Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 31 of 186
Found at i:9255981 original size:10 final size:10
Alignment explanation
Indices: 9255968--9256018 Score: 59
Period size: 10 Copynumber: 4.9 Consensus size: 10
9255958 TATCCTATTT
9255968 TAATTTTTTA
1 TAATTTTTTA
9255978 TAATTTTTTAAAA
1 TAATTTTTT---A
9255991 TAATTTTTTA
1 TAATTTTTTA
*
9256001 -ATTTTTTTA
1 TAATTTTTTA
9256010 TAATTTTTT
1 TAATTTTTT
9256019 TCCATTTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
9 8 0.23
10 17 0.49
13 10 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:9255995 original size:13 final size:13
Alignment explanation
Indices: 9255977--9256001 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9255967 TTAATTTTTT
9255977 ATAATTTTTTAAA
1 ATAATTTTTTAAA
9255990 ATAATTTTTTAA
1 ATAATTTTTTAA
9256002 TTTTTTTATA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATAATTTTTTAAA
Found at i:9257703 original size:148 final size:148
Alignment explanation
Indices: 9257477--9257921 Score: 728
Period size: 148 Copynumber: 3.1 Consensus size: 148
9257467 TATTATTTTA
*
9257477 TATTATTTTAGTACATAAAGTTTGAAATGTATTATTTTA--GTG-TTTTTTATATAAATTTAGTG
1 TATTATTTTAGTACAT-ATGTTTGAAATGTATTATTTTAGTGTGTTTTTTTATATAAATTTAGTG
9257539 AAAAACTTTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTTGGATTTTATTACTTTCAAAAA
65 AAAAACTTTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTTGGATTTTATTACTTTCAAAAA
9257604 ATATACTATTTTCGAATTT
130 ATATACTATTTTCGAATTT
*
9257623 TATTATTTTAGTGCATATGTTTGAAATGTATTATTTTAGTGTGTTTTTTTATATAAATTTAGTGA
1 TATTATTTTAGTACATATGTTTGAAATGTATTATTTTAGTGTGTTTTTTTATATAAATTTAGTGA
9257688 AAAACTTTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTTGGATTTTATTACTTTCAAAAAA
66 AAAACTTTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTTGGATTTTATTACTTTCAAAAAA
9257753 TATACTATTTTCGAATTT
131 TATACTATTTTCGAATTT
9257771 TATTATTTTAGTACATATGTTTGAAATGTATTATTTTAGTGTGTTTTTTTATATAAATTTAGTGA
1 TATTATTTTAGTACATATGTTTGAAATGTATTATTTTAGTGTGTTTTTTTATATAAATTTAGTGA
** * * * **
9257836 AAAACCCTTATTTTGGCCCTTTGTTCGTA---TT-TT-TTTTCGAATTTTATTACTTTCAGTAAA
66 AAAACTTTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTTGGATTTTATTACTTTCAAAAAA
*
9257896 TATACTATTTTCGTATTT
131 TATACTATTTTCGAATTT
9257914 TATT-TTTT
1 TATTATTTT
9257922 CATAAATATA
Statistics
Matches: 285, Mismatches: 11, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
142 4 0.01
143 44 0.15
144 2 0.01
145 23 0.08
146 15 0.05
147 3 0.01
148 194 0.68
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.55
Consensus pattern (148 bp):
TATTATTTTAGTACATATGTTTGAAATGTATTATTTTAGTGTGTTTTTTTATATAAATTTAGTGA
AAAACTTTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTTGGATTTTATTACTTTCAAAAAA
TATACTATTTTCGAATTT
Found at i:9257944 original size:32 final size:33
Alignment explanation
Indices: 9257867--9257952 Score: 113
Period size: 32 Copynumber: 2.6 Consensus size: 33
9257857 TGTTCGTATT
* *
9257867 TTTTTTCGAATTTTATTACTTTCAGTAAATATAC
1 TTTTTTCGTATTTTATT-TTTTCAGTAAATATAC
*
9257901 TATTTTCGTATTTTATTTTTTCA-TAAATATA-
1 TTTTTTCGTATTTTATTTTTTCAGTAAATATAC
9257932 TTTTTTCGGTATTTTATTTTT
1 TTTTTTC-GTATTTTATTTTT
9257953 AATACTATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
31 6 0.13
32 21 0.45
33 5 0.11
34 15 0.32
ACGTcount: A:0.24, C:0.08, G:0.06, T:0.62
Consensus pattern (33 bp):
TTTTTTCGTATTTTATTTTTTCAGTAAATATAC
Found at i:9257949 original size:16 final size:15
Alignment explanation
Indices: 9257903--9257952 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
9257893 AAATATACTA
9257903 TTTTCGTATTTTATT
1 TTTTCGTATTTTATT
* * *
9257918 TTTTCATAAATATATT
1 TTTTCGT-ATTTTATT
9257934 TTTTCGGTATTTTATT
1 TTTTC-GTATTTTATT
9257950 TTT
1 TTT
9257953 AATACTATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
15 6 0.22
16 20 0.74
17 1 0.04
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTCGTATTTTATT
Found at i:9263287 original size:10 final size:10
Alignment explanation
Indices: 9263274--9263326 Score: 70
Period size: 10 Copynumber: 4.9 Consensus size: 10
9263264 TATCCTATTT
9263274 TAATTTTTTA
1 TAATTTTTTA
9263284 TAATTTTTTAAAA
1 TAATTTTTT---A
9263297 TAATTTTTTA
1 TAATTTTTTA
9263307 TAATTTTTTTA
1 TAA-TTTTTTA
9263318 TAATTTTTT
1 TAATTTTTT
9263327 TCCATTTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 19 0.49
11 10 0.26
13 10 0.26
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:9263314 original size:11 final size:11
Alignment explanation
Indices: 9263277--9263327 Score: 68
Period size: 11 Copynumber: 4.5 Consensus size: 11
9263267 CCTATTTTAA
9263277 TTTTTTATAA-
1 TTTTTTATAAT
*
9263287 TTTTTTAAAAT
1 TTTTTTATAAT
9263298 AATTTTTTATAAT
1 --TTTTTTATAAT
9263311 TTTTTTATAAT
1 TTTTTTATAAT
9263322 TTTTTT
1 TTTTTT
9263328 CCATTTAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
10 9 0.25
11 17 0.47
13 10 0.28
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTTTTATAAT
Found at i:9265556 original size:31 final size:31
Alignment explanation
Indices: 9265492--9265559 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
9265482 TTTAATATTT
* * **
9265492 ATTTTTAAAAATTTAATTTCATTATTTTTTA
1 ATTTTTAAAAATTTAATTTAATTATGTAATA
9265523 ATTTTT-AAAATTTAATTCTAATTATGTAATA
1 ATTTTTAAAAATTTAATT-TAATTATGTAATA
9265554 ATTTTT
1 ATTTTT
9265560 TATTAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 11 0.34
31 21 0.66
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (31 bp):
ATTTTTAAAAATTTAATTTAATTATGTAATA
Found at i:9266292 original size:21 final size:20
Alignment explanation
Indices: 9266239--9266293 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
9266229 TTAAATGTCT
9266239 TATAATATTTTCTAAATAAAA
1 TATAATATTTT-TAAATAAAA
* * *
9266260 TATTATTATTTTTAATTTTAAA
1 TA-TAATATTTTTAA-ATAAAA
9266282 TATAATATTTTT
1 TATAATATTTTT
9266294 TAAAATCGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TATAATATTTTTAAATAAAA
Found at i:9266341 original size:10 final size:10
Alignment explanation
Indices: 9266310--9266344 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
9266300 CGTTTGAATA
9266310 AAAATATTAT
1 AAAATATTAT
*
9266320 AAAACATT-T
1 AAAATATTAT
9266329 AAAATATTAT
1 AAAATATTAT
9266339 AAAATA
1 AAAATA
9266345 AATAATAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAATATTAT
Found at i:9266472 original size:22 final size:23
Alignment explanation
Indices: 9266446--9266497 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
9266436 AAGCGTTTGA
*
9266446 ATAAAA-ATATATTATAAAATATT
1 ATAAAATATACATT-TAAAATATT
9266469 -TAAAATATACATTTAAAATATT
1 ATAAAATATACATTTAAAATATT
9266491 ATAAAAT
1 ATAAAAT
9266498 CAATAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAAAATATACATTTAAAATATT
Found at i:9275977 original size:18 final size:18
Alignment explanation
Indices: 9275950--9276042 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
9275940 TACGACCGTT
9275950 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
9275968 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
9275986 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
9276004 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
9276022 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
9276040 TAC
1 TAC
9276043 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:9281610 original size:15 final size:15
Alignment explanation
Indices: 9281590--9281620 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9281580 TCGTTAATTC
9281590 ATTAATTGGATTTTT
1 ATTAATTGGATTTTT
9281605 ATTAATTGGATTTTT
1 ATTAATTGGATTTTT
9281620 A
1 A
9281621 GTGAGTAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (15 bp):
ATTAATTGGATTTTT
Found at i:9282331 original size:15 final size:16
Alignment explanation
Indices: 9282300--9282334 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
9282290 GTTTACCCTA
9282300 AAATGAAATAAAAACTT
1 AAATGAAAT-AAAACTT
9282317 AAATGAAAT-AAACTT
1 AAATGAAATAAAACTT
9282332 AAA
1 AAA
9282335 ACTACAGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
17 9 0.50
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.23
Consensus pattern (16 bp):
AAATGAAATAAAACTT
Found at i:9282445 original size:12 final size:12
Alignment explanation
Indices: 9282428--9282453 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9282418 TAATCACCTA
9282428 GTGTCACAGGCT
1 GTGTCACAGGCT
9282440 GTGTCACAGGCT
1 GTGTCACAGGCT
9282452 GT
1 GT
9282454 AGTTCAAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.23, G:0.35, T:0.27
Consensus pattern (12 bp):
GTGTCACAGGCT
Found at i:9289303 original size:22 final size:22
Alignment explanation
Indices: 9289277--9289322 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
9289267 TTTCATTTGA
9289277 ATTTTTATGAA-ATTTTTATTTT
1 ATTTTT-TGAATATTTTTATTTT
*
9289299 ATTTTTTGAATATTTTTCTTTT
1 ATTTTTTGAATATTTTTATTTT
9289321 AT
1 AT
9289323 GAATATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.70
Consensus pattern (22 bp):
ATTTTTTGAATATTTTTATTTT
Found at i:9289315 original size:17 final size:17
Alignment explanation
Indices: 9289295--9289332 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
9289285 GAAATTTTTA
*
9289295 TTTTATTTTTTGAATAT
1 TTTTATTTTATGAATAT
*
9289312 TTTTCTTTTATGAATAT
1 TTTTATTTTATGAATAT
9289329 TTTT
1 TTTT
9289333 TTATAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (17 bp):
TTTTATTTTATGAATAT
Found at i:9289343 original size:38 final size:39
Alignment explanation
Indices: 9289279--9289352 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 39
9289269 TCATTTGAAT
* * *
9289279 TTTTATGAAATTTTTATTTTATTTTTTGAA-TATTTTTC
1 TTTTATGAAATTTTTATTATAATTTTTAAATTATTTTTC
9289317 TTTTATGAATATTTTT-TTATAATTTTTAAATTATTT
1 TTTTATGAA-ATTTTTATTATAATTTTTAAATTATTT
9289353 ACCGATGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 20 0.65
39 11 0.35
ACGTcount: A:0.27, C:0.01, G:0.04, T:0.68
Consensus pattern (39 bp):
TTTTATGAAATTTTTATTATAATTTTTAAATTATTTTTC
Found at i:9289639 original size:27 final size:26
Alignment explanation
Indices: 9289587--9289648 Score: 65
Period size: 29 Copynumber: 2.3 Consensus size: 26
9289577 AGACACTAGG
9289587 AAAATATATTTTTAATTCAATTTTATAA
1 AAAATATATTTTTAATTCAA-TTTAT-A
*
9289615 TAAAATATATTATTTTATT-AA-TTATA
1 -AAAATATATT-TTTAATTCAATTTATA
9289641 AAAATATA
1 AAAATATA
9289649 AAAAAAAGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
25 8 0.26
26 1 0.03
27 4 0.13
29 12 0.39
30 6 0.19
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
AAAATATATTTTTAATTCAATTTATA
Found at i:9306241 original size:23 final size:22
Alignment explanation
Indices: 9306190--9306254 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 22
9306180 GTTTTAAAAT
* *
9306190 TTGGGCTCAGGTAGTTTTA-GGA
1 TTGGGCT-AGGTTGGTTTAGGGA
9306212 TTGGGCTAGGTTGGTTTAGGGTA
1 TTGGGCTAGGTTGGTTTAGGG-A
9306235 TTGGGCTAGGTTGGTTTAGG
1 TTGGGCTAGGTTGGTTTAGG
9306255 CTTGGTTTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
21 9 0.23
22 9 0.23
23 21 0.54
ACGTcount: A:0.14, C:0.06, G:0.42, T:0.38
Consensus pattern (22 bp):
TTGGGCTAGGTTGGTTTAGGGA
Found at i:9307071 original size:132 final size:132
Alignment explanation
Indices: 9306833--9307370 Score: 851
Period size: 132 Copynumber: 4.1 Consensus size: 132
9306823 CGCCATCGTC
* * * * *
9306833 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAGGATCTGCGTCGTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * * * * *
9306898 TTCCAATCATTATAGGAAGATAGGACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGAAAGATAGGACCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
9306963 AA
131 AA
* * *
9306965 GATCTGCTTTCTGCGATCTACTTCGCCATCAATATGGGAAGACAAGATCTGCATCTTGGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * * *
9307030 TTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGAC
66 TTCCTACCAATATAGAAAGATAGGACCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
9307095 AA
131 AA
9307097 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
9307162 TTCCTACCAATATAGAAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGAAAGATAGGACCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
9307227 AA
131 AA
* * *
9307229 GATCTGCTTTCTTCGATCTACTTCGCCATCAGTAAGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
9307294 TTCCTACCAATATAGAAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGAAAGATAGGACCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
*
9307359 AG
131 AA
*
9307361 GATCTACTTT
1 GATCTGCTTT
9307371 AATGACTTCA
Statistics
Matches: 380, Mismatches: 26, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 380 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (132 bp):
GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGAAAGATAGGACCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:9307329 original size:44 final size:45
Alignment explanation
Indices: 9306833--9307340 Score: 410
Period size: 44 Copynumber: 11.5 Consensus size: 45
9306823 CGCCATCGTC
* * * * * *
9306833 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAG
1 GATCTGCTATCTTCGATCTACTTCGCTACCAATATAGGAAGACAA
* * * * * * * *
9306878 GATCTGC-GTCGTCGATCCACTTC-CAATCATTATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCGCTACCAATATAGGAAGACAA
* * * * * * *
9306921 GACCTGTTATCTTTGATCTACTTCAC-GCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCGCTACCAATATAGGAAGACAA
* * * * *
9306965 GATCTGCTTTCTGCGATCTACTTCGCCATCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCGCTACCAATATAGGAAGACAA
* * * * *
9307010 GATCTGC-ATCTTGGATCCACTTC-CTATCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCGCTACCAATATAGGAAGACAA
* * * * *
9307053 GACCTGCTATCTTCGATCTACTTC-ATGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCGCTACCAATATAGGAAGACAA
* * *
9307097 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCGCTACCAATATAGGAAGACAA
* * * *
9307142 GATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGAAAGATAG
1 GATCTGCTATCTTCGATCTACTTCGCTACCAATATAGGAAGACAA
* * * * *
9307185 GATCTGATATCTTCGATCTACTTCAC-GCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCGCTACCAATATAGGAAGACAA
* * * *
9307229 GATCTGCTTTCTTCGATCTACTTCGCCATCAGTA-AGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCGCTACCAATATA-GGAAGACAA
* * * *
9307274 GATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGAAAGATAG
1 GATCTGCTATCTTCGATCTACTTCGCTACCAATATAGGAAGACAA
*
9307317 GATCTGATATCTTCGATCTACTTC
1 GATCTGCTATCTTCGATCTACTTC
9307341 ACGCCAATAC
Statistics
Matches: 362, Mismatches: 90, Indels: 23
0.76 0.19 0.05
Matches are distributed among these distances:
43 81 0.22
44 212 0.59
45 69 0.19
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (45 bp):
GATCTGCTATCTTCGATCTACTTCGCTACCAATATAGGAAGACAA
Found at i:9320708 original size:23 final size:23
Alignment explanation
Indices: 9320679--9320722 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
9320669 TAGTTTTAGG
9320679 ATTGGGCTAGATTGGTTTAGGGT
1 ATTGGGCTAGATTGGTTTAGGGT
*
9320702 ATTGGGCTAGGTTGGTTTAGG
1 ATTGGGCTAGATTGGTTTAGG
9320723 CTTGGTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.16, C:0.05, G:0.41, T:0.39
Consensus pattern (23 bp):
ATTGGGCTAGATTGGTTTAGGGT
Found at i:9337682 original size:15 final size:15
Alignment explanation
Indices: 9337662--9337704 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
9337652 AAAAAACTCA
9337662 GAAAAACAGGTACAC
1 GAAAAACAGGTACAC
9337677 GAAAAAC---T-CA-
1 GAAAAACAGGTACAC
9337687 GAAAAACAGGTACAC
1 GAAAAACAGGTACAC
9337702 GAA
1 GAA
9337705 TTCAGTTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
10 7 0.30
11 2 0.09
12 1 0.04
13 1 0.04
14 2 0.09
15 10 0.43
ACGTcount: A:0.56, C:0.19, G:0.19, T:0.07
Consensus pattern (15 bp):
GAAAAACAGGTACAC
Found at i:9337686 original size:25 final size:25
Alignment explanation
Indices: 9337653--9337704 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
9337643 GTTCGGAAGA
9337653 AAAAACTCAGAAAAACAGGTACACG
1 AAAAACTCAGAAAAACAGGTACACG
9337678 AAAAACTCAGAAAAACAGGTACACG
1 AAAAACTCAGAAAAACAGGTACACG
9337703 AA
1 AA
9337705 TTCAGTTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.58, C:0.19, G:0.15, T:0.08
Consensus pattern (25 bp):
AAAAACTCAGAAAAACAGGTACACG
Found at i:9340139 original size:20 final size:19
Alignment explanation
Indices: 9340100--9340139 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9340090 GTTTTTGTTT
*
9340100 TTAAATTTAGAAAAATAAG
1 TTAAATTTAGAAAAAGAAG
*
9340119 TTAATTTTAGAAAAACGAAG
1 TTAAATTTAGAAAAA-GAAG
9340139 T
1 T
9340140 GGTAAAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.33
Consensus pattern (19 bp):
TTAAATTTAGAAAAAGAAG
Found at i:9340936 original size:165 final size:164
Alignment explanation
Indices: 9340664--9340996 Score: 438
Period size: 165 Copynumber: 2.0 Consensus size: 164
9340654 TTAATATTTT
* *
9340664 TTTATATTTATATAATTAGGACAAAAATCAGATTATTGAAACGTATACACACAACTTAAGTGCAA
1 TTTATATTTATATAATTAGGACAAAAATCAGATTATCGAAACATATACACACAACTTAAGTGCAA
*
9340729 GAGCACTGTCTATTATTAAAAAAAACTTGGAAGAGGCGGGATTTGTTTACGT-GTCTC-GTATCC
66 GAGCACTGTCTATTATTAAAAAAAACTTGGAAGAGGCGGGA-TT-TTTACCTAGTC-CAGTATCC
* *
9340792 TTGGTAGGACTAAATTGGAGCCAACACTTATTAGTGC
128 TTGGCAGGACTAAATTGGAGCCAACACTTATCAGTGC
** * * *
9340829 TTTATATTTATATAATTAGGATGAAGATCAGATTATCGAAACATATACACACAATTTAAGTGTGA
1 TTTATATTTATATAATTAGGACAAAAATCAGATTATCGAAACATATACACACAACTTAAGTG-CA
* ** * * *
9340894 A-AGCACTGTCTATTATTGAGCAACACTTGGAAGAGGCGGGATTTTTGCCTAGTCCAGTATGCTT
65 AGAGCACTGTCTATTATTAAAAAAAACTTGGAAGAGGCGGGATTTTTACCTAGTCCAGTATCCTT
* * *
9340958 GGCGGGACTAAATTGGAGCCCACACTTATCAGTGT
130 GGCAGGACTAAATTGGAGCCAACACTTATCAGTGC
9340993 TTTA
1 TTTA
9340997 CTGGAAAGAT
Statistics
Matches: 146, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
163 6 0.04
164 46 0.32
165 92 0.63
166 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (164 bp):
TTTATATTTATATAATTAGGACAAAAATCAGATTATCGAAACATATACACACAACTTAAGTGCAA
GAGCACTGTCTATTATTAAAAAAAACTTGGAAGAGGCGGGATTTTTACCTAGTCCAGTATCCTTG
GCAGGACTAAATTGGAGCCAACACTTATCAGTGC
Found at i:9351457 original size:479 final size:480
Alignment explanation
Indices: 9350541--9351500 Score: 1510
Period size: 479 Copynumber: 2.0 Consensus size: 480
9350531 CCTCGCCCCA
* * * * *
9350541 AAACCTTAATGAAGTCACAAGATTGACTTGCAGGAGAGAATTGATGAAGATTAACCTAAATTCTA
1 AAACCTCAATGAACTCACAAGATTAACTTGCAGGAGAGAATCGATGAAGATTAACCTAAATTCCA
*
9350606 TACGAAGTATATCTACTTGTGGGAACATAGGTATCATTTCTTACTTATGCATGAACCAATTGTCA
66 TACCAAGTATATCTACTTGTGGGAACATAGGTATCATTTCTTACTTATGCATGAACCAATTGTCA
* * * *
9350671 GATTAGATTTGGCGACATTTTCGGATTACATGACATTGTTTAGACTTTATGGTAAGTCATATCTA
131 GATCAGATTTGGCGACATCTGCGGATTACATGACATTGTTTAGACTTCATGGTAAGTCATATCTA
* *
9350736 TTACCAGAGGAGGAAAAGAGATACAAATTCATCGTAAAAGGCCAACACGACCCTACATGAGGTTG
196 TTACCAGAGGAGGAAAAGAAAGACAAATTCATCGTAAAAGGCCAACACGACCCTACATGAGGTTG
* * *
9350801 CGACCGGGAGTACATGCATCGGGTTCATCATCATCATCAACTTCAACCTTGAATCCTATACTAAT
261 CGACCAGGAGTACATGCATCGAGTTCATCATCATCATCAACTCCAACCTTGAATCCTATACTAAT
* * *
9350866 GGATGCACTTTCTGATTAGCATGATTCATATTTTTCTTGTGCATTTACTAACCCTATGTTTTTCA
326 GGATGCACTTCCCGATTAGCATGATTCATATTTTTCTAGTGCATTTACTAACCCTATGTTTTTCA
*
9350931 CACAAGCACAAATTATACACCATCATACCATGCATAAACACCTTTTCTAAGAATA-TTTTTTGGA
391 CACAAGCACAAATTATACACCATCATACCATGCATAAACACCTTTTCTAAAAATATTTTTTTGGA
*
9350995 ACACCTCCATTTGCAGGAGGATATT
456 ACACCTCCATTTGCAGGAGCATATT
** *
9351020 AAACCTCAATGAACTCACAAGATTAACTTGTGGGGGAGAATCGATGAAGATTAACCTAAATTCCA
1 AAACCTCAATGAACTCACAAGATTAACTTGCAGGAGAGAATCGATGAAGATTAACCTAAATTCCA
* * *
9351085 TGCCAAGTATATCTACTTTTGGGAACATAGGTA-CGATTTCTTACTTATGCGTGAACCAATTGTC
66 TACCAAGTATATCTACTTGTGGGAACATAGGTATC-ATTTCTTACTTATGCATGAACCAATTGTC
*
9351149 AGATCAGATTTGGCGACGTCTGCGGATTACATGACATTGTTTAGACTTCATGGTAAGTCATATCT
130 AGATCAGATTTGGCGACATCTGCGGATTACATGACATTGTTTAGACTTCATGGTAAGTCATATCT
* * * *
9351214 ATTACCGGAGGAGGAAATGAAAGACAAATTCATCGTAGAAGGCCAACACGACCCTACTTGAGGTT
195 ATTACCAGAGGAGGAAAAGAAAGACAAATTCATCGTAAAAGGCCAACACGACCCTACATGAGGTT
* * * ** * *
9351279 GTGTCTAGGAGTACATGCATCGAGTTCATTGTCATCATCAGCTCCAACCTTGAATTCTATACTAA
260 GCGACCAGGAGTACATGCATCGAGTTCATCATCATCATCAACTCCAACCTTGAATCCTATACTAA
* *
9351344 TGGATGCACTTCCCGATTAGTATGATTCATATTTTTCTAGTGCATTTACTAACCCTATTTTTTTC
325 TGGATGCACTTCCCGATTAGCATGATTCATATTTTTCTAGTGCATTTACTAACCCTATGTTTTTC
* * *
9351409 ACACAAGCACAAATTATACACCATCATACCATGCATTAACAGCTTTTCTAAAAATATTTTTTTGT
390 ACACAAGCACAAATTATACACCATCATACCATGCATAAACACCTTTTCTAAAAATATTTTTTTGG
9351474 AACACCTCCATTTGCAGGAGCATATT
455 AACACCTCCATTTGCAGGAGCATATT
9351500 A
1 A
9351501 CACGCCACTG
Statistics
Matches: 436, Mismatches: 43, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
478 1 0.00
479 402 0.92
480 33 0.08
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (480 bp):
AAACCTCAATGAACTCACAAGATTAACTTGCAGGAGAGAATCGATGAAGATTAACCTAAATTCCA
TACCAAGTATATCTACTTGTGGGAACATAGGTATCATTTCTTACTTATGCATGAACCAATTGTCA
GATCAGATTTGGCGACATCTGCGGATTACATGACATTGTTTAGACTTCATGGTAAGTCATATCTA
TTACCAGAGGAGGAAAAGAAAGACAAATTCATCGTAAAAGGCCAACACGACCCTACATGAGGTTG
CGACCAGGAGTACATGCATCGAGTTCATCATCATCATCAACTCCAACCTTGAATCCTATACTAAT
GGATGCACTTCCCGATTAGCATGATTCATATTTTTCTAGTGCATTTACTAACCCTATGTTTTTCA
CACAAGCACAAATTATACACCATCATACCATGCATAAACACCTTTTCTAAAAATATTTTTTTGGA
ACACCTCCATTTGCAGGAGCATATT
Found at i:9352381 original size:249 final size:256
Alignment explanation
Indices: 9351946--9352547 Score: 707
Period size: 249 Copynumber: 2.3 Consensus size: 256
9351936 AACTATTAAT
* *
9351946 TTTTTATTTTATATATGTAATGTTTCCATTAATATTTGTATTGTATTTTTACATTAATAATTTAC
1 TTTTTATTTTATATATGTAATGTTTCCATTAATATTTGTATTGTA--TTTACATCAATAATATAC
* * * *
9352011 TTATTTACATTTTATCAAAAAATTGTTTGTTTGTTTTTCTTTTTGTATGTTTATAAAAAAATGAA
64 TTATTTACATTTTATCAAAAAA-------TATGTATTTCATTTTGTATGTTTATAAAAAAACGAA
* * * *
9352076 TAAATTTTTTATTTTATATATATATAATGCTTCCATTAATATTTTTCTTTTATTTTTACAACAAT
122 TAAAATTTTTATTTTATATATATATAATGCTTCCATTAATATTTGTATTGTATTTTTACAACAAT
* * * * * * *
9352141 ATTCTACTTGTTTATATTTTATCAAAAAATTTGTTT-ATTTTTTTGTATGTTTATAGAAAAACGA
187 AATCTACTTATTTACATTTTATCAAAAAAATTATTTGATTTTTTTATATGTTTATA-AAAAAAGA
*
9352205 GTAAAA
251 ATAAAA
* *
9352211 TTTTTATTTTATATATGTAATGCTTCCATTAATATTTGTATTGTATTTAGATCAATAATATA-TT
1 TTTTTATTTTATATATGTAATGTTTCCATTAATATTTGTATTGTATTTACATCAATAATATACTT
* * *
9352275 TTTTATATTTTATCAAAAAA-AT-TATTT-ATTTTGTATGTTTAT-AAAAAACGAGTAAAATTTT
66 ATTTACATTTTATCAAAAAATATGTATTTCATTTTGTATGTTTATAAAAAAACGAATAAAATTTT
* **
9352336 TA-TTT-TATATATGTAATGCTTCCATTAATATTTGTATTGTATTTTTACATTAATAATCTACTT
131 TATTTTATATATATATAATGCTTCCATTAATATTTGTATTGTATTTTTACAACAATAATCTACTT
* ***
9352399 ATTTACATTTTATCAAAAAAATTATTTGTTTTTTTTATATGTTTATAAAAAAAGAATATTT
196 ATTTACATTTTATCAAAAAAATTATTTGATTTTTTTATATGTTTATAAAAAAAGAATAAAA
* ** * * **
9352460 TTTTTATTTTATATAGGTAATGTTTTAATTAATATTTGTATTATATTTTTACAACAATAACCTAC
1 TTTTTATTTTATATATGTAATGTTTCCATTAATATTTGTATTGTA--TTTACATCAATAATATAC
9352525 TTATTTACATTTTATCAAAAAAT
64 TTATTTACATTTTATCAAAAAAT
9352548 TGTTTGTTTG
Statistics
Matches: 291, Mismatches: 41, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
249 123 0.42
250 20 0.07
251 31 0.11
252 34 0.12
253 4 0.01
254 1 0.00
262 20 0.07
263 14 0.05
265 44 0.15
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (256 bp):
TTTTTATTTTATATATGTAATGTTTCCATTAATATTTGTATTGTATTTACATCAATAATATACTT
ATTTACATTTTATCAAAAAATATGTATTTCATTTTGTATGTTTATAAAAAAACGAATAAAATTTT
TATTTTATATATATATAATGCTTCCATTAATATTTGTATTGTATTTTTACAACAATAATCTACTT
ATTTACATTTTATCAAAAAAATTATTTGATTTTTTTATATGTTTATAAAAAAAGAATAAAA
Found at i:9352500 original size:128 final size:128
Alignment explanation
Indices: 9351943--9352556 Score: 733
Period size: 128 Copynumber: 4.8 Consensus size: 128
9351933 GTTAACTATT
* * *
9351943 AATTTTTTATTTTATATATGTAATGTTTCCATTAATATTTGTATTGTATTTTTACATTAATAATT
1 AATTTTTTATTTTATATATGTAATGCTTCCATTAATATTTGTATTGTATTTTTACATCAATAATC
*
9352008 TACTTATTTACATTTTATCAAAAAATTGTTTGTTTGTTTTTCTTTTTGTATGTTTATAAAAAAAT
66 TACTTATTTACATTTTATCAAAAAA---ATTGTTTG--TTT-TTTTTGTATGTTTATAAAAAAA-
9352073 GAATA
124 GAATA
* * * * * *
9352078 AATTTTTTATTTTATATATATATAATGCTTCCATTAATATTTTTCTTTTATTTTTACAACAATAT
1 AATTTTTTA-TTT-TATATATGTAATGCTTCCATTAATATTTGTATTGTATTTTTACATCAATAA
* * * * * *
9352143 TCTACTTGTTTATATTTTATCAAAAAATTTGTTT-ATTTTTTTGTATGTTTATAGAAAAACGAGT
64 TCTACTTATTTACATTTTATCAAAAAAATTGTTTGTTTTTTTTGTATGTTTATA-AAAAAAGAAT
9352207 A
128 A
* * *
9352208 AAATTTTTATTTTATATATGTAATGCTTCCATTAATATTTGTATTGTA--TTTAGATCAATAATA
1 AATTTTTTATTTTATATATGTAATGCTTCCATTAATATTTGTATTGTATTTTTACATCAATAATC
* * * * * *
9352271 TA-TTTTTTATATTTTATCAAAAAAA----TTATTTATTTTGTATGTTTATAAAAAACGAGTA
66 TACTTATTTACATTTTATCAAAAAAATTGTTTGTTTTTTTTGTATGTTTATAAAAAAAGAATA
* *
9352329 AAATTTTTATTTTATATATGTAATGCTTCCATTAATATTTGTATTGTATTTTTACATTAATAATC
1 AATTTTTTATTTTATATATGTAATGCTTCCATTAATATTTGTATTGTATTTTTACATCAATAATC
* *
9352394 TACTTATTTACATTTTATCAAAAAAATTATTTGTTTTTTTTATATGTTTATAAAAAAAGAATA
66 TACTTATTTACATTTTATCAAAAAAATTGTTTGTTTTTTTTGTATGTTTATAAAAAAAGAATA
** * * ** * * *
9352457 TTTTTTTTATTTTATATAGGTAATGTTTTAATTAATATTTGTATTATATTTTTACAACAATAACC
1 AATTTTTTATTTTATATATGTAATGCTTCCATTAATATTTGTATTGTATTTTTACATCAATAATC
9352522 TACTTATTTACATTTTATC-AAAAAATTGTTTGTTT
66 TACTTATTTACATTTTATCAAAAAAATTGTTTGTTT
9352557 GTTTGTTTGT
Statistics
Matches: 419, Mismatches: 49, Indels: 30
0.84 0.10 0.06
Matches are distributed among these distances:
121 61 0.15
122 17 0.04
123 14 0.03
124 21 0.05
125 21 0.05
126 13 0.03
127 15 0.04
128 133 0.32
129 3 0.01
130 28 0.07
131 7 0.02
134 7 0.02
135 9 0.02
136 3 0.01
137 67 0.16
ACGTcount: A:0.34, C:0.06, G:0.07, T:0.53
Consensus pattern (128 bp):
AATTTTTTATTTTATATATGTAATGCTTCCATTAATATTTGTATTGTATTTTTACATCAATAATC
TACTTATTTACATTTTATCAAAAAAATTGTTTGTTTTTTTTGTATGTTTATAAAAAAAGAATA
Found at i:9358471 original size:22 final size:22
Alignment explanation
Indices: 9358446--9358489 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9358436 CCCCATTGCC
*
9358446 CTTC-TCCACTTTTCTCCTCCCT
1 CTTCTTCC-CTTTCCTCCTCCCT
*
9358468 CTTCTTTCCTTTCCTCCTCCCT
1 CTTCTTCCCTTTCCTCCTCCCT
9358490 TACTTTCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.02, C:0.50, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTCTTCCCTTTCCTCCTCCCT
Found at i:9358495 original size:21 final size:21
Alignment explanation
Indices: 9358454--9358504 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
9358444 CCCTTCTCCA
* *
9358454 CTTTTCTCCTCCCTCTTCTTT
1 CTTTCCTCCTCCCTCTACTTT
9358475 CCTTTCCTCCTCCCT-TACTTT
1 -CTTTCCTCCTCCCTCTACTTT
9358496 CTCTTCCTC
1 CT-TTCCTC
9358505 AGTTCACACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 2 0.08
21 11 0.42
22 13 0.50
ACGTcount: A:0.02, C:0.47, G:0.00, T:0.51
Consensus pattern (21 bp):
CTTTCCTCCTCCCTCTACTTT
Found at i:9373470 original size:53 final size:53
Alignment explanation
Indices: 9373408--9373513 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
9373398 AACGATATTG
*
9373408 GACGAGGTCGTACCCTGTTGAAGAAAATAAGAGTATTTTTATGAATACAAACA
1 GACGAGGTCGTACCCTATTGAAGAAAATAAGAGTATTTTTATGAATACAAACA
9373461 GACGAGGTCGTACCCTATTGAAGAAAATAAGAGTATTTTTATGAATACAAACA
1 GACGAGGTCGTACCCTATTGAAGAAAATAAGAGTATTTTTATGAATACAAACA
9373514 ATGTCTTAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (53 bp):
GACGAGGTCGTACCCTATTGAAGAAAATAAGAGTATTTTTATGAATACAAACA
Found at i:9375573 original size:21 final size:21
Alignment explanation
Indices: 9375547--9375589 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
9375537 AAGAAGCTAA
9375547 CAAATCTCCATAGGACTTAGT
1 CAAATCTCCATAGGACTTAGT
*
9375568 CAAATCTCCCTAGGACTTAGT
1 CAAATCTCCATAGGACTTAGT
9375589 C
1 C
9375590 TTATTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (21 bp):
CAAATCTCCATAGGACTTAGT
Found at i:9377860 original size:43 final size:43
Alignment explanation
Indices: 9377796--9377881 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
9377786 GAAAAGAGAA
9377796 AGCTCACTTATGGTTCAGAACTTTGAATTGGTGAATTAGGTAT
1 AGCTCACTTATGGTTCAGAACTTTGAATTGGTGAATTAGGTAT
*
9377839 AGCTCACTTATGGTTCGGAACTTTGAATTGGTGAATTAGGTAT
1 AGCTCACTTATGGTTCAGAACTTTGAATTGGTGAATTAGGTAT
9377882 GTCTTTTGCT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (43 bp):
AGCTCACTTATGGTTCAGAACTTTGAATTGGTGAATTAGGTAT
Found at i:9390338 original size:24 final size:24
Alignment explanation
Indices: 9390306--9390356 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
9390296 AAGTCTGTCA
**
9390306 GGATAGGATTTAGGAGTTGATAAG
1 GGATAGGATTTAGGAGCAGATAAG
9390330 GGATAGGATTTAGGAGCAGATAAG
1 GGATAGGATTTAGGAGCAGATAAG
9390354 GGA
1 GGA
9390357 GGAAATCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.02, G:0.39, T:0.24
Consensus pattern (24 bp):
GGATAGGATTTAGGAGCAGATAAG
Found at i:9391621 original size:27 final size:26
Alignment explanation
Indices: 9391581--9391692 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
9391571 AGGAAGCGTC
*
9391581 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
9391608 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
9391635 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
9391663 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
9391689 CTGG
1 CTGG
9391693 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.69
28 16 0.22
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:9391685 original size:54 final size:54
Alignment explanation
Indices: 9391581--9391692 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
9391571 AGGAAGCGTC
*
9391581 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
9391635 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
9391689 CTGG
1 CTGG
9391693 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:9400142 original size:30 final size:29
Alignment explanation
Indices: 9400106--9400169 Score: 119
Period size: 30 Copynumber: 2.2 Consensus size: 29
9400096 ATGAATCGGA
9400106 AGCTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTT-AACT
9400136 AGCTTTGGCACTAAGTGTGCGATTTAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAACT
9400165 AGCTT
1 AGCTT
9400170 CGACTACTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.26
30 25 0.74
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.34
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCGATTTAACT
Found at i:9403279 original size:44 final size:47
Alignment explanation
Indices: 9403223--9403336 Score: 144
Period size: 44 Copynumber: 2.5 Consensus size: 47
9403213 GTGCTAATGA
*
9403223 ATGTCCCAGACATGTCTTACACTAGCACGAAACT-TA-GCCGATGC-
1 ATGTCCCAGACATGTCTTACACTAGCACGAAACTCTACGCCAATGCT
* ** *
9403267 ATGTCCCAGACATGTCTTACACTGGCACTCACCTCTACGCCAATGCT
1 ATGTCCCAGACATGTCTTACACTAGCACGAAACTCTACGCCAATGCT
*
9403314 ATGTCCCAGACGTGGTCTTACAC
1 ATGTCCCAGACAT-GTCTTACAC
9403337 AGACTATCAT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
44 30 0.50
45 2 0.03
46 7 0.12
47 12 0.20
48 9 0.15
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (47 bp):
ATGTCCCAGACATGTCTTACACTAGCACGAAACTCTACGCCAATGCT
Found at i:9403332 original size:92 final size:93
Alignment explanation
Indices: 9403166--9403336 Score: 222
Period size: 92 Copynumber: 1.8 Consensus size: 93
9403156 TCCATCGAGA
* ** *
9403166 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATGTATACGTGCTAATGAATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCACCTATACG-GCCAATGAATGTCCCA
9403231 GACATGTCTTACACTAGCACGAAACTTAG
65 GACATGTCTTACACTAGCACGAAACTTAG
* * *
9403260 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCACCTCTAC-GCCAATGCTATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCACCTATACGGCCAATG-AATGTCCCA
*
9403322 GACGTGGTCTTACAC
65 GACAT-GTCTTACAC
9403337 AGACTATCAT
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
90 6 0.09
91 12 0.18
92 29 0.43
93 14 0.21
94 6 0.09
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (93 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCACCTATACGGCCAATGAATGTCCCAG
ACATGTCTTACACTAGCACGAAACTTAG
Found at i:9403450 original size:140 final size:140
Alignment explanation
Indices: 9403124--9403456 Score: 320
Period size: 140 Copynumber: 2.4 Consensus size: 140
9403114 TCGCCACTAC
* * * *
9403124 CATGTCCCAGACATGGTCTTACGCTGACTATCTC-CATCGA-GACCGATGCCATGTCCCAGACAT
1 CATGTCCCAGACAT-GTCTTACACTGGC-A-CTCACATCAACG-CCAATGCCATGTCCCAGACAT
* * **
9403187 GGTCTTACACTAGCTCTCATGTATACGTGCTAATGAATGTCCCAGACATGTCTTACACTAGCACG
62 GGTCTTACACTAGCTATCATGTATACGTGCTAATGAATGTCCCAGAAACATCTTACACTAGCACG
* *
9403252 AAACTTAGCCGATG
127 AAACTAAGCCAATG
* * * *
9403266 CATGTCCCAGACATGTCTTACACTGGCACTCACCTCTACGCCAATGCTATGTCCCAGACGTGGTC
1 CATGTCCCAGACATGTCTTACACTGGCACTCACATCAACGCCAATGCCATGTCCCAGACATGGTC
* * * * ** *
9403331 TTACAC-AGACTATCATG-ATGCG-GCTGATGCATGTCCCAGAAACATCTTACACTAGCCCTCAG
66 TTACACTAG-CTATCATGTATACGTGCTAATGAATGTCCCAGAAACATCTTACACTAGCACGAAA
9403393 CTCAATGCCAATG
130 CT-AA-GCCAATG
* * *
9403406 CCATGTCCCAGACATGGTCTTATACTGGCTCTCACAT-AAC-CCAATGTCATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCACTCACATCAACGCCAATGCCATG
9403457 GCATGAATAT
Statistics
Matches: 158, Mismatches: 26, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
138 33 0.21
139 10 0.06
140 55 0.35
141 28 0.18
142 32 0.20
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (140 bp):
CATGTCCCAGACATGTCTTACACTGGCACTCACATCAACGCCAATGCCATGTCCCAGACATGGTC
TTACACTAGCTATCATGTATACGTGCTAATGAATGTCCCAGAAACATCTTACACTAGCACGAAAC
TAAGCCAATG
Found at i:9406693 original size:15 final size:14
Alignment explanation
Indices: 9406673--9406726 Score: 54
Period size: 15 Copynumber: 3.7 Consensus size: 14
9406663 ATTATGAACT
*
9406673 ACCCTAAACTATAAA
1 ACCCTAAACCAT-AA
*
9406688 ACCCTAAACCCTAA
1 ACCCTAAACCATAA
*
9406702 ACCCTAAAACCTTAA
1 ACCCT-AAACCATAA
*
9406717 ACTCTAAACC
1 ACCCTAAACC
9406727 CTAGGGAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.35
15 22 0.65
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (14 bp):
ACCCTAAACCATAA
Found at i:9406696 original size:7 final size:7
Alignment explanation
Indices: 9406686--9406729 Score: 61
Period size: 7 Copynumber: 6.1 Consensus size: 7
9406676 CTAAACTATA
9406686 AAACCCT
1 AAACCCT
9406693 AAACCCT
1 AAACCCT
9406700 AAACCCT
1 AAACCCT
*
9406707 AAAACCTT
1 -AAACCCT
*
9406715 AAACTCT
1 AAACCCT
9406722 AAACCCT
1 AAACCCT
9406729 A
1 A
9406730 GGGAAGATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 26 0.81
8 6 0.19
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:9406727 original size:22 final size:22
Alignment explanation
Indices: 9406673--9406729 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
9406663 ATTATGAACT
**
9406673 ACCCTAAACTATAAAACCCTAA
1 ACCCTAAACCCTAAAACCCTAA
*
9406695 ACCCTAAACCCTAAAACCTTAA
1 ACCCTAAACCCTAAAACCCTAA
*
9406717 ACTCTAAACCCTA
1 ACCCTAAACCCTA
9406730 GGGAAGATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (22 bp):
ACCCTAAACCCTAAAACCCTAA
Found at i:9408020 original size:28 final size:28
Alignment explanation
Indices: 9407980--9408035 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
9407970 TGGACAAAAA
9407980 TAGGCTATTTACTAAGCCAATTTGTCAC
1 TAGGCTATTTACTAAGCCAATTTGTCAC
9408008 TAGGCTATTTACTAAGCCAATTTGTCAC
1 TAGGCTATTTACTAAGCCAATTTGTCAC
9408036 CCAACTTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (28 bp):
TAGGCTATTTACTAAGCCAATTTGTCAC
Found at i:9415269 original size:20 final size:20
Alignment explanation
Indices: 9415244--9415295 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
9415234 TCTATTATAT
9415244 AATATATAATAAAATATCTA
1 AATATATAATAAAATATCTA
* *
9415264 AATATATAACAACATATCTA
1 AATATATAATAAAATATCTA
**
9415284 TTTATATAATAA
1 AATATATAATAA
9415296 TATTTTTATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.37
Consensus pattern (20 bp):
AATATATAATAAAATATCTA
Found at i:9426383 original size:25 final size:25
Alignment explanation
Indices: 9426355--9426404 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
9426345 TGGTGATTGC
9426355 AAAATCATTAGAAGATGGGTTTTGA
1 AAAATCATTAGAAGATGGGTTTTGA
9426380 AAAATCATTAGAAGATGGGTTTTGA
1 AAAATCATTAGAAGATGGGTTTTGA
9426405 TTATTTGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.24, T:0.32
Consensus pattern (25 bp):
AAAATCATTAGAAGATGGGTTTTGA
Found at i:9427075 original size:24 final size:24
Alignment explanation
Indices: 9427047--9427096 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
9427037 CATTAGCAGC
9427047 TTTTAGATCTCTATGTATTATTCT
1 TTTTAGATCTCTATGTATTATTCT
9427071 TTTTAGATCTCTATGTATTATTCT
1 TTTTAGATCTCTATGTATTATTCT
9427095 TT
1 TT
9427097 ATCTCAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.12, G:0.08, T:0.60
Consensus pattern (24 bp):
TTTTAGATCTCTATGTATTATTCT
Found at i:9428696 original size:21 final size:20
Alignment explanation
Indices: 9428670--9428710 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9428660 TTATTAATAA
9428670 AACTAAATCCTAGGAAGATTT
1 AACTAAAT-CTAGGAAGATTT
* *
9428691 AACTAAGTCTAGGGAGATTT
1 AACTAAATCTAGGAAGATTT
9428711 GTTAACTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (20 bp):
AACTAAATCTAGGAAGATTT
Found at i:9433981 original size:26 final size:26
Alignment explanation
Indices: 9433878--9433983 Score: 176
Period size: 26 Copynumber: 4.1 Consensus size: 26
9433868 ATAAAAATTA
* *
9433878 ATAATTGGTTAGGTAAATGTTCCATA
1 ATAATGGGTTAGGTAAATGTTCCATG
*
9433904 ATAATGGGTTAGGTAAATGGTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
*
9433930 ATAATGGGTTAAGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
9433956 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
9433982 AT
1 AT
9433984 GGGAATTTCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.35
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:9435175 original size:8 final size:8
Alignment explanation
Indices: 9435162--9435191 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
9435152 AGATCGGCAC
9435162 AAGCCGAA
1 AAGCCGAA
9435170 AAGCCGAA
1 AAGCCGAA
*
9435178 ATGCCGAA
1 AAGCCGAA
9435186 AAGCCG
1 AAGCCG
9435192 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:9435678 original size:27 final size:27
Alignment explanation
Indices: 9435581--9435685 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
9435571 AGGAAGCGTC
*
9435581 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
9435608 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
9435635 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
9435662 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
9435686 GCAGCCTCGC
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 9 0.13
27 61 0.86
28 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:9440973 original size:26 final size:26
Alignment explanation
Indices: 9440942--9441047 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
9440932 TGATAAAAAT
9440942 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
9440968 TAATAATAGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
**
9440994 TGATAATGAATTAGGT--ATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9441018 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9441044 TGAT
1 TGAT
9441048 GGGAATTTCA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
24 21 0.31
26 47 0.69
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9441030 original size:50 final size:51
Alignment explanation
Indices: 9440942--9441047 Score: 151
Period size: 50 Copynumber: 2.1 Consensus size: 51
9440932 TGATAAAAAT
**
9440942 TGATAATGGGTTAGGTAAATGTTCCATAATAATAGGTTAGGTAAATATTCCA
1 TGATAATGAATTAGGT-AATGTTCCATAATAATAGGTTAGGTAAATATTCCA
* * *
9440994 TGATAATGAATTAGGT-ATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGAATTAGGTAATGTTCCATAATAATAGGTTAGGTAAATATTCCA
9441044 TGAT
1 TGAT
9441048 GGGAATTTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
50 35 0.71
52 14 0.29
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.36
Consensus pattern (51 bp):
TGATAATGAATTAGGTAATGTTCCATAATAATAGGTTAGGTAAATATTCCA
Found at i:9442239 original size:8 final size:8
Alignment explanation
Indices: 9442226--9442255 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
9442216 AGATTGGCAC
9442226 AAGCCGAA
1 AAGCCGAA
9442234 AAGCCGAA
1 AAGCCGAA
*
9442242 ATGCCGAA
1 AAGCCGAA
9442250 AAGCCG
1 AAGCCG
9442256 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:9442724 original size:54 final size:54
Alignment explanation
Indices: 9442642--9442785 Score: 254
Period size: 54 Copynumber: 2.7 Consensus size: 54
9442632 TGGAGGAAGC
9442642 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
9442696 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
9442750 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
9442786 ACTTCGTCAC
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
53 6 0.07
54 81 0.93
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:9442796 original size:27 final size:27
Alignment explanation
Indices: 9442645--9442803 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
9442635 AGGAAGCGTC
*
9442645 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
9442672 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
9442699 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
9442726 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
9442753 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
9442780 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
9442804 GCAGCCTCGC
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 105 0.90
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:9442797 original size:81 final size:80
Alignment explanation
Indices: 9442645--9442803 Score: 216
Period size: 81 Copynumber: 2.0 Consensus size: 80
9442635 AGGAAGCGTC
*
9442645 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
9442710 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
9442726 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
*
9442789 -TCGTCACAATATCTG
64 AT-GCCACAATATCTG
9442804 GCAGCCTCGC
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
80 17 0.24
81 53 0.76
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:9449268 original size:28 final size:26
Alignment explanation
Indices: 9449226--9449300 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
9449216 AAAAGTAGCT
* * *
9449226 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
* *
9449254 AAATTACTGTTATACCTCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
9449280 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
9449301 GGTTACTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 22 0.55
27 1 0.03
28 17 0.43
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:9449445 original size:27 final size:27
Alignment explanation
Indices: 9449405--9449456 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
9449395 AGGAAGAGTC
9449405 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTATGCCACATA-TATCTGAT
*
9449432 CTGGTGGCTCTGCCACATATATCTG
1 CTGGTGGCTATGCCACATATATCTG
9449457 TTTTAGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTATGCCACATATATCTGAT
Found at i:9452909 original size:12 final size:10
Alignment explanation
Indices: 9452882--9453034 Score: 60
Period size: 11 Copynumber: 15.6 Consensus size: 10
9452872 ATATAAAAAT
9452882 AAAAATATTA
1 AAAAATATTA
9452892 AAAAATATGTA
1 AAAAATAT-TA
9452903 GAAAAATA-T-
1 -AAAAATATTA
9452912 -AAAA-ATTA
1 AAAAATATTA
9452920 AAAAATATATA
1 AAAAATAT-TA
* *
9452931 AAAATATCTTT
1 AAAA-ATATTA
* *
9452942 CAAATTCATTA
1 AAAAAT-ATTA
9452953 AAAAATTATT-
1 AAAAA-TATTA
*
9452963 ACAAATA-TA
1 AAAAATATTA
*
9452972 AAGAAT-TATA
1 AAAAATAT-TA
* *
9452982 GAAAATCATTT
1 AAAAAT-ATTA
9452993 AAAAATA-T-
1 AAAAATATTA
9453001 AAAAATCATTA
1 AAAAAT-ATTA
*
9453012 TAAAATA-T-
1 AAAAATATTA
9453020 AAAAATA-TA
1 AAAAATATTA
9453029 AAAAAT
1 AAAAAT
9453035 CATAAAAACT
Statistics
Matches: 107, Mismatches: 17, Indels: 39
0.66 0.10 0.24
Matches are distributed among these distances:
6 1 0.01
7 5 0.05
8 14 0.13
9 19 0.18
10 25 0.23
11 31 0.29
12 12 0.11
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (10 bp):
AAAAATATTA
Found at i:9453005 original size:19 final size:18
Alignment explanation
Indices: 9452978--9453062 Score: 84
Period size: 19 Copynumber: 4.5 Consensus size: 18
9452968 TATAAAGAAT
9452978 TATAGAAAATCATTTAAAAA
1 TATA-AAAATCA-TTAAAAA
9452998 TATAAAAATCATTATAAAA
1 TATAAAAATCATTA-AAAA
*
9453017 TATAAAAAT-ATAAAAAA
1 TATAAAAATCATTAAAAA
*
9453034 TCATAAAAA-CTTATAAAAA
1 T-ATAAAAATCAT-TAAAAA
9453053 TAGTAAAAAT
1 TA-TAAAAAT
9453063 TCATAAAATA
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
17 5 0.09
18 15 0.27
19 32 0.57
20 4 0.07
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (18 bp):
TATAAAAATCATTAAAAA
Found at i:9453033 original size:28 final size:28
Alignment explanation
Indices: 9452992--9453070 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
9452982 GAAAATCATT
9452992 TAAAAATAT-AAAAATCATTATAAAA-TA
1 TAAAAATATAAAAAATCATTA-AAAACTA
9453019 TAAAAATATAAAAAATCA-TAAAAACTTA
1 TAAAAATATAAAAAATCATTAAAAAC-TA
*
9453047 TAAAAATAGTAAAAATTCA-TAAAA
1 TAAAAATA-TAAAAAATCATTAAAA
9453071 TAAATTATAA
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
26 4 0.09
27 11 0.23
28 18 0.38
29 14 0.30
ACGTcount: A:0.67, C:0.05, G:0.01, T:0.27
Consensus pattern (28 bp):
TAAAAATATAAAAAATCATTAAAAACTA
Found at i:9453039 original size:10 final size:9
Alignment explanation
Indices: 9452867--9453061 Score: 73
Period size: 8 Copynumber: 20.6 Consensus size: 9
9452857 ACATGTGGAA
9452867 AAAAAATAT
1 AAAAAATAT
9452876 -AAAAATA-
1 AAAAAATAT
*
9452883 AAAATAT-T
1 AAAAAATAT
9452891 AAAAAATATGT
1 AAAAAATA--T
9452902 AGAAAAATAT
1 A-AAAAATAT
9452912 -AAAAAT-T
1 AAAAAATAT
9452919 AAAAAATAT
1 AAAAAATAT
9452928 ATAAAAATATCTT
1 A-AAAAATA---T
** *
9452941 TCAAATTCATT
1 AAAAAAT-A-T
9452952 AAAAAATTAT
1 AAAAAA-TAT
* *
9452962 TACAAATAT
1 AAAAAATAT
*
9452971 AAAGAATTAT
1 AAA-AAATAT
*
9452981 AGAAAATCATT
1 AAAAAAT-A-T
*
9452992 TAAAAATAT
1 AAAAAATAT
9453001 -AAAAATCATT
1 AAAAAAT-A-T
*
9453011 ATAAAATAT
1 AAAAAATAT
9453020 -AAAAATAT
1 AAAAAATAT
9453028 AAAAAATCAT
1 AAAAAAT-AT
*
9453038 AAAAACT-T
1 AAAAAATAT
9453046 ATAAAAATAGT
1 A-AAAAATA-T
9453057 AAAAA
1 AAAAA
9453062 TTCATAAAAT
Statistics
Matches: 140, Mismatches: 21, Indels: 49
0.67 0.10 0.23
Matches are distributed among these distances:
7 1 0.01
8 45 0.32
9 23 0.16
10 36 0.26
11 21 0.15
12 12 0.09
13 2 0.01
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.28
Consensus pattern (9 bp):
AAAAAATAT
Found at i:9453070 original size:10 final size:8
Alignment explanation
Indices: 9452992--9453062 Score: 70
Period size: 9 Copynumber: 7.9 Consensus size: 8
9452982 GAAAATCATT
9452992 TAAAAATA
1 TAAAAATA
9453000 TAAAAATCA
1 TAAAAAT-A
9453009 TTATAAAATA
1 -TA-AAAATA
9453019 TAAAAATA
1 TAAAAATA
9453027 TAAAAAATCA
1 T-AAAAAT-A
9453037 TAAAAACTTA
1 TAAAAA--TA
9453047 TAAAAATA
1 TAAAAATA
9453055 GTAAAAAT
1 -TAAAAAT
9453063 TCATAAAATA
Statistics
Matches: 55, Mismatches: 0, Indels: 15
0.79 0.00 0.21
Matches are distributed among these distances:
8 16 0.29
9 21 0.38
10 12 0.22
11 6 0.11
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.27
Consensus pattern (8 bp):
TAAAAATA
Found at i:9453070 original size:18 final size:16
Alignment explanation
Indices: 9452994--9453116 Score: 76
Period size: 19 Copynumber: 7.2 Consensus size: 16
9452984 AAATCATTTA
9452994 AAAATATAAAAATCATTAT
1 AAAATAT-AAAA--ATTAT
*
9453013 AAAATATAAAAATATAA
1 AAAATATAAAAAT-TAT
9453030 AAAATCATAAAAACTTAT
1 AAAAT-ATAAAAA-TTAT
9453048 AAAAATAGTAAAAATTCAT
1 -AAAATA-TAAAAATT-AT
9453067 -AAA-AT--AAATTAT
1 AAAATATAAAAATTAT
*
9453079 AAAATTCGTAAATAATTAT
1 AAAA-T-ATAAA-AATTAT
*
9453098 AAAATTTAAAAATT-T
1 AAAATATAAAAATTAT
9453113 AAAA
1 AAAA
9453117 ATTTTATTAA
Statistics
Matches: 87, Mismatches: 4, Indels: 30
0.72 0.03 0.25
Matches are distributed among these distances:
12 2 0.02
13 8 0.09
15 6 0.07
16 8 0.09
17 14 0.16
18 18 0.21
19 31 0.36
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (16 bp):
AAAATATAAAAATTAT
Found at i:9453122 original size:9 final size:8
Alignment explanation
Indices: 9452989--9453120 Score: 50
Period size: 8 Copynumber: 14.5 Consensus size: 8
9452979 ATAGAAAATC
9452989 ATTTAAAA
1 ATTTAAAA
*
9452997 ATATAAAA
1 ATTTAAAA
9453005 ATCATTATAAA
1 AT--TTA-AAA
*
9453016 ATATAAAA
1 ATTTAAAA
*
9453024 ATATAAAAA
1 AT-TTAAAA
*
9453033 ATCATAAAA
1 AT-TTAAAA
9453042 ACTTATAAAA
1 A-TT-TAAAA
*
9453052 ATAGTAAAA
1 AT-TTAAAA
9453061 ATTCATAAAATA
1 ATT--T-AAA-A
*
9453073 AATTATAAA
1 ATTTA-AAA
9453082 ATTCGTAAATA
1 ATT--TAAA-A
9453093 A-TTATAAA
1 ATTTA-AAA
9453101 ATTTAAAA
1 ATTTAAAA
9453109 ATTTAAAA
1 ATTTAAAA
9453117 ATTT
1 ATTT
9453121 TATTAAAAAA
Statistics
Matches: 94, Mismatches: 13, Indels: 34
0.67 0.09 0.24
Matches are distributed among these distances:
8 33 0.35
9 30 0.32
10 16 0.17
11 12 0.13
12 3 0.03
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (8 bp):
ATTTAAAA
Found at i:9455029 original size:9 final size:10
Alignment explanation
Indices: 9455009--9455080 Score: 89
Period size: 10 Copynumber: 7.5 Consensus size: 10
9454999 AAATTACAAA
9455009 TTTT-ATATT
1 TTTTAATATT
9455018 TTTTAATATT
1 TTTTAATATT
9455028 TTTTAATATT
1 TTTTAATATT
9455038 TTTT-ATATT
1 TTTTAATATT
*
9455047 TTTTCAATAGT
1 TTTT-AATATT
*
9455058 TTTT-ACA-T
1 TTTTAATATT
9455066 TTTTAATATT
1 TTTTAATATT
9455076 TTTTA
1 TTTTA
9455081 TTGATTTATA
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
8 5 0.09
9 17 0.31
10 25 0.45
11 8 0.15
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.69
Consensus pattern (10 bp):
TTTTAATATT
Found at i:9455038 original size:20 final size:19
Alignment explanation
Indices: 9455009--9455098 Score: 98
Period size: 20 Copynumber: 4.8 Consensus size: 19
9454999 AAATTACAAA
9455009 TTTT-ATATTTTTTAATATT
1 TTTTAATATTTTTT-ATATT
9455028 TTTTAATATTTTTTATATT
1 TTTTAATATTTTTTATATT
* *
9455047 TTTTCAATAGTTTTTACA-T
1 TTTT-AATATTTTTTATATT
*
9455066 TTTTAATATTTTTTAT-TG
1 TTTTAATATTTTTTATATT
*
9455084 ATTT-ATATTTTTTAT
1 TTTTAATATTTTTTAT
9455099 CGTTTTTTGT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
17 11 0.18
18 13 0.21
19 18 0.29
20 20 0.32
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTAATATTTTTTATATT
Found at i:9455043 original size:29 final size:28
Alignment explanation
Indices: 9455009--9455080 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 28
9454999 AAATTACAAA
* *
9455009 TTTTATATTTTTTAATATTTTTTAATATT
1 TTTTATATTTTTTAATAGTTTTT-ACATT
9455038 TTTTATATTTTTTCAATAGTTTTTACATT
1 TTTTATATTTTTT-AATAGTTTTTACATT
*
9455067 TTTAATATTTTTTA
1 TTTTATATTTTTTA
9455081 TTGATTTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
28 1 0.03
29 29 0.74
30 9 0.23
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.69
Consensus pattern (28 bp):
TTTTATATTTTTTAATAGTTTTTACATT
Found at i:9455097 original size:9 final size:9
Alignment explanation
Indices: 9455009--9455098 Score: 92
Period size: 9 Copynumber: 9.7 Consensus size: 9
9454999 AAATTACAAA
9455009 TTTTATATT
1 TTTTATATT
9455018 TTTTAATATT
1 TTTT-ATATT
9455028 TTTTAATATT
1 TTTT-ATATT
9455038 TTTTATATT
1 TTTTATATT
*
9455047 TTTTCAATAGT
1 TTTT--ATATT
*
9455058 TTTTACATT
1 TTTTATATT
*
9455067 TTTAATATT
1 TTTTATATT
*
9455076 TTTTAT-TG
1 TTTTATATT
*
9455084 ATTTATATT
1 TTTTATATT
9455093 TTTTAT
1 TTTTAT
9455099 CGTTTTTTGT
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
8 6 0.09
9 34 0.51
10 19 0.28
11 8 0.12
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (9 bp):
TTTTATATT
Found at i:9455762 original size:3 final size:3
Alignment explanation
Indices: 9455750--9455791 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
9455740 TGAGTAGTAA
* * *
9455750 AAG AAA AAG AAG AAG -AG ACG AAG AAG AAG AAG AAC AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
9455792 GAAAAATTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.67, C:0.05, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9469721 original size:20 final size:20
Alignment explanation
Indices: 9469696--9469733 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9469686 ATTATTAAAA
*
9469696 AAGGTTTATATGTTAAAAGG
1 AAGGTTTATATGTCAAAAGG
9469716 AAGGTTTATATGTCAAAA
1 AAGGTTTATATGTCAAAA
9469734 AGGCCCTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.34
Consensus pattern (20 bp):
AAGGTTTATATGTCAAAAGG
Found at i:9469980 original size:19 final size:19
Alignment explanation
Indices: 9469949--9470045 Score: 63
Period size: 19 Copynumber: 4.7 Consensus size: 19
9469939 TAAAAATGAT
*
9469949 TAAAAAT-ACAAAAAAATC
1 TAAAAATAATAAAAAAATC
* *
9469967 TAAAAATAATAAAAAAGTA
1 TAAAAATAATAAAAAAATC
9469986 TAAATATTATAAAATATAAAAAATC
1 TAAA-A--AT--AATA-AAAAAATC
*
9470011 TAATAAATTATAAAAAAAT-
1 TAA-AAATAATAAAAAAATC
9470030 TATAAAATTAATAAAA
1 TA-AAAA-TAATAAAA
9470046 CATATTTAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
18 7 0.11
19 17 0.27
20 16 0.26
21 3 0.05
22 2 0.03
23 2 0.03
24 4 0.06
25 10 0.16
26 1 0.02
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (19 bp):
TAAAAATAATAAAAAAATC
Found at i:9470004 original size:26 final size:27
Alignment explanation
Indices: 9469969--9470044 Score: 77
Period size: 26 Copynumber: 2.9 Consensus size: 27
9469959 AAAAAATCTA
*
9469969 AAAATAATAAAAAAGTATAA-ATATTAT
1 AAAATAATAAAAAA-TATAATAAATTAT
*
9469996 AAAAT-ATAAAAAATCTAATAAATTAT
1 AAAATAATAAAAAATATAATAAATTAT
* *
9470022 AAAAAAATTATAAAAT-TAATAAA
1 AAAATAA-TAAAAAATATAATAAA
9470045 ACATATTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
25 4 0.10
26 18 0.43
27 13 0.31
28 7 0.17
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (27 bp):
AAAATAATAAAAAATATAATAAATTAT
Found at i:9470026 original size:27 final size:26
Alignment explanation
Indices: 9469967--9470044 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 26
9469957 CAAAAAAATC
*
9469967 TAAAAATAATAAAAAAGT-ATAAA-TA
1 TAAAAAT-ATAAAAAATTAATAAATTA
9469992 TTATAAAATATAAAAAATCTAATAAATTA
1 -TA-AAAATATAAAAAAT-TAATAAATTA
* *
9470021 TAAAAAAATTATAAAATTAATAAA
1 TAAAAATA-TAAAAAATTAATAAA
9470045 ACATATTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
26 10 0.23
27 18 0.41
28 14 0.32
29 2 0.05
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (26 bp):
TAAAAATATAAAAAATTAATAAATTA
Found at i:9470055 original size:20 final size:19
Alignment explanation
Indices: 9469991--9470124 Score: 64
Period size: 19 Copynumber: 6.9 Consensus size: 19
9469981 AAGTATAAAT
9469991 ATTATAAAA-TAT-AAAAA
1 ATTATAAAATTATAAAAAA
9470008 ATCTA-ATAAATTATAAAAAA
1 AT-TATA-AAATTATAAAAAA
*
9470028 ATTATAAAATTAATAAAACAT
1 ATTATAAAATT-ATAAAA-AA
* *
9470049 ATT-TAAAATTTTATAAGAA
1 ATTATAAAATTATA-AAAAA
** *
9470068 ATCGTATAATTTTTTAAAAAA
1 AT--TATAAAATTATAAAAAA
* **
9470089 CTTATAAAAATT-TATCAAA
1 ATTAT-AAAATTATAAAAAA
9470108 ATTATTAAAA-TATAAAA
1 ATTA-TAAAATTATAAAA
9470125 TTTAATATAA
Statistics
Matches: 88, Mismatches: 15, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
17 3 0.03
18 6 0.07
19 33 0.38
20 28 0.32
21 10 0.11
22 8 0.09
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (19 bp):
ATTATAAAATTATAAAAAA
Found at i:9474346 original size:20 final size:20
Alignment explanation
Indices: 9474321--9474358 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9474311 ATTATTAAAA
*
9474321 AAGGTTTATATGTTAAAAGG
1 AAGGTTTATATGTCAAAAGG
9474341 AAGGTTTATATGTCAAAA
1 AAGGTTTATATGTCAAAA
9474359 AGGCCCTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.34
Consensus pattern (20 bp):
AAGGTTTATATGTCAAAAGG
Found at i:9474605 original size:19 final size:19
Alignment explanation
Indices: 9474574--9474670 Score: 63
Period size: 19 Copynumber: 4.7 Consensus size: 19
9474564 TAAAAATGAT
*
9474574 TAAAAAT-ACAAAAAAATC
1 TAAAAATAATAAAAAAATC
* *
9474592 TAAAAATAATAAAAAAGTA
1 TAAAAATAATAAAAAAATC
9474611 TAAATATTATAAAATATAAAAAATC
1 TAAA-A--AT--AATA-AAAAAATC
*
9474636 TAATAAATTATAAAAAAAT-
1 TAA-AAATAATAAAAAAATC
9474655 TATAAAATTAATAAAA
1 TA-AAAA-TAATAAAA
9474671 CATATTTAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
18 7 0.11
19 17 0.27
20 16 0.26
21 3 0.05
22 2 0.03
23 2 0.03
24 4 0.06
25 10 0.16
26 1 0.02
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (19 bp):
TAAAAATAATAAAAAAATC
Found at i:9474629 original size:26 final size:27
Alignment explanation
Indices: 9474594--9474669 Score: 77
Period size: 26 Copynumber: 2.9 Consensus size: 27
9474584 AAAAAATCTA
*
9474594 AAAATAATAAAAAAGTATAA-ATATTAT
1 AAAATAATAAAAAA-TATAATAAATTAT
*
9474621 AAAAT-ATAAAAAATCTAATAAATTAT
1 AAAATAATAAAAAATATAATAAATTAT
* *
9474647 AAAAAAATTATAAAAT-TAATAAA
1 AAAATAA-TAAAAAATATAATAAA
9474670 ACATATTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
25 4 0.10
26 18 0.43
27 13 0.31
28 7 0.17
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (27 bp):
AAAATAATAAAAAATATAATAAATTAT
Found at i:9474651 original size:27 final size:26
Alignment explanation
Indices: 9474592--9474669 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 26
9474582 CAAAAAAATC
*
9474592 TAAAAATAATAAAAAAGT-ATAAA-TA
1 TAAAAAT-ATAAAAAATTAATAAATTA
9474617 TTATAAAATATAAAAAATCTAATAAATTA
1 -TA-AAAATATAAAAAAT-TAATAAATTA
* *
9474646 TAAAAAAATTATAAAATTAATAAA
1 TAAAAATA-TAAAAAATTAATAAA
9474670 ACATATTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
26 10 0.23
27 18 0.41
28 14 0.32
29 2 0.05
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (26 bp):
TAAAAATATAAAAAATTAATAAATTA
Found at i:9474680 original size:20 final size:19
Alignment explanation
Indices: 9474616--9474749 Score: 64
Period size: 19 Copynumber: 6.9 Consensus size: 19
9474606 AAGTATAAAT
9474616 ATTATAAAA-TAT-AAAAA
1 ATTATAAAATTATAAAAAA
9474633 ATCTA-ATAAATTATAAAAAA
1 AT-TATA-AAATTATAAAAAA
*
9474653 ATTATAAAATTAATAAAACAT
1 ATTATAAAATT-ATAAAA-AA
* *
9474674 ATT-TAAAATTTTATAAGAA
1 ATTATAAAATTATA-AAAAA
** *
9474693 ATCGTATAATTTTTTAAAAAA
1 AT--TATAAAATTATAAAAAA
* **
9474714 CTTATAAAAATT-TATCAAA
1 ATTAT-AAAATTATAAAAAA
9474733 ATTATTAAAA-TATAAAA
1 ATTA-TAAAATTATAAAA
9474750 TTTAATATAA
Statistics
Matches: 88, Mismatches: 15, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
17 3 0.03
18 6 0.07
19 33 0.38
20 28 0.32
21 10 0.11
22 8 0.09
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (19 bp):
ATTATAAAATTATAAAAAA
Found at i:9482426 original size:50 final size:50
Alignment explanation
Indices: 9482355--9482539 Score: 361
Period size: 50 Copynumber: 3.7 Consensus size: 50
9482345 ACATGCCAAA
9482355 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
9482405 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
9482455 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
*
9482505 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
9482540 TTACCCAAAT
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 134 1.00
ACGTcount: A:0.17, C:0.33, G:0.24, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
Found at i:9482655 original size:13 final size:13
Alignment explanation
Indices: 9482634--9482665 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9482624 GCTTGGATCA
*
9482634 TCATCAAATAAAT
1 TCATAAAATAAAT
9482647 TCATAAAATAAAT
1 TCATAAAATAAAT
9482660 TCATAA
1 TCATAA
9482666 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:9482913 original size:30 final size:30
Alignment explanation
Indices: 9482877--9482934 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
9482867 CCTCGACTCT
*
9482877 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
9482907 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
9482935 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:9484144 original size:5 final size:5
Alignment explanation
Indices: 9484136--9484162 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
9484126 ATACTTTAAT
9484136 TATAA TATAA TATAA TATAA TATAA TA
1 TATAA TATAA TATAA TATAA TATAA TA
9484163 ATATTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:9487556 original size:76 final size:76
Alignment explanation
Indices: 9487446--9487595 Score: 183
Period size: 76 Copynumber: 2.0 Consensus size: 76
9487436 TTGCATACAC
* * * * * * **
9487446 TTTTATCATGGCTTTGCCATGACCACATATTTTATCATACTGCCACAGCTTAACTATGGTCTTGT
1 TTTTACCATGGCCTTGCCATGACCACACACTTTATCACACTGCCACAGCTTAACCATGGTCTTAC
9487511 ACTTGCACATA
66 ACTTGCACATA
* * * * *
9487522 TTTTACCATGGCCTTGTCATGATCACACACTTTATCACATTGCCATAGCTTAGCCATGGTCTTAC
1 TTTTACCATGGCCTTGCCATGACCACACACTTTATCACACTGCCACAGCTTAACCATGGTCTTAC
9487587 ACTTGCACA
66 ACTTGCACA
9487596 CATATGTATC
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
76 61 1.00
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.36
Consensus pattern (76 bp):
TTTTACCATGGCCTTGCCATGACCACACACTTTATCACACTGCCACAGCTTAACCATGGTCTTAC
ACTTGCACATA
Found at i:9491962 original size:15 final size:16
Alignment explanation
Indices: 9491935--9491964 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9491925 GTATTTAATT
9491935 ATAATATAAGTAAATA
1 ATAATATAAGTAAATA
9491951 ATAATA-AAGTAAAT
1 ATAATATAAGTAAAT
9491965 TATATTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (16 bp):
ATAATATAAGTAAATA
Found at i:9492073 original size:20 final size:17
Alignment explanation
Indices: 9492048--9492087 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 17
9492038 CGAATAGTAA
9492048 GGAAAGAAAGAAGGAAAAAG
1 GGAAAGAAA-AA-G-AAAAG
9492068 GGAAAGAAAAAGAAAAG
1 GGAAAGAAAAAGAAAAG
9492085 GGA
1 GGA
9492088 GAATTAGGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
19 2 0.10
20 9 0.45
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (17 bp):
GGAAAGAAAAAGAAAAG
Found at i:9497551 original size:37 final size:37
Alignment explanation
Indices: 9497434--9497551 Score: 87
Period size: 37 Copynumber: 3.1 Consensus size: 37
9497424 CATACTTTAT
** * *
9497434 CACATTGCCATAATTTAACTATGGTCTTGCACTTGCA
1 CACATTGCCATAGCTTAGCTATGGTCTTACACTTGCA
* * * * ** *
9497471 CATATTTTACCATGGCCTT-GCTATGATCACACACTT-TA
1 CACA--TTGCCATAG-CTTAGCTATGGTCTTACACTTGCA
9497509 TCACATTGCCATAGCTTAGCTATGGTCTTACACTTGCA
1 -CACATTGCCATAGCTTAGCTATGGTCTTACACTTGCA
9497547 CACAT
1 CACAT
9497552 ATGTAACTGC
Statistics
Matches: 57, Mismatches: 18, Indels: 12
0.66 0.21 0.14
Matches are distributed among these distances:
36 3 0.05
37 29 0.51
38 2 0.04
39 21 0.37
40 2 0.04
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (37 bp):
CACATTGCCATAGCTTAGCTATGGTCTTACACTTGCA
Found at i:9497894 original size:9 final size:8
Alignment explanation
Indices: 9497870--9497921 Score: 61
Period size: 8 Copynumber: 6.4 Consensus size: 8
9497860 AATACAACCC
9497870 AAAAT-AA
1 AAAATAAA
9497877 AAAATAAA
1 AAAATAAA
9497885 AAAATAAA
1 AAAATAAA
9497893 AAAATGAAGA
1 AAAAT-AA-A
*
9497903 AAAAGAAA
1 AAAATAAA
*
9497911 AAAAGAAA
1 AAAATAAA
9497919 AAA
1 AAA
9497922 GCCTAACCTC
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
7 5 0.12
8 27 0.66
9 4 0.10
10 5 0.12
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (8 bp):
AAAATAAA
Found at i:9499113 original size:19 final size:19
Alignment explanation
Indices: 9499089--9499126 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9499079 TTGAGATTGC
*
9499089 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
9499108 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
9499127 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:9504726 original size:73 final size:73
Alignment explanation
Indices: 9504644--9504902 Score: 500
Period size: 73 Copynumber: 3.5 Consensus size: 73
9504634 ACAACTTGAC
9504644 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
9504709 CACTAACA
66 CACTAACA
9504717 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
9504782 CACTAACA
66 CACTAACA
*
9504790 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCAATTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
9504855 CACTAACA
66 CACTAACA
*
9504863 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
9504903 AATAATAATA
Statistics
Matches: 184, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 184 1.00
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:9504911 original size:3 final size:3
Alignment explanation
Indices: 9504903--9504964 Score: 106
Period size: 3 Copynumber: 20.7 Consensus size: 3
9504893 ATTACATCCA
*
9504903 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
9504951 AAA AAT AAT AAT AA
1 AAT AAT AAT AAT AA
9504965 AACATGTGAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:9509303 original size:3 final size:3
Alignment explanation
Indices: 9509295--9509323 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9509285 ATTACATCCA
9509295 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9509324 AACATGTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9513522 original size:27 final size:29
Alignment explanation
Indices: 9513483--9513536 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
9513473 CTACTATTAT
*
9513483 AATATGTTCTAT-AGTATT-ATATAATGA
1 AATATATTCTATAAGTATTAATATAATGA
*
9513510 AATATATTTTATAAGTATTAATATAAT
1 AATATATTCTATAAGTATTAATATAAT
9513537 AACTATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 10 0.43
28 6 0.26
29 7 0.30
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.46
Consensus pattern (29 bp):
AATATATTCTATAAGTATTAATATAATGA
Found at i:9514655 original size:20 final size:20
Alignment explanation
Indices: 9514621--9514662 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
9514611 AATCATTTAA
** *
9514621 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
9514641 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
9514661 AT
1 AT
9514663 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:9516551 original size:22 final size:21
Alignment explanation
Indices: 9516498--9516555 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 21
9516488 AAATTACTTC
9516498 TATATATTTTTTTTAAAATTAAA
1 TATA-ATTTTTTTTAAAA-TAAA
9516521 TATTAATTTATTTTTAAAA-AAA
1 TA-TAATTT-TTTTTAAAATAAA
9516543 TATAGATTTTTTT
1 TATA-ATTTTTTT
9516556 ATTTGATGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
21 6 0.19
22 9 0.28
23 6 0.19
24 11 0.34
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TATAATTTTTTTTAAAATAAA
Found at i:9517300 original size:16 final size:15
Alignment explanation
Indices: 9517279--9517314 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
9517269 GTTGCTTTTA
9517279 TATTTTCTCTATTCTT
1 TATTTTCTCTA-TCTT
9517295 TATTTTCTCTATCTT
1 TATTTTCTCTATCTT
9517310 T-TTTT
1 TATTTT
9517315 ATTTTATAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.20
15 5 0.25
16 11 0.55
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTTTCTCTATCTT
Found at i:9520790 original size:7 final size:7
Alignment explanation
Indices: 9520778--9520802 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9520768 CTTTCATATT
9520778 TTCTTTA
1 TTCTTTA
9520785 TTCTTTA
1 TTCTTTA
9520792 TTCTTTA
1 TTCTTTA
9520799 TTCT
1 TTCT
9520803 CTCTATCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (7 bp):
TTCTTTA
Found at i:9525844 original size:24 final size:24
Alignment explanation
Indices: 9525817--9525932 Score: 189
Period size: 24 Copynumber: 4.8 Consensus size: 24
9525807 GTCAGGAGAA
9525817 GATTTAGGAGCTGATAAGGGAAAG
1 GATTTAGGAGCTGATAAGGGAAAG
9525841 GATTTAGGAGCTGATAAGGGAAAG
1 GATTTAGGAGCTGATAAGGGAAAG
* *
9525865 GATTTAGGAGATGATAAGGGAGAG
1 GATTTAGGAGCTGATAAGGGAAAG
9525889 GATTTAGGAGCTGATAAGGGAGAA-
1 GATTTAGGAGCTGATAAGGGA-AAG
9525913 GATTTAGGAGCTGATCAAGG
1 GATTTAGGAGCTGAT-AAGG
9525933 AGCAAGAGTT
Statistics
Matches: 86, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
24 81 0.94
25 5 0.06
ACGTcount: A:0.36, C:0.04, G:0.38, T:0.22
Consensus pattern (24 bp):
GATTTAGGAGCTGATAAGGGAAAG
Found at i:9525934 original size:24 final size:24
Alignment explanation
Indices: 9525810--9525939 Score: 153
Period size: 24 Copynumber: 5.4 Consensus size: 24
9525800 AAAGGCTGTC
9525810 AGGAG-AAGATTTAGGAGCTGATA
1 AGGAGAAAGATTTAGGAGCTGATA
9525833 AGG-GAAAGGATTTAGGAGCTGATA
1 AGGAGAAA-GATTTAGGAGCTGATA
*
9525857 AGG-GAAAGGATTTAGGAGATGATA
1 AGGAGAAA-GATTTAGGAGCTGATA
*
9525881 AGG-GAGAGGATTTAGGAGCTGATA
1 AGGAGA-AAGATTTAGGAGCTGATA
9525905 AGG-GAGAAGATTTAGGAGCTGATCA
1 AGGAGA-AAGATTTAGGAGCTGAT-A
*
9525930 AGGAGCAAGA
1 AGGAGAAAGA
9525940 GTTGGCCGGC
Statistics
Matches: 97, Mismatches: 5, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
22 1 0.01
23 5 0.05
24 81 0.84
25 9 0.09
26 1 0.01
ACGTcount: A:0.38, C:0.05, G:0.38, T:0.19
Consensus pattern (24 bp):
AGGAGAAAGATTTAGGAGCTGATA
Found at i:9527423 original size:26 final size:26
Alignment explanation
Indices: 9527316--9527426 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
9527306 AGGAAGCGTC
* * *
9527316 CTGGTGGCTATGCCATAATTATCTGAT
1 CTGGTGGCTCTGCCA-CATTATCTGTT
9527343 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
* *
9527370 CTGGTGGCTCTACTACAATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
*
9527397 CTGGTGACTCTGCCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
9527423 CTGG
1 CTGG
9527427 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 16 0.22
27 56 0.76
28 2 0.03
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:9531186 original size:18 final size:18
Alignment explanation
Indices: 9531148--9531187 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
9531138 CAGACCACAC
* *
9531148 GCCTGTGCCTATTTGATA
1 GCCTGTGCCTATTTAACA
9531166 GCCTGTGCCTATTTAACA
1 GCCTGTGCCTATTTAACA
9531184 GCCT
1 GCCT
9531188 TGACCACGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.28, G:0.20, T:0.35
Consensus pattern (18 bp):
GCCTGTGCCTATTTAACA
Found at i:9544469 original size:25 final size:25
Alignment explanation
Indices: 9544422--9544587 Score: 85
Period size: 24 Copynumber: 6.8 Consensus size: 25
9544412 CATACAAGCA
* * *
9544422 CATA-AACGGGAAGTTCTTTTGAGC
1 CATATAACGGGAAGCTCATGTGAGC
*
9544446 TATATAACGGGAAGCTCATGTGAGC
1 CATATAACGGGAAGCTCATGTGAGC
* * *
9544471 CATGTAACGAGAAGCTC-TGGAGAGC
1 CATATAACGGGAAGCTCAT-GTGAGC
* * **
9544496 CAT-TAATGGAAAGCTCATACGAG-
1 CATATAACGGGAAGCTCATGTGAGC
* * * * *
9544519 CAAATATCGGGAAGTTCAAGGGAGC
1 CATATAACGGGAAGCTCATGTGAGC
* * *
9544544 CA-ATATCGGGAAGAT-ATGGAGAGC
1 CATATAACGGGAAGCTCAT-GTGAGC
9544568 CAT-TAATCGGGAAGCTCATG
1 CATATAA-CGGGAAGCTCATG
9544588 AAAGAGCCTT
Statistics
Matches: 107, Mismatches: 26, Indels: 17
0.71 0.17 0.11
Matches are distributed among these distances:
23 3 0.03
24 51 0.48
25 51 0.48
26 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (25 bp):
CATATAACGGGAAGCTCATGTGAGC
Found at i:9546141 original size:28 final size:28
Alignment explanation
Indices: 9546109--9546164 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
9546099 CGGTGTTGTC
9546109 TCCGAAACAAGATCTATTGAAAATTCAA
1 TCCGAAACAAGATCTATTGAAAATTCAA
9546137 TCCGAAACAAGATCTATTGAAAATTCAA
1 TCCGAAACAAGATCTATTGAAAATTCAA
9546165 CTTCCCTGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.25
Consensus pattern (28 bp):
TCCGAAACAAGATCTATTGAAAATTCAA
Found at i:9547208 original size:42 final size:42
Alignment explanation
Indices: 9547148--9547231 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
9547138 TTTCTTTGAT
* *
9547148 TTCTTCGAAGCTGGCTGATATGACTTTCCTATCATTCTCTTA
1 TTCTTCAAAGCTGACTGATATGACTTTCCTATCATTCTCTTA
* *
9547190 TTCTTCAAAGCTGACTGATATGACTTTTCTGTCATTCTCTTA
1 TTCTTCAAAGCTGACTGATATGACTTTCCTATCATTCTCTTA
9547232 CTTGTATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (42 bp):
TTCTTCAAAGCTGACTGATATGACTTTCCTATCATTCTCTTA
Found at i:9549586 original size:25 final size:25
Alignment explanation
Indices: 9549558--9549617 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
9549548 GAAGCTTTTT
9549558 TGAGCCATAAAACAGGAAGC-TCGTG
1 TGAGCCATAAAACAGGAAGCTTCG-G
** *
9549583 TGAGCCATGTAACGGGAAGCTTCGG
1 TGAGCCATAAAACAGGAAGCTTCGG
*
9549608 AGAGCCATAA
1 TGAGCCATAA
9549618 CGGGAAGCTC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
25 25 0.89
26 3 0.11
ACGTcount: A:0.33, C:0.20, G:0.30, T:0.17
Consensus pattern (25 bp):
TGAGCCATAAAACAGGAAGCTTCGG
Found at i:9559419 original size:5 final size:5
Alignment explanation
Indices: 9559409--9559437 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
9559399 TAATAATAAT
9559409 AATTA AATTA AATTA AATTA AATTA AATT
1 AATTA AATTA AATTA AATTA AATTA AATT
9559438 TCAAGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
AATTA
Found at i:9562163 original size:25 final size:25
Alignment explanation
Indices: 9562134--9562183 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
9562124 TAATCACTTA
9562134 GTGTATCAACAAATTTTGTTAGAGT
1 GTGTATCAACAAATTTTGTTAGAGT
9562159 GTGTATCAACAAATTTTGTTAGAGT
1 GTGTATCAACAAATTTTGTTAGAGT
9562184 TTTTAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (25 bp):
GTGTATCAACAAATTTTGTTAGAGT
Found at i:9562801 original size:27 final size:25
Alignment explanation
Indices: 9562771--9562824 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
9562761 CCTCCAGAAT
*
9562771 TAGATAAGTGTGATCAAACCACCATAA
1 TAGATAAGTG-GATAAAACCACCA-AA
* *
9562798 TAGATATGTGGTTAAAACCACCAAA
1 TAGATAAGTGGATAAAACCACCAAA
9562823 TA
1 TA
9562825 AGGTAGATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.17
26 11 0.46
27 9 0.38
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (25 bp):
TAGATAAGTGGATAAAACCACCAAA
Found at i:9563402 original size:18 final size:18
Alignment explanation
Indices: 9563379--9563413 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
9563369 TATTTATTAG
9563379 GTTGGTTAAATTAGATGA
1 GTTGGTTAAATTAGATGA
9563397 GTTGGTTAAATTAGATG
1 GTTGGTTAAATTAGATG
9563414 CAGGCTCTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (18 bp):
GTTGGTTAAATTAGATGA
Found at i:9566450 original size:18 final size:18
Alignment explanation
Indices: 9566427--9566461 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
9566417 AGAATTATAG
9566427 ATCAAAATCTAAAACAAT
1 ATCAAAATCTAAAACAAT
9566445 ATCAAAATCTAAAACAA
1 ATCAAAATCTAAAACAA
9566462 GAGCAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.63, C:0.17, G:0.00, T:0.20
Consensus pattern (18 bp):
ATCAAAATCTAAAACAAT
Found at i:9569239 original size:40 final size:41
Alignment explanation
Indices: 9569183--9569285 Score: 163
Period size: 41 Copynumber: 2.5 Consensus size: 41
9569173 CTAAAACCAC
*
9569183 AAAAACGCCGCGAAAAA-TAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCGAAAAACCAGAGCATTAGCGGCGCTTTTGG
* *
9569223 CAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCGAAAAACCAGAGCATTAGCGGCGCTTTTGG
*
9569264 AAAAACGCCGTGAAAAACCAGA
1 AAAAACGCCGCGAAAAACCAGA
9569286 AACGCCGCTA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
40 15 0.27
41 41 0.73
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (41 bp):
AAAAACGCCGCGAAAAACCAGAGCATTAGCGGCGCTTTTGG
Found at i:9569289 original size:60 final size:60
Alignment explanation
Indices: 9569225--9569339 Score: 194
Period size: 60 Copynumber: 1.9 Consensus size: 60
9569215 GCTTTTGGCA
*
9569225 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGAAAAACGCCGTGAAAAACCAG
1 AAACGCCGCTAAAAACCAGAGCATTAGCAGCGCTTTTGGAAAAACGCCGTGAAAAACCAG
* * *
9569285 AAACGCCGCTAAAAACTAGAGCATTAGCAGTGCTTTTGGAAAAACGCCGTTAAAA
1 AAACGCCGCTAAAAACCAGAGCATTAGCAGCGCTTTTGGAAAAACGCCGTGAAAA
9569340 GTCATATAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.17
Consensus pattern (60 bp):
AAACGCCGCTAAAAACCAGAGCATTAGCAGCGCTTTTGGAAAAACGCCGTGAAAAACCAG
Found at i:9569528 original size:21 final size:21
Alignment explanation
Indices: 9569504--9569588 Score: 98
Period size: 21 Copynumber: 3.9 Consensus size: 21
9569494 CATTATAGTT
*
9569504 TATGGTTTATGGTTTAAGATA
1 TATGGTTTAGGGTTTAAGATA
* *
9569525 TATGGTTTAGGGTTTAAGGTT
1 TATGGTTTAGGGTTTAAGATA
*
9569546 TATGAGTTAACTATGGTTTAAGATA
1 TATG-GTT---TAGGGTTTAAGATA
9569571 TATGGTTTAGGGTTTAAG
1 TATGGTTTAGGGTTTAAG
9569589 GTTTAAGAGT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
21 32 0.60
22 3 0.06
24 3 0.06
25 15 0.28
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (21 bp):
TATGGTTTAGGGTTTAAGATA
Found at i:9569563 original size:46 final size:46
Alignment explanation
Indices: 9569511--9569604 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
9569501 GTTTATGGTT
*
9569511 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAAGAGTTAAC
9569557 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAAGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAAGAGTTAAC
9569603 TA
1 TA
9569605 GTATTTGAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.43
Consensus pattern (46 bp):
TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAAGAGTTAAC
Found at i:9569595 original size:7 final size:7
Alignment explanation
Indices: 9569496--9569593 Score: 61
Period size: 7 Copynumber: 13.4 Consensus size: 7
9569486 TTAATTATCA
*
9569496 TTATAGT
1 TTATGGT
9569503 TTATGGT
1 TTATGGT
9569510 TTATGGT
1 TTATGGT
* *
9569517 TTAAGAT
1 TTATGGT
*
9569524 ATATGGT
1 TTATGGT
*
9569531 TTAGGGT
1 TTATGGT
*
9569538 TTAAGGT
1 TTATGGT
9569545 TTATGAGT
1 TTATG-GT
9569553 TAACTATGGT
1 T---TATGGT
* *
9569563 TTAAGAT
1 TTATGGT
*
9569570 ATATGGT
1 TTATGGT
*
9569577 TTAGGGT
1 TTATGGT
*
9569584 TTAAGGT
1 TTATGGT
9569591 TTA
1 TTA
9569594 AGAGTTAACT
Statistics
Matches: 69, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
7 59 0.86
8 3 0.04
10 3 0.04
11 4 0.06
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.47
Consensus pattern (7 bp):
TTATGGT
Found at i:9569723 original size:21 final size:21
Alignment explanation
Indices: 9569652--9569724 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
9569642 TTATGATTAA
*
9569652 TTAGGGTTTAATGGTT-AGGG-
1 TTAGAGTTTAA-GGTTAAGGGT
9569672 TTAGAGTTTAAGGTGTAAGGGT
1 TTAGAGTTTAAGGT-TAAGGGT
* * **
9569694 TTGGGGTTTGGGGTTAAGGGT
1 TTAGAGTTTAAGGTTAAGGGT
9569715 TTAGAGTTTA
1 TTAGAGTTTA
9569725 GTGTTTATGG
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
19 3 0.07
20 11 0.26
21 18 0.43
22 10 0.24
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.40
Consensus pattern (21 bp):
TTAGAGTTTAAGGTTAAGGGT
Done.