Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 165 of 362
Found at i:54377383 original size:55 final size:53
Alignment explanation
Indices: 54377296--54377550 Score: 238
Period size: 55 Copynumber: 4.8 Consensus size: 53
54377286 ATTAGGGTTT
*
54377296 AAGGATACCATGTAAGACCATGACAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGACAAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * * * * *
54377351 AAGGAAATCATTTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGACAAGACATGGAATTGGTAAGTT--TCTAAGGC
* * * * * *
54377406 AAAGG-TCCCATGTAAGATCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGACAAGACATGGAATTGGTAAGTTTC-TAAGGC
*
54377459 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTT-TAA---
1 AAGGATACCATGTAAGACCATGACAAGACATGG-AATTGGTAAGTTTCTAAGGC
*
54377508 AAGGATACCATGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGACAAGACATGG-AATTGGTAAG
54377551 GTACCCGCGT
Statistics
Matches: 167, Mismatches: 26, Indels: 20
0.78 0.12 0.09
Matches are distributed among these distances:
49 41 0.25
52 8 0.05
53 39 0.23
54 11 0.07
55 64 0.38
56 4 0.02
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGACAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:54377502 original size:108 final size:110
Alignment explanation
Indices: 54377303--54377552 Score: 297
Period size: 108 Copynumber: 2.4 Consensus size: 110
54377293 TTTAAGGATA
* *
54377303 CCATGTAAGACCATGACAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATTTAAGA
1 CCATGTAAGACCATGACAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
54377368 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * * * *
54377413 CCATGTAAGATCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGACAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
* *
54377475 ACCATGTCAAGACATGGCAATGGTAAGTT--T-T-A---AAAGGATA
65 ACCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGG-TC
* *
54377515 CCATGTAAGACCATGACAAGTCATGGCAA-TGGTAAGGT
1 CCATGTAAGACCATGACAAGGCATGGAAATTGGTAAGGT
54377553 ACCCGCGTAT
Statistics
Matches: 120, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
101 5 0.04
102 29 0.24
103 2 0.02
104 1 0.01
105 1 0.01
106 1 0.01
107 3 0.03
108 47 0.39
109 7 0.06
110 24 0.20
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGACAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:54379846 original size:37 final size:37
Alignment explanation
Indices: 54379796--54379874 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
54379786 TTATTACGAA
* *
54379796 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
54379833 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
54379870 GTCTT
1 GTCTT
54379875 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:54380071 original size:47 final size:47
Alignment explanation
Indices: 54379993--54380242 Score: 392
Period size: 47 Copynumber: 5.3 Consensus size: 47
54379983 CCCTTCGGGA
* * * * * * *
54379993 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54380040 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54380087 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54380134 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54380181 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54380228 CTTATCACATATATA
1 CTTATCACATATATA
54380243 TACACTATCG
Statistics
Matches: 189, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 189 1.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54380280 original size:33 final size:34
Alignment explanation
Indices: 54380214--54380281 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 34
54380204 CATTCATCAC
*
54380214 ATCGGCTATTAGGCCTTATCACATATATATACACT
1 ATCGGCCATTAGGCCTTATCACA-ATATATACACT
54380249 ATCGGCCATTAGGCCTTATCAC-ATATATACACT
1 ATCGGCCATTAGGCCTTATCACAATATATACACT
54380282 TTCACATTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 11 0.34
35 21 0.66
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (34 bp):
ATCGGCCATTAGGCCTTATCACAATATATACACT
Found at i:54380305 original size:47 final size:47
Alignment explanation
Indices: 54380249--54380469 Score: 415
Period size: 47 Copynumber: 4.7 Consensus size: 47
54380239 TATATACACT
54380249 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
1 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
54380296 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
1 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
* *
54380343 ATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
1 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
54380390 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
1 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
*
54380437 ATCGGCTATTAGGCCTTATCACATATATACACT
1 ATCGGCCATTAGGCCTTATCACATATATACACT
54380470 GTCTTGGCTG
Statistics
Matches: 169, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 169 1.00
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
Found at i:54380373 original size:176 final size:176
Alignment explanation
Indices: 54380073--54380418 Score: 665
Period size: 176 Copynumber: 2.0 Consensus size: 176
54380063 CATTCATCAC
54380073 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
54380138 TTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
66 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTC
*
54380203 ACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACT
131 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
54380249 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
54380314 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTC
66 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTC
54380379 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
131 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
54380419 CACTTTCACA
Statistics
Matches: 167, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
176 167 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (176 bp):
ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTC
ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
Found at i:54380432 original size:223 final size:223
Alignment explanation
Indices: 54380044--54380465 Score: 808
Period size: 223 Copynumber: 1.9 Consensus size: 223
54380034 CTCGGCCCTG
54380044 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
* * *
54380109 ACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCT
66 ACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCC
54380174 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
131 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
54380239 TATATACACTATCGGCCATTAGGCCTTA
196 TATATACACTATCGGCCATTAGGCCTTA
54380267 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
*
54380332 ACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCC
66 ACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCC
54380397 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
131 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
54380462 TATA
196 TATA
54380466 CACTGTCTTG
Statistics
Matches: 195, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
223 195 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (223 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
ACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCC
ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
TATATACACTATCGGCCATTAGGCCTTA
Found at i:54383394 original size:45 final size:45
Alignment explanation
Indices: 54383330--54383503 Score: 217
Period size: 45 Copynumber: 3.8 Consensus size: 45
54383320 TGTAACCCGC
*
54383330 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
*
54383375 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** *
54383421 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
*
54383468 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
54383504 ATGCTCAACC
Statistics
Matches: 110, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 35 0.32
46 33 0.30
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:54383452 original size:47 final size:45
Alignment explanation
Indices: 54383337--54383507 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 45
54383327 CGCCCATAAG
* * *
54383337 CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGT
1 CGAACTCGGACTCAACTCAACGAGCTCGG-ATGCGCATACATAACT
**
54383383 -GAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTACATCTCT
1 CGAACTCGGACTCAACTCAACGAGCTCGGATGCGC-A--TACATAACT
* * * *
54383429 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 CGAACTCGGACTCAACTCAACGAGCTCGG--ATGCGCATACATAACT
*
54383476 -GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CGAACTCGGACTCAACTCAACGAGCTCGGATGC
54383508 TCAACCATCC
Statistics
Matches: 106, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 7 0.07
45 28 0.26
46 33 0.31
47 32 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGATGCGCATACATAACT
Found at i:54383495 original size:93 final size:92
Alignment explanation
Indices: 54383337--54383507 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 92
54383327 CGCCCATAAG
54383337 CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
54383402 CGAGCTCGGATGCCTAGTTACATCTCT
66 CGAGCTCGGATGCCTAGTTACATCTCT
*
54383429 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
54383494 ACGAGTTCGGATGC
65 ACGAGCTCGGATGC
54383508 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 28 0.37
93 48 0.63
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCT
Found at i:54386094 original size:46 final size:46
Alignment explanation
Indices: 54386038--54386213 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
54386028 TATTTGGGCA
*
54386038 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
54386084 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * * *
54386129 CATCCAAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
54386177 TCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54386214 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 60 0.58
47 26 0.25
48 4 0.04
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:54386144 original size:93 final size:93
Alignment explanation
Indices: 54386034--54386206 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
54386024 AGGATATTTG
* * * * *
54386034 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGTCCGAGCTCATTGAG
54386099 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
54386127 GGCATCCAAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACAAACGTCCGAGCTCATTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGTCCGAGCTCATTGAG
54386192 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
54386207 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGTCCGAGCTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:54390024 original size:12 final size:13
Alignment explanation
Indices: 54389990--54390029 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
54389980 TTTTTTTAAG
54389990 TAGTTTATTGATA
1 TAGTTTATTGATA
54390003 TAGTCATTATT-ATA
1 TAGT--TTATTGATA
54390017 TAGTTTATTGATA
1 TAGTTTATTGATA
54390030 AAAATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.21
13 7 0.29
14 7 0.29
15 5 0.21
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.53
Consensus pattern (13 bp):
TAGTTTATTGATA
Found at i:54399144 original size:33 final size:33
Alignment explanation
Indices: 54399104--54399166 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
54399094 CCACCCTTCT
*
54399104 CCTCTTTCC-CCTCTCTT-TCTTTCCTTTCTCCTC
1 CCTCTTTCCTCCT-TCTTCCCTTT-CTTTCTCCTC
54399137 CCTCTTTCCTCCTTCTTCCCTTTCTTTCTC
1 CCTCTTTCCTCCTTCTTCCCTTTCTTTCTC
54399167 TTTTCCCTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 20 0.74
34 7 0.26
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (33 bp):
CCTCTTTCCTCCTTCTTCCCTTTCTTTCTCCTC
Found at i:54403042 original size:39 final size:39
Alignment explanation
Indices: 54402988--54403068 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
54402978 TTTATTACTT
54402988 TTATTCCAATATTCTCTGAAATGTCGTTGTCTAAAATGC
1 TTATTCCAATATTCTCTGAAATGTCGTTGTCTAAAATGC
54403027 TTATTCCAATATTCTCTGAAATGTCGTTGTCTAAAATGC
1 TTATTCCAATATTCTCTGAAATGTCGTTGTCTAAAATGC
54403066 TTA
1 TTA
54403069 CATTCGGGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.42
Consensus pattern (39 bp):
TTATTCCAATATTCTCTGAAATGTCGTTGTCTAAAATGC
Found at i:54405581 original size:15 final size:15
Alignment explanation
Indices: 54405561--54405589 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
54405551 TTACCGATCA
54405561 ATACACATCATTCAC
1 ATACACATCATTCAC
54405576 ATACACATCATTCA
1 ATACACATCATTCA
54405590 TGTGCATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (15 bp):
ATACACATCATTCAC
Found at i:54406077 original size:17 final size:17
Alignment explanation
Indices: 54406055--54406103 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
54406045 GACCATCTAG
54406055 CATGACCGTGTGTCACA
1 CATGACCGTGTGTCACA
* *
54406072 CATGACC--ATGT-A-G
1 CATGACCGTGTGTCACA
54406085 CATGACCGTGTGTCACA
1 CATGACCGTGTGTCACA
54406102 CA
1 CA
54406104 CGACTGAGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 8
0.67 0.11 0.22
Matches are distributed among these distances:
13 7 0.29
14 1 0.04
15 6 0.25
16 1 0.04
17 9 0.38
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (17 bp):
CATGACCGTGTGTCACA
Found at i:54406079 original size:30 final size:30
Alignment explanation
Indices: 54406039--54406107 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
54406029 ACCGCAGGGA
54406039 ACACACGACCATCTAGCATGACCGTGTGTC
1 ACACACGACCATCTAGCATGACCGTGTGTC
* *
54406069 ACACATGACCATGTAGCATGACCGTGTGTC
1 ACACACGACCATCTAGCATGACCGTGTGTC
54406099 ACACACGAC
1 ACACACGAC
54406108 TGAGACACAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.29, C:0.32, G:0.20, T:0.19
Consensus pattern (30 bp):
ACACACGACCATCTAGCATGACCGTGTGTC
Found at i:54410145 original size:48 final size:46
Alignment explanation
Indices: 54410093--54410213 Score: 134
Period size: 48 Copynumber: 2.5 Consensus size: 46
54410083 CTGAAGTGCT
* *
54410093 AATATCATGGCCCGTAGCCAAATCAGTGAAGCTCACACCCGAAATTCC
1 AATATCATGGCCCATAGCCAAATCAGTG-A-CTCACACCCGAAATGCC
* * * * * *
54410141 AATATCATGGCCCAAAGCCAAATTAAAGTGACTCGCACCTGAAGTGCT
1 AATATCATGGCCCATAGCCAAA-T-CAGTGACTCACACCCGAAATGCC
54410189 AATATCATGGCCCATAGCCAAATCA
1 AATATCATGGCCCATAGCCAAATCA
54410214 ATGTATCCCC
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
46 1 0.02
47 1 0.02
48 53 0.87
49 2 0.03
50 4 0.07
ACGTcount: A:0.36, C:0.28, G:0.17, T:0.20
Consensus pattern (46 bp):
AATATCATGGCCCATAGCCAAATCAGTGACTCACACCCGAAATGCC
Found at i:54413434 original size:40 final size:39
Alignment explanation
Indices: 54413390--54413488 Score: 128
Period size: 39 Copynumber: 2.5 Consensus size: 39
54413380 GGATATAGCT
* *
54413390 ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTA
1 ACTCGTACAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTA
* *
54413430 ACTCGTACCAATGCCTTCGGGCTTAGCCCGGAATTAGTA
1 ACTCGTACAAATGCCTTCGGGCATAGCCCGGAATTAGTA
*
54413469 ACTCGCACAAATGCCTTCGG
1 ACTCGTACAAATGCCTTCGG
54413489 ATCTTAGTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
39 32 0.62
40 20 0.38
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
ACTCGTACAAATGCCTTCGGGCATAGCCCGGAATTAGTA
Found at i:54413468 original size:39 final size:40
Alignment explanation
Indices: 54413378--54413538 Score: 152
Period size: 40 Copynumber: 4.0 Consensus size: 40
54413368 CGGAATTTAA
*
54413378 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGTACAAATGCCTTCGGGACATAGC
* * *
54413418 CCGGTTATAGTAACTCGTACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGTACAAATGCCTTCGGGACATAGC
* * *
54413457 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGTACAAATGCCTTCGGGA-CATAGC
* * * *
54413497 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGTACAAATGCCTTCGGGACATAGC
54413537 CC
1 CC
54413539 AGACATCATT
Statistics
Matches: 103, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 31 0.30
40 57 0.55
41 12 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGTACAAATGCCTTCGGGACATAGC
Found at i:54436825 original size:43 final size:41
Alignment explanation
Indices: 54436752--54436901 Score: 165
Period size: 42 Copynumber: 3.5 Consensus size: 41
54436742 ATACCAATGT
* * *
54436752 CATATCCTAGATATGGTCTTACATGTAATCTCGTATCGATGC
1 CATATCCCA-ATATGGTCTTACATGAAATCTCATATCGATGC
* *
54436794 CAATAGCCCAACTATGGTCTTACATGAAATCTCTTATCGATGC
1 C-ATATCCCAA-TATGGTCTTACATGAAATCTCATATCGATGC
* * * * *
54436837 CATATCCTAAATATGGTCTTACACGAAGTCTCATATTGATGT
1 CATATCC-CAATATGGTCTTACATGAAATCTCATATCGATGC
54436879 CATATCCCAGATATGGTCTTACA
1 CATATCCCA-ATATGGTCTTACA
54436902 CATAGACTTA
Statistics
Matches: 92, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 53 0.58
43 38 0.41
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (41 bp):
CATATCCCAATATGGTCTTACATGAAATCTCATATCGATGC
Found at i:54445581 original size:17 final size:19
Alignment explanation
Indices: 54445549--54445583 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
54445539 ATTTGGCCAT
54445549 ATGGGCCAGAATGGGCTAA
1 ATGGGCCAGAATGGGCTAA
54445568 ATGGGCC-G-ATGGGCTA
1 ATGGGCCAGAATGGGCTA
54445584 TTGGGCTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.26, C:0.17, G:0.40, T:0.17
Consensus pattern (19 bp):
ATGGGCCAGAATGGGCTAA
Found at i:54445705 original size:29 final size:29
Alignment explanation
Indices: 54445650--54445764 Score: 144
Period size: 29 Copynumber: 4.0 Consensus size: 29
54445640 GTAAGCATGA
* * *
54445650 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
54445678 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
54445707 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * *
54445736 ATATGAATGT-AATTGGGCTTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
54445764 A
1 A
54445765 AATACAGGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
28 28 0.37
29 48 0.63
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:54445735 original size:58 final size:57
Alignment explanation
Indices: 54445663--54445773 Score: 168
Period size: 57 Copynumber: 1.9 Consensus size: 57
54445653 TGAATGTGAC
* *
54445663 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATGT-AATTGGGCCTAATGGGCCAAATACAGGTGATT
* * *
54445721 TGGGCCTAATGGGCCATATGAATGTAATTGGGCTTAATGGGCCAAATACAGGT
1 TGGGCCTAACGGGCCATATAAATGTAATTGGGCCTAATGGGCCAAATACAGGT
54445774 ATGTGAATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 25 0.52
58 23 0.48
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATGTAATTGGGCCTAATGGGCCAAATACAGGTGATT
Found at i:54448571 original size:26 final size:25
Alignment explanation
Indices: 54448534--54448626 Score: 114
Period size: 26 Copynumber: 3.6 Consensus size: 25
54448524 GAGTTTGCAA
* *
54448534 CAAAGGCATTCTTTTCATATTCCACC
1 CAAAGGCTTTC-TTTCATATTACACC
*
54448560 CAAAGGCTTTCTTTCATATTACACTG
1 CAAAGGCTTTCTTTCATATTACAC-C
* *
54448586 CAAAGCCTTTCTTTCATATTACGCC
1 CAAAGGCTTTCTTTCATATTACACC
54448611 ACAAAGGCTTTCTTTC
1 -CAAAGGCTTTCTTTC
54448627 TTGATGTGTT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
25 12 0.21
26 46 0.79
ACGTcount: A:0.26, C:0.28, G:0.10, T:0.37
Consensus pattern (25 bp):
CAAAGGCTTTCTTTCATATTACACC
Found at i:54452244 original size:39 final size:40
Alignment explanation
Indices: 54452100--54452322 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
54452090 GCTACTCGTT
* *
54452100 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
54452140 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
54452180 CAAATGCCTT-GGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
54452218 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
54452257 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
54452298 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54452323 CATCATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
38 34 0.21
39 44 0.27
40 73 0.45
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:54452306 original size:117 final size:120
Alignment explanation
Indices: 54452100--54452322 Score: 296
Period size: 117 Copynumber: 1.9 Consensus size: 120
54452090 GCTACTCGTT
*
54452100 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
54452165 ATTTAGTAACTCGCACAAATGCCTT-GGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * **
54452218 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
54452280 GGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCGGA
54452323 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
116 4 0.04
117 51 0.56
118 25 0.27
119 11 0.12
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:54459886 original size:40 final size:40
Alignment explanation
Indices: 54459853--54459977 Score: 232
Period size: 40 Copynumber: 3.1 Consensus size: 40
54459843 CCGGATGTCG
*
54459853 TTCCAGCACGAAGCCTGCGGGTCTTTCAGCCCGGATACAA
1 TTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAA
54459893 TTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAA
1 TTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAA
*
54459933 TTCCAGCACGAAGCCTGTGGGTCTTTAAGCCCGGATACAA
1 TTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAA
54459973 TTCCA
1 TTCCA
54459978 CATCAAATAA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (40 bp):
TTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAA
Found at i:54469952 original size:21 final size:20
Alignment explanation
Indices: 54469915--54469953 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
54469905 TATCTTATAT
54469915 ATTTTTAAATAAATTTTAAA
1 ATTTTTAAATAAATTTTAAA
54469935 ATTTTCTAAA-AAAGTTTTA
1 ATTTT-TAAATAAA-TTTTA
54469954 TTACTTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (20 bp):
ATTTTTAAATAAATTTTAAA
Found at i:54470178 original size:20 final size:20
Alignment explanation
Indices: 54470150--54470239 Score: 71
Period size: 20 Copynumber: 4.5 Consensus size: 20
54470140 TAAAAAAATA
*
54470150 TTGTGATATAAATAGATATG
1 TTGTTATATAAATAGATATG
* *
54470170 TTGTTATATATTATAGATCTTGG
1 TTGTTATATA-AATAGAT-AT-G
* *
54470193 TAGTTGTTATAAA-A-ATA--
1 TTGTT-ATATAAATAGATATG
54470210 TTGTTATATAAATAGATATG
1 TTGTTATATAAATAGATATG
54470230 TTGTTATATA
1 TTGTTATATA
54470240 TTATAGATCT
Statistics
Matches: 53, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
16 6 0.11
17 5 0.09
18 3 0.06
20 19 0.36
21 8 0.15
22 2 0.04
23 6 0.11
24 4 0.08
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.47
Consensus pattern (20 bp):
TTGTTATATAAATAGATATG
Found at i:54470197 original size:60 final size:59
Alignment explanation
Indices: 54470035--54470292 Score: 269
Period size: 60 Copynumber: 4.4 Consensus size: 59
54470025 CTCATCACAT
* * * * *
54470035 TATATAAATAGATATGTTGTTATCTATTATAGATTTTGGTAGTTGTTATAAAAAGTGTTG
1 TATATAAATAGATATGTTGTTATATATTATAGATCTTGATAGTTGTTA-AAAAAATATTG
* * * ** * *
54470095 T-T-T-AATTGTTATATAAATTGATATATTATAGATTTTGATAGTTATTAAAAAAATATTG
1 TATATAAATAGATATGT-TGTT-ATATATTATAGATCTTGATAGTTGTTAAAAAAATATTG
* *
54470153 TGATATAAATAGATATGTTGTTATATATTATAGATCTTGGTAGTTGTTATAAAAATATTG
1 T-ATATAAATAGATATGTTGTTATATATTATAGATCTTGATAGTTGTTAAAAAAATATTG
* *
54470213 TTATATAAATAGATATGTTGTTATATATTATAGATCTTGATAGTTGTT-ATAAAAT-GT-
1 -TATATAAATAGATATGTTGTTATATATTATAGATCTTGATAGTTGTTAAAAAAATATTG
*
54470270 TATATAAATAGATAT-ATGTTATA
1 TATATAAATAGATATGTTGTTATA
54470293 AACGAGTTTA
Statistics
Matches: 167, Mismatches: 24, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
55 7 0.04
56 15 0.09
57 8 0.05
58 14 0.08
59 30 0.18
60 81 0.49
61 4 0.02
62 8 0.05
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (59 bp):
TATATAAATAGATATGTTGTTATATATTATAGATCTTGATAGTTGTTAAAAAAATATTG
Found at i:54470267 original size:119 final size:116
Alignment explanation
Indices: 54470036--54470292 Score: 306
Period size: 119 Copynumber: 2.2 Consensus size: 116
54470026 TCATCACATT
* * *
54470036 ATATAAATAGATATGTTGTTATCTATTATAGATTTTGGTAGTTGTTATAAAAAGTGTTGTTTAAT
1 ATATAAATAGATATGTTGTTATATATTATAGATCTTGGTAGTTGTTATAAAAAGTATTGTTTAAT
*** * *
54470101 TGTTATATAAATTGATATATTATAGATTTTGATAGTTATTAAAAAAATATTGTG
66 AAATAGATAAATTGATATATTATAGATCTTGATAGTTATT-AAAAAA-A-TGTG
54470155 ATATAAATAGATATGTTGTTATATATTATAGATCTTGGTAGTTGTTATAAAAA-TATTG-TTATA
1 ATATAAATAGATATGTTGTTATATATTATAGATCTTGGTAGTTGTTATAAAAAGTATTGTTTA-A
** * * *
54470218 TAAATAGATATGTTGTTATATATTATAGATCTTGATAGTTGTT-ATAAAATGTT
65 TAAATAGATAAATTG--ATATATTATAGATCTTGATAGTTATTAAAAAAATGTG
*
54470271 ATATAAATAGATAT-ATGTTATA
1 ATATAAATAGATATGTTGTTATA
54470293 AACGAGTTTA
Statistics
Matches: 121, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
115 7 0.06
116 17 0.14
117 4 0.03
118 18 0.15
119 51 0.42
120 24 0.20
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.46
Consensus pattern (116 bp):
ATATAAATAGATATGTTGTTATATATTATAGATCTTGGTAGTTGTTATAAAAAGTATTGTTTAAT
AAATAGATAAATTGATATATTATAGATCTTGATAGTTATTAAAAAAATGTG
Found at i:54470283 original size:29 final size:29
Alignment explanation
Indices: 54470193--54470294 Score: 77
Period size: 29 Copynumber: 3.4 Consensus size: 29
54470183 TAGATCTTGG
54470193 TAGTTGTTATAAAAATATTGTTATATAAATAGA
1 TAGTTGTTAT--AAA-A-TGTTATATAAATAGA
* * ** *
54470226 TATGTTGTTAT---ATATTATAGATCTTGA
1 TA-GTTGTTATAAAATGTTATATAAATAGA
54470253 TAGTTGTTATAAAATGTTATATAAATAGA
1 TAGTTGTTATAAAATGTTATATAAATAGA
54470282 TA-TATGTTATAAA
1 TAGT-TGTTATAAA
54470295 CGAGTTTAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
26 8 0.15
27 12 0.22
28 2 0.04
29 22 0.41
33 2 0.04
34 8 0.15
ACGTcount: A:0.41, C:0.01, G:0.13, T:0.45
Consensus pattern (29 bp):
TAGTTGTTATAAAATGTTATATAAATAGA
Found at i:54473872 original size:36 final size:36
Alignment explanation
Indices: 54473832--54473970 Score: 201
Period size: 36 Copynumber: 3.9 Consensus size: 36
54473822 TCCATGACTG
* * *
54473832 CAATAGTCTCCCTTAAGGCCACAATTGCTATGACCG
1 CAATAGTCTCCCTTAAGGCCGCAATTGCGATGACCA
**
54473868 CAATAGTCTCCCTTAAACCCGCAATTGCGATGACCA
1 CAATAGTCTCCCTTAAGGCCGCAATTGCGATGACCA
54473904 CAATAGTCTCCCTTAA-GCCTGCAATTGCGATGACCA
1 CAATAGTCTCCCTTAAGGCC-GCAATTGCGATGACCA
54473940 CAATAGTCTCCCTTAA-GCCTGCAATTGCGAT
1 CAATAGTCTCCCTTAAGGCC-GCAATTGCGAT
54473971 AAATGTGACA
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 2 0.02
36 94 0.98
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (36 bp):
CAATAGTCTCCCTTAAGGCCGCAATTGCGATGACCA
Found at i:54476290 original size:30 final size:30
Alignment explanation
Indices: 54476212--54476297 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 30
54476202 CAATTTCCCT
54476212 TCTCTACAAGGCGACCTACTCCTCCTCCGGCGA
1 TCTCTACAAGGCGACCTACTCCTCCT-C--CGA
*
54476245 TCTCTAC---TC--CC-ACTCCTCCTCCGA
1 TCTCTACAAGGCGACCTACTCCTCCTCCGA
*
54476269 TCTCTACAAGGCGACCTACTCCTTCTCCG
1 TCTCTACAAGGCGACCTACTCCTCCTCCG
54476298 CTTCCTTCTC
Statistics
Matches: 44, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
24 10 0.23
26 1 0.02
27 10 0.23
28 2 0.05
29 2 0.05
30 12 0.27
33 7 0.16
ACGTcount: A:0.16, C:0.45, G:0.13, T:0.26
Consensus pattern (30 bp):
TCTCTACAAGGCGACCTACTCCTCCTCCGA
Found at i:54478637 original size:25 final size:25
Alignment explanation
Indices: 54478603--54478653 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
54478593 AGTCTGAAGA
54478603 GAATCTATGGCTGAATGATAATTAT
1 GAATCTATGGCTGAATGATAATTAT
54478628 GAATCTATGGCTGAATGATAATTAT
1 GAATCTATGGCTGAATGATAATTAT
54478653 G
1 G
54478654 TTTGTTATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (25 bp):
GAATCTATGGCTGAATGATAATTAT
Found at i:54480465 original size:9 final size:9
Alignment explanation
Indices: 54480451--54480519 Score: 51
Period size: 9 Copynumber: 8.0 Consensus size: 9
54480441 GACACTTGCA
54480451 ATTAAACAC
1 ATTAAACAC
54480460 ATTAAA-AC
1 ATTAAACAC
*
54480468 ---AAACAT
1 ATTAAACAC
54480474 ATTAAACAC
1 ATTAAACAC
*
54480483 TTTTAAACAC
1 -ATTAAACAC
54480493 TTATTAAACAC
1 --ATTAAACAC
54480504 A--AAACAC
1 ATTAAACAC
54480511 ATTAAACAC
1 ATTAAACAC
54480520 TTAGCTTAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 16
0.71 0.06 0.24
Matches are distributed among these distances:
5 3 0.06
6 1 0.02
7 7 0.15
8 2 0.04
9 18 0.38
10 8 0.17
11 9 0.19
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (9 bp):
ATTAAACAC
Found at i:54480477 original size:23 final size:21
Alignment explanation
Indices: 54480451--54480504 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 21
54480441 GACACTTGCA
54480451 ATTAAACACATTAAAACAAACAT
1 ATTAAACACATTAAAAC--ACAT
* * *
54480474 ATTAAACACTTTTAAACACTT
1 ATTAAACACATTAAAACACAT
54480495 ATTAAACACA
1 ATTAAACACA
54480505 AAACACATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 12 0.44
23 15 0.56
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.28
Consensus pattern (21 bp):
ATTAAACACATTAAAACACAT
Found at i:54480501 original size:11 final size:11
Alignment explanation
Indices: 54480473--54480503 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
54480463 AAAACAAACA
54480473 TATTAAACACT
1 TATTAAACACT
54480484 T-TTAAACACT
1 TATTAAACACT
54480494 TATTAAACAC
1 TATTAAACAC
54480504 AAAACACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.35
Consensus pattern (11 bp):
TATTAAACACT
Found at i:54480509 original size:37 final size:33
Alignment explanation
Indices: 54480452--54480521 Score: 95
Period size: 37 Copynumber: 2.0 Consensus size: 33
54480442 ACACTTGCAA
*
54480452 TTAAACACATTAAAACAAACATATTAAACACTT
1 TTAAACACATTAAAACAAACACATTAAACACTT
54480485 TTAAACACTTATTAAACACAAAACACATTAAACACTT
1 TTAAACAC--ATTAAA-AC-AAACACATTAAACACTT
54480522 AGCTTAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 8 0.25
35 6 0.19
36 2 0.06
37 16 0.50
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (33 bp):
TTAAACACATTAAAACAAACACATTAAACACTT
Found at i:54493446 original size:20 final size:20
Alignment explanation
Indices: 54493414--54493460 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
54493404 TTTTTATTTC
54493414 CTTTTCTTTTTCT-TCCATGT
1 CTTTT-TTTTTCTCTCCATGT
* *
54493434 CTTTTTTTCTTCTCTCGATTT
1 CTTTTTTT-TTCTCTCCATGT
54493455 CTTTTT
1 CTTTTT
54493461 CTTGCTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 3 0.13
20 9 0.39
21 11 0.48
ACGTcount: A:0.04, C:0.23, G:0.04, T:0.68
Consensus pattern (20 bp):
CTTTTTTTTTCTCTCCATGT
Found at i:54493607 original size:56 final size:57
Alignment explanation
Indices: 54493538--54493653 Score: 207
Period size: 57 Copynumber: 2.1 Consensus size: 57
54493528 AAGAGAGAAA
*
54493538 GAATCTTCATACAAAA-ATGATCATCTCTTCAAGATTGACCTTTCATGGATGAATAC
1 GAATCTTCATACAAAACATGATCATCTCTTCAAGATTGACCCTTCATGGATGAATAC
*
54493594 GAATCTTCATACAAAACATGATCATCTCTTCGAGATTGACCCTTCATGGATGAATAC
1 GAATCTTCATACAAAACATGATCATCTCTTCAAGATTGACCCTTCATGGATGAATAC
54493651 GAA
1 GAA
54493654 ACACGTTCAC
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
56 16 0.28
57 41 0.72
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (57 bp):
GAATCTTCATACAAAACATGATCATCTCTTCAAGATTGACCCTTCATGGATGAATAC
Found at i:54494442 original size:14 final size:14
Alignment explanation
Indices: 54494423--54494449 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
54494413 GAACTTAAAC
54494423 AATTTTTTTTCACG
1 AATTTTTTTTCACG
54494437 AATTTTTTTTCAC
1 AATTTTTTTTCAC
54494450 TTGCAAAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.04, T:0.59
Consensus pattern (14 bp):
AATTTTTTTTCACG
Found at i:54494537 original size:15 final size:13
Alignment explanation
Indices: 54494493--54494531 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 13
54494483 AATGGAGACT
54494493 AATTTTTTTTGCACG
1 AATTTTTTTT-CA-G
54494508 AATTTTTTTTC-G
1 AATTTTTTTTCAG
54494520 AATTTTTTTTCA
1 AATTTTTTTTCA
54494532 AAGAATGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 12 0.52
14 1 0.04
15 10 0.43
ACGTcount: A:0.21, C:0.10, G:0.08, T:0.62
Consensus pattern (13 bp):
AATTTTTTTTCAG
Found at i:54495484 original size:83 final size:81
Alignment explanation
Indices: 54495303--54495514 Score: 205
Period size: 83 Copynumber: 2.5 Consensus size: 81
54495293 TTCAAAGGTA
** *
54495303 GCCACAAAGGCTTCCATTACAAAGATTTCCATAAAGACTTTCTTTAACAGAGATCACCACAACGA
1 GCCACAAAGGCTTCC-TTACAAAGATCGCCATAAAGACTTTCTTTAACAGAGATCACCACAAAGA
*
54495368 CTTCCTTTATAGAGATT
65 CTTCCTTTACAGAGATT
* ** * *
54495385 GTCACAAGAGTTTTCCTTA-ATAGAGATCGCCATAAAGGC-TTCTTTTAAGAGAGATCACCACAA
1 GCCACAA-AGGCTTCCTTACA-A-AGATCGCCATAAAGACTTTC-TTTAACAGAGATCACCACAA
*
54495448 AGTCTTCCTTTAACAGAGATCT
62 AGACTTCCTTT-ACAGAGAT-T
* * *
54495470 -CCACAAAGGCTTCCTTTACAAAGATTGCCACAAAGGCATTTCTTT
1 GCCACAAAGGCTTCC-TTACAAAGATCGCCATAAAGAC-TTTCTTT
54495515 CCATAAGATT
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
81 1 0.01
82 13 0.12
83 67 0.64
84 19 0.18
85 5 0.05
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (81 bp):
GCCACAAAGGCTTCCTTACAAAGATCGCCATAAAGACTTTCTTTAACAGAGATCACCACAAAGAC
TTCCTTTACAGAGATT
Found at i:54495528 original size:29 final size:27
Alignment explanation
Indices: 54495287--54495650 Score: 147
Period size: 28 Copynumber: 13.0 Consensus size: 27
54495277 CACGAAGCCG
* * *
54495287 TTCCTTTTCAAAGGTAGCCACAAAGGC
1 TTCCTTTACAAAGATTGCCACAAAGGC
* * * *
54495314 TTCCATTACAAAGATTTCCATAAAGAC
1 TTCCTTTACAAAGATTGCCACAAAGGC
* * ** * *
54495341 TTTCTTTAACAGAGATCACCACAACGAC
1 TTCCTTT-ACAAAGATTGCCACAAAGGC
* * * **
54495369 TTCCTTTATAGAGATTGTCACAAGAGTT
1 TTCCTTTACAAAGATTGCCACAA-AGGC
* * * * *
54495397 TTCCTTAATAGAGATCGCCATAAAGGC
1 TTCCTTTACAAAGATTGCCACAAAGGC
* ** *
54495424 TTCTTTTA-AGAGAGATCACCACAAAGTC
1 TTCCTTTACA-A-AGATTGCCACAAAGGC
*
54495452 TTCCTTTAACAGAGATCT-CCACAAAGGC
1 TTCCTTT-ACAAAGAT-TGCCACAAAGGC
54495480 TTCCTTTACAAAGATTGCCACAAAGGC
1 TTCCTTTACAAAGATTGCCACAAAGGC
* * * *
54495507 ATTTCTTTCCATAAGATTGCCACGAAGTC
1 -TTCCTTTACA-AAGATTGCCACAAAGGC
* * * ** *
54495536 ATCCATTTTCATTTAGTACTCACCACAAAGAC
1 TTCC-TTTACA--AAG-A-TTGCCACAAAGGC
* * *
54495568 TTTCTTTTCAAAAATTGCCACAAAGGC
1 TTCCTTTACAAAGATTGCCACAAAGGC
** * * *
54495595 GCCCTTTAAAAAGATTGCCATAAAGGTG
1 TTCCTTTACAAAGATTGCCACAAAGG-C
* *
54495623 TTTCTTTCACTAAGATTGCCACAAAGGC
1 TTCCTTT-ACAAAGATTGCCACAAAGGC
54495651 ATCCATTTTC
Statistics
Matches: 248, Mismatches: 73, Indels: 31
0.70 0.21 0.09
Matches are distributed among these distances:
26 2 0.01
27 91 0.37
28 95 0.38
29 38 0.15
30 4 0.02
31 7 0.03
32 11 0.04
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (27 bp):
TTCCTTTACAAAGATTGCCACAAAGGC
Found at i:54495717 original size:115 final size:113
Alignment explanation
Indices: 54495439--54495734 Score: 333
Period size: 115 Copynumber: 2.6 Consensus size: 113
54495429 TTAAGAGAGA
* *
54495439 TCACCACAAAGTCTTCCTTTAACAGAGATCTCCACAAAGGCTTCCTTTACAAAGATTGCCACAAA
1 TCACCACAAAGTCTTTCTTT--CAGAGATCGCCACAAAGGCTT-CTTTACAAAGATTGCCACAAA
* * *
54495504 GGCATTTCTTTCCATAAGATTGCCACGAAGTCATCCATTTTCATTTAGTAC
63 GGCATTTCTTTCCATAAGATTGCCACAAAGGCATCCATTTTCATTCAGTAC
* * * * ** * *
54495555 TCACCACAAAGACTTTCTTTTCAAAAATTGCCACAAAGGCGCCCTTTAAAAAGATTGCCATAAAG
1 TCACCACAAAGTCTTTC-TTTCAGAGATCGCCACAAAGGC-TTCTTTACAAAGATTGCCACAAAG
** *
54495620 GTGTTTCTTT-CACTAAGATTGCCACAAAGGCATCCATTTTCCTTCAGTAC
64 GCATTTCTTTCCA-TAAGATTGCCACAAAGGCATCCATTTTCATTCAGTAC
* * * *
54495670 TCACAACAAAGTCTTTTCTTTCAGAGATCGCTACAGAGGCATTCTTTACAAAGATTTCCACAAAG
1 TCACCACAAAGTC-TTTCTTTCAGAGATCGCCACAAAGGC-TTCTTTACAAAGATTGCCACAAAG
54495735 ACATCCCCCA
Statistics
Matches: 147, Mismatches: 29, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
114 2 0.01
115 123 0.84
116 19 0.13
117 3 0.02
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (113 bp):
TCACCACAAAGTCTTTCTTTCAGAGATCGCCACAAAGGCTTCTTTACAAAGATTGCCACAAAGGC
ATTTCTTTCCATAAGATTGCCACAAAGGCATCCATTTTCATTCAGTAC
Found at i:54497099 original size:29 final size:29
Alignment explanation
Indices: 54497027--54497140 Score: 140
Period size: 29 Copynumber: 4.0 Consensus size: 29
54497017 TTCACATACT
* * **
54497027 TGTATTTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACC
** *
54497055 TCCATAGGGCCCATTAGGCCCAAATCACC
1 TGTATATGGCCCATTAGGCCCAAATCACC
**
54497084 TGTATATGGCTTATTAGGCCCAAATCACC
1 TGTATATGGCCCATTAGGCCCAAATCACC
54497113 TGTATATGGCCCATTAGGCCCAAATCAC
1 TGTATATGGCCCATTAGGCCCAAATCAC
54497141 ATTTATATAG
Statistics
Matches: 71, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
28 16 0.23
29 55 0.77
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACC
Found at i:54497147 original size:29 final size:29
Alignment explanation
Indices: 54497027--54497170 Score: 139
Period size: 29 Copynumber: 5.0 Consensus size: 29
54497017 TTCACATACT
* * *
54497027 TGTATTTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
** * *
54497055 TCCATAGGGCCCATTAGGCCCAAATCACC
1 TGTATATGGCCCATTAGGCCCAAATCACA
** *
54497084 TGTATATGGCTTATTAGGCCCAAATCACC
1 TGTATATGGCCCATTAGGCCCAAATCACA
54497113 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * ** *
54497142 TTTATATAGATCGTTAGGCCC-AATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
54497170 T
1 T
54497171 TCATATTCAT
Statistics
Matches: 95, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
28 24 0.25
29 71 0.75
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:54497414 original size:16 final size:16
Alignment explanation
Indices: 54497393--54497423 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54497383 AAACTTTTGG
54497393 CTTTTCAACATTTCGA
1 CTTTTCAACATTTCGA
*
54497409 CTTTTCAGCATTTCG
1 CTTTTCAACATTTCG
54497424 GCATTTCGGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.26, G:0.10, T:0.45
Consensus pattern (16 bp):
CTTTTCAACATTTCGA
Found at i:54498684 original size:15 final size:16
Alignment explanation
Indices: 54498653--54498684 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
54498643 TAAAATTCAA
54498653 GATTTCGGGACTTTTG
1 GATTTCGGGACTTTTG
54498669 GATTTCGGGA-TTTTG
1 GATTTCGGGACTTTTG
54498684 G
1 G
54498685 GGCGTTACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.12, C:0.09, G:0.34, T:0.44
Consensus pattern (16 bp):
GATTTCGGGACTTTTG
Found at i:54503749 original size:17 final size:18
Alignment explanation
Indices: 54503727--54503761 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
54503717 TCATATTGAA
54503727 GTGTTTT-AGTGAAAATC
1 GTGTTTTCAGTGAAAATC
*
54503744 GTGTTTTCATTGAAAATC
1 GTGTTTTCAGTGAAAATC
54503762 CTTCTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.43
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAATC
Found at i:54504787 original size:17 final size:18
Alignment explanation
Indices: 54504765--54504798 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
54504755 ACCTATTATG
54504765 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
54504782 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
54504799 TTTGGCCCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:54506698 original size:21 final size:21
Alignment explanation
Indices: 54506658--54506712 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
54506648 GCTTAATTTC
*
54506658 ATTTTAAAAAATCAAAAAATAAT
1 ATTTTGAAAAAT-AAAAAAT-AT
54506681 ATTTTGAAAAAT-AAAAATAT
1 ATTTTGAAAAATAAAAAATAT
54506701 -TTTTAGAAAAAT
1 ATTTT-GAAAAAT
54506713 TAATTTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.13
20 9 0.30
21 6 0.20
23 11 0.37
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (21 bp):
ATTTTGAAAAATAAAAAATAT
Found at i:54511405 original size:40 final size:40
Alignment explanation
Indices: 54511326--54511453 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 40
54511316 CGGATGATAA
* * ** *
54511326 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
* * *
54511366 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG-TTATAT
*
54511406 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
54511446 CC-GGCTAA
1 CCGGGCTAA
54511454 ATCCCGAGGA
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
39 8 0.11
40 64 0.86
41 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
Found at i:54519325 original size:40 final size:40
Alignment explanation
Indices: 54519246--54519413 Score: 223
Period size: 40 Copynumber: 4.2 Consensus size: 40
54519236 CAGATGATAA
* * * *
54519246 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
54519286 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
54519326 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
54519366 CCGGGATAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
54519406 CC-GGCTAA
1 CCGGGCTAA
54519414 ATCCCGAGGA
Statistics
Matches: 110, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 7 0.06
40 101 0.92
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:54521142 original size:24 final size:24
Alignment explanation
Indices: 54521095--54521149 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
54521085 TTCATTGTCG
54521095 GCACCACTGTAGCCACATGAAGAT
1 GCACCACTGTAGCCACATGAAGAT
* * ** *
54521119 GTACCACTGTTGCCGTATGGAGAT
1 GCACCACTGTAGCCACATGAAGAT
54521143 GCACCAC
1 GCACCAC
54521150 CGCGACTATG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (24 bp):
GCACCACTGTAGCCACATGAAGAT
Found at i:54535298 original size:46 final size:45
Alignment explanation
Indices: 54535242--54535417 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
54535232 TGGTTGAGCA
*
54535242 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
54535288 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
54535335 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
54535381 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54535418 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:54535398 original size:93 final size:93
Alignment explanation
Indices: 54535239--54535409 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
54535229 GGATGGTTGA
* *
54535239 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
54535304 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * * *
54535332 GCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
54535397 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
54535410 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:54540561 original size:44 final size:44
Alignment explanation
Indices: 54540513--54540677 Score: 165
Period size: 44 Copynumber: 3.6 Consensus size: 44
54540503 TATTCGTGCT
*
54540513 GATGCATGTCCCAGACATGTCTTACATTAGCACATCTCGTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCC
* * *
54540557 GATGCATGTCCCAGACATGTCTTACACTGGCTC-TCGTC-TCAATGTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACATC-TCGT--A-GCC
* * * *
54540603 AATGCATGTCCTAGACATGTCTTACACTAGCATTTCATAAT-GTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCA---CAT-CTCGTAGCC
54540650 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
54540678 GGCTCACATA
Statistics
Matches: 98, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
43 3 0.03
44 32 0.33
45 1 0.01
46 30 0.31
47 28 0.29
49 1 0.01
50 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCC
Found at i:54540625 original size:46 final size:45
Alignment explanation
Indices: 54540472--54540682 Score: 155
Period size: 44 Copynumber: 4.6 Consensus size: 45
54540462 CGATGCCATA
* * * *
54540472 TCCCAGATATGGTCTTACACTGGCTCTCACATATTCGTGCTGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTCT-TCATAAT-GTGC-AATGCATG
* * * * * *
54540521 TCCCAGACATGTCTTACATTAGCACATCTCGT-A-G-CCGATGCATG
1 TCCCAGACATGTCTTACACTGGCTC-T-TCATAATGTGCAATGCATG
54540565 TCCCAGACATGTCTTACACTGGCTCTCGTC-TCAATGT-CAATGCATG
1 TCCCAGACATGTCTTACACTGGCTCT--TCAT-AATGTGCAATGCATG
* * *
54540611 TCCTAGACATGTCTTACACTAGCAT-TTCATAATGTGGCCGATGCATG
1 TCCCAGACATGTCTTACACTGGC-TCTTCATAATGT-G-CAATGCATG
54540658 TCCCAGACATGTCTTACACTGGCTC
1 TCCCAGACATGTCTTACACTGGCTC
54540683 ACATAACAGC
Statistics
Matches: 132, Mismatches: 18, Indels: 26
0.75 0.10 0.15
Matches are distributed among these distances:
43 2 0.02
44 39 0.30
45 3 0.02
46 33 0.25
47 30 0.23
48 12 0.09
49 13 0.10
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.30
Consensus pattern (45 bp):
TCCCAGACATGTCTTACACTGGCTCTTCATAATGTGCAATGCATG
Found at i:54540675 original size:93 final size:90
Alignment explanation
Indices: 54540514--54540682 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 90
54540504 ATTCGTGCTG
* *
54540514 ATGCATGTCCCAGACATGTCTTACATTAGCACATCTCGTAGCCGATGCATGTCCCAGACATGTCT
1 ATGCATGTCCCAGACATGTCTTACACTAGCACATATCGTAGCCGATGCATGTCCCAGACATGTCT
54540579 TACACTGGCTCTCGTCTCAATGTCA
66 TACACTGGCTCTCGTCTCAATGTCA
* *
54540604 ATGCATGTCCTAGACATGTCTTACACTAGCATTTCATAAT-GTGGCCGATGCATGTCCCAGACAT
1 ATGCATGTCCCAGACATGTCTTACACTAGCA---CAT-ATCGTAGCCGATGCATGTCCCAGACAT
54540668 GTCTTACACTGGCTC
62 GTCTTACACTGGCTC
54540683 ACATAACAGC
Statistics
Matches: 71, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
90 29 0.41
93 41 0.58
94 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (90 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCACATATCGTAGCCGATGCATGTCCCAGACATGTCT
TACACTGGCTCTCGTCTCAATGTCA
Found at i:54554801 original size:55 final size:53
Alignment explanation
Indices: 54554687--54554875 Score: 236
Period size: 55 Copynumber: 3.5 Consensus size: 53
54554677 AACTTACCAG
* * *
54554687 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* * *
54554740 TGCCATGCCTTGGCATAGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * *
54554795 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
*
54554849 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
54554876 ATATCCTTAT
Statistics
Matches: 117, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 2 0.02
53 34 0.29
54 35 0.30
55 44 0.38
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:54555050 original size:45 final size:45
Alignment explanation
Indices: 54554985--54555070 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
54554975 CCTTAATCAA
*
54554985 TACCGATGCCATGTCTTGACATGGTCTTACACGGGATCCTTGCCT
1 TACCAATGCCATGTCTTGACATGGTCTTACACGGGATCCTTGCCT
* *
54555030 TACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
1 TACCAATGCCATGTCTTGACATGGTCTTACACGGGATCCTT
54555071 AACCTTCAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.34
Consensus pattern (45 bp):
TACCAATGCCATGTCTTGACATGGTCTTACACGGGATCCTTGCCT
Found at i:54559302 original size:38 final size:38
Alignment explanation
Indices: 54559259--54559463 Score: 151
Period size: 38 Copynumber: 4.9 Consensus size: 38
54559249 TTTCAAATTA
54559259 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* * *
54559297 ACATGTTTAACAGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
* *
54559338 GAATCAATATATGTAACTGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
54559382 ACATGTATCAATATGTGTTACCGT-GCTATATCCACTTAGCACCACGTT
1 ACATG--T--ATA------ACCGTGGC-ATATCCACTTAGCACCACGTT
* * *
54559430 ACACGTATAACCATGGTATATCCACTTAGCACCA
1 ACATGTATAACCGTGGCATATCCACTTAGCACCA
54559464 TGTTTTTCCT
Statistics
Matches: 134, Mismatches: 12, Indels: 42
0.71 0.06 0.22
Matches are distributed among these distances:
38 54 0.40
39 2 0.01
40 2 0.01
41 2 0.01
42 4 0.03
43 1 0.01
44 6 0.04
45 3 0.02
46 2 0.01
47 29 0.22
48 29 0.22
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:54559414 original size:48 final size:49
Alignment explanation
Indices: 54559304--54559437 Score: 186
Period size: 48 Copynumber: 2.8 Consensus size: 49
54559294 GTTACATGTT
* *
54559304 TAACAGTGG-TATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
1 TAACCGTGGCTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* *
54559351 TAACTGTGGC-ATATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGCTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* *
54559399 TTACCGT-GCTATATCCACTTAGCACCACGTTACACGTAT
1 TAACCGTGGCTATATCCACTTAGCACCACGTTACATGTAT
54559438 AACCATGGTA
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
47 32 0.41
48 46 0.59
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (49 bp):
TAACCGTGGCTATATCCACTTAGCACCACGTTACATGTATCAATATATG
Found at i:54559453 original size:133 final size:131
Alignment explanation
Indices: 54559217--54559463 Score: 338
Period size: 133 Copynumber: 1.9 Consensus size: 131
54559207 TTGGGCTAAC
* * * *
54559217 ATGTAATTGTGGCATACGCACTTAGCACCACTTTTCAAATTAACATGTATAACCGTGGCATATCC
1 ATGTAACTGTGGCATACGCACTTAGCACCACGTTACAAATCAACATGTATAACCGTGGCATATCC
* *
54559282 ACTTAGCACCACGTTACATGTTTAACAGTGGTATATCCACTTAGCACCACGTTAATGAATCAATA
66 ACTTAGCACCACGTTACACGTATAACAGTGGTATATCCACTTAGCACCACGTTAATGAATCAATA
54559347 T
131 T
* * * *
54559348 ATGTAACTGTGGCATATC-CACTTAGCACCACGTTACATGTATCAATATGTGTTACCGT-GCTAT
1 ATGTAACTGTGGCATA-CGCACTTAGCACCACGTTACA--AATCAACATGTATAACCGTGGC-AT
54559411 ATCCACTTAGCACCACGTTACACGTATAACCA-TGGTATATCCACTTAGCACCA
62 ATCCACTTAGCACCACGTTACACGTATAA-CAGTGGTATATCCACTTAGCACCA
54559464 TGTTTTTCCT
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
131 32 0.32
132 3 0.03
133 64 0.63
134 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (131 bp):
ATGTAACTGTGGCATACGCACTTAGCACCACGTTACAAATCAACATGTATAACCGTGGCATATCC
ACTTAGCACCACGTTACACGTATAACAGTGGTATATCCACTTAGCACCACGTTAATGAATCAATA
T
Found at i:54562168 original size:15 final size:15
Alignment explanation
Indices: 54562145--54562186 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
54562135 GAAGCCCAGA
*
54562145 ATAAGGAAATCTAAG
1 ATAAGGAAATCCAAG
* *
54562160 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
54562175 ATAAGGAAATCC
1 ATAAGGAAATCC
54562187 CATTTACAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.52, C:0.12, G:0.17, T:0.19
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:54563314 original size:9 final size:11
Alignment explanation
Indices: 54563288--54563319 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
54563278 TCTTACACAT
54563288 TATCATATACA
1 TATCATATACA
54563299 TATCATA-ACA
1 TATCATATACA
54563309 -ATCATATACA
1 TATCATATACA
54563319 T
1 T
54563320 CAGTCCAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 6 0.32
10 6 0.32
11 7 0.37
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (11 bp):
TATCATATACA
Found at i:54565475 original size:38 final size:38
Alignment explanation
Indices: 54565432--54565506 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
54565422 TTTCAAATTA
54565432 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
* * *
54565470 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGT
54565507 CAATGAATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (38 bp):
ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
Found at i:54565564 original size:47 final size:47
Alignment explanation
Indices: 54565486--54565609 Score: 137
Period size: 47 Copynumber: 2.6 Consensus size: 47
54565476 TTAACCGTGG
* * *
54565486 TATATCCACTTAGCACCACGT-CAATGAATCAATATATGTAA-CTGTGAC
1 TATATCCACTTAGCACCACTTAC-ATGTATCAATATATGTAATC-ATG-C
* *
54565534 -ATATCCACCTAGCACCACTTACATGTATCAATATGTGTAATCATGC
1 TATATCCACTTAGCACCACTTACATGTATCAATATATGTAATCATGC
*
54565580 TATATCCACTTAGCACCACGTTACACGTAT
1 TATATCCACTTAGCACCAC-TTACATGTAT
54565610 AACCGTGGTA
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
46 1 0.02
47 53 0.82
48 11 0.17
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (47 bp):
TATATCCACTTAGCACCACTTACATGTATCAATATATGTAATCATGC
Found at i:54568978 original size:50 final size:50
Alignment explanation
Indices: 54568920--54569257 Score: 413
Period size: 50 Copynumber: 6.9 Consensus size: 50
54568910 TGATGCTAGG
* *
54568920 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGATATGGCATCGACCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
*
54568970 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGTACATGGCATCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * *
54569020 GAAATATGAGAGCTAGTGTAAGACCATGTTTGGGATATGGCAAT-GGCCTT
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGC-ATCGGCCTC
* *
54569070 GAGATATGAGAGCTAGTGTAAGACCGTGTCTAGGACATGGCATCGG-CT-
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * * *
54569118 -TGATATGTG-TC-AGTGTAAGACCATGTCTGGGACATGGTATTGGCACT-
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTC
* * * *
54569165 GATAGATGAGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* *
54569215 GATATACGAGAG-TCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GAGATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCAT
54569258 TGACTTTGAT
Statistics
Matches: 247, Mismatches: 32, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
45 28 0.11
46 1 0.00
47 9 0.04
48 5 0.02
49 7 0.03
50 195 0.79
51 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (50 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
Found at i:54574409 original size:39 final size:39
Alignment explanation
Indices: 54574355--54574480 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
54574345 TTCGGTGATG
*
54574355 TATATCCGGACTTAGGGTCTACAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCACAGGCTATGTGCTGGAAT
54574394 TATATCCGGACTTAGGGTCCACAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCACAGGCTATGTGCTGGAAT
* * * * *
54574433 TATATTCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCACAGGCTATGTGCTGGAAT
*
54574472 TATGTCCGG
1 TATATCCGG
54574481 GCTAAAGTCC
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCACAGGCTATGTGCTGGAAT
Found at i:54576088 original size:14 final size:14
Alignment explanation
Indices: 54576069--54576100 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
54576059 TTAAATTAAA
54576069 ATAATATAAAATTT
1 ATAATATAAAATTT
*
54576083 ATAATATAACATTT
1 ATAATATAAAATTT
54576097 ATAA
1 ATAA
54576101 AAATAGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATATAAAATTT
Found at i:54581212 original size:26 final size:26
Alignment explanation
Indices: 54581182--54581233 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
54581172 TCATCTACTT
54581182 CACATTTTAACTAAGTGTAACATCTC
1 CACATTTTAACTAAGTGTAACATCTC
54581208 CACATTTTAACTAAGTGTAACATCTC
1 CACATTTTAACTAAGTGTAACATCTC
54581234 AATTTTTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.35
Consensus pattern (26 bp):
CACATTTTAACTAAGTGTAACATCTC
Found at i:54584157 original size:22 final size:21
Alignment explanation
Indices: 54584116--54584173 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 21
54584106 ATTTTAATCG
**
54584116 AGATTTTATT-TACTTATTTA
1 AGATTTTATTATTTTTATTTA
* *
54584136 TGTTTTTATTCATTTTTATTTA
1 AGATTTTATT-ATTTTTATTTA
54584158 AGATTTTATTATTTTT
1 AGATTTTATTATTTTT
54584174 TTAAATTATC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 8 0.27
21 6 0.20
22 16 0.53
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.67
Consensus pattern (21 bp):
AGATTTTATTATTTTTATTTA
Found at i:54584174 original size:22 final size:22
Alignment explanation
Indices: 54584129--54584173 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
54584119 TTTTATTTAC
* *
54584129 TTATTTATGTTTTTATTCATTT
1 TTATTTAAGATTTTATTCATTT
54584151 TTATTTAAGATTTTATT-ATTT
1 TTATTTAAGATTTTATTCATTT
54584172 TT
1 TT
54584174 TTAAATTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (22 bp):
TTATTTAAGATTTTATTCATTT
Found at i:54589501 original size:28 final size:28
Alignment explanation
Indices: 54589461--54589539 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
54589451 GCAATCAAAT
* * *
54589461 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
54589489 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
54589517 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
54589540 CGAATGATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:54591215 original size:28 final size:28
Alignment explanation
Indices: 54591182--54591393 Score: 165
Period size: 28 Copynumber: 7.5 Consensus size: 28
54591172 GTGAACATAG
*
54591182 GCACTGTGTGTGTGAGTTCCGTAACTGA
1 GCACTGTGTGTGCGAGTTCCGTAACTGA
* * * ***
54591210 GTACTGTGTGTGCGAGATCAGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAACTGA
* **
54591238 GGCACTGTGTGTGCGAGTTTCGTAACCAA
1 -GCACTGTGTGTGCGAGTTCCGTAACTGA
* * ***
54591267 GCACTGTGTGTGCGAGATCGGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAACTGA
**
54591295 GGCACTGTGTGTGCGAGTTCCGTAACCAA
1 -GCACTGTGTGTGCGAGTTCCGTAACTGA
* ***
54591324 GCACTGTGTGTGCGAGAT-CGATTGTTGA
1 GCACTGTGTGTGCGAGTTCCG-TAACTGA
* **
54591352 GGCACTGTGTGTGCGAGTTCCATAACCAA
1 -GCACTGTGTGTGCGAGTTCCGTAACTGA
54591381 GCACTGTGTGTGC
1 GCACTGTGTGTGC
54591394 AAGATCAGTT
Statistics
Matches: 135, Mismatches: 44, Indels: 10
0.71 0.23 0.05
Matches are distributed among these distances:
27 2 0.01
28 73 0.54
29 59 0.44
30 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.33, T:0.30
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGTTCCGTAACTGA
Found at i:54591249 original size:29 final size:28
Alignment explanation
Indices: 54591212--54591368 Score: 147
Period size: 29 Copynumber: 5.5 Consensus size: 28
54591202 GTAACTGAGT
54591212 ACTGTGTGTGCGAGATCAGTTGTTGAGGC
1 ACTGTGTGTGCGAGATC-GTTGTTGAGGC
* **** *
54591241 ACTGTGTGTGCGAGTTTCG-TAACCAAGC
1 ACTGTGTGTGCGAG-ATCGTTGTTGAGGC
54591269 ACTGTGTGTGCGAGATCGGTTGTTGAGGC
1 ACTGTGTGTGCGAGATC-GTTGTTGAGGC
* **** *
54591298 ACTGTGTGTGCGAGTTCCG-TAACCAAGC
1 ACTGTGTGTGCGAGAT-CGTTGTTGAGGC
54591326 ACTGTGTGTGCGAGATCGATTGTTGAGGC
1 ACTGTGTGTGCGAGATCG-TTGTTGAGGC
54591355 ACTGTGTGTGCGAG
1 ACTGTGTGTGCGAG
54591369 TTCCATAACC
Statistics
Matches: 98, Mismatches: 24, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
27 4 0.04
28 38 0.39
29 53 0.54
30 3 0.03
ACGTcount: A:0.18, C:0.17, G:0.36, T:0.29
Consensus pattern (28 bp):
ACTGTGTGTGCGAGATCGTTGTTGAGGC
Found at i:54591249 original size:57 final size:57
Alignment explanation
Indices: 54591180--54591423 Score: 366
Period size: 57 Copynumber: 4.2 Consensus size: 57
54591170 AAGTGAACAT
* ** *
54591180 AGGCACTGTGTGTGTGAGTTCCGTAACTGAGTACTGTGTGTGCGAGATCAGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCAGTTGTTG
* *
54591237 AGGCACTGTGTGTGCGAGTTTCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCAGTTGTTG
54591294 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATC-GATTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCAG-TTGTTG
* *
54591351 AGGCACTGTGTGTGCGAGTTCCATAACCAAGCACTGTGTGTGCAAGATCAGTTGTT-
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCAGTTGTTG
54591407 AGGGCACTAAGTGTGTG
1 A-GGCACT--GTGTGTG
54591424 AAATGAGATC
Statistics
Matches: 173, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
56 2 0.01
57 163 0.94
58 1 0.01
59 7 0.04
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.30
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCAGTTGTTG
Found at i:54592848 original size:19 final size:19
Alignment explanation
Indices: 54592826--54592867 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
54592816 TCATATGAGA
54592826 ATATTATCTATATATATTG
1 ATATTATCTATATATATTG
54592845 ATATTATCTATATATATTG
1 ATATTATCTATATATATTG
54592864 ATAT
1 ATAT
54592868 ATGAAAGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (19 bp):
ATATTATCTATATATATTG
Found at i:54594626 original size:40 final size:40
Alignment explanation
Indices: 54594533--54594749 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
54594523 AAGCCAAGTA
* * *
54594533 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
54594571 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
54594611 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
54594651 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
54594691 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
54594731 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
54594750 TTATCATCCA
Statistics
Matches: 164, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
38 12 0.07
39 18 0.11
40 134 0.82
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:54597472 original size:13 final size:13
Alignment explanation
Indices: 54597454--54597481 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
54597444 ACATATTATA
54597454 AATATTTTGTGTT
1 AATATTTTGTGTT
54597467 AATATTTTGTGTT
1 AATATTTTGTGTT
54597480 AA
1 AA
54597482 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:54598944 original size:40 final size:40
Alignment explanation
Indices: 54598896--54599221 Score: 492
Period size: 40 Copynumber: 8.2 Consensus size: 40
54598886 GGACTAAGAT
*
54598896 CCGAAGGCATTTGTGCTAGTTACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
*
54598936 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
54598976 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
54599016 CCGAAGGCATTTGTACGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
54599056 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
*
54599096 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * * *
54599136 CCGAAGGCATTTGTGCTAGTAATTATATCCGAGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * * *
54599176 CCAAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
54599215 CCGAAGG
1 CCGAAGG
54599222 TACTTGGGTT
Statistics
Matches: 260, Mismatches: 26, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
39 14 0.05
40 246 0.95
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:54603271 original size:28 final size:28
Alignment explanation
Indices: 54603230--54603308 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
54603220 GCAATCAAAT
* * *
54603230 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
54603258 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
54603286 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
54603309 CGAATGATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:54606820 original size:18 final size:17
Alignment explanation
Indices: 54606790--54606881 Score: 53
Period size: 18 Copynumber: 5.1 Consensus size: 17
54606780 GAGACTTTTT
* *
54606790 AAAAAAATCAAAATAAA
1 AAAAAAATAAAAAGAAA
54606807 AAAAGAAATAAAAAGAAA
1 AAAA-AAATAAAAAGAAA
**
54606825 AAATCCAA-AAAAAGAAA
1 AAA-AAAATAAAAAGAAA
*
54606842 AAAAGAACTAATCAAAGAAA
1 AAAA-AAATAA--AAAGAAA
*
54606862 TTGAAAAAA-AAAAAGAAA
1 --AAAAAAATAAAAAGAAA
54606880 AA
1 AA
54606882 GGGGAGGCCA
Statistics
Matches: 57, Mismatches: 10, Indels: 17
0.68 0.12 0.20
Matches are distributed among these distances:
16 1 0.02
17 17 0.30
18 25 0.44
20 9 0.16
21 2 0.04
22 3 0.05
ACGTcount: A:0.78, C:0.05, G:0.08, T:0.09
Consensus pattern (17 bp):
AAAAAAATAAAAAGAAA
Found at i:54606854 original size:25 final size:24
Alignment explanation
Indices: 54606799--54606875 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 24
54606789 TAAAAAAATC
54606799 AAAAT-AAAAAAAGAAATAAAAAGAA
1 AAAATCAAAAAAAG-AA-AAAAAGAA
54606824 AAAATCCAAAAAAAGAAAAAAAGAA
1 AAAAT-CAAAAAAAGAAAAAAAGAA
** *
54606849 CTAATCAAAGAAATTGAAAAAAA-AA
1 AAAATCAAA-AAA-AGAAAAAAAGAA
54606874 AA
1 AA
54606876 GAAAAAGGGG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
24 4 0.09
25 21 0.49
26 10 0.23
27 8 0.19
ACGTcount: A:0.78, C:0.05, G:0.08, T:0.09
Consensus pattern (24 bp):
AAAATCAAAAAAAGAAAAAAAGAA
Found at i:54608059 original size:64 final size:64
Alignment explanation
Indices: 54607952--54608143 Score: 294
Period size: 64 Copynumber: 3.0 Consensus size: 64
54607942 TCATTCATAA
* ** * *
54607952 CACATCCAGTTAGGAGCATTTGATTCATTTCAATCGTAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAGCAT
* * *
54608016 CACATCTAGTTAGGTGCATTTGTTTCATTTTGATCATATCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAGCAT
* *
54608080 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATTCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAGCAT
54608144 GATACATGAA
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 116 1.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAGCAT
Found at i:54608683 original size:180 final size:180
Alignment explanation
Indices: 54608363--54609062 Score: 834
Period size: 180 Copynumber: 3.9 Consensus size: 180
54608353 ACTAAAGATC
* * * * *
54608363 GAAGATCTTACCTCCCTGAAGTTGCAGTGGAGCAGATC--GA-AGATGG-TGAATCTTATCTCCA
1 GAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCACAAATGGCT-AATCTTATCTCCA
* * **
54608424 TGTATCGGCAATGGAGCAGATTTTA-CCGCCAGCCTTATCTCTCTGAGGTAGTAAGAGAGCAGGT
65 TGTATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGT
* * *
54608488 TAAAGAATAAGTCTTATCTTCCTGAGGCAGCAAGGAAGTAGATTGGGAATT
130 TGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGATTGGGAATT
* * * *
54608539 GAAGATTTTATCTCCTTGAAGTTGCAGCAGAGCAGATCTTCACAGATGTCTAATCTTATCTCCAT
1 GAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCACAAATGGCTAATCTTATCTCCAT
* *
54608604 GTATCGGCAATGG-GACAGATTTAAGCCATCAGCCTTATCTCTCTGAGGTAATAAGAGAGCAGGT
66 GTATCGGCAATGGAG-CAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGT
* * *
54608668 TGAAGAATGAGTCTTATCTTCCTGAGGTAGTAAGGAAGTAGACTCGGAATT
130 TGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGATTGGGAATT
54608719 GAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCACAAATGGCTAATCTTATCTCCAT
1 GAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCACAAATGGCTAATCTTATCTCCAT
* * *
54608784 GTATTGGCAATGGGGCGGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTT
66 GTATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTT
* * * **
54608849 GAAGAATGAGTCTTATCTTCCTAAGGTAGTAAGAAAGCGGATTGGCG-ATT
131 GAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGATTGG-GAATT
* ** * * * ** * *
54608899 GAAGATCTTATCTCCCT-AAGCAGTAGCGGAGCGGA--TTGA-AAATGGAGAATCTTATATTCAT
1 GAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCACAAATGGCTAATCTTATCTCCAT
* * * ** *
54608960 TTA-CAGGAAATGGAGCAGATTTTAGCCACTGGCCTTATTTCTCTGAGG-AAGCAAGAGAGCAGG
66 GTATC-GGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAA-CAAGAGAGCAGG
54609023 TTGAAG-ATGGTAGTCTTATCTTCCTGAGGTAGCAAGGAAG
129 TTGAAGAAT-G-AGTCTTATCTTCCTGAGGTAGCAAGGAAG
54609063 CAGACTGAAG
Statistics
Matches: 459, Mismatches: 53, Indels: 23
0.86 0.10 0.04
Matches are distributed among these distances:
175 4 0.01
176 108 0.24
177 29 0.06
178 2 0.00
179 54 0.12
180 260 0.57
181 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (180 bp):
GAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCACAAATGGCTAATCTTATCTCCAT
GTATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTT
GAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGATTGGGAATT
Found at i:54608981 original size:356 final size:356
Alignment explanation
Indices: 54608321--54609082 Score: 866
Period size: 356 Copynumber: 2.1 Consensus size: 356
54608311 GATCATAACA
* * * * * * *
54608321 AGTCTTATCTCCCTGAGGTTGC-AGTGGAGTAGACTAAAGATCGAAGATCTTACCTCCCTGAAGT
1 AGTCTTATCTTCCTGAGGTAGCAAG-GAAGCAGACTGAAGATTGAAGATTTTACCTCCCTGAAGT
* * * *
54608385 TGCAGTGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAC
65 TGCAGCGGAGCAGATCCAAAATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAC
* ** *
54608450 CGCCAGCCTTATCTCTCTGAGGTAGTAAGAGAGCAGGTTAAAGAATAAGTCTTATCTTCCTGAGG
130 CACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTAAAGAATAAGTCTTATCTTCCTAAGG
* * * * **
54608515 CAGCAAGGAAGTAGATTGGGAATTGAAGATTTTATCTCCTTGAAGTTGCAGCAGAGCAGATCTTC
195 CAGCAAGAAAGCAGATTGGGAATTGAAGATCTTATCTCCCTGAAGCAGCAGCAGAGCAGA-CTTC
* *** * *
54608580 ACAGATGTCTAATCTTATCTCCATGTATCGGCAATGGGACAGATTTAAGCCA-TCAGCCTTATCT
259 ACAAATGGAGAATCTTATATCCATGTATCGGAAATGGGACAGATTTAAGCCACT-AGCCTTATCT
*
54608644 CTCTGAGGTAA-TAAGAGAGCAGGTTGAAGAAT-G-
323 CTCTGAGG-AAGCAAGAGAGCAGGTTGAAG-ATGGT
* * * *
54608677 AGTCTTATCTTCCTGAGGTAGTAAGGAAGTAGACTCGGA-ATTGAAGATTTTATCTCCCTGAAGT
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACT-GAAGATTGAAGATTTTACCTCCCTGAAGT
* * *
54608741 TGCAGCGGAGCAGATCTTCACAAATGGCT-AATCTTATCTCCATGTATTGGCAATGGGGCGGATT
65 TGCAGCGGAGCAGATC--CA-AAATGG-TGAATCTTATCTCCATGTATCGGCAATGGAGCAGATT
* *
54608805 TAAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCC
126 TAA-CCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTAAAGAATAAGTCTTATCTTCC
* * * * * *
54608870 TAAGGTAGTAAGAAAGCGGATTGGCG-ATTGAAGATCTTATCTCCCT-AAGCAGTAGCGGAGCGG
190 TAAGGCAGCAAGAAAGCAGATTGG-GAATTGAAGATCTTATCTCCCTGAAGCAGCAGCAGAGCAG
* * * * *
54608933 A-TTGA-AAATGGAGAATCTTATATTCATTTA-CAGGAAAT-GGAGCAGATTTTAGCCACTGGCC
254 ACTTCACAAATGGAGAATCTTATATCCATGTATC-GGAAATGGGA-CAGATTTAAGCCACTAGCC
*
54608994 TTATTTCTCTGAGGAAGCAAGAGAGCAGGTTGAAGATGGT
317 TTATCTCTCTGAGGAAGCAAGAGAGCAGGTTGAAGATGGT
54609034 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATT
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATT
54609083 GGAAGAGGCA
Statistics
Matches: 341, Mismatches: 50, Indels: 29
0.81 0.12 0.07
Matches are distributed among these distances:
355 8 0.02
356 136 0.40
357 50 0.15
358 1 0.00
359 52 0.15
360 93 0.27
361 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (356 bp):
AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATTTTACCTCCCTGAAGTT
GCAGCGGAGCAGATCCAAAATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAACC
ACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTAAAGAATAAGTCTTATCTTCCTAAGGC
AGCAAGAAAGCAGATTGGGAATTGAAGATCTTATCTCCCTGAAGCAGCAGCAGAGCAGACTTCAC
AAATGGAGAATCTTATATCCATGTATCGGAAATGGGACAGATTTAAGCCACTAGCCTTATCTCTC
TGAGGAAGCAAGAGAGCAGGTTGAAGATGGT
Found at i:54609198 original size:43 final size:45
Alignment explanation
Indices: 54609141--54609235 Score: 122
Period size: 43 Copynumber: 2.2 Consensus size: 45
54609131 GCGTCAAGCT
* * **
54609141 TTATCTCTCCGAGGTAGCAAGAGAGTAGGTTGAAGATTG-AG-TC
1 TTATCTCTCCGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATC
* *
54609184 TTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATC
1 TTATCTCTCCGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATC
54609229 TTATCTC
1 TTATCTC
54609236 CCTAAGCAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 33 0.77
44 2 0.05
45 8 0.19
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (45 bp):
TTATCTCTCCGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATC
Found at i:54609361 original size:323 final size:322
Alignment explanation
Indices: 54608770--54609404 Score: 894
Period size: 323 Copynumber: 2.0 Consensus size: 322
54608760 ACAAATGGCT
* * * * *
54608770 AATCTTATCTCCATGTATTGGCAATGGGGCGGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAA
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCCGAGGTAA
* * * **
54608835 CAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGTAAGAAAGCGGATTGGCGATTG
66 CAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGAAAGCAGACTGAAGATTG
* * * *
54608900 AAGATCTTATCTCCCTAAGCAGTAGCGGAGCGGATTGAAAATGGAGAATCTTATATTCATTTACA
131 AAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATTGAAAATGGAGAATCTTATATCCATGTACA
* * *
54608965 GGAAATGGAGCAGATTTTAGCCACTGGCCTTATTTCTCTGAGGAAGCAAGAGAGCAGGTTGAAGA
196 -GAAATGGAGCAGATTTTAGCCACTAGCCTTATCTCACTGAGGAAGCAAGAGAGCAGGTTGAAGA
54609030 TGGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATTGGAAGAGGCA
260 TGGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATTGGAAGAGGCA
* * ** * *
54609093 AATCTTATCTCTATGTATCGGCAATGGAGTAGATTTAAGCGTCAAGCTTTATCTCTCCGAGGTAG
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCCGAGGTAA
* * * *
54609158 CAAGAGAGTAGGTTGAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGATTG
66 CAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGAAAGCAGACTGAAGATTG
* * * *
54609223 AAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATTGAAGATGGCGAGTCTTATCTCCATGTATC
131 AAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATTGAAAATGGAGAATCTTATATCCATGTA-C
* * * **
54609288 -GATAATGGAGCAGATTTTAGCCATTAGCCTTATCTCACTGAGGTAGTAAGAGAGCAGGTTGGCG
195 AGA-AATGGAGCAGATTTTAGCCACTAGCCTTATCTCACTGAGGAAGCAAGAGAGCAGGTTGAAG
* *
54609352 ATTGTAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
259 ATGGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
54609405 CTATTTCCGT
Statistics
Matches: 272, Mismatches: 38, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
322 2 0.01
323 269 0.99
324 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (322 bp):
AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCCGAGGTAA
CAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGAAAGCAGACTGAAGATTG
AAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATTGAAAATGGAGAATCTTATATCCATGTACA
GAAATGGAGCAGATTTTAGCCACTAGCCTTATCTCACTGAGGAAGCAAGAGAGCAGGTTGAAGAT
GGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATTGGAAGAGGCA
Found at i:54609420 original size:176 final size:175
Alignment explanation
Indices: 54609078--54609481 Score: 487
Period size: 176 Copynumber: 2.3 Consensus size: 175
54609068 TGAAGATTGA
* ** * *
54609078 AGATTGGAAGA-GGCAAATCTTATCTCTATGTATCGGCAATGGAGTAGATTTAAGCGTCAAGCTT
1 AGATT-GAAGATGGCGAATCTTATCTCTATGTATCGAAAATGGAGCAGATTTAAGCG-CAAGCCT
* *
54609142 TATCTCTCCGAGGTAGCAAGAGAGTAGGTTGAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGAA
64 TATCTCACCGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGAA
54609207 AGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGC
129 AGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGC
* * * *
54609254 AGATTGAAGATGGCGAGTCTTATCTCCATGTATCGATAATGGAGCAGATTTTAGC-CATTAGCCT
1 AGATTGAAGATGGCGAATCTTATCTCTATGTATCGAAAATGGAGCAGATTTAAGCGCA--AGCCT
* * **
54609318 TATCTCACTGAGGTAGTAAGAGAGCAGGTTGGCGATTGTAGTCTTATC-TTCTTGAGGTAGCAAG
64 TATCTCACCGAGGTAGCAAGAGAGCAGGTTGAAGATTG-AGTCTTATCTTTC-TGAGGTAGCAAG
* * * * **
54609382 GAAGCAGACTGAAGATTGAAGATC-TATTTCCGTAAGCAGTTGTGGAGC
127 AAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGC
* * * *
54609430 --ATCGAGGATGGAGAATCTTATCTCTATTTATCGAAAATGGAGCAGATTTAAG
1 AGATTGAAGATGGCGAATCTTATCTCTATGTATCGAAAATGGAGCAGATTTAAG
54609482 TCACCAGTCC
Statistics
Matches: 195, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
174 46 0.24
175 5 0.03
176 100 0.51
177 44 0.23
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (175 bp):
AGATTGAAGATGGCGAATCTTATCTCTATGTATCGAAAATGGAGCAGATTTAAGCGCAAGCCTTA
TCTCACCGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGAAAG
CAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGC
Found at i:54621062 original size:48 final size:48
Alignment explanation
Indices: 54620991--54621117 Score: 173
Period size: 48 Copynumber: 2.6 Consensus size: 48
54620981 ATATCGACGT
*
54620991 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATATTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATATGGC
* * * * *
54621039 CGATGCCATGTTCCAAACATGGTCTTACACTTGCTCTCATAATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATATGGC
* * *
54621087 AGACGCCGTGTCCCAGACATGGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
54621118 AACACACATA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 68 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATATGGC
Found at i:54621082 original size:130 final size:130
Alignment explanation
Indices: 54620861--54621106 Score: 350
Period size: 130 Copynumber: 1.9 Consensus size: 130
54620851 ATGTCGAGGC
* ** * * *
54620861 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTGTCTCAATGCTGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATATCAATGCCGATGCCATGTCCCAAA
* *
54620926 CATGGTCTTACACTTACTCTCGTAATGTGGCCGACACCATGTCCCAGACATACACATATCGACGT
66 CATGGTCTTACACTTACTCTCATAATGTGGCAGACACCATGTCCCAGACATACACATATCGACGT
* * *
54620991 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAAT-ATTGCCGATGCCATGTTCCAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCAT-ATCAATGCCGATGCCATGTCCCAA
* * *
54621055 ACATGGTCTTACACTTGCTCTCATAATGTGGCAGACGCCGTGTCCCAGACAT
65 ACATGGTCTTACACTTACTCTCATAATGTGGCAGACACCATGTCCCAGACAT
54621107 GGTCTTACAC
Statistics
Matches: 101, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
130 100 0.99
131 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (130 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATATCAATGCCGATGCCATGTCCCAAA
CATGGTCTTACACTTACTCTCATAATGTGGCAGACACCATGTCCCAGACATACACATATCGACGT
Found at i:54627785 original size:37 final size:37
Alignment explanation
Indices: 54627732--54627871 Score: 246
Period size: 37 Copynumber: 3.8 Consensus size: 37
54627722 CGAATAGTCC
*
54627732 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
54627769 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
54627806 CCACACGTAGGT-ATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTA-GTCATCGGGTCTTACCCGGACAAAATCT
54627843 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
54627872 ATATATTTCC
Statistics
Matches: 98, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
36 2 0.02
37 94 0.96
38 2 0.02
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:54627853 original size:74 final size:74
Alignment explanation
Indices: 54627732--54627871 Score: 271
Period size: 74 Copynumber: 1.9 Consensus size: 74
54627722 CGAATAGTCC
*
54627732 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGG
1 CCACACGTAGGTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGG
54627797 ACATAATCT
66 ACATAATCT
54627806 CCACACGTAGGTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGG
1 CCACACGTAGGTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGG
54627871 A
66 A
54627872 ATATATTTCC
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
74 65 1.00
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (74 bp):
CCACACGTAGGTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGG
ACATAATCT
Found at i:54628075 original size:48 final size:48
Alignment explanation
Indices: 54628012--54629156 Score: 1903
Period size: 48 Copynumber: 23.9 Consensus size: 48
54628002 ATATACACAC
* *
54628012 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
54628060 ATCTCATTCAAATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
54628108 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
54628156 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
54628204 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
54628252 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
54628300 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
54628348 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
54628396 ATCTCGTACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* ** *
54628444 ATCTCGTACATATTTCGTATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
54628492 ATCTCGTACATATTTCACACTAGCCATTCGTCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
54628540 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
54628588 ATCTCGTACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
** *
54628636 ATCTCATACATATTTCATGCTAGCCATTCGGCATTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
54628684 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
54628732 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
54628780 ATCTCATATATATTTCACATTAGACATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
54628828 ATCTCATACATATTTCACATTAGACATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
54628876 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
54628924 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
54628972 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
54629020 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
54629068 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCATATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
54629116 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
54629157 CACATATATA
Statistics
Matches: 1058, Mismatches: 39, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 1058 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:54628522 original size:24 final size:24
Alignment explanation
Indices: 54628495--54628569 Score: 59
Period size: 24 Copynumber: 3.1 Consensus size: 24
54628485 TATACATATC
54628495 TCGTACATATTTCACACTAGCCAT
1 TCGTACATATTTCACACTAGCCAT
* * *
54628519 TCGT-C-T-TTAC-CACATATACATAT
1 TCGTACATATTTCACAC-TA-GC-CAT
54628542 CTCGTACATATTTCACACTAGCCAT
1 -TCGTACATATTTCACACTAGCCAT
54628567 TCG
1 TCG
54628570 GCTTTACCAC
Statistics
Matches: 37, Mismatches: 6, Indels: 16
0.63 0.10 0.27
Matches are distributed among these distances:
20 3 0.08
21 5 0.14
22 2 0.05
23 3 0.08
24 11 0.30
25 3 0.08
26 2 0.05
27 5 0.14
28 3 0.08
ACGTcount: A:0.28, C:0.29, G:0.08, T:0.35
Consensus pattern (24 bp):
TCGTACATATTTCACACTAGCCAT
Found at i:54632507 original size:40 final size:40
Alignment explanation
Indices: 54632463--54632781 Score: 512
Period size: 40 Copynumber: 8.0 Consensus size: 40
54632453 GAATGCACAT
* * *
54632463 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
54632503 CACCAGCACGGATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
54632543 CACCAGCACGAATGCTCTTCGGGACTTAGCCTGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
54632583 CACCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
54632623 CATCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* **
54632663 CATCAGCAAAAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
54632703 CATCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
54632743 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGCTATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
54632782 TAACTCTCAA
Statistics
Matches: 260, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 260 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:54634325 original size:48 final size:48
Alignment explanation
Indices: 54634273--54634582 Score: 505
Period size: 48 Copynumber: 6.5 Consensus size: 48
54634263 ACATCTCCTA
*
54634273 CATATTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
*
54634321 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
* * * *
54634369 CATATTTCACATTAGCCATTCGGGTTTACCACATATACATATCTCGTA
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
*
54634417 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
54634465 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT-T
*
54634514 -ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
* * *
54634561 CATAATTCGCATTAGCCATTCG
1 CATATTTCACACTAGCCATTCG
54634583 ATACATATTT
Statistics
Matches: 247, Mismatches: 13, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
48 247 1.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
Found at i:54634379 original size:96 final size:96
Alignment explanation
Indices: 54634265--54634866 Score: 746
Period size: 96 Copynumber: 6.4 Consensus size: 96
54634255 ATATACACAC
* *
54634265 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCATTCATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCA
54634330 CACTAGCCATTCGGCTTTACCACATATACAT
66 CACTAGCCATTCGGCTTTACCACATATACAT
* * * *
54634361 ATCTCATACATATTTCACATTAGCCATTCGGGTTTACCACATATACATATCTCGTACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCA
54634426 CACTAGCCATTCGGCTTTACCACATATACAT
66 CACTAGCCATTCGGCTTTACCACATATACAT
54634457 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT-ATATTTC
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT-TCATATTTC
54634521 ACACTAGCCATTCGGCTTTACCACATATACAT
65 ACACTAGCCATTCGGCTTTACCACATATACAT
* * * * * * * *
54634553 ATCTCATACATAATTCGCATTAGCCATTC-G--ATA-CATATTTCACATTAGC-CATTCGA-CTT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATAT-ACA-TATCTCATTC-ATATT
** * * * *
54634612 T-ACCACATATACATATC-TC-ATA-CATATCT-CA-
63 TCA-CAC-TAGCCAT-TCGGCTTTACCACATATACAT
54634643 A---CAT--AT--TTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT-ATATTTC
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT-TCATATTTC
*
54634700 ACATTAGCCATTCGGCTTTACCACATATACAT
65 ACACTAGCCATTCGGCTTTACCACATATACAT
* *
54634732 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCA
*
54634797 CATTAGCCATTCGGCTTTACCACATATACAT
66 CACTAGCCATTCGGCTTTACCACATATACAT
*
54634828 ATCTCAT--ATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
54634867 CACATATATA
Statistics
Matches: 437, Mismatches: 40, Indels: 60
0.81 0.07 0.11
Matches are distributed among these distances:
83 14 0.03
84 3 0.01
85 12 0.03
86 15 0.03
87 15 0.03
88 2 0.00
89 1 0.00
90 1 0.00
91 2 0.00
92 15 0.03
93 16 0.04
94 43 0.10
95 3 0.01
96 295 0.68
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.35
Consensus pattern (96 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCA
CACTAGCCATTCGGCTTTACCACATATACAT
Found at i:54634421 original size:144 final size:144
Alignment explanation
Indices: 54634265--54634866 Score: 821
Period size: 144 Copynumber: 4.3 Consensus size: 144
54634255 ATATACACAC
* * *
54634265 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCATTCATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCA
* *
54634330 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGGTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
54634395 TACCACATATACAT
131 TACCACATATACAT
* * *
54634409 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCA
*
54634474 CACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACACTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
54634539 TACCACATATACAT
131 TACCACATATACAT
* * * * * * *
54634553 ATCTCATACATAATTCGCATTAGCCATTC-G--ATA-CATATTTCACATTAGC-CATTCGA-CTT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATAT-ACA-TATCTCATTC-ATATT
* * * *
54634612 T-AC-C-A--CATAT--AC-ATATCTC--ATACATATCTCA-ACATATTTCACACTAGCCATTCG
63 TCACACTAGCCAT-TCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCG
54634666 GCTTTACCACATATACAT
127 GCTTTACCACATATACAT
*
54634684 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAT-ATATTTC
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT-TCATATTTC
*
54634748 ACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCT
65 ACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCT
54634813 TTACCACATATACAT
130 TTACCACATATACAT
54634828 ATCTCAT--ATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
54634867 CACATATATA
Statistics
Matches: 402, Mismatches: 34, Indels: 46
0.83 0.07 0.10
Matches are distributed among these distances:
131 66 0.16
132 13 0.03
133 4 0.01
134 15 0.04
135 9 0.02
136 4 0.01
137 2 0.00
138 2 0.00
139 4 0.01
140 8 0.02
141 16 0.04
142 36 0.09
143 13 0.03
144 210 0.52
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.35
Consensus pattern (144 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCA
CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
TACCACATATACAT
Found at i:54634598 original size:25 final size:25
Alignment explanation
Indices: 54634558--54634608 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
54634548 TACATATCTC
*
54634558 ATACATAATTCGCATTAGCCATTCG
1 ATACATAATTCACATTAGCCATTCG
*
54634583 ATACATATTTCACATTAGCCATTCG
1 ATACATAATTCACATTAGCCATTCG
54634608 A
1 A
54634609 CTTTACCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (25 bp):
ATACATAATTCACATTAGCCATTCG
Found at i:54634648 original size:10 final size:11
Alignment explanation
Indices: 54634620--54634648 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
54634610 TTTACCACAT
54634620 ATACATATCTC
1 ATACATATCTC
54634631 ATACATATCTC
1 ATACATATCTC
54634642 A-ACATAT
1 ATACATAT
54634649 TTCACACTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.34
Consensus pattern (11 bp):
ATACATATCTC
Found at i:54634708 original size:48 final size:48
Alignment explanation
Indices: 54634631--54634866 Score: 415
Period size: 48 Copynumber: 5.0 Consensus size: 48
54634621 TACATATCTC
* *
54634631 ATACATATCTCA-ACATATTTCACACTAGCCATTCGGCTTTACCACAT
1 ATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACAT
54634678 ATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACAT
1 ATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACAT
*
54634726 ATACATATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACAT
1 ATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACAT
*
54634774 ATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
1 ATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACAT
54634822 ATACATATCTC--ATATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACA
54634867 CACATATATA
Statistics
Matches: 182, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
46 33 0.18
47 12 0.07
48 137 0.75
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACAT
Found at i:54634806 original size:275 final size:274
Alignment explanation
Indices: 54634355--54634855 Score: 887
Period size: 275 Copynumber: 1.8 Consensus size: 274
54634345 TTTACCACAT
* * *
54634355 ATACATATCTCATACATATTTCACATTAGCCATTCGGGTTTACCACATATACATATCTCGTACAT
1 ATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACAT
54634420 ATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATT
66 ATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATT
*
54634485 CGGCTTTACCACATATACATATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATA
131 CGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATA
*
54634550 CATATCTCATACATAATTCGCATTAGCCATTCGATACATATTTCACATTAGCCATTCGACTTTAC
196 CATATCTCAT--ATAATTCACATTAGCCATTCGATACATATTTCACATTAGCCATTCGACTTTAC
54634615 CACATATACATATCTC
259 CACATATACATATCTC
*
54634631 ATACATATCTCA-ACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACAT
* *
54634695 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACACTAGCCATT
66 ATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATT
*
54634760 CGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATA
131 CGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATA
*
54634825 CATATCTCATATATTTCACATTAGCCATTCG
196 CATATCTCATATAATTCACATTAGCCATTCG
54634856 GCTTTACCAC
Statistics
Matches: 215, Mismatches: 10, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
273 19 0.09
275 184 0.86
276 12 0.06
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.35
Consensus pattern (274 bp):
ATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACAT
ATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATT
CGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATA
CATATCTCATATAATTCACATTAGCCATTCGATACATATTTCACATTAGCCATTCGACTTTACCA
CATATACATATCTC
Found at i:54638205 original size:40 final size:40
Alignment explanation
Indices: 54638149--54638427 Score: 441
Period size: 40 Copynumber: 7.0 Consensus size: 40
54638139 GAATGCACAT
* * * *
54638149 CACCAGCATGATTGCTCTTCAGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
54638189 CACCAGCACGAATGCTCTTTGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
54638229 CACCAGCACGAATGCTCTTCGGGACTTAGCCTGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
54638269 CACCAGCACGAATGCTCTTCGGGACTTAGCCTGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
54638309 CATCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
54638349 CATCAGCACAAATGCTCTTCGGGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
54638389 CACCAGCACGAATACTCTTCGGGACTTAGCCCGGCTATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
54638428 TAACTCTCAA
Statistics
Matches: 223, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 223 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:54639698 original size:37 final size:37
Alignment explanation
Indices: 54639597--54639699 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
54639587 CGAATAGTCC
* *
54639597 CCACACGTAGTTATCGGGTCTTACCCGAACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
54639634 CCACATGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
54639671 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
54639700 ATATATTTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:54639900 original size:48 final size:48
Alignment explanation
Indices: 54639840--54640565 Score: 983
Period size: 48 Copynumber: 14.9 Consensus size: 48
54639830 ATATACACAC
* * *
54639840 ATCTCTTACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
54639888 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
54639936 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
54639984 ATCTCATGCATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
54640032 ATCTCGA-ACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC-ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
54640080 ATCTCGTACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * * * * *
54640128 ATCTCGTACATATTTCACA-TA-CATATTTC-ACATTAGCCATTCGGCTTTACCAC
1 ATCTCATACATATTTCACATTAGC-CA-TTCGGCTTTA-CCA--C--ATATA-CAT
* ** * *
54640181 ATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCT-CATA---CATAT-T-TCACA-TTA-GCCATTCGGCTTTACCACATATACAT
* *
54640237 ATCTCATATATATTTCACATTAGCCATTCGGCTTTAGCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
54640285 ATCTCATACATATTTCACACTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
54640333 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACAACATGTACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
54640381 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
54640429 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
54640477 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
54640525 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
54640566 CACATATATA
Statistics
Matches: 609, Mismatches: 48, Indels: 42
0.87 0.07 0.06
Matches are distributed among these distances:
46 1 0.00
47 8 0.01
48 543 0.89
49 2 0.00
50 4 0.01
51 1 0.00
52 7 0.01
53 5 0.01
54 3 0.00
55 4 0.01
56 5 0.01
57 8 0.01
58 1 0.00
59 4 0.01
61 7 0.01
62 5 0.01
63 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:54639954 original size:96 final size:96
Alignment explanation
Indices: 54639840--54640565 Score: 1130
Period size: 96 Copynumber: 7.4 Consensus size: 96
54639830 ATATACACAC
* * * *
54639840 ATCTCTTACATATTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCATTCATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
54639905 CACTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
*
54639936 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATGCATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
54640001 CATTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
* *
54640032 ATCTCGA-ACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCGTACATATTTC
1 ATCTC-ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTC
* *
54640096 ACACTAGCCATTCGACTTTACCACATATACAT
65 ACATTAGCCATTCGGCTTTACCACATATACAT
54640128 ATCTCGTACATATTTCACATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 A-----T-C-----T--CATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
*
54640193 CATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
53 CATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
54640237 ATCTCATATATATTTCACATTAGCCATTCGGCTTTAGCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
54640302 CACTAGCCATTCAGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
* * * *
54640333 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACAACATGTACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
54640398 CATTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
*
54640429 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
54640494 CATTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
*
54640525 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
54640566 CACATATATA
Statistics
Matches: 586, Mismatches: 29, Indels: 30
0.91 0.04 0.05
Matches are distributed among these distances:
96 492 0.84
97 1 0.00
98 1 0.00
101 1 0.00
102 1 0.00
103 1 0.00
104 1 0.00
107 1 0.00
108 1 0.00
109 86 0.15
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (96 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CATTAGCCATTCGGCTTTACCACATATACAT
Found at i:54639998 original size:144 final size:144
Alignment explanation
Indices: 54639840--54640565 Score: 1116
Period size: 144 Copynumber: 5.0 Consensus size: 144
54639830 ATATACACAC
* * *
54639840 ATCTCTTACATATTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCATTCATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCA
54639905 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
54639970 TACCACATATACAT
131 TACCACATATACAT
* *
54639984 ATCTCATGCATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCGA-ACATATTTC
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-ATTCATATTTC
* * *
54640048 ACACTAGCCATTCGGCTTTACCACATATACATATCTCGTACATATTTCACACTAGCCATTCGACT
65 ACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCT
54640113 TTACCACATATACAT
130 TTACCACATATACAT
54640128 ATCTCGTACATATTTCACATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 A-----T-C-----T--CATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
* *
54640193 CATAT-ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACAT
53 CAT-TCATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
54640257 TAGCCATTCGGCTTTAGCACATATACAT
117 TAGCCATTCGGCTTTACCACATATACAT
* *
54640285 ATCTCATACATATTTCACACTAGCCATTCAGCTTTACCACATATACATATCTCATAT-ATATTTC
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT-TCATATTTC
* *
54640349 ACACTAGCCATTCGGCTTTACAACATGTACATATCTCATACATATTTCACATTAGCCATTCGGCT
65 ACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCT
54640414 TTACCACATATACAT
130 TTACCACATATACAT
* *
54640429 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCA
* *
54640494 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
54640559 TACCACA
131 TACCACA
54640566 CACATATATA
Statistics
Matches: 534, Mismatches: 31, Indels: 34
0.89 0.05 0.06
Matches are distributed among these distances:
144 396 0.74
145 1 0.00
146 1 0.00
149 1 0.00
150 1 0.00
151 1 0.00
152 1 0.00
155 1 0.00
156 1 0.00
157 130 0.24
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (144 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCA
CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
TACCACATATACAT
Found at i:54640152 original size:13 final size:13
Alignment explanation
Indices: 54640134--54640160 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
54640124 ACATATCTCG
54640134 TACATATTTCACA
1 TACATATTTCACA
54640147 TACATATTTCACA
1 TACATATTTCACA
54640160 T
1 T
54640161 TAGCCATTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (13 bp):
TACATATTTCACA
Found at i:54640168 original size:61 final size:61
Alignment explanation
Indices: 54640086--54640208 Score: 210
Period size: 61 Copynumber: 2.0 Consensus size: 61
54640076 ACATATCTCG
*
54640086 TACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCGTACATATTTCACA
1 TACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACA
* * *
54640147 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACA
1 TACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACA
54640208 T
1 T
54640209 TAGCCATTCG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.37
Consensus pattern (61 bp):
TACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACA
Found at i:54644652 original size:31 final size:31
Alignment explanation
Indices: 54644607--54644752 Score: 249
Period size: 31 Copynumber: 4.7 Consensus size: 31
54644597 TTAGTCTTGA
* *
54644607 CATAT-ACTGAGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
54644637 CATATCACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
54644668 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
54644699 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
54644730 CATATCACGGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
54644753 ACTGTAAATG
Statistics
Matches: 112, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
30 5 0.04
31 107 0.96
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:54644823 original size:42 final size:41
Alignment explanation
Indices: 54644776--54644866 Score: 164
Period size: 42 Copynumber: 2.2 Consensus size: 41
54644766 TGGCCCTTAG
*
54644776 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGC-A
54644818 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCA
54644859 GCCCATTT
1 GCCCATTT
54644867 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 9 0.19
42 39 0.81
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (41 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCA
Found at i:54645065 original size:25 final size:26
Alignment explanation
Indices: 54645014--54645083 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 26
54645004 CTCTTTTAAT
*
54645014 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTAGGGCAAAGCCCTTTTCTGATA
* *
54645039 AACTAGGGTAAAGCCCTTTTC-GGTA
1 AACTAGGGCAAAGCCCTTTTCTGATA
* *
54645064 AATTAGGGCAGAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
54645084 AGCACTTCCT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 34 0.89
26 4 0.11
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTAGGGCAAAGCCCTTTTCTGATA
Done.