * *
78783182 AGCAAATCTCATTTCCCTGAAATTACAGTGGAACAGATTGAAGCT
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT
** * *
78783227 ACAAGTTACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAAACC
1 AC-A---A--A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT
* * * * * *
78783278 ACTAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAGAATGAAGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT
* ** * * * * **
78783322 AGCAAATCTTATTTTTCTAAAGTTGCAGAGAAGAAGATTGAAAAT
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT
*** * * * *
78783367 ACGGGTCTCATCTCACTGAAGTTGCAGTGGAGTAGATCGAAGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT
*
78783411 ACAAGTCTCT-TCTCCCTGAA
1 ACAAATCT-TATCTCCCTGAA
78783431 ATTATATTAG
Statistics
Matches: 322, Mismatches: 92, Indels: 22
0.74 0.21 0.05
Matches are distributed among these distances:
44 219 0.68
45 68 0.21
47 1 0.00
48 1 0.00
50 1 0.00
51 32 0.10
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT
Found at i:78784147 original size:22 final size:24
Alignment explanation
Indices: 78784092--78784147 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 24
78784082 TCTAAAGGTG
*
78784092 ATTTTTATTTGCGTTTAAGTTTCT
1 ATTTTTATTTACGTTTAAGTTTCT
* *
78784116 ATTTAT-TTTAC-TTTAA-TTTTT
1 ATTTTTATTTACGTTTAAGTTTCT
78784137 ATTTTTATTTA
1 ATTTTTATTTA
78784148 ATATACGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 9 0.33
22 9 0.33
23 4 0.15
24 5 0.19
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.68
Consensus pattern (24 bp):
ATTTTTATTTACGTTTAAGTTTCT
Found at i:78785052 original size:20 final size:20
Alignment explanation
Indices: 78785013--78785088 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
78785003 TATATATTAA
78785013 TTAAAATTATTTTATGACTTATT
1 TTAAAATT-TTTTA--ACTTATT
*
78785036 TTAAATTTTTTTAACTTATT
1 TTAAAATTTTTTAACTTATT
** * * *
78785056 TCGAACTCTTTTAATTTATT
1 TTAAAATTTTTTAACTTATT
78785076 TTAAAATTTTTTA
1 TTAAAATTTTTTA
78785089 TTATTTATTC
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
20 31 0.72
22 5 0.12
23 7 0.16
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.59
Consensus pattern (20 bp):
TTAAAATTTTTTAACTTATT
Found at i:78785152 original size:36 final size:33
Alignment explanation
Indices: 78785112--78785178 Score: 89
Period size: 36 Copynumber: 1.9 Consensus size: 33
78785102 TTTTCTTTTT
*
78785112 CATATAATATTTATTTTATATTTTTATATTTATACA
1 CATATAATATCTATTTTA-ATTTTT-T-TTTATACA
*
78785148 CATATATTATCTATTTTAATTTTTTTTTATA
1 CATATAATATCTATTTTAATTTTTTTTTATA
78785179 TATAATCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 6 0.21
34 1 0.03
35 6 0.21
36 16 0.55
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (33 bp):
CATATAATATCTATTTTAATTTTTTTTTATACA
Found at i:78785202 original size:29 final size:27
Alignment explanation
Indices: 78785149--78785202 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
78785139 ATTTATACAC
* **
78785149 ATATATTATCTATTTTAATTTTTTTTT
1 ATATATAATCTATTTTAATCGTTTTTT
78785176 ATATATAATCTATTTTTAAATCGTTTT
1 ATATATAATCTA-TTTT-AATCGTTTT
78785203 ATGCATCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 11 0.50
28 4 0.18
29 7 0.32
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.63
Consensus pattern (27 bp):
ATATATAATCTATTTTAATCGTTTTTT
Found at i:78785238 original size:21 final size:21
Alignment explanation
Indices: 78785209--78785276 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 21
78785199 TTTTATGCAT
78785209 CATTGATTTTAAATCTTTTTTA
1 CATT-ATTTTAAATCTTTTTTA
*
78785231 CATTATTTTAAACTCATTTATTA
1 CATTATTTTAAA-TC-TTTTTTA
*
78785254 CCA-T-TTTAAAAT-TTTTTTA
1 -CATTATTTTAAATCTTTTTTA
78785273 CATT
1 CATT
78785277 TTATTTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
18 2 0.05
19 7 0.18
21 9 0.23
22 12 0.31
23 7 0.18
24 2 0.05
ACGTcount: A:0.31, C:0.12, G:0.01, T:0.56
Consensus pattern (21 bp):
CATTATTTTAAATCTTTTTTA
Found at i:78788432 original size:18 final size:19
Alignment explanation
Indices: 78788411--78788460 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
78788401 AGTTATAATC
*
78788411 TAAAAAATTCAAAAATTA-
1 TAAAAAATTCAAAAAATAT
*
78788429 TAAAAAA-TAAAAAAATAT
1 TAAAAAATTCAAAAAATAT
*
78788447 TTAAAAATTCAAAA
1 TAAAAAATTCAAAA
78788461 TTAAAAACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 8 0.31
18 13 0.50
19 5 0.19
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (19 bp):
TAAAAAATTCAAAAAATAT
Found at i:78788742 original size:19 final size:20
Alignment explanation
Indices: 78788689--78788745 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 20
78788679 TATTCGTTAA
* *
78788689 AATAATAAAAATATAT-ATT
1 AATATTAAATATATATAATT
* *
78788708 AATATT-AATTTTTATAATT
1 AATATTAAATATATATAATT
78788727 AA-ATTAAATATATATAATT
1 AATATTAAATATATATAATT
78788746 TGTGATTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
18 9 0.30
19 21 0.70
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATATTAAATATATATAATT
Found at i:78788966 original size:16 final size:16
Alignment explanation
Indices: 78788926--78788968 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
78788916 GTATTTTTAA
*
78788926 TTTAATTCAAATAATT
1 TTTAATTAAAATAATT
* *
78788942 TATATATTAAAATATTT
1 TTTA-ATTAAAATAATT
78788959 TTTAATTAAA
1 TTTAATTAAA
78788969 TTTAGTTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTAATTAAAATAATT
Found at i:78791873 original size:3 final size:3
Alignment explanation
Indices: 78791865--78791909 Score: 81
Period size: 3 Copynumber: 14.7 Consensus size: 3
78791855 CCTTCAACAT
78791865 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA AT
78791910 TTTTTCCTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:78793205 original size:21 final size:21
Alignment explanation
Indices: 78793179--78793224 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
78793169 TCCTTTTAAT
78793179 TTTCTTTTATTGTACCACAAA
1 TTTCTTTTATTGTACCACAAA
* * *
78793200 TTTC-TTTCTTGTACTACAAT
1 TTTCTTTTATTGTACCACAAA
78793220 TTTCT
1 TTTCT
78793225 AACAGAGGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.54
Consensus pattern (21 bp):
TTTCTTTTATTGTACCACAAA
Found at i:78794532 original size:66 final size:65
Alignment explanation
Indices: 78794397--78794533 Score: 159
Period size: 66 Copynumber: 2.1 Consensus size: 65
78794387 TCATATTTTG
* * * *
78794397 AAGTTGTAGCTGGAGTTCGTCTATTTTCTTGTTGCCTCTACTTCCCTCGCTGCTCCCTCCGCTTT
1 AAGTTGTAGCTGGAGTTCATCTATTTTCTTGTAGCCTCTACTTCCCTCGATACTCCCTCCGCTTT
* * * * * *
78794462 AAGTTGTAGTTGGAGTTCATCATATTTTCATT-TAGCCTTTGCTTCTCTCGATACTGCCTCTGCT
1 AAGTTGTAGCTGGAGTTCATC-TATTTTC-TTGTAGCCTCTACTTCCCTCGATACTCCCTCCGCT
78794526 TT
64 TT
78794528 AAGTTG
1 AAGTTG
78794534 AGAAATTTGC
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
65 19 0.32
66 39 0.65
67 2 0.03
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.43
Consensus pattern (65 bp):
AAGTTGTAGCTGGAGTTCATCTATTTTCTTGTAGCCTCTACTTCCCTCGATACTCCCTCCGCTTT
Found at i:78796709 original size:29 final size:29
Alignment explanation
Indices: 78796675--78796779 Score: 86
Period size: 29 Copynumber: 3.6 Consensus size: 29
78796665 TACTCGATTT
* * *
78796675 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
78796704 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
78796733 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
78796762 TGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
78796780 TATTTCCAGC
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:78796767 original size:58 final size:59
Alignment explanation
Indices: 78796713--78796835 Score: 178
Period size: 58 Copynumber: 2.1 Consensus size: 59
78796703 CCGCACACAC
* *
78796713 AGTGCCATACCCTTCGAGC-TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
* * * *
78796771 AGTGCCATATATTTCCAGCAT-GCACACTCAGTGCCATATTTTTCCAGCATGCACACTT
1 AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
78796829 AGTGCCA
1 AGTGCCA
78796836 ATCTCGTCAC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
58 57 0.98
59 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.28
Consensus pattern (59 bp):
AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
Found at i:78796780 original size:29 final size:29
Alignment explanation
Indices: 78796734--78796835 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
78796724 CTTCGAGCTC
78796734 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
78796763 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
* *
78796792 GCACACTCAGTGCCATATTTTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
78796821 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
78796836 ATCTCGTCAC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:78804687 original size:29 final size:29
Alignment explanation
Indices: 78804653--78804757 Score: 86
Period size: 29 Copynumber: 3.6 Consensus size: 29
78804643 TACTCGATTT
* * *
78804653 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
78804682 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
78804711 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
78804740 TGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
78804758 TATTTCCAGC
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:78804745 original size:58 final size:59
Alignment explanation
Indices: 78804691--78804813 Score: 178
Period size: 58 Copynumber: 2.1 Consensus size: 59
78804681 CCGCACACAC
* *
78804691 AGTGCCATACCCTTCGAGC-TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
* * * *
78804749 AGTGCCATATATTTCCAGCAT-GCACACTCAGTGCCATATTTTTCCAGCATGCACACTT
1 AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
78804807 AGTGCCA
1 AGTGCCA
78804814 ATCTCGTCAC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
58 57 0.98
59 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.28
Consensus pattern (59 bp):
AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
Found at i:78804758 original size:29 final size:29
Alignment explanation
Indices: 78804712--78804813 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
78804702 CTTCGAGCTC
78804712 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
78804741 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
* *
78804770 GCACACTCAGTGCCATATTTTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
78804799 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
78804814 ATCTCGTCAC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:78810786 original size:40 final size:39
Alignment explanation
Indices: 78810706--78810955 Score: 164
Period size: 40 Copynumber: 6.6 Consensus size: 39
78810696 TGAGCCTAGC
* * *
78810706 TCTAGTTGGATAAACC-A--ATTATATTTGCA-CCCAGT
1 TCTAGTCGGATAAACCGACGATAATAATTGCAGCCCAGT
* *
78810741 ACTAGTCGGATATACCGACGATAATAATTGCAAGCCCAGT
1 TCTAGTCGGATAAACCGACGATAATAATTGC-AGCCCAGT
* * * **
78810781 TCTAGTTGGATAAACC-A--ACAATATTTGCA-CTTAGT
1 TCTAGTCGGATAAACCGACGATAATAATTGCAGCCCAGT
* * * *
78810816 GCTAGTCGGATATACCGACGATAATAATTGTGAGCCCAGC
1 TCTAGTCGGATAAACCGACGATAATAATTG-CAGCCCAGT
* * * *
78810856 TCTAGTTGGATAAACC-A--ACAATATTTGCA-CCTAGT
1 TCTAGTCGGATAAACCGACGATAATAATTGCAGCCCAGT
* * * * *
78810891 GCTAGTCAGATATACCGACGATAATAATTGTGAGCCCAGC
1 TCTAGTCGGATAAACCGACGATAATAATTG-CAGCCCAGT
* *
78810931 TCTAGTTGGATAAACCAACGATAAT
1 TCTAGTCGGATAAACCGACGATAAT
78810956 TGCGGCCAAC
Statistics
Matches: 157, Mismatches: 43, Indels: 25
0.70 0.19 0.11
Matches are distributed among these distances:
35 46 0.29
36 5 0.03
37 17 0.11
38 25 0.16
39 5 0.03
40 59 0.38
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (39 bp):
TCTAGTCGGATAAACCGACGATAATAATTGCAGCCCAGT
Found at i:78810795 original size:75 final size:75
Alignment explanation
Indices: 78810694--78810958 Score: 422
Period size: 75 Copynumber: 3.5 Consensus size: 75
78810684 TGATATTGAA
* ** * *
78810694 TGTGAGCCTAGCTCTAGTTGGATAAACCAATTATATTTGCACCCAGTACTAGTCGGATATACCGA
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACAATATTTGCACCTAGTGCTAGTCGGATATACCGA
78810759 CGATAATAAT
66 CGATAATAAT
** * *
78810769 TGCAAGCCCAGTTCTAGTTGGATAAACCAACAATATTTGCACTTAGTGCTAGTCGGATATACCGA
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACAATATTTGCACCTAGTGCTAGTCGGATATACCGA
78810834 CGATAATAAT
66 CGATAATAAT
*
78810844 TGTGAGCCCAGCTCTAGTTGGATAAACCAACAATATTTGCACCTAGTGCTAGTCAGATATACCGA
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACAATATTTGCACCTAGTGCTAGTCGGATATACCGA
78810909 CGATAATAAT
66 CGATAATAAT
* *
78810919 TGTGAGCCCAGCTCTAGTTGGATAAACCAACGATAATTGC
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACAATATTTGC
78810959 GGCCAACACT
Statistics
Matches: 174, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 174 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (75 bp):
TGTGAGCCCAGCTCTAGTTGGATAAACCAACAATATTTGCACCTAGTGCTAGTCGGATATACCGA
CGATAATAAT
Found at i:78810821 original size:35 final size:35
Alignment explanation
Indices: 78810707--78810896 Score: 123
Period size: 35 Copynumber: 5.1 Consensus size: 35
78810697 GAGCCTAGCT
** * *
78810707 CTAGTTGGATAAACCAATTATATTTGCACCCAGTA
1 CTAGTTGGATAAACCAACAATATTTGCACCTAGTG
* * * * * *
78810742 CTAGTCGGATATACCGACGATAATAATTGCAAGCCCAGTT
1 CTAGTTGGATAAACC-A--ACAATATTTGC-A-CCTAGTG
*
78810782 CTAGTTGGATAAACCAACAATATTTGCACTTAGTG
1 CTAGTTGGATAAACCAACAATATTTGCACCTAGTG
* * * *
78810817 CTAGTCGGATATACCGACGATAATAATTGTG-AGCCCAGCT-
1 CTAGTTGGATAAACC-A--ACAAT-ATT-TGCA-CCTAG-TG
78810857 CTAGTTGGATAAACCAACAATATTTGCACCTAGTG
1 CTAGTTGGATAAACCAACAATATTTGCACCTAGTG
78810892 CTAGT
1 CTAGT
78810897 CAGATATACC
Statistics
Matches: 120, Mismatches: 21, Indels: 28
0.71 0.12 0.17
Matches are distributed among these distances:
34 1 0.01
35 41 0.34
36 7 0.06
37 13 0.11
38 13 0.11
39 7 0.06
40 37 0.31
41 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (35 bp):
CTAGTTGGATAAACCAACAATATTTGCACCTAGTG
Found at i:78817578 original size:12 final size:14
Alignment explanation
Indices: 78817563--78817594 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
78817553 GTGAGAACAC
78817563 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
78817575 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
78817589 ATGTGT
1 ATGTGT
78817595 TTAAAATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:78817743 original size:51 final size:51
Alignment explanation
Indices: 78817664--78817792 Score: 127
Period size: 51 Copynumber: 2.5 Consensus size: 51
78817654 AGTTAGGTTG
* * * ***
78817664 CATGTGTAGTACTAAGCA-CAGGCTACTATGCGTACCCGATAGCTTCT-ATCA
1 CATGTGTGGTACTAAG-AGAAGGCCACTATGCGTAAAAGATAGCTT-TGATCA
* *
78817715 CATGTGTGGTACTAAGAGAAGGCCACTATGTGTAAAAGATAGCTTTGGTCA
1 CATGTGTGGTACTAAGAGAAGGCCACTATGCGTAAAAGATAGCTTTGATCA
* * *
78817766 CAAGTGTGGTACTATGTGAAGGCCACT
1 CATGTGTGGTACTAAGAGAAGGCCACT
78817793 TTGTGAAGAA
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
50 2 0.03
51 63 0.97
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (51 bp):
CATGTGTGGTACTAAGAGAAGGCCACTATGCGTAAAAGATAGCTTTGATCA
Found at i:78817809 original size:51 final size:50
Alignment explanation
Indices: 78817701--78817842 Score: 153
Period size: 51 Copynumber: 2.8 Consensus size: 50
78817691 ATGCGTACCC
* * * *
78817701 GATAGCTTCTATCACATGTGTGGTACTAAGAGAAGGCCACTATGTGTAAAA
1 GATAGCTT-TGTCACAAGTGTGGTACTATGTGAAGGCCACTATGTGTAAAA
*
78817752 GATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTG-AAGAA
1 GATAGCTTT-GTCACAAGTGTGGTACTATGTGAAGGCCACTATGTGTAA-AA
* * *
78817803 GGTAGCTTTGACTACAAGGGTGGTACTATGTGCAA-GCCAC
1 GATAGCTTTGTC-ACAAGTGTGGTACTATGTG-AAGGCCAC
78817843 CGGGCATCCG
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
50 5 0.06
51 72 0.91
52 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.27
Consensus pattern (50 bp):
GATAGCTTTGTCACAAGTGTGGTACTATGTGAAGGCCACTATGTGTAAAA
Found at i:78829593 original size:50 final size:48
Alignment explanation
Indices: 78829534--78829711 Score: 164
Period size: 49 Copynumber: 3.6 Consensus size: 48
78829524 TGAGATGTGT
*
78829534 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGATATATGAGAGC
1 CAGTGTAAGACCATGTCTAGGACATGGCATC-GCACTAGAT-TATGA-AGC
** * * *
78829584 CAGTGTAAGACCATGTCTAGGACACAGCATCAGC-CTCGATTACGATAGT
1 CAGTGTAAGACCATGTCTAGGACATGGCATC-GCACTAGATTATGA-AGC
* * *
78829633 CAATGTAAGACCATGTCTAGGACATGGCATCGAACTTGATGTATGAA-C
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGCACTAGAT-TATGAAGC
* * * *
78829681 TAGTGTAAGATCATGTGTGGGACATGGCATC
1 CAGTGTAAGACCATGTCTAGGACATGGCATC
78829712 AGCATTCTAC
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
48 27 0.26
49 41 0.39
50 37 0.35
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGCACTAGATTATGAAGC
Found at i:78834478 original size:30 final size:30
Alignment explanation
Indices: 78834442--78834542 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
78834432 GACAAGATTG
* * *
78834442 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
78834472 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
78834500 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
78834529 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
78834543 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:78834554 original size:29 final size:28
Alignment explanation
Indices: 78834471--78834546 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
78834461 AAAATTGTAC
* *
78834471 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
78834499 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
78834528 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
78834547 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:78842314 original size:30 final size:30
Alignment explanation
Indices: 78842278--78842378 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
78842268 GACAAGATTG
* * *
78842278 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
78842308 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
78842336 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
78842365 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
78842379 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:78842390 original size:29 final size:28
Alignment explanation
Indices: 78842307--78842382 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
78842297 AAAATTGTAC
* *
78842307 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
78842335 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
78842364 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
78842383 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:78844102 original size:24 final size:24
Alignment explanation
Indices: 78844070--78844129 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
78844060 CTGATTGTCC
*
78844070 ATTAAAAATGAAAGCAGTCTGTTG
1 ATTAAAAATGAAAGCAGCCTGTTG
78844094 ATTAAAAATGAAAGCAGCCTGTTG
1 ATTAAAAATGAAAGCAGCCTGTTG
78844118 ATTAAAAATGAA
1 ATTAAAAATGAA
78844130 GACAAACTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.47, C:0.08, G:0.18, T:0.27
Consensus pattern (24 bp):
ATTAAAAATGAAAGCAGCCTGTTG
Found at i:78845010 original size:30 final size:31
Alignment explanation
Indices: 78844934--78845016 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
78844924 TTAATCTCGA
*
78844934 CATAT-ACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
78844964 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
78844995 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
78845017 ACTGTAAGCG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 18 0.35
31 33 0.65
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:78845264 original size:25 final size:25
Alignment explanation
Indices: 78845236--78845304 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
78845226 CTCTTTTAAT
* *
78845236 AACTGGGGCAAATCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
78845261 AACTAGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
78845286 AACTGGGGCATAG-CCTTTT
1 AACTGGGGCAAAGCCCTTTT
78845305 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 6 0.15
25 33 0.85
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:78846173 original size:27 final size:27
Alignment explanation
Indices: 78846114--78846175 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
78846104 TATATTCGTT
78846114 ATTTTACCATACAGGAGTATTACGGTC
1 ATTTTACCATACAGGAGTATTACGGTC
* * *
78846141 ACTTTACCCTACAGGGGCT-TTACGGTC
1 ATTTTACCATACAGGAG-TATTACGGTC
*
78846168 TTTTTACC
1 ATTTTACC
78846176 TATTAGGGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (27 bp):
ATTTTACCATACAGGAGTATTACGGTC
Found at i:78846259 original size:27 final size:27
Alignment explanation
Indices: 78846206--78846415 Score: 161
Period size: 27 Copynumber: 7.7 Consensus size: 27
78846196 TTTCATCCTA
* * * *
78846206 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* **
78846233 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* ** * *
78846260 CAATGGTATTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTACAAA-C
* ** *
78846289 CAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
* * *
78846316 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
** *
78846343 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
*
78846370 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTCGGTAATTTTACAAAC
* *
78846397 TAAGGGTATTTTGGTAATT
1 CAAGGGTATTTCGGTAATT
78846416 CTACCCTATA
Statistics
Matches: 147, Mismatches: 32, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
26 2 0.01
27 114 0.78
28 16 0.11
29 15 0.10
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAC
Found at i:78846334 original size:56 final size:54
Alignment explanation
Indices: 78846214--78846415 Score: 203
Period size: 54 Copynumber: 3.7 Consensus size: 54
78846204 TACAAGGGTG
* * * * *
78846214 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTCTGTAATTTTGTAAACCAGTGGTA
* * * *
78846268 TTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTA
1 TTT-TGGTAA-TTTTACAAA-TCAAGGGTATTTCTGTAATTTTGTAAACCAGTGGTA
** * ***
78846324 TTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTCTGTAATTTTGTAAACCAGTGGTA
78846378 TTTTGGTAATTTTACAAA-CTAAGGGTATTT-TGGTAATT
1 TTTTGGTAATTTTACAAATC-AAGGGTATTTCT-GTAATT
78846416 CTACCCTATA
Statistics
Matches: 120, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
54 67 0.56
55 16 0.13
56 37 0.31
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAATCAAGGGTATTTCTGTAATTTTGTAAACCAGTGGTA
Found at i:78846455 original size:27 final size:27
Alignment explanation
Indices: 78846313--78846455 Score: 107
Period size: 27 Copynumber: 5.3 Consensus size: 27
78846303 TAATTTTGTA
*
78846313 AATC-AGGGGTATTTTGGTAATTTTAC
1 AATCAAGGGGTATTTTGGTAATTTCAC
** *
78846339 AAATTGA-GGGTATTTCGGTAATTTCAC
1 -AATCAAGGGGTATTTTGGTAATTTCAC
* * * *
78846366 AAACCAGTGGTATTTTGGTAATTTTAC
1 AATCAAGGGGTATTTTGGTAATTTCAC
*
78846393 AAACTAA-GGGTATTTTGGTAA-TTCTAC
1 AATC-AAGGGGTATTTTGGTAATTTC-AC
** *
78846420 CCT-ATAGGGGTATTTTAGTAATTTCAC
1 AATCA-AGGGGTATTTTGGTAATTTCAC
78846447 AATCAAGGG
1 AATCAAGGG
78846456 TAAAACGGTA
Statistics
Matches: 90, Mismatches: 18, Indels: 16
0.73 0.15 0.13
Matches are distributed among these distances:
25 1 0.01
26 6 0.07
27 77 0.86
28 6 0.07
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (27 bp):
AATCAAGGGGTATTTTGGTAATTTCAC
Found at i:78846477 original size:27 final size:27
Alignment explanation
Indices: 78846447--78846538 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
78846437 GTAATTTCAC
* *
78846447 AATCAAGGGTAAAACGGTAATTTTGTA
1 AATCAAGGGTAAAACAGTAATTCTGTA
*
78846474 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCAAGGGTAAAACAGTAATTCTGTA
*
78846501 AATCAAGGGTAAAACAGTAATTCTATA
1 AATCAAGGGTAAAACAGTAATTCTGTA
*
78846528 AATCGAGGGTA
1 AATCAAGGGTA
78846539 CTTTGGTAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (27 bp):
AATCAAGGGTAAAACAGTAATTCTGTA
Found at i:78847767 original size:20 final size:20
Alignment explanation
Indices: 78847742--78847779 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
78847732 GTTTATTCGC
*
78847742 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
78847762 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
78847780 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:78849437 original size:28 final size:28
Alignment explanation
Indices: 78849405--78849473 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
78849395 GCGTAGATCA
78849405 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
78849433 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
78849461 CGATA-TACCCCTA
1 CGAAATTACCCCTA
78849474 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:78856044 original size:28 final size:28
Alignment explanation
Indices: 78856012--78856080 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
78856002 GCGTAGATCA
78856012 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
78856040 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
78856068 CGATA-TACCCCTA
1 CGAAATTACCCCTA
78856081 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:78860307 original size:3 final size:3
Alignment explanation
Indices: 78860299--78860329 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
78860289 TCTAGAAAAA
*
78860299 GAT GAT GAT GAT GAT GAT GAT GGT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
78860330 GTGAATCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.39, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:78861608 original size:29 final size:30
Alignment explanation
Indices: 78861553--78861609 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
78861543 CTCTCACATT
*
78861553 TCTTTTGTTTTTCTCTATTTCCCTTTGCTC
1 TCTTTTCTTTTTCTCTATTTCCCTTTGCTC
*
78861583 TCTTTTCTTCTTTCT-T-TTTCCTTTTGC
1 TCTTTTCTT-TTTCTCTATTTCCCTTTGC
78861610 GATTGAAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.42
30 9 0.38
31 5 0.21
ACGTcount: A:0.02, C:0.26, G:0.05, T:0.67
Consensus pattern (30 bp):
TCTTTTCTTTTTCTCTATTTCCCTTTGCTC
Found at i:78865182 original size:26 final size:25
Alignment explanation
Indices: 78865153--78865203 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
78865143 AAAAAGTTAT
*
78865153 CGAAAAAAGTACAAAAAAATAAAATA
1 CGAAAAAAATACAAAAAAA-AAAATA
* *
78865179 CGAAAAAAATAGAAATAAAAAAATA
1 CGAAAAAAATACAAAAAAAAAAATA
78865204 TTCTATGGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.75, C:0.06, G:0.08, T:0.12
Consensus pattern (25 bp):
CGAAAAAAATACAAAAAAAAAAATA
Found at i:78870972 original size:44 final size:44
Alignment explanation
Indices: 78870827--78870972 Score: 120
Period size: 44 Copynumber: 3.3 Consensus size: 44
78870817 ATGGGGGTAG
* * *
78870827 GATATGCTATGATATGTGATAAGATA-AGTTTTGATATG-CAATAT
1 GATATGCTATGATATGTAATAAGATACA-TTCTAATATGAC-ATAT
* * * * * *
78870871 GATATGCTATGACATGTTACTAAGTATAC--GCCAATATGAAATTT
1 GATATGCTATGATATG-TAATAAG-ATACATTCTAATATGACATAT
* * *
78870915 GAAATGATGTGATATGTAATAAGATACATTCTAATATGACATAT
1 GATATGCTATGATATGTAATAAGATACATTCTAATATGACATAT
78870959 GATATGCTATGATA
1 GATATGCTATGATA
78870973 CATTCCGTTA
Statistics
Matches: 75, Mismatches: 21, Indels: 12
0.69 0.19 0.11
Matches are distributed among these distances:
42 4 0.05
43 6 0.08
44 57 0.76
45 5 0.07
46 3 0.04
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (44 bp):
GATATGCTATGATATGTAATAAGATACATTCTAATATGACATAT
Found at i:78873414 original size:47 final size:49
Alignment explanation
Indices: 78873344--78873614 Score: 243
Period size: 46 Copynumber: 5.8 Consensus size: 49
78873334 GGGTAAGGTA
*
78873344 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCAT-ATCTCA-AG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCATAG
* *
78873391 TCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCATAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCATAG
* * * * *
78873439 CCGAT-TCATGTCCCAGTCAT-GTCTTACACTAGCTTA-CGTCTCA-AGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCATA-G
* * *
78873485 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCAC-TCGTCTCGATA-
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTC-ATAG
* * *
78873531 CCGATGCCATG-CCCTAGACATGGTCTTACACTGGCTC-TCATAAT-GTGG
1 CCGATGCCATGTCCC-AGACATGGTCTTACACTGGCTCATCAT-CTCATAG
*
78873579 CCGATG-CATG-CCCTAGACAT-GTCTTACACTAGCTCA
1 CCGATGCCATGTCCC-AGACATGGTCTTACACTGGCTCA
78873615 CAATAACCCT
Statistics
Matches: 191, Mismatches: 19, Indels: 28
0.80 0.08 0.12
Matches are distributed among these distances:
45 1 0.01
46 81 0.42
47 79 0.41
48 29 0.15
49 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (49 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCATAG
Found at i:78880934 original size:48 final size:47
Alignment explanation
Indices: 78880867--78881048 Score: 212
Period size: 48 Copynumber: 3.9 Consensus size: 47
78880857 CACATGGTAG
* *
78880867 GATGCTAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
1 GATGCCAA-GCCATATCCCAGACATGGTCTTACATGGGATCACATATC
* *
78880915 GATGCCAATGCTATGTCCCAGACATGGTCTTACATGGGATCACATATC
1 GATGCCAA-GCCATATCCCAGACATGGTCTTACATGGGATCACATATC
* * ** *
78880963 GATGCC--G--ATAACCCAG-CTATGGTCTTACACGAAATTACATATC
1 GATGCCAAGCCATATCCCAGAC-ATGGTCTTACATGGGATCACATATC
*
78881006 GATGCCAAGCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 GATGCCAAGCCATATCCCAGACATGGTCTTACATGGGATCACA
78881049 CAAAACCCTA
Statistics
Matches: 112, Mismatches: 16, Indels: 13
0.79 0.11 0.09
Matches are distributed among these distances:
42 1 0.01
43 34 0.30
45 2 0.02
47 24 0.21
48 51 0.46
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (47 bp):
GATGCCAAGCCATATCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:78881043 original size:90 final size:90
Alignment explanation
Indices: 78880874--78881048 Score: 271
Period size: 90 Copynumber: 1.9 Consensus size: 90
78880864 TAGGATGCTA
* * ** *
78880874 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCGATGCCAATGCTATGTCCCAGACA
1 ATGCCATAACCCAGATATGGTCTTACACGAAATCACATATCGATGCCAATGCCATGTCCCAGACA
78880939 TGGTCTTACATGGGATCACATATCG
66 TGGTCTTACATGGGATCACATATCG
* *
78880964 ATGCCGATAACCCAGCTATGGTCTTACACGAAATTACATATCGATGCCAA-GCCATGTCCCAGAC
1 ATGCC-ATAACCCAGATATGGTCTTACACGAAATCACATATCGATGCCAATGCCATGTCCCAGAC
78881028 ATGGTCTTACATGGGATCACA
65 ATGGTCTTACATGGGATCACA
78881049 CAAAACCCTA
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
90 39 0.51
91 38 0.49
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (90 bp):
ATGCCATAACCCAGATATGGTCTTACACGAAATCACATATCGATGCCAATGCCATGTCCCAGACA
TGGTCTTACATGGGATCACATATCG
Found at i:78882749 original size:187 final size:186
Alignment explanation
Indices: 78882435--78882809 Score: 687
Period size: 187 Copynumber: 2.0 Consensus size: 186
78882425 AATAAGTTAT
78882435 AATAAATTTGTAACGACCTAAAAGTCAGTGGTATTGGAAATGCAGTTTCGAGACCCCGTTTCTAT
1 AATAAATTTGTAACGACCTAAAAGTCAGTGGTATTGGAAATGCAGTTTCGAGACCCCGTTTCTAT
78882500 AAACTAAGCCCGTAAATATTTTTTGTTAAATATTTACGGAGTTATAGTACAGATGAATGAATTTT
66 AAACTAAGCCCGTAAATATTTTTTGTTAAATATTTACGGAGTTATAGTACAGATGAATGAATTTT
78882565 GAATAGGTAATTTTGTGAAATTAGTGACTAATCAAGGTACAAGGATTAAATCATAA
131 GAATAGGTAATTTTGTGAAATTAGTGACTAATCAAGGTACAAGGATTAAATCATAA
* * * *
78882621 AATAAATTTGTAACGACCTGAAAGTCAGTGGTATTGGGAAATGCAGTTTTGAGACCCTGTTTCTG
1 AATAAATTTGTAACGACCTAAAAGTCAGTGGTATT-GGAAATGCAGTTTCGAGACCCCGTTTCTA
* *
78882686 TAAACTAAGCCCGTAAATATTTTTTGTTAAATATTTATGGAGTTATTGTACAGATGAATGAATTT
65 TAAACTAAGCCCGTAAATATTTTTTGTTAAATATTTACGGAGTTATAGTACAGATGAATGAATTT
78882751 TGAATAGGTAATTTTGTGAAATTAGTGACTAATCAAGGTACAAGGATTAAATCATAA
130 TGAATAGGTAATTTTGTGAAATTAGTGACTAATCAAGGTACAAGGATTAAATCATAA
78882808 AA
1 AA
78882810 GTAGTGAAAA
Statistics
Matches: 182, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
186 34 0.19
187 148 0.81
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (186 bp):
AATAAATTTGTAACGACCTAAAAGTCAGTGGTATTGGAAATGCAGTTTCGAGACCCCGTTTCTAT
AAACTAAGCCCGTAAATATTTTTTGTTAAATATTTACGGAGTTATAGTACAGATGAATGAATTTT
GAATAGGTAATTTTGTGAAATTAGTGACTAATCAAGGTACAAGGATTAAATCATAA
Found at i:78887332 original size:28 final size:27
Alignment explanation
Indices: 78887293--78887397 Score: 108
Period size: 27 Copynumber: 3.9 Consensus size: 27
78887283 CCCTGTTTAG
* *
78887293 AATACT-TTAGTTTACTAAAATTACCGA
1 AATACTCTTAGTTT-GTAAAATTACTGA
*
78887320 AATACTCTTAGTTTGTAAAAATACTGA
1 AATACTCTTAGTTTGTAAAATTACTGA
*
78887347 AATACCCTT-GATTTGTAAAATTACTGA
1 AATACTCTTAG-TTTGTAAAATTACTGA
* *
78887374 AATAC-CTTCGACTTGTAAAATTAC
1 AATACTCTTAG-TTTGTAAAATTAC
78887398 CAAAGTACCC
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
26 4 0.06
27 58 0.84
28 7 0.10
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (27 bp):
AATACTCTTAGTTTGTAAAATTACTGA
Found at i:78887381 original size:26 final size:26
Alignment explanation
Indices: 78887308--78887397 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 26
78887298 TTTAGTTTAC
*
78887308 TAAAATTACCGAAATACTCTT-AGTTTG
1 TAAAATTACTGAAATAC-CTTGA-TTTG
*
78887335 TAAAAATACTGAAATACCCTTGATTTG
1 TAAAATTACTGAAATA-CCTTGATTTG
*
78887362 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCTT-GATTTG
78887389 TAAAATTAC
1 TAAAATTAC
78887398 CAAAGTACCC
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
26 4 0.07
27 50 0.89
28 2 0.04
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (26 bp):
TAAAATTACTGAAATACCTTGATTTG
Found at i:78887414 original size:54 final size:54
Alignment explanation
Indices: 78887308--78887414 Score: 119
Period size: 54 Copynumber: 2.0 Consensus size: 54
78887298 TTTAGTTTAC
* * **
78887308 TAAAATTACCGAAATACTCTTAGTTTGTAAAAATACTGAAATACCCTTGATTTG
1 TAAAATTACCGAAATACTCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
78887362 TAAAATTACTGAAATAC-CTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACTCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
78887415 ACAGAATTAC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
53 7 0.16
54 37 0.84
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (54 bp):
TAAAATTACCGAAATACTCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:78887615 original size:27 final size:27
Alignment explanation
Indices: 78887403--78887614 Score: 255
Period size: 27 Copynumber: 7.9 Consensus size: 27
78887393 ATTACCAAAG
* *
78887403 TACCCCCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * * *
78887430 TACCCCCAATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
78887457 TACCCCCGATTTACATAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* *
78887484 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
78887511 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
78887538 TATCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
78887565 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
78887592 TACCCTCGATTTATAAAATTACT
1 TACCCTCGATTTACAGAATTACT
78887615 AAAAAACCAT
Statistics
Matches: 166, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
27 166 1.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:78887663 original size:27 final size:27
Alignment explanation
Indices: 78887605--78887877 Score: 194
Period size: 27 Copynumber: 10.1 Consensus size: 27
78887595 CCTCGATTTA
* * * *
78887605 TAAAATTACTAAAA-AACCATAGTCTG
1 TAAAATTACTAAAATACCCTTGGTTTG
*
78887631 TAAAATTGCTAAAATACCCTTGGTTTG
1 TAAAATTACTAAAATACCCTTGGTTTG
***
78887658 TAAAATTAC-AGAAATACCCTCAATTTG
1 TAAAATTACTA-AAATACCCTTGGTTTG
* * *
78887685 TAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACTAAAATACCCTTGGTTTG
**
78887712 TAAAATTACTAAAATACTATTGGTTTG
1 TAAAATTACTAAAATACCCTTGGTTTG
* ** ***
78887739 TGAAATTACCGAAATACCCTCAATTTG
1 TAAAATTACTAAAATACCCTTGGTTTG
* * * *
78887766 TAAAATTACCAAAATACCCCTGATTTA
1 TAAAATTACTAAAATACCCTTGGTTTG
* * * *
78887793 CAAAGTTAC-AGAAATACCCTTGACTTTT
1 TAAAATTACTA-AAATACCCTTG-GTTTG
* *
78887821 TAAAAATTA-TAGAAATACCATTGGTTTA
1 T-AAAATTACTA-AAATACCCTTGGTTTG
* *
78887849 CAAAATTACTGAAATACCCTTGGTTTG
1 TAAAATTACTAAAATACCCTTGGTTTG
78887876 TA
1 TA
78887878 GATTTACCAA
Statistics
Matches: 193, Mismatches: 46, Indels: 15
0.76 0.18 0.06
Matches are distributed among these distances:
26 15 0.08
27 152 0.79
28 8 0.04
29 18 0.09
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.33
Consensus pattern (27 bp):
TAAAATTACTAAAATACCCTTGGTTTG
Found at i:78887735 original size:81 final size:81
Alignment explanation
Indices: 78887592--78887786 Score: 284
Period size: 81 Copynumber: 2.4 Consensus size: 81
78887582 ATTACTATTT
* * * * * * *
78887592 TACCCTCGATTTATAAAATTACTAAAA-AACCATAGTCTGTAAAATTGCTAAAATACCCTTGGTT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACTAAAATACCATTGGTT
78887656 TGTAAAATTACAGAAA
66 TGTAAAATTACAGAAA
* *
78887672 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACTATTGGTT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACTAAAATACCATTGGTT
* *
78887737 TGTGAAATTACCGAAA
66 TGTAAAATTACAGAAA
78887753 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
78887787 GATTTACAAA
Statistics
Matches: 103, Mismatches: 11, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
80 24 0.23
81 79 0.77
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (81 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACTAAAATACCATTGGTT
TGTAAAATTACAGAAA
Found at i:78887992 original size:27 final size:27
Alignment explanation
Indices: 78887915--78887992 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
78887905 AAGTGACTAA
* *
78887915 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
78887942 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
78887969 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
78887993 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:78889173 original size:25 final size:25
Alignment explanation
Indices: 78889141--78889188 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
78889131 TTATAACATG
*
78889141 AAAATGACCATTTTACCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
78889166 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
78889189 GTTTATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:78889250 original size:20 final size:20
Alignment explanation
Indices: 78889225--78889354 Score: 208
Period size: 20 Copynumber: 6.5 Consensus size: 20
78889215 ATTTTAATAA
*
78889225 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
78889245 ACATGACATGTATGATATGC
1 ACATGACATGTATGATATGC
* *
78889265 ACGTGATATGTATGATATGC
1 ACATGACATGTATGATATGC
78889285 AC-TGACATGTATGATATGC
1 ACATGACATGTATGATATGC
78889304 ACATGACATGTATGATATGC
1 ACATGACATGTATGATATGC
*
78889324 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
*
78889344 ACATGAGATGT
1 ACATGACATGT
78889355 TCATAAATGC
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
19 18 0.17
20 85 0.83
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (20 bp):
ACATGACATGTATGATATGC
Found at i:78889295 original size:59 final size:60
Alignment explanation
Indices: 78889225--78889354 Score: 226
Period size: 59 Copynumber: 2.2 Consensus size: 60
78889215 ATTTTAATAA
* *
78889225 ACATGATATGTATGATATGCACATGACATGTATGATATGCACGTGATATGTATGATATGC
1 ACATGACATGTATGATATGCACATGACATGTATGATATGCACATGATATGTATGATATGC
78889285 AC-TGACATGTATGATATGCACATGACATGTATGATATGCACATGATATGTATGATATGC
1 ACATGACATGTATGATATGCACATGACATGTATGATATGCACATGATATGTATGATATGC
*
78889344 ACATGAGATGT
1 ACATGACATGT
78889355 TCATAAATGC
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
59 57 0.86
60 9 0.14
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (60 bp):
ACATGACATGTATGATATGCACATGACATGTATGATATGCACATGATATGTATGATATGC
Found at i:78889534 original size:24 final size:24
Alignment explanation
Indices: 78889401--78889569 Score: 211
Period size: 25 Copynumber: 7.0 Consensus size: 24
78889391 AGGAAGTGCA
78889401 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
78889424 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
**
78889447 AAAGGGCTTATGCCCCAACTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
78889472 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
* *
78889497 GAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
*
78889521 AAAGGGCTTTTGCCCCAGTTACTA-
1 AAAGGGCTTATGCCCCAGTTA-TAT
*
78889545 AAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAG-GGCTTATGCC-CCAGTTATAT
78889570 GATAAAGCAG
Statistics
Matches: 130, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
23 43 0.33
24 30 0.23
25 57 0.44
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:78889564 original size:49 final size:47
Alignment explanation
Indices: 78889400--78889569 Score: 209
Period size: 49 Copynumber: 3.5 Consensus size: 47
78889390 GAGGAAGTGC
78889400 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTAT
* **
78889446 TAAAGGGCTTATGCCCCAACTATGATAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT-ATAAAGGGCTTATGCCCCAGTTAT
* * *
78889494 GATGAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTACT
1 -A-AAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTA-T
*
78889544 AAAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAAG-GGCTTATGCC-CCAGTTATAT
78889570 GATAAAGCAG
Statistics
Matches: 105, Mismatches: 12, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
46 20 0.19
48 31 0.30
49 34 0.32
50 20 0.19
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTAT
Found at i:78889796 original size:31 final size:31
Alignment explanation
Indices: 78889761--78889824 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
78889751 CGTTTACAGT
*
78889761 AAAGGATTCGGCCCAGTAATATGAAATATGA
1 AAAGGATTCGGCCCAGTAATATGAAAAATGA
* * **
78889792 AAAGGCTTTGGCCCAGTGTTATGAAAAATGA
1 AAAGGATTCGGCCCAGTAATATGAAAAATGA
78889823 AA
1 AA
78889825 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGATTCGGCCCAGTAATATGAAAAATGA
Found at i:78891494 original size:14 final size:14
Alignment explanation
Indices: 78891475--78891526 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
78891465 AGTATACAGT
78891475 ATACGAGTATGCAA
1 ATACGAGTATGCAA
* *
78891489 ATACGAATAGTATACAGG
1 ATACG---AGTATGCA-A
78891507 ATACGAGTATGCAA
1 ATACGAGTATGCAA
78891521 ATACGA
1 ATACGA
78891527 CCAAAATCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
14 11 0.37
15 7 0.23
17 7 0.23
18 5 0.17
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.21
Consensus pattern (14 bp):
ATACGAGTATGCAA
Found at i:78891502 original size:32 final size:32
Alignment explanation
Indices: 78891461--78891526 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
78891451 CATACGATAA
*
78891461 GAATAGTATACAGTATACGAGTATGCAAATAC
1 GAATAGTATACAGGATACGAGTATGCAAATAC
78891493 GAATAGTATACAGGATACGAGTATGCAAATAC
1 GAATAGTATACAGGATACGAGTATGCAAATAC
78891525 GA
1 GA
78891527 CCAAAATCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (32 bp):
GAATAGTATACAGGATACGAGTATGCAAATAC
Found at i:78891512 original size:18 final size:18
Alignment explanation
Indices: 78891456--78891512 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 18
78891446 ATTATCATAC
*
78891456 GATAAGAATAGTATACAG
1 GATACGAATAGTATACAG
* *
78891474 TATACG---AGTATGCA-
1 GATACGAATAGTATACAG
*
78891488 AATACGAATAGTATACAG
1 GATACGAATAGTATACAG
78891506 GATACGA
1 GATACGA
78891513 GTATGCAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
14 5 0.17
15 7 0.24
17 7 0.24
18 10 0.34
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.23
Consensus pattern (18 bp):
GATACGAATAGTATACAG
Found at i:78891704 original size:21 final size:21
Alignment explanation
Indices: 78891675--78891750 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 21
78891665 AATTAGAAAC
*
78891675 TTGAAAATAAAATGAAATAGA
1 TTGACAATAAAATGAAATAGA
78891696 TTGACAATAAAAT-AATATA-A
1 TTGACAATAAAATGAA-ATAGA
*
78891716 -TGA-AATGAGTTAATGAAATAGA
1 TTGACAAT-A--AAATGAAATAGA
78891738 TTGACAATAAAAT
1 TTGACAATAAAAT
78891751 AATATAATGA
Statistics
Matches: 44, Mismatches: 3, Indels: 16
0.70 0.05 0.25
Matches are distributed among these distances:
18 3 0.07
19 4 0.09
20 3 0.07
21 24 0.55
22 3 0.07
23 4 0.09
24 3 0.07
ACGTcount: A:0.57, C:0.03, G:0.13, T:0.28
Consensus pattern (21 bp):
TTGACAATAAAATGAAATAGA
Found at i:78891733 original size:42 final size:42
Alignment explanation
Indices: 78891685--78891769 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
78891675 TTGAAAATAA
78891685 AATGAAATAGATTGACAATAAAATAATATAATGAAATGAGTT
1 AATGAAATAGATTGACAATAAAATAATATAATGAAATGAGTT
78891727 AATGAAATAGATTGACAATAAAATAATATAATGAAATGAGTT
1 AATGAAATAGATTGACAATAAAATAATATAATGAAATGAGTT
78891769 A
1 A
78891770 TGTGAAATTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.55, C:0.02, G:0.14, T:0.28
Consensus pattern (42 bp):
AATGAAATAGATTGACAATAAAATAATATAATGAAATGAGTT
Found at i:78898121 original size:28 final size:28
Alignment explanation
Indices: 78898056--78898156 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
78898046 ATAGTGAATC
*
78898056 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
78898085 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
78898113 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
78898143 CGCACACTTAGTGC
1 CGCACACTTAGTGC
78898157 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:78906080 original size:28 final size:28
Alignment explanation
Indices: 78906015--78906115 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
78906005 ATAGTGAATC
*
78906015 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
78906044 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
78906072 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
78906102 CGCACACTTAGTGC
1 CGCACACTTAGTGC
78906116 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:78917327 original size:12 final size:12
Alignment explanation
Indices: 78917295--78917335 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
78917285 AAATTGGGTT
*
78917295 TTAATTAATTAA
1 TTAATTGATTAA
*
78917307 GTAAATTGATTAA
1 -TTAATTGATTAA
78917320 TTAATTGATTAA
1 TTAATTGATTAA
78917332 TTAA
1 TTAA
78917336 AGTGGTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (12 bp):
TTAATTGATTAA
Found at i:78917344 original size:25 final size:25
Alignment explanation
Indices: 78917295--78917344 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
78917285 AAATTGGGTT
*
78917295 TTAATTAATTAAGTAAATTGATTAA
1 TTAATTAATTAAGTAAAGTGATTAA
* * *
78917320 TTAATTGATTAATTAAAGTGGTTAA
1 TTAATTAATTAAGTAAAGTGATTAA
78917345 ATTATATTCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (25 bp):
TTAATTAATTAAGTAAAGTGATTAA
Found at i:78918851 original size:20 final size:20
Alignment explanation
Indices: 78918826--78918865 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
78918816 ATATGGCCAC
*
78918826 AAAAATTATTTTTTCACTTT
1 AAAAATTAATTTTTCACTTT
78918846 AAAAATTAATTTTTCACTTT
1 AAAAATTAATTTTTCACTTT
78918866 GGCATGTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (20 bp):
AAAAATTAATTTTTCACTTT
Found at i:78919247 original size:14 final size:14
Alignment explanation
Indices: 78919228--78919257 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
78919218 TTTCATATTT
*
78919228 TTTGGTGATACCAA
1 TTTGGTAATACCAA
78919242 TTTGGTAATACCAA
1 TTTGGTAATACCAA
78919256 TT
1 TT
78919258 CTCAATTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (14 bp):
TTTGGTAATACCAA
Found at i:78921980 original size:5 final size:5
Alignment explanation
Indices: 78921970--78922012 Score: 68
Period size: 5 Copynumber: 8.6 Consensus size: 5
78921960 CTCTGTGTTC
* *
78921970 TTTAT TTTAT TTTAT TTTAT TTTGT TTTGT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
78922013 TACACTTAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:78931030 original size:21 final size:21
Alignment explanation
Indices: 78931004--78931044 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
78930994 ATCTGCTCAA
* *
78931004 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
78931025 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
78931045 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:78934198 original size:10 final size:10
Alignment explanation
Indices: 78934185--78934223 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
78934175 ATTTTACAAT
*
78934185 ATTTTTAATA
1 ATTTTTTATA
*
78934195 ATTTCTTTAGA
1 ATTT-TTTATA
78934206 ATTTTTTATA
1 ATTTTTTATA
78934216 ATTTTTTA
1 ATTTTTTA
78934224 GAAAATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:78934211 original size:21 final size:20
Alignment explanation
Indices: 78934185--78934226 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
78934175 ATTTTACAAT
78934185 ATTTTTAATAATTTCTTTAGA
1 ATTTTTAATAATTT-TTTAGA
*
78934206 ATTTTTTATAATTTTTTAGA
1 ATTTTTAATAATTTTTTAGA
78934226 A
1 A
78934227 AATTTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (20 bp):
ATTTTTAATAATTTTTTAGA
Found at i:78938555 original size:23 final size:22
Alignment explanation
Indices: 78938529--78938572 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
78938519 TTATTTAATT
78938529 AATTTA-AGGTTAGGGTTTTTTAG
1 AATTTAGA-GTTA-GGTTTTTTAG
78938552 AATTTAGAGTTAGGTTTTTTA
1 AATTTAGAGTTAGGTTTTTTA
78938573 AGTTATGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 10 0.50
24 1 0.05
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (22 bp):
AATTTAGAGTTAGGTTTTTTAG
Found at i:78938570 original size:22 final size:23
Alignment explanation
Indices: 78938529--78938572 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
78938519 TTATTTAATT
78938529 AATTTAAGGTTAGGGTTTTTTAG
1 AATTTAAGGTTAGGGTTTTTTAG
78938552 AATTT-AGAGTTA-GGTTTTTTA
1 AATTTAAG-GTTAGGGTTTTTTA
78938573 AGTTATGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (23 bp):
AATTTAAGGTTAGGGTTTTTTAG
Found at i:78938584 original size:14 final size:15
Alignment explanation
Indices: 78938554--78938588 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
78938544 TTTTTTAGAA
78938554 TTTAGAGTTAGGTTT
1 TTTAGAGTTAGGTTT
78938569 TTTA-AGTTATGGTTT
1 TTTAGAGTTA-GGTTT
78938584 TTTAG
1 TTTAG
78938589 GGTTTTAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (15 bp):
TTTAGAGTTAGGTTT
Found at i:78938602 original size:15 final size:16
Alignment explanation
Indices: 78938584--78938614 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
78938574 GTTATGGTTT
78938584 TTTAGGG-TTTTAGGA
1 TTTAGGGATTTTAGGA
78938599 TTTAGGGATTTTAGGA
1 TTTAGGGATTTTAGGA
78938615 AAAAATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (16 bp):
TTTAGGGATTTTAGGA
Found at i:78938986 original size:26 final size:26
Alignment explanation
Indices: 78938952--78939006 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
78938942 CAATATACAT
78938952 ACACAAAAAAAAAATTCTCAAAGATA
1 ACACAAAAAAAAAATTCTCAAAGATA
*
78938978 ACACGAAAAAAAAATTCTCAAAGATA
1 ACACAAAAAAAAAATTCTCAAAGATA
78939004 ACA
1 ACA
78939007 TGATTGCAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.64, C:0.16, G:0.05, T:0.15
Consensus pattern (26 bp):
ACACAAAAAAAAAATTCTCAAAGATA
Found at i:78939533 original size:114 final size:114
Alignment explanation
Indices: 78939330--78939554 Score: 387
Period size: 114 Copynumber: 2.0 Consensus size: 114
78939320 AAGCTTTAAG
* * *
78939330 TGCACTGTTAGCAAAATTTCTGGAAAAAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTTCGT
1 TGCACTGTCAACAAAATTTCTGGAAAAAGCTCCCACATGGACGCTCTTTTACTACAGTAGTTCGT
*
78939395 AGAAAAATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAGGA
66 AGAAAAATAATTCTGAGTAAACGTTTCTGAACAAATAGTGTCGAAAGGA
* * *
78939444 TGCACTGTCAACAAAATTTCTGGAAAAAGGTTCCACGTGGACGCTCTTTTACTACAGTAGTTCGT
1 TGCACTGTCAACAAAATTTCTGGAAAAAGCTCCCACATGGACGCTCTTTTACTACAGTAGTTCGT
78939509 AGAAAAATAATTCTGAGTAAACGTTTCTGAACAAATAGTGTCGAAA
66 AGAAAAATAATTCTGAGTAAACGTTTCTGAACAAATAGTGTCGAAA
78939555 ATGCTTCAAG
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 104 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (114 bp):
TGCACTGTCAACAAAATTTCTGGAAAAAGCTCCCACATGGACGCTCTTTTACTACAGTAGTTCGT
AGAAAAATAATTCTGAGTAAACGTTTCTGAACAAATAGTGTCGAAAGGA
Found at i:78943605 original size:18 final size:18
Alignment explanation
Indices: 78943582--78943620 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
78943572 AATTTAAAGT
78943582 ATTAATTAAACTAATTAA
1 ATTAATTAAACTAATTAA
* *
78943600 ATTAATTAACCTAATTGA
1 ATTAATTAAACTAATTAA
78943618 ATT
1 ATT
78943621 TCTTATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (18 bp):
ATTAATTAAACTAATTAA
Found at i:78944027 original size:25 final size:25
Alignment explanation
Indices: 78943999--78944062 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
78943989 TACGGTTATT
*
78943999 ATGAGCTTCTCGTTACATGGCTCAC
1 ATGAGCTTCTCGTTACATGGCTCAA
* * *
78944024 ATGAGTTTCTTGTTATATGGCTCAA
1 ATGAGCTTCTCGTTACATGGCTCAA
* *
78944049 AAGAGCTTCCCGTT
1 ATGAGCTTCTCGTT
78944063 TATATGCTCG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (25 bp):
ATGAGCTTCTCGTTACATGGCTCAA
Found at i:78945493 original size:16 final size:16
Alignment explanation
Indices: 78945472--78945516 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
78945462 AAAGGCTTCT
78945472 ATTTTAATTTGTTTTA
1 ATTTTAATTTGTTTTA
78945488 ATTTTAATTT-TCTTTA
1 ATTTTAATTTGT-TTTA
* *
78945504 TTTTTCATTTGTT
1 ATTTTAATTTGTT
78945517 CGTTTTCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 1 0.04
16 23 0.92
17 1 0.04
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.71
Consensus pattern (16 bp):
ATTTTAATTTGTTTTA
Done.