Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008056.1 Hibiscus syriacus cultivar Beakdansim tig00110551_pilon, whole genome shotgun sequence
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: 2370532
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 13
Found at i:786948 original size:33 final size:33
Alignment explanation
Indices: 786906--786985 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
786896 GCGAATTTAG
* *
786906 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
786939 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
*
786972 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
786986 AGTCATTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.10, C:0.21, G:0.23, T:0.46
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
Found at i:786949 original size:19 final size:19
Alignment explanation
Indices: 786925--786985 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
786915 GCGATTTTGT
786925 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
786944 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
786958 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
786977 CATTGCGAT
1 CGTTGCGAT
786986 AGTCATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 10 0.29
16 3 0.09
17 3 0.09
19 18 0.53
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:787110 original size:14 final size:14
Alignment explanation
Indices: 787091--787127 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
787081 CATCAATTAA
787091 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
787105 ACAAATCATCTTTT
1 ACAAATCAACTTTT
787119 ACAAATCAA
1 ACAAATCAA
787128 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:789036 original size:19 final size:19
Alignment explanation
Indices: 788996--789121 Score: 109
Period size: 19 Copynumber: 6.7 Consensus size: 19
788986 TCTGGAACTT
*
788996 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
**
789017 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
789036 AAAATCGCAACGAGAGAATG
1 AAAATCGCAACGCGA-AATG
*
789056 AAAATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATG
*
789075 AAAATCTCAA--CG--AT-
1 AAAATCGCAACGCGAAATG
* * *
789089 AGAATCGCAATGCGAAATT
1 AAAATCGCAACGCGAAATG
789108 AAAATCGCAACGCG
1 AAAATCGCAACGCG
789122 GTTATAGTTT
Statistics
Matches: 86, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
14 8 0.09
15 2 0.02
16 2 0.02
17 2 0.02
18 2 0.02
19 41 0.48
20 18 0.21
21 11 0.13
ACGTcount: A:0.47, C:0.20, G:0.19, T:0.14
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:789065 original size:39 final size:39
Alignment explanation
Indices: 788996--789093 Score: 124
Period size: 39 Copynumber: 2.5 Consensus size: 39
788986 TCTGGAACTT
* * ** *
788996 AAAATCGCAACGTGAAAAATGACTATCGCAACGCGAAATG
1 AAAATCGCAACGAG-AGAATGAAAATCGCAACGCGAAATA
789036 AAAATCGCAACGAGAGAATGAAAATCGCAACGCGAAATA
1 AAAATCGCAACGAGAGAATGAAAATCGCAACGCGAAATA
* *
789075 AAAATCTCAACGATAGAAT
1 AAAATCGCAACGAGAGAAT
789094 CGCAATGCGA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 38 0.75
40 13 0.25
ACGTcount: A:0.49, C:0.18, G:0.18, T:0.14
Consensus pattern (39 bp):
AAAATCGCAACGAGAGAATGAAAATCGCAACGCGAAATA
Found at i:789171 original size:33 final size:33
Alignment explanation
Indices: 789129--789212 Score: 114
Period size: 33 Copynumber: 2.5 Consensus size: 33
789119 GCGGTTATAG
*
789129 TTTCGCGTTGCGATTTTGTCATTGCGATTTCCA
1 TTTCGCGTTGCGATTTTCTCATTGCGATTTCCA
* * ***
789162 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTTG
1 TTTCGCGTTGCGATTTTCTCATTGCGATTTCCA
789195 TTTCGCGTTGCGATTTTC
1 TTTCGCGTTGCGATTTTC
789213 ATTCTCTCGT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.08, C:0.21, G:0.23, T:0.48
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTCTCATTGCGATTTCCA
Found at i:789174 original size:19 final size:19
Alignment explanation
Indices: 789150--789237 Score: 87
Period size: 19 Copynumber: 4.8 Consensus size: 19
789140 GATTTTGTCA
*
789150 TTGCGATTTCCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
789169 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCGCG
**
789183 TTGCGATTTTTGTTTCGCG
1 TTGCGATTTTCATTTCGCG
*
789202 TTGCGATTTTCATTCTCTCG
1 TTGCGATTTTCATT-TCGCG
789222 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
789238 AACCAAAAGA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
14 10 0.18
16 2 0.04
17 2 0.04
19 24 0.43
20 18 0.32
ACGTcount: A:0.09, C:0.23, G:0.19, T:0.49
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:789225 original size:20 final size:20
Alignment explanation
Indices: 789174--789235 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
789164 TCGCGTTGCG
*
789174 ATTCTCTCGTTGCGATTTTT
1 ATTCTCTCGTTGCGATTTTC
* *
789194 GTT-TCGCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
789213 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
789233 ATT
1 ATT
789236 TCAACCAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
19 16 0.44
20 20 0.56
ACGTcount: A:0.10, C:0.21, G:0.18, T:0.52
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:789440 original size:94 final size:93
Alignment explanation
Indices: 789328--789703 Score: 580
Period size: 94 Copynumber: 4.1 Consensus size: 93
789318 ATGGATTGCA
* * *
789328 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTTAGAGTATTAAAGAATACACAGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
*
789393 TAGCAGAATTGGCAGCAAACGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
789421 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
789486 TTAACAGAATTGGCAGCAACCAAACAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
789515 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
789580 TTAGCAGAATTGGCAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
789609 TTACTTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAGT
1 TTACTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* ** *
789670 TTAGCAGTATTTCCAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
789699 TTACT
1 TTACT
789704 AAGCAATCTA
Statistics
Matches: 267, Mismatches: 14, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
90 40 0.15
93 23 0.09
94 204 0.76
ACGTcount: A:0.48, C:0.19, G:0.11, T:0.22
Consensus pattern (93 bp):
TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:789485 original size:17 final size:17
Alignment explanation
Indices: 789463--789495 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
789453 ATACTAACTT
789463 CACAGTGTTAA-AGAATA
1 CACAGT-TTAACAGAATA
789480 CACAGTTTAACAGAAT
1 CACAGTTTAACAGAAT
789496 TGGCAGCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.24
Consensus pattern (17 bp):
CACAGTTTAACAGAATA
Found at i:791454 original size:14 final size:14
Alignment explanation
Indices: 791435--791523 Score: 70
Period size: 14 Copynumber: 5.6 Consensus size: 14
791425 GGAAATGACT
791435 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
791449 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
791468 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
791482 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
791501 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
791515 ATCGCAACG
1 ATCGCAACG
791524 CGAAATGAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
14 29 0.48
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 20 0.33
ACGTcount: A:0.44, C:0.22, G:0.25, T:0.09
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:791472 original size:19 final size:19
Alignment explanation
Indices: 791386--791545 Score: 125
Period size: 19 Copynumber: 9.1 Consensus size: 19
791376 TCTTTTGGTT
*
791386 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
791405 GAGAATGAAAAGCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
791425 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
791443 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
791459 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
791476 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
791492 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
791509 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
791525 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
791544 GA
1 GA
791546 TTTTGGTTTC
Statistics
Matches: 111, Mismatches: 13, Indels: 34
0.70 0.08 0.22
Matches are distributed among these distances:
14 29 0.26
15 3 0.03
16 6 0.05
17 5 0.05
18 4 0.04
19 36 0.32
20 26 0.23
21 2 0.02
ACGTcount: A:0.45, C:0.20, G:0.25, T:0.10
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:791472 original size:33 final size:33
Alignment explanation
Indices: 791386--791540 Score: 229
Period size: 33 Copynumber: 4.5 Consensus size: 33
791376 TCTTTTGGTT
791386 GAAATGAAAATCGCAACGAGAGAATGAAAAGCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAAT------CGCAACGC
**
791425 GGAAATGACTATCGCAACGAGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAGAATCGCAACGC
791459 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
791492 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
791525 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
791541 TGCGATTTTG
Statistics
Matches: 111, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
33 80 0.72
34 8 0.07
40 23 0.21
ACGTcount: A:0.46, C:0.20, G:0.25, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:791592 original size:21 final size:20
Alignment explanation
Indices: 791572--791643 Score: 92
Period size: 20 Copynumber: 3.5 Consensus size: 20
791562 CGATTATCTC
791572 GTTGCGATTTTCATTTCTC-T
1 GTTGCGATTTTCATTT-TCAT
** *
791592 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTCAT
791613 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
791633 GTTGCGATTTT
1 GTTGCGATTTT
791644 AAGTTTAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
20 30 0.67
21 15 0.33
ACGTcount: A:0.12, C:0.17, G:0.19, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:792264 original size:20 final size:21
Alignment explanation
Indices: 792197--792271 Score: 125
Period size: 21 Copynumber: 3.6 Consensus size: 21
792187 CGATAGTCAG
792197 ATTCGCATTGCGATTTTCCTA
1 ATTCGCATTGCGATTTTCCTA
792218 ATTCGCATTGCGATTTTCCTA
1 ATTCGCATTGCGATTTTCCTA
* *
792239 ATTCGCATTGCGATTTACGT-
1 ATTCGCATTGCGATTTTCCTA
792259 ATTCGCATTGCGA
1 ATTCGCATTGCGA
792272 ATTAGGAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
20 13 0.25
21 39 0.75
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (21 bp):
ATTCGCATTGCGATTTTCCTA
Found at i:792286 original size:41 final size:42
Alignment explanation
Indices: 792199--792286 Score: 97
Period size: 41 Copynumber: 2.1 Consensus size: 42
792189 ATAGTCAGAT
* * * * *
792199 TCGCATTGCGATTTTCCTAATTCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACCTAATTCGCATTGCGAATTACCAAAA
* **
792241 TCGCATTGCGATTTACGT-ATTCGCATTGCGAATTAGGAAAA
1 TCGCATTGCGATTTACCTAATTCGCATTGCGAATTACCAAAA
792282 TCGCA
1 TCGCA
792287 ACGCGAATAC
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
41 22 0.58
42 16 0.42
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (42 bp):
TCGCATTGCGATTTACCTAATTCGCATTGCGAATTACCAAAA
Found at i:796664 original size:47 final size:47
Alignment explanation
Indices: 796613--796762 Score: 176
Period size: 47 Copynumber: 3.2 Consensus size: 47
796603 ATCATACAAG
* * *
796613 GATGCACCAGCCTGTAATTCAATTATTGGAATTTACCATCTGATGAA
1 GATGCACCAGCCTGTTATTCAATTATTGAAATTTATCATCTGATGAA
* * * *
796660 GATGCACTAGCCTGTTAGTCAGTTATTGAAATTTATCATATGATG-A
1 GATGCACCAGCCTGTTATTCAATTATTGAAATTTATCATCTGATGAA
* * ** *
796706 GAATGCACCAGCATGTTATTCAATGATTGAAATTTATCATCCAACGAA
1 G-ATGCACCAGCCTGTTATTCAATTATTGAAATTTATCATCTGATGAA
796754 GATGCACCA
1 GATGCACCA
796763 ACCAATTATT
Statistics
Matches: 85, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
46 2 0.02
47 81 0.95
48 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (47 bp):
GATGCACCAGCCTGTTATTCAATTATTGAAATTTATCATCTGATGAA
Found at i:797467 original size:19 final size:18
Alignment explanation
Indices: 797435--797485 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
797425 GTCTGGTTAG
*
797435 AGTCA-ATGGGTTAGGTC
1 AGTCAGATGGTTTAGGTC
*
797452 AGGTCAGATGGTTTAGTTC
1 A-GTCAGATGGTTTAGGTC
*
797471 AATCAGATGGGTTTA
1 AGTCAGAT-GGTTTA
797486 TGACAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 1 0.04
18 10 0.36
19 17 0.61
ACGTcount: A:0.25, C:0.10, G:0.31, T:0.33
Consensus pattern (18 bp):
AGTCAGATGGTTTAGGTC
Found at i:801279 original size:2 final size:2
Alignment explanation
Indices: 801272--801331 Score: 65
Period size: 2 Copynumber: 30.5 Consensus size: 2
801262 TTATTTTTGA
801272 AT AT AT AT AT AT AT AT AT A- AT AT A- AGT AT AT AT AGT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT A-T AT AT AT
801314 A- AGT AT AT A- AT AT AT AT A
1 AT A-T AT AT AT AT AT AT AT A
801332 AAGGTTATTG
Statistics
Matches: 51, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
1 4 0.08
2 43 0.84
3 4 0.08
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (2 bp):
AT
Found at i:801295 original size:19 final size:19
Alignment explanation
Indices: 801272--801331 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
801262 TTATTTTTGA
801272 ATATAT-ATATATATATAT
1 ATATATAATATATATATAT
801290 A-ATATAAGTATATATAGTAT
1 ATATATAA-TATATATA-TAT
*
801310 ATATA-AGTATATA-ATAT
1 ATATATAATATATATATAT
801327 ATATA
1 ATATA
801332 AAGGTTATTG
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
17 12 0.32
18 3 0.08
19 14 0.38
20 5 0.14
21 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (19 bp):
ATATATAATATATATATAT
Found at i:801301 original size:15 final size:14
Alignment explanation
Indices: 801272--801332 Score: 60
Period size: 13 Copynumber: 4.6 Consensus size: 14
801262 TTATTTTTGA
801272 ATATAT-ATAT-AT
1 ATATATAATATAAT
801284 ATATATAATATAAGT
1 ATATATAATATAA-T
*
801299 ATATATAGTAT-AT
1 ATATATAATATAAT
801312 ATA-AGT-ATATAAT
1 ATATA-TAATATAAT
801325 ATATATAA
1 ATATATAA
801333 AGGTTATTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
12 10 0.25
13 15 0.38
14 4 0.10
15 11 0.28
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (14 bp):
ATATATAATATAAT
Found at i:801301 original size:17 final size:18
Alignment explanation
Indices: 801272--801332 Score: 85
Period size: 17 Copynumber: 3.6 Consensus size: 18
801262 TTATTTTTGA
801272 ATATATAT-A-TATATAT
1 ATATATATAAGTATATAT
801288 ATA-ATATAAGTATATAT
1 ATATATATAAGTATATAT
801305 AGTATATATAAGTATATA-
1 A-TATATATAAGTATATAT
801323 ATATATATAA
1 ATATATATAA
801333 AGGTTATTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.10
16 4 0.10
17 17 0.41
18 3 0.07
19 13 0.32
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (18 bp):
ATATATATAAGTATATAT
Found at i:802636 original size:14 final size:14
Alignment explanation
Indices: 802603--802641 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
802593 TTGAAGTACT
*
802603 AAAAAATGAAAGGA
1 AAAAAATTAAAGGA
802617 AAAAAATTAAAGGA
1 AAAAAATTAAAGGA
**
802631 TTAAAATTAAA
1 AAAAAATTAAA
802642 TAAATAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.13, T:0.18
Consensus pattern (14 bp):
AAAAAATTAAAGGA
Found at i:803174 original size:16 final size:18
Alignment explanation
Indices: 803140--803180 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
803130 CTAGTGACCA
*
803140 AAACATGAATAGGAGCCG
1 AAACATGAATAGGACCCG
803158 AAAC-TGAA-AGGACCCG
1 AAACATGAATAGGACCCG
803174 -AACATGA
1 AAACATGA
803181 TTTTCTCCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 10 0.48
17 4 0.19
18 4 0.19
ACGTcount: A:0.46, C:0.20, G:0.24, T:0.10
Consensus pattern (18 bp):
AAACATGAATAGGACCCG
Found at i:804271 original size:119 final size:119
Alignment explanation
Indices: 804148--804371 Score: 351
Period size: 119 Copynumber: 1.9 Consensus size: 119
804138 AGAAAAAGGG
*
804148 TGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTTCGGATGAG-TTATTCTCATTATGAAC
1 TGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTTCGAATGAGTTTATTCTCATTATGAA-
*
804212 CCATCCATTGGAAATGTTTATCCACCTCCTTCTGTGATGGATTTGAGCAAAAAGT
65 CCATCCACTGGAAATGTTTATCCACCTCCTTCTGTGATGGATTTGAGCAAAAAGT
* * * *
804267 TGAACAAGTTCTTCTTATTATGAACTTCTTGTCCCTCTTTGAATGAGTTTTTTCTCATTATGAAC
1 TGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTTCGAATGAGTTTATTCTCATTATGAAC
** *
804332 TTTCCACTGGAATTGTTTATCCACCTCCTTCTGTGATGGA
66 CATCCACTGGAAATGTTTATCCACCTCCTTCTGTGATGGA
804372 GTCGAACAAA
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
119 80 0.84
120 15 0.16
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (119 bp):
TGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTTCGAATGAGTTTATTCTCATTATGAAC
CATCCACTGGAAATGTTTATCCACCTCCTTCTGTGATGGATTTGAGCAAAAAGT
Found at i:819383 original size:20 final size:20
Alignment explanation
Indices: 819353--819410 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
819343 GATGCGAATG
*
819353 TAAAGATGCAAAAATACACA
1 TAAAAATGCAAAAATACACA
*
819373 TATAAATGCAAAAATACACA
1 TAAAAATGCAAAAATACACA
819393 TAAAAATGCAAAAATACA
1 TAAAAATGCAAAAATACA
819411 AAAATGGGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.62, C:0.14, G:0.07, T:0.17
Consensus pattern (20 bp):
TAAAAATGCAAAAATACACA
Found at i:821915 original size:22 final size:22
Alignment explanation
Indices: 821875--821917 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
821865 ATACTAATCC
* * *
821875 TAATTAATTTTAATTAATTAAT
1 TAATTAATCTGAATAAATTAAT
821897 TAATTAATCTGAATAAATTAA
1 TAATTAATCTGAATAAATTAA
821918 AAGCTCTAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
TAATTAATCTGAATAAATTAAT
Found at i:822522 original size:29 final size:29
Alignment explanation
Indices: 822464--822524 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
822454 ATATCAACAA
* *
822464 AAAATAAATGTCAGTAGTTAATATGCAAT
1 AAAATAAAAGTCAGTAGTTAATATGAAAT
*
822493 AAAATAAAAGTTAGTAGTTAAT-TCGAAAT
1 AAAATAAAAGTCAGTAGTTAATAT-GAAAT
822522 AAA
1 AAA
822525 TAACATAGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.52, C:0.05, G:0.13, T:0.30
Consensus pattern (29 bp):
AAAATAAAAGTCAGTAGTTAATATGAAAT
Found at i:823977 original size:20 final size:20
Alignment explanation
Indices: 823954--823993 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
823944 GAAGTGAAAC
823954 AACTTATCAAAAAGTTCTAT
1 AACTTATCAAAAAGTTCTAT
823974 AACTTATCAAAAAGTTCTAT
1 AACTTATCAAAAAGTTCTAT
823994 CTTGTTTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (20 bp):
AACTTATCAAAAAGTTCTAT
Found at i:824971 original size:15 final size:16
Alignment explanation
Indices: 824951--824980 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
824941 ATATAGTGAC
824951 AAGTTTT-GTAACTAA
1 AAGTTTTAGTAACTAA
824966 AAGTTTTAGTAACTA
1 AAGTTTTAGTAACTA
824981 TGATAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (16 bp):
AAGTTTTAGTAACTAA
Found at i:825298 original size:175 final size:176
Alignment explanation
Indices: 824987--825353 Score: 401
Period size: 175 Copynumber: 2.1 Consensus size: 176
824977 ACTATGATAG
* *
824987 AAAAAATTATCACAACAAATAATGAGATTTAGATTTATTGTGACAAATTTTGTTTGTAATTATAT
1 AAAAAATTGTCACAACAAATAATGAGATTAAGATTTATTGT-A-AAATTTTGTTTGTAATTATAT
*
825052 ATTTTAATTATAGTGACAAAACGTATAGTCACAAATGATTATCTCCAAACTTTTTTACAAAAACA
64 ATTTTAATTATAGTGACAAAAC-TATAGTCACAAAAGATTATCTCCAAACTTTTTTACAAAAACA
* ** * *
825117 AAATCATATAGTGATATGTTTTGTAACTATAAGCT-ATAATTATTGTTACA
128 AAATCATATAATGA-AAATTTTGTAACTATAAG-TGATAATAATTATTACA
**
825167 AAAAAATTGTCACAACAAATAATGAGATTCAAG-TTT-TTAGT-AAATTTT-TTT-TCGTTATAT
1 AAAAAATTGTCACAACAAATAATGAGATT-AAGATTTATT-GTAAAATTTTGTTTGTAATTATAT
* * * * * * *
825227 GTTTTAATTATAGTGACAAAA-TATATTGACAAAAAGATT-TCCCTCCATATTTTTTTGCACCAA
64 ATTTTAATTATAGTGACAAAACTATAGTCAC-AAAAGATTAT--CTCCAAACTTTTTTACA-AAA
*
825290 A-AAAATCATATAATGAAAATTTTGTAACTATAAGTGTTAATAATTATTACA
125 ACAAAATCATATAATGAAAATTTTGTAACTATAAGTGATAATAATTATTACA
825341 AAAAACATTGTCA
1 AAAAA-ATTGTCA
825354 AAAAAGTAAT
Statistics
Matches: 161, Mismatches: 18, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
173 9 0.06
174 40 0.25
175 62 0.39
176 6 0.04
177 7 0.04
179 2 0.01
180 33 0.20
181 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (176 bp):
AAAAAATTGTCACAACAAATAATGAGATTAAGATTTATTGTAAAATTTTGTTTGTAATTATATAT
TTTAATTATAGTGACAAAACTATAGTCACAAAAGATTATCTCCAAACTTTTTTACAAAAACAAAA
TCATATAATGAAAATTTTGTAACTATAAGTGATAATAATTATTACA
Found at i:826009 original size:412 final size:414
Alignment explanation
Indices: 825242--826025 Score: 1170
Period size: 412 Copynumber: 1.9 Consensus size: 414
825232 AATTATAGTG
825242 ACAAAATATATTGACAAAAAGATTTCCCTCCATATTTTTTTGCACCAAAAAAATCATATAATGAA
1 ACAAAATATATTGACAAAAAGATTTCCCTCCATATTTTTTTGCACCAAAAAAATCATATAATGAA
*
825307 AATTTTGTAACTATAAGTGTTAATAATTATTACAAAAAACATTGTCAAAAAAGTAATGCTATTCC
66 AATTTTGTAACTATAAGTGTTAATAATTATTACAAAAAACATTCTCAAAAAAGTAATGCTATTCC
* * *
825372 CGTTTTTGTGACAAATTATATTTGTAGTTATAAATTTTAACTATAGTGATAGCATATAGTGTCAT
131 CATTTTTGTGACAAATTATATGTGTAGTTATAAATTTTAACTATAGTGATAACATATAGTGTCAT
* * *
825437 AACTATTTGTTCTCAACTTTTTGTTTTAAAAATTATATTGACAATTTTTATAATTATAATTTATA
196 AAATATTTGTTCTCAACTTTTTGTTTCAAAAATTATATTGACAAGTTTTATAATTATAATTTATA
825502 GTTATTTTTATAGAAAAAAAATTATCACATCAAATAATAAAATTCAAGTTTTTTGTAATAAATTA
261 GTTATTTTTATAG-AAAAAAATTATCACATCAAATAATAAAATTCAAGTTTTTTGTAATAAATTA
*
825567 TTTTTGTACTTATATATTTTAATTATTATGAAAAATTAGT-CTATCAAACCATTTCTCCCTATCT
325 TTTTTGTACTTATATATTTTAATCATTATGAAAAATTA-TACTATCAAACCATTTCTCCCTATCT
825631 TTTAGTGTCAAAAATGTTATATAGAA
389 TTTAGTGTCAAAAATGTTATATAGAA
* * * ** * *
825657 ACAAAATATATTGTCATAAAGATTTTCCTCCATATTTTGTTTGTGCTAAAAAAATCATATAGT-A
1 ACAAAATATATTGACAAAAAGATTTCCCTCCATATTTT-TTTGCACCAAAAAAATCATATAATGA
* *
825721 ACAATTTTCGTAACTATAAGTGTTTATAATTATTACAAAAAA-ATTCTCACAAAAA-TAATGGTA
65 A-AATTTT-GTAACTATAAGTGTTAATAATTATTACAAAAAACATTCTCA-AAAAAGTAATGCTA
* * * * * *
825784 TTCGCATTTTTTTGGCAAATTATATGTGTAGTTATAAATTTTAATTATAGTG-TAACATATATTT
127 TTCCCATTTTTGTGACAAATTATATGTGTAGTTATAAATTTTAACTATAGTGATAACATATAGTG
* * * *
825848 TGATAAATATTT-TTCTCTACTTTTT-TTTCAAAAATTTATATTGATAAGTTTTGTAATTATAAT
192 TCATAAATATTTGTTCTCAACTTTTTGTTTCAAAAA-TTATATTGACAAGTTTTATAATTATAAT
* * *
825911 TTATAGTTATTTTTATAG-AAAAAATTATCACATTAGATAATAAAATTCAAGTTTTTTGTAATCA
256 TTATAGTTATTTTTATAGAAAAAAATTATCACATCAAATAATAAAATTCAAGTTTTTTGTAATAA
*
825975 ATTATTTTTGTAGTTATATATTTTAATCATTATGAAAAATTATACTATCAA
321 ATTATTTTTGTACTTATATATTTTAATCATTATGAAAAATTATACTATCAA
826026 CAAAAATAAA
Statistics
Matches: 332, Mismatches: 31, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
411 1 0.00
412 90 0.27
413 8 0.02
414 55 0.17
415 56 0.17
416 85 0.26
417 37 0.11
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.43
Consensus pattern (414 bp):
ACAAAATATATTGACAAAAAGATTTCCCTCCATATTTTTTTGCACCAAAAAAATCATATAATGAA
AATTTTGTAACTATAAGTGTTAATAATTATTACAAAAAACATTCTCAAAAAAGTAATGCTATTCC
CATTTTTGTGACAAATTATATGTGTAGTTATAAATTTTAACTATAGTGATAACATATAGTGTCAT
AAATATTTGTTCTCAACTTTTTGTTTCAAAAATTATATTGACAAGTTTTATAATTATAATTTATA
GTTATTTTTATAGAAAAAAATTATCACATCAAATAATAAAATTCAAGTTTTTTGTAATAAATTAT
TTTTGTACTTATATATTTTAATCATTATGAAAAATTATACTATCAAACCATTTCTCCCTATCTTT
TAGTGTCAAAAATGTTATATAGAA
Found at i:826459 original size:21 final size:21
Alignment explanation
Indices: 826433--826474 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
826423 AATTCCAGAA
*
826433 TGCTACAAGGGTATCGATACC
1 TGCTACAAGGGTACCGATACC
*
826454 TGCTACAGGGGTACCGATACC
1 TGCTACAAGGGTACCGATACC
826475 GTTACTATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (21 bp):
TGCTACAAGGGTACCGATACC
Found at i:829587 original size:18 final size:18
Alignment explanation
Indices: 829564--829620 Score: 78
Period size: 18 Copynumber: 3.0 Consensus size: 18
829554 TGTATTTTCC
829564 AACAATTGGTATCTTTTT
1 AACAATTGGTATCTTTTT
*
829582 AACAATTGATATTCTTTTGTT
1 AACAATTGGTA-TC-TTT-TT
829603 AACAATTGGTATCTTTTT
1 AACAATTGGTATCTTTTT
829621 CATTAAACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 12 0.35
19 5 0.15
20 5 0.15
21 12 0.35
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.51
Consensus pattern (18 bp):
AACAATTGGTATCTTTTT
Found at i:829606 original size:21 final size:19
Alignment explanation
Indices: 829564--829620 Score: 80
Period size: 21 Copynumber: 2.9 Consensus size: 19
829554 TGTATTTTCC
829564 AACAATTGGTATC-TTTTT
1 AACAATTGGTATCTTTTTT
*
829582 AACAATTGATATTCTTTTGTT
1 AACAATTGGTA-TCTTTT-TT
829603 AACAATTGGTATCTTTTT
1 AACAATTGGTATCTTTTT
829621 CATTAAACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 10 0.29
19 3 0.09
20 9 0.26
21 12 0.35
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.51
Consensus pattern (19 bp):
AACAATTGGTATCTTTTTT
Found at i:829965 original size:21 final size:21
Alignment explanation
Indices: 829935--829976 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
829925 AATTCCAGAA
*
829935 TGCTATAGGGGT-ATCGATACC
1 TGCTACAGGGGTAAT-GATACC
829956 TGCTACAGGGGTAATGATACC
1 TGCTACAGGGGTAATGATACC
829977 GTTATTATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (21 bp):
TGCTACAGGGGTAATGATACC
Found at i:830385 original size:33 final size:33
Alignment explanation
Indices: 830341--830410 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
830331 TTTTGTAAAG
* * *
830341 GGGAAAGGTTCTAGCTTAGCCCGTTAAAAGCTA
1 GGGAAAAGTTCTAGCTTAGCCCGTGAAAAACTA
* *
830374 GGGAAAAGTTCTAGTTTATCCCGTGAAAAACTA
1 GGGAAAAGTTCTAGCTTAGCCCGTGAAAAACTA
830407 GGGA
1 GGGA
830411 GTTGTAAAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (33 bp):
GGGAAAAGTTCTAGCTTAGCCCGTGAAAAACTA
Found at i:831402 original size:20 final size:21
Alignment explanation
Indices: 831377--831428 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
831367 TTTTCCCAAT
*
831377 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
831397 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
831418 TCGCAATGCGA
1 TCGCAATGCGA
831429 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:831442 original size:20 final size:20
Alignment explanation
Indices: 831417--831551 Score: 112
Period size: 20 Copynumber: 6.7 Consensus size: 20
831407 AATTGGGAAA
831417 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
831437 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
831457 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
831478 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
831498 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * * *
831518 TTCACAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
831538 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
831552 TTTCAAAGCG
Statistics
Matches: 94, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
19 4 0.04
20 65 0.69
21 23 0.24
22 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:831461 original size:61 final size:61
Alignment explanation
Indices: 831414--831545 Score: 174
Period size: 61 Copynumber: 2.2 Consensus size: 61
831404 GCGAATTGGG
* * * * *
831414 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * * *
831475 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCACAACGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
*
831536 ATAATCGCAA
1 AAAATCGCAA
831546 TGCGATTTTC
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.23
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:832067 original size:19 final size:20
Alignment explanation
Indices: 832024--832071 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
832014 GCGATTCTCT
832024 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
832044 CGTTGCGATAGTC-ATTTCG
1 CGTTGCGATAGTCAAATTCG
*
832063 TGTTGCGAT
1 CGTTGCGAT
832072 TTTCATTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:834009 original size:19 final size:19
Alignment explanation
Indices: 833987--834117 Score: 103
Period size: 19 Copynumber: 7.7 Consensus size: 19
833977 GGAAATTACT
833987 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
834006 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
834020 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
834039 ATCGCAA--CG---TGAAT
1 ATCGCAATGCGAAATGAAA
*
834053 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
834072 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
834086 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
834105 ATCGCAACGCGAA
1 ATCGCAATGCGAA
834118 TGCGATTCTC
Statistics
Matches: 86, Mismatches: 11, Indels: 30
0.68 0.09 0.24
Matches are distributed among these distances:
14 29 0.34
15 2 0.02
16 6 0.07
17 6 0.07
18 2 0.02
19 41 0.48
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:834029 original size:33 final size:33
Alignment explanation
Indices: 833987--834113 Score: 211
Period size: 33 Copynumber: 3.8 Consensus size: 33
833977 GGAAATTACT
833987 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
834020 ATCGCAATGCGAAATGAAAATCGCAACGTGA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
834052 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
834086 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
834114 CGAATGCGAT
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
32 1 0.01
33 85 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:834094 original size:66 final size:66
Alignment explanation
Indices: 833988--834118 Score: 244
Period size: 66 Copynumber: 2.0 Consensus size: 66
833978 GAAATTACTA
*
833988 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGTGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
834053 T
66 T
*
834054 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
834119 GCGATTCTCT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.15
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:834160 original size:33 final size:33
Alignment explanation
Indices: 834118--834189 Score: 117
Period size: 33 Copynumber: 2.2 Consensus size: 33
834108 GCAACGCGAA
*
834118 TGCGATTCTCTCGTTGCGATTTTCATTTCGCGT
1 TGCGATTCTCTCGTTGCGATTTTCATTTCGCAT
* *
834151 TGCGATTCTCTCGTTGTGATTTTCATTTTGCAT
1 TGCGATTCTCTCGTTGCGATTTTCATTTCGCAT
834184 TGCGAT
1 TGCGAT
834190 AGTACTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (33 bp):
TGCGATTCTCTCGTTGCGATTTTCATTTCGCAT
Found at i:834316 original size:14 final size:14
Alignment explanation
Indices: 834296--834332 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
834286 CATCAATTAA
834296 ACAAATCAACTTTT
1 ACAAATCAACTTTT
* *
834310 GCAAATCACCTTTT
1 ACAAATCAACTTTT
834324 ACAAATCAA
1 ACAAATCAA
834333 TTAAACAATC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.43, C:0.24, G:0.03, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:835752 original size:21 final size:21
Alignment explanation
Indices: 835686--835752 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
835676 GTGAATCGGG
*
835686 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
835706 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
835728 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
835749 CTCT
1 CTCT
835753 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:836128 original size:93 final size:89
Alignment explanation
Indices: 836019--836201 Score: 287
Period size: 90 Copynumber: 2.0 Consensus size: 89
836009 ATTTCAAACT
*
836019 TTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTACACAGTGTTAAAGAATACACAGTTTAG
1 TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTACACAGTGTT----AATAAACAGTTTAG
836083 CAGAATTGGCAGCAACCGAATAAATTTAC
62 CAGAATTGGCAGCAA-CGAATAAATTTAC
* *
836112 TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAGT
1 TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTACACAGTGTTAATAAACAGTTTAGCAGA
836177 ATTGGCAGCAACGAATAAATTTAC
66 ATTGGCAGCAACGAATAAATTTAC
836201 T
1 T
836202 AAGCAATCTA
Statistics
Matches: 86, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
89 14 0.16
90 27 0.31
93 19 0.22
94 26 0.30
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.21
Consensus pattern (89 bp):
TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTACACAGTGTTAATAAACAGTTTAGCAGA
ATTGGCAGCAACGAATAAATTTAC
Found at i:837901 original size:14 final size:14
Alignment explanation
Indices: 837882--837937 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
837872 GGAAATGACT
837882 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
837896 ATCGCAACGCGAAATGA
1 ATCGCAA--CGAGA-GA
837913 CTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
837929 ATCGCAACG
1 ATCGCAACG
837938 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 16 0.46
16 6 0.17
17 6 0.17
19 7 0.20
ACGTcount: A:0.39, C:0.25, G:0.25, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:837956 original size:33 final size:33
Alignment explanation
Indices: 837861--837945 Score: 161
Period size: 33 Copynumber: 2.5 Consensus size: 33
837851 TTGAAATGAA
837861 AATCGCAACGCGGAAATGACTATCGCAACGAGAG
1 AATCGCAACGC-GAAATGACTATCGCAACGAGAG
837895 AATCGCAACGCGAAATGACTATCGCAACGAGAG
1 AATCGCAACGCGAAATGACTATCGCAACGAGAG
837928 AATCGCAACGCGAAATGA
1 AATCGCAACGCGAAATGA
837946 AAATCACAAC
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 40 0.78
34 11 0.22
ACGTcount: A:0.40, C:0.24, G:0.25, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGACTATCGCAACGAGAG
Found at i:837971 original size:52 final size:52
Alignment explanation
Indices: 837895--838011 Score: 189
Period size: 52 Copynumber: 2.2 Consensus size: 52
837885 GCAACGAGAG
**
837895 AATCGCAACGCGAAATGACTATCGCAACGAGAGAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAA
* *
837947 AATCACAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGTGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAA
*
837999 AATCGCAATGCGA
1 AATCGCAACGCGA
838012 TTTTGGTTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 59 1.00
ACGTcount: A:0.44, C:0.21, G:0.22, T:0.12
Consensus pattern (52 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAA
Found at i:838004 original size:19 final size:18
Alignment explanation
Indices: 837853--838006 Score: 98
Period size: 19 Copynumber: 8.9 Consensus size: 18
837843 TCTTTTGGTT
837853 GAAATGAAAATCGCAACGCG
1 GAAATGAAAATCGCAA--CG
**
837873 GAAATGACTATCGCAAC-
1 GAAATGAAAATCGCAACG
*
837890 G--A-GAGAATCGCAACG
1 GAAATGAAAATCGCAACG
**
837905 CGAAATGACTATCGCAAC-
1 -GAAATGAAAATCGCAACG
*
837923 G--A-GAGAATCGCAACG
1 GAAATGAAAATCGCAACG
*
837938 CGAAATGAAAATCACAACG
1 -GAAATGAAAATCGCAACG
837957 CGAAATGAAAATCGCAAC-
1 -GAAATGAAAATCGCAACG
*
837975 G--A-GAGAATCGCAACG
1 GAAATGAAAATCGCAACG
837990 TGAAATGAAAATCGCAA
1 -GAAATGAAAATCGCAA
838007 TGCGATTTTG
Statistics
Matches: 106, Mismatches: 13, Indels: 31
0.71 0.09 0.21
Matches are distributed among these distances:
14 31 0.29
15 3 0.03
16 3 0.03
17 3 0.03
18 4 0.04
19 48 0.45
20 14 0.13
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.12
Consensus pattern (18 bp):
GAAATGAAAATCGCAACG
Found at i:838031 original size:19 final size:19
Alignment explanation
Indices: 838007--838051 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
837997 AAAATCGCAA
* *
838007 TGCGATTTTGGTTTTGCGT
1 TGCGATTTTGATTTCGCGT
*
838026 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
838045 TGCGATT
1 TGCGATT
838052 CTCTCGTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.09, C:0.13, G:0.27, T:0.51
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:839412 original size:37 final size:37
Alignment explanation
Indices: 839362--839449 Score: 176
Period size: 37 Copynumber: 2.4 Consensus size: 37
839352 AACTATACAA
839362 TTTAATTCAATTCAAGTTTTTCACTTTATAGATTGAT
1 TTTAATTCAATTCAAGTTTTTCACTTTATAGATTGAT
839399 TTTAATTCAATTCAAGTTTTTCACTTTATAGATTGAT
1 TTTAATTCAATTCAAGTTTTTCACTTTATAGATTGAT
839436 TTTAATTCAATTCA
1 TTTAATTCAATTCA
839450 GATATATAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (37 bp):
TTTAATTCAATTCAAGTTTTTCACTTTATAGATTGAT
Found at i:839464 original size:37 final size:37
Alignment explanation
Indices: 839362--839473 Score: 129
Period size: 37 Copynumber: 3.0 Consensus size: 37
839352 AACTATACAA
* * *
839362 TTTAATTCAATTCAAGTTTTTCACTTTATAGATTGAT
1 TTTAATTCAATTCAAGTATATAACTTTATAGATTGAT
* * *
839399 TTTAATTCAATTCAAGTTTTTCACTTTATAGATTGAT
1 TTTAATTCAATTCAAGTATATAACTTTATAGATTGAT
*
839436 TTTAATTCAATTC-AGATATATAATTTTATA-ATTCGAT
1 TTTAATTCAATTCAAG-TATATAACTTTATAGATT-GAT
839473 T
1 T
839474 CAATTTCATT
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
36 5 0.07
37 64 0.93
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (37 bp):
TTTAATTCAATTCAAGTATATAACTTTATAGATTGAT
Found at i:841286 original size:32 final size:32
Alignment explanation
Indices: 841242--841366 Score: 119
Period size: 32 Copynumber: 3.9 Consensus size: 32
841232 AACAAATTAA
*
841242 ATTTAGTTAAAATAAAAAATTATGTA-AAAATT
1 ATTTAGTCAAAATAAAAAATTATG-ACAAAATT
* *
841274 ATTTAGTCAAAATAAAAAATTTTGACAAATTT
1 ATTTAGTCAAAATAAAAAATTATGACAAAATT
* * * *
841306 ATTTAATCAAAATAATAATTTATAACAAATATT
1 ATTTAGTCAAAATAAAAAATTATGACAAA-ATT
* * *
841339 AATTT-CTCAATATAAAAAATTGTGACAA
1 -ATTTAGTCAAAATAAAAAATTATGACAA
841367 GTAATATTCT
Statistics
Matches: 75, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
31 1 0.01
32 51 0.68
33 19 0.25
34 4 0.05
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.37
Consensus pattern (32 bp):
ATTTAGTCAAAATAAAAAATTATGACAAAATT
Found at i:841392 original size:98 final size:96
Alignment explanation
Indices: 841284--841605 Score: 273
Period size: 98 Copynumber: 3.3 Consensus size: 96
841274 ATTTAGTCAA
* *
841284 AATAAAAAATTTTGACAAATTTATTTAATCAAAATAATAATTTATAACAAATATTAATTTCTCAA
1 AATAAAAAATTGTAACAAATTTATTTAATCAAAATAATAATTTATAACAAATATTAATTTCTCAA
* *
841349 TATAAAAAATTGTGACAAGTAATATTCTTTTAC
66 TATAAAATATT-TGACAA-TAATATTCTTTCAC
* * * * * **
841382 AATAACAAATTGTAACAAAATGATTTAATCATAATAACACGTTAAATTTA-ATCAAAGTAAAAAG
1 AATAAAAAATTGTAACAAATTTATTTAATCAAAAT-A-A---T-AATTTATAACAAA-TATTAA-
* * * *
841446 TTATGTCAA-AT---TTATTTCATC-ATAATATT-TTGTCAA
58 TT-TCTCAATATAAAATATTTGA-CAATAATATTCTT-TCAC
* * *
841482 AATAAAAAATTGTGACAAATTTATTTAATCAAAATAACAATTTATAACAAATATTAATTTCTCAT
1 AATAAAAAATTGTAACAAATTTATTTAATCAAAATAATAATTTATAACAAATATTAATTTCTCAA
*
841547 TATAAAATTTTTTGACAAATAATATTCTTTCAC
66 TATAAAA-TATTTGAC-AATAATATTCTTTCAC
*
841580 AATAACAAATTGTAACAAA-TTATTTA
1 AATAAAAAATTGTAACAAATTTATTTA
841606 GTCACAGTAA
Statistics
Matches: 172, Mismatches: 32, Indels: 41
0.70 0.13 0.17
Matches are distributed among these distances:
92 4 0.02
93 4 0.02
94 10 0.06
95 5 0.03
96 1 0.01
97 12 0.07
98 58 0.34
99 6 0.03
100 40 0.23
101 3 0.02
102 4 0.02
103 6 0.03
104 10 0.06
105 4 0.02
106 5 0.03
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (96 bp):
AATAAAAAATTGTAACAAATTTATTTAATCAAAATAATAATTTATAACAAATATTAATTTCTCAA
TATAAAATATTTGACAATAATATTCTTTCAC
Found at i:841448 original size:23 final size:23
Alignment explanation
Indices: 841404--841448 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
841394 TAACAAAATG
* *
841404 ATTTAATCATAATAACACGTTAA
1 ATTTAATCATAATAAAAAGTTAA
841427 ATTTAATCA-AAGTAAAAAGTTA
1 ATTTAATCATAA-TAAAAAGTTA
841449 TGTCAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (23 bp):
ATTTAATCATAATAAAAAGTTAA
Found at i:843434 original size:35 final size:36
Alignment explanation
Indices: 843404--843479 Score: 129
Period size: 36 Copynumber: 2.2 Consensus size: 36
843394 TTGGTGGTTA
843404 TATAGGCGTG-AAATGGTGATAGAAGATGGTGATGT
1 TATAGGCGTGAAAATGGTGATAGAAGATGGTGATGT
*
843439 TATAGGCGTGAAAATGGTGATGGAAGATGGTGATGT
1 TATAGGCGTGAAAATGGTGATAGAAGATGGTGATGT
843475 T-TAGG
1 TATAGG
843480 TAGTATCTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
35 14 0.36
36 25 0.64
ACGTcount: A:0.30, C:0.03, G:0.38, T:0.29
Consensus pattern (36 bp):
TATAGGCGTGAAAATGGTGATAGAAGATGGTGATGT
Found at i:847437 original size:6 final size:6
Alignment explanation
Indices: 847419--847459 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
847409 TGTAAGAGTC
*
847419 TTTTCT TTCTCT TTTTCT TTTTCTT TTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTC-T TTTTCT TTTTCT TTTT
847460 GTTGCTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:847448 original size:13 final size:13
Alignment explanation
Indices: 847419--847459 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
847409 TGTAAGAGTC
*
847419 TTTTCTTTCTC-T
1 TTTTCTTTTTCTT
847431 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
847444 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
847457 TTT
1 TTT
847460 GTTGCTTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 10 0.37
13 17 0.63
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTTTTTCTT
Found at i:847875 original size:35 final size:36
Alignment explanation
Indices: 847845--847920 Score: 120
Period size: 36 Copynumber: 2.2 Consensus size: 36
847835 TTGGTGGTTA
*
847845 TATAGGCGTG-AAATTGTGATAGAAGATGGTGATGT
1 TATAGGCGTGAAAATGGTGATAGAAGATGGTGATGT
*
847880 TATAGGCGTGAAAATGGTGATGGAAGATGGTGATGT
1 TATAGGCGTGAAAATGGTGATAGAAGATGGTGATGT
847916 T-TAGG
1 TATAGG
847921 TAGTATCTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 14 0.37
36 24 0.63
ACGTcount: A:0.30, C:0.03, G:0.37, T:0.30
Consensus pattern (36 bp):
TATAGGCGTGAAAATGGTGATAGAAGATGGTGATGT
Found at i:849715 original size:60 final size:60
Alignment explanation
Indices: 849617--849732 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 60
849607 ATAGTTTAGG
* * ** *
849617 GATGAAATTAAAATGTTCAAAAGTTTAATTAATGATTTAAATTGAGAGTCATAGTTCGAT
1 GATGAAATTAAAATATTCAAAAGTTTAATCAACAATTTAAAATGAGAGTCATAGTTCGAT
* *
849677 GATGAAATTAGAATATTCAAAAGTTTAA-CAACCAATTTAAAATGAGAGTTATAGTT
1 GATGAAATTAAAATATTCAAAAGTTTAATCAA-CAATTTAAAATGAGAGTCATAGTT
849733 TAAGGACATA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
59 2 0.04
60 46 0.96
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (60 bp):
GATGAAATTAAAATATTCAAAAGTTTAATCAACAATTTAAAATGAGAGTCATAGTTCGAT
Found at i:850277 original size:62 final size:62
Alignment explanation
Indices: 850175--850301 Score: 193
Period size: 62 Copynumber: 2.0 Consensus size: 62
850165 AAAATATTTG
* * *
850175 TTAAATAAAAACACACAATTGTGTTAAATTTAGAACAGATTTATTACTATAATAGTAGTGAA
1 TTAAATAAAAACAAACAATTGTGTTAAATCTAGAACAGATTTATTACTATAATAGTAATGAA
* *
850237 TTAAA-AAAGAACAAACAATTGTGTTAAATCTAGTATAGATTTATTACTATAATAGTAATGAA
1 TTAAATAAA-AACAAACAATTGTGTTAAATCTAGAACAGATTTATTACTATAATAGTAATGAA
850299 TTA
1 TTA
850302 CTTGCCATAA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 3 0.05
62 56 0.95
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (62 bp):
TTAAATAAAAACAAACAATTGTGTTAAATCTAGAACAGATTTATTACTATAATAGTAATGAA
Found at i:851433 original size:54 final size:54
Alignment explanation
Indices: 851323--851526 Score: 191
Period size: 54 Copynumber: 3.8 Consensus size: 54
851313 TTGGTGGTAG
* * **
851323 CTCAAGTGCTGCTGCAGAACAGGTG-CTGCCAAGGCATCCTTATGGTAATGGATC
1 CTCAAGTGCTGCTGCAGAACAGGTGTC-GCCAAGACATCCTTTTGGTGGTGGATC
* * * * *
851377 CTCAAGTGCTGCTGCAGAAGAAGTGTCGCCAAGATATCCTTTTGGTGGCGGCTC
1 CTCAAGTGCTGCTGCAGAACAGGTGTCGCCAAGACATCCTTTTGGTGGTGGATC
* * * * ** * * *
851431 CTCAACTACTACTGCAGAACAGGTGCCAACAAGATATCCTCTTGGTGGTGGGTC
1 CTCAAGTGCTGCTGCAGAACAGGTGTCGCCAAGACATCCTTTTGGTGGTGGATC
* *
851485 CTCAA---CTGCTGCAGAACATGTGTCGCCAAGGCATCCTTTTGG
1 CTCAAGTGCTGCTGCAGAACAGGTGTCGCCAAGACATCCTTTTGG
851527 AGATGTTTCC
Statistics
Matches: 121, Mismatches: 28, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
51 29 0.24
54 91 0.75
55 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.25
Consensus pattern (54 bp):
CTCAAGTGCTGCTGCAGAACAGGTGTCGCCAAGACATCCTTTTGGTGGTGGATC
Found at i:856645 original size:110 final size:111
Alignment explanation
Indices: 856458--856663 Score: 258
Period size: 110 Copynumber: 1.9 Consensus size: 111
856448 ATATACTAAT
***
856458 AATATACAACATGCATGAAAAAAGGGTAAATAACAAGTTTGGTCCTTTTAGGTAACCAAAATGTA
1 AATATACAACATGCATGAAAAAAGGGTAAATAACAAGTTTGGTCCTCGCAGGTAACCAAAATGTA
* **
856523 AAAATGTGCTAAA-CTATGGGTGAC-TAAACAACTAATATTCCAATA
66 AAAACGCACTAAACCTATGGG-GACTTAAACAACTAATATTCCAATA
* ** * *
856568 AATATATAACATGCATG-AAAAAGGGTAAATAACGATTTTTGGTCCTCGCAGGTGACCAAAGTG-
1 AATATACAACATGCATGAAAAAAGGGTAAATAAC-AAGTTTGGTCCTCGCAGGTAACCAAAATGT
856631 AGAAAACGCACTAAACCTATGGGGACTTAAACA
65 A-AAAACGCACTAAACCTATGGGGACTTAAACA
856664 TGATTTTACT
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
109 17 0.21
110 51 0.63
111 13 0.16
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.24
Consensus pattern (111 bp):
AATATACAACATGCATGAAAAAAGGGTAAATAACAAGTTTGGTCCTCGCAGGTAACCAAAATGTA
AAAACGCACTAAACCTATGGGGACTTAAACAACTAATATTCCAATA
Found at i:858515 original size:261 final size:260
Alignment explanation
Indices: 858061--858529 Score: 686
Period size: 261 Copynumber: 1.8 Consensus size: 260
858051 AGAGAAAATG
* * * * * *
858061 ATAATATCTAATTATTTTCGATCGATAATAAATGACCTCTCATGCCTTAAAGCATTCATTTATAC
1 ATAATATCTAATGATTTTCAATCGAGAATAAATGACCTCTCATACCATAAAGCAGTCATTTATAC
* * *** * * *
858126 TCCAATCGAAATGAAGAGATATCACTATTTTGTCTTAAAATTCAATATCAATTCGAGTGAAAATG
66 TCCAATCAAAATGAACAGATATCACTATTCCATCTTAAAAATCAATATCAATTCGAGAGAAAACG
* * * *
858191 ATAATATCTAATGATTTCCAATCGAGAATAAATGACTTCTCATACCTTAAAGCAGCCATTTATTG
131 ATAATATCGAATGATTTCCAATCAAGAATAAATGACCTCTCATACCTTAAAGCAGCCATTTATTA
*
858256 CTCCAATCAAAATGAAGAGATATCACTATTTCGTCTTAAAAATCAATATTGATTCGAGAGAAACA
196 CTCCAACCAAAATGAAGAGATATCACTATTTCGTCTTAAAAATCAATATTGATTCGAGAGAAACA
*
858321 ATAATATCTAATGATTTTCAATCGAGAATAAATGATCTCTCATACCATAAAGCAGTCATTTATTA
1 ATAATATCTAATGATTTTCAATCGAGAATAAATGACCTCTCATACCATAAAGCAGTCATTTA-TA
* **
858386 CTCCAATCAAAATGAACATATATCACTATTCCATCTTAAAAATCAATATTGATTCGAGAGAAAAC
65 CTCCAATCAAAATGAACAGATATCACTATTCCATCTTAAAAATCAATATCAATTCGAGAGAAAAC
* * * *
858451 GATAATATCGAATTATTTCCAATCAAGAATAAATGACCTCTCATGCCTTAAAGTAGTCATTTATT
130 GATAATATCGAATGATTTCCAATCAAGAATAAATGACCTCTCATACCTTAAAGCAGCCATTTATT
858516 ACTCCAACCAAAAT
195 ACTCCAACCAAAAT
858530 AAAAAAAATA
Statistics
Matches: 181, Mismatches: 27, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
260 55 0.30
261 126 0.70
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (260 bp):
ATAATATCTAATGATTTTCAATCGAGAATAAATGACCTCTCATACCATAAAGCAGTCATTTATAC
TCCAATCAAAATGAACAGATATCACTATTCCATCTTAAAAATCAATATCAATTCGAGAGAAAACG
ATAATATCGAATGATTTCCAATCAAGAATAAATGACCTCTCATACCTTAAAGCAGCCATTTATTA
CTCCAACCAAAATGAAGAGATATCACTATTTCGTCTTAAAAATCAATATTGATTCGAGAGAAACA
Found at i:858528 original size:131 final size:131
Alignment explanation
Indices: 858051--858529 Score: 665
Period size: 130 Copynumber: 3.7 Consensus size: 131
858041 TAATTCTAAT
* * * * * * *
858051 AGAGAAAATGATAATATCTAATTATTTTCGATCGATAATAAATGACCTCTCATGCCTTAAAGCAT
1 AGAGAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAG
* * * **
858116 TCATTTA-TACTCCAATCGAAATGAAGAGATATCACTATTTTGTCTTAAAATTCAATATCAATTC
66 TCATTTATTACTCCAATCAAAATGAAGAGATATCACTATTTCGTCTTAAAAATCAATATTGATTC
858180 G
131 G
* * *
858181 AGTGAAAATGATAATATCTAATGATTTCCAATCGAGAATAAATGACTTCTCATACCTTAAAGCAG
1 AGAGAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAG
* *
858246 CCATTTATTGCTCCAATCAAAATGAAGAGATATCACTATTTCGTCTTAAAAATCAATATTGATTC
66 TCATTTATTACTCCAATCAAAATGAAGAGATATCACTATTTCGTCTTAAAAATCAATATTGATTC
858311 G
131 G
* * * *
858312 AGAG-AAACAATAATATCTAATGATTTTCAATCGAGAATAAATGATCTCTCATACCATAAAGCAG
1 AGAGAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAG
* * * *
858376 TCATTTATTACTCCAATCAAAATGAACATATATCACTATTCCATCTTAAAAATCAATATTGATTC
66 TCATTTATTACTCCAATCAAAATGAAGAGATATCACTATTTCGTCTTAAAAATCAATATTGATTC
858441 G
131 G
* * * * *
858442 AGAGAAAACGATAATATCGAATTATTTCCAATCAAGAATAAATGACCTCTCATGCCTTAAAGTAG
1 AGAGAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAG
*
858507 TCATTTATTACTCCAACCAAAAT
66 TCATTTATTACTCCAATCAAAAT
858530 AAAAAAAATA
Statistics
Matches: 309, Mismatches: 38, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
130 181 0.59
131 128 0.41
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.32
Consensus pattern (131 bp):
AGAGAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAG
TCATTTATTACTCCAATCAAAATGAAGAGATATCACTATTTCGTCTTAAAAATCAATATTGATTC
G
Found at i:859044 original size:21 final size:21
Alignment explanation
Indices: 859013--859062 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
859003 AGCAACATGG
859013 GAAAATTAAAATAAAATGAAAT
1 GAAAA-TAAAATAAAATGAAAT
* *
859035 TAAAATAAAATGAAATGAAAT
1 GAAAATAAAATAAAATGAAAT
859056 GAAAATA
1 GAAAATA
859063 GGACTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.22
Consensus pattern (21 bp):
GAAAATAAAATAAAATGAAAT
Found at i:859061 original size:16 final size:16
Alignment explanation
Indices: 859015--859050 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
859005 CAACATGGGA
859015 AAATTAAAATAAAATG
1 AAATTAAAATAAAATG
859031 AAATTAAAATAAAATG
1 AAATTAAAATAAAATG
859047 AAAT
1 AAAT
859051 GAAATGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (16 bp):
AAATTAAAATAAAATG
Found at i:860708 original size:3 final size:3
Alignment explanation
Indices: 860702--860746 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
860692 TAAAAAAAAT
* *
860702 ATA ATA ATA ATA ATA ATA ATA ATA A-A ACAA ATA ATA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
860747 TTATCGGGAC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.89
4 2 0.05
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:861073 original size:131 final size:133
Alignment explanation
Indices: 860925--861170 Score: 309
Period size: 132 Copynumber: 1.9 Consensus size: 133
860915 AAACGTTGGC
* * *
860925 TCATTCCACAGTTCTTCAGGGAAGATT-AATTCAAGG-AGACTAGTTCCACTGTTACTTAGGGAA
1 TCATTCCACAGTTCTTCAGGAAAGATTGAA-TCAAGGTAAACTAGTTCCACTGTTACTCAGGGAA
* * * *
860988 TATCAAATCTGGAAAGAGAGGGATAT-ATCCACTACTTCTTGAGGGAAAATCATATTTAAAATGT
65 GATAAAATCTGAAAAAAGAGGGATATGATCCACTACTTCTTGAGGGAAAATCATATTTAAAATGT
861052 TGAT
130 TGAT
* * * * *
861056 TCATTCCACTGTTCTTCAGGAAAGATTGAATCGAGGTAAACTTGTTCCACTTTTCCTCAGGGAAG
1 TCATTCCACAGTTCTTCAGGAAAGATTGAATCAAGGTAAACTAGTTCCACTGTTACTCAGGGAAG
* * * **
861121 ATAAAATCTGAAAAAAGATGGATTTGTTCTGCTACTTCTTGAGGGAAAAT
66 ATAAAATCTGAAAAAAGAGGGATATGATCCACTACTTCTTGAGGGAAAAT
861171 TAGATCTAGG
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
131 30 0.32
132 44 0.46
133 21 0.22
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (133 bp):
TCATTCCACAGTTCTTCAGGAAAGATTGAATCAAGGTAAACTAGTTCCACTGTTACTCAGGGAAG
ATAAAATCTGAAAAAAGAGGGATATGATCCACTACTTCTTGAGGGAAAATCATATTTAAAATGTT
GAT
Found at i:868109 original size:24 final size:24
Alignment explanation
Indices: 868082--868132 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
868072 TCCGATTTGA
868082 ATTCTGTTATAATACCTGACATGG
1 ATTCTGTTATAATACCTGACATGG
* * *
868106 ATTCTGTTCTAATATCTGACCTGG
1 ATTCTGTTATAATACCTGACATGG
868130 ATT
1 ATT
868133 TTTTATGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (24 bp):
ATTCTGTTATAATACCTGACATGG
Found at i:873630 original size:20 final size:20
Alignment explanation
Indices: 873605--873821 Score: 130
Period size: 20 Copynumber: 9.7 Consensus size: 20
873595 TAACTAAAAT
*
873605 GCATGAAAGTATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
873625 GCATGAAAGGATGCCATAATTAAAT
1 GCATGAAAGGATG-C---ATT-AAG
*
873650 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
873670 GCATGAAAGGATGACATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
873696 GCATGAAAGGATG-ATTTAAG
1 GCATGAAAGGATGCA-TTAAG
*
873716 GCATGAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATG-C---ATT--AAG
*
873742 ACATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
873762 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
*
873788 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
873808 GCATGAAAGCATGC
1 GCATGAAAGGATGC
873822 CATAACTAAA
Statistics
Matches: 156, Mismatches: 16, Indels: 50
0.70 0.07 0.23
Matches are distributed among these distances:
20 69 0.44
21 10 0.06
22 5 0.03
24 9 0.06
25 20 0.13
26 43 0.28
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:873631 original size:46 final size:46
Alignment explanation
Indices: 873579--873833 Score: 392
Period size: 46 Copynumber: 5.6 Consensus size: 46
873569 TAACTAAAAT
873579 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGTATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGTATGCATTAAG
*
873625 GCATGAAAGGATGCCATAA-TTAAATGCATGAAA-TGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGT-ATGCATTAAG
* *
873670 GCATGAAAGGATGACATAACTAAAATGCATGAAAGGATG-ATTTAAG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGTATGCA-TTAAG
* * *
873716 GCATGAAAGGATGCCATAATTAAAATACATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGTATGCATTAAG
873762 GCATGAAAGGATGCCATAACTAAAATGCATGAAA-TGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGT-ATGCATTAAG
*
873808 GCATGAAAGCATGCCATAACTAAAAT
1 GCATGAAAGGATGCCATAACTAAAAT
873834 TTACGCATAA
Statistics
Matches: 192, Mismatches: 11, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
44 1 0.01
45 42 0.22
46 148 0.77
47 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (46 bp):
GCATGAAAGGATGCCATAACTAAAATGCATGAAAGTATGCATTAAG
Found at i:889272 original size:18 final size:19
Alignment explanation
Indices: 889248--889284 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
889238 AATGTGTGCC
889248 AAAAAAAGG-GTGGTGTGAT
1 AAAAAAAGGTG-GGTGTGAT
889267 AAAAAAAGGTGGGTGTGA
1 AAAAAAAGGTGGGTGTGA
889285 CTGTGGTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.43, C:0.00, G:0.38, T:0.19
Consensus pattern (19 bp):
AAAAAAAGGTGGGTGTGAT
Found at i:898280 original size:38 final size:38
Alignment explanation
Indices: 898238--898315 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
898228 TGCTATGTCA
898238 TGACAATCAGATTTGTTATCTAGCCTAGACAAATGGTC
1 TGACAATCAGATTTGTTATCTAGCCTAGACAAATGGTC
*
898276 TGACAATCAGATTTTTTATCTAGCCTAGACAAATGGTC
1 TGACAATCAGATTTGTTATCTAGCCTAGACAAATGGTC
898314 TG
1 TG
898316 CCACTTGATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (38 bp):
TGACAATCAGATTTGTTATCTAGCCTAGACAAATGGTC
Found at i:902070 original size:40 final size:40
Alignment explanation
Indices: 902026--902146 Score: 235
Period size: 40 Copynumber: 3.0 Consensus size: 40
902016 ACCGTAGTGC
902026 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
902066 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
902106 TACACATAAGGTCGTGCCCACCATATACACCG-AGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
902145 TA
1 TA
902147 TAAACCTGCA
Statistics
Matches: 81, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
39 9 0.11
40 72 0.89
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:916946 original size:167 final size:172
Alignment explanation
Indices: 916656--917001 Score: 513
Period size: 167 Copynumber: 2.0 Consensus size: 172
916646 AAGTCATTGA
* * *
916656 GAATTGGGTTCAAATGATCTCTTATTGCTCTTGGTGTTGCAACTTGAAGATTAATTATTGTATCG
1 GAATTGGGTTCAAATGATCTCTTATTGATCTTGGTCTTACAACTTGAAGATTAA-TA-T-TATCG
* * *
916721 GGATGGTTGTGATCTCCCATGTTGTTGCCTTGTAATTGTAGTTGGTTTAAATGTTCTCTGGTTAT
63 GGATCGTCGTGATCTCCCATGTTGTTGCCTTGTAATTGTAGTTGGCTTAAATGTTCTCTGGTTAT
* * * * *
916786 TTGGTCACGTAGCCTCTTTTTGAATAATTGTTTAACTTTAGGGTC
128 TTGGTCACGTAGCCTATGTCTGAATAATTGTTCAACTTCAGGGTC
*
916831 GAATTGGGTTTAAATGATCTCTTATTGATCTTGGTCTTACAACTTGAAGATT-A-A-T-T-GGGA
1 GAATTGGGTTCAAATGATCTCTTATTGATCTTGGTCTTACAACTTGAAGATTAATATTATCGGGA
916891 TCGTCGTGATCTCCCATGTTGTTGCCTTGTAATTGTAGTTGGCTTAAATGTTCTCTGGTTATTTG
66 TCGTCGTGATCTCCCATGTTGTTGCCTTGTAATTGTAGTTGGCTTAAATGTTCTCTGGTTATTTG
*
916956 GTCACGTAGCCTATGTCTGAATGATTGTTCAACTTCAGGGTC
131 GTCACGTAGCCTATGTCTGAATAATTGTTCAACTTCAGGGTC
916998 GAAT
1 GAAT
917002 GGTTCTAATG
Statistics
Matches: 158, Mismatches: 13, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
167 106 0.67
168 1 0.01
169 1 0.01
172 1 0.01
174 1 0.01
175 48 0.30
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.42
Consensus pattern (172 bp):
GAATTGGGTTCAAATGATCTCTTATTGATCTTGGTCTTACAACTTGAAGATTAATATTATCGGGA
TCGTCGTGATCTCCCATGTTGTTGCCTTGTAATTGTAGTTGGCTTAAATGTTCTCTGGTTATTTG
GTCACGTAGCCTATGTCTGAATAATTGTTCAACTTCAGGGTC
Found at i:919839 original size:130 final size:130
Alignment explanation
Indices: 919527--920022 Score: 631
Period size: 131 Copynumber: 3.8 Consensus size: 130
919517 ATTCAATGAA
* * * *
919527 AGAAAATGATAATATCTAATTATTTCCGATCGAGAATAAATGACCTCTCATGCCTTAAACCA-AT
1 AGAAAATGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAGA-
* * * ** *
919591 CATTTATTACTCCAATCAAAAT-AAAGAGATATCACTATTTCTTCTTAAAATTCAATATCAAATC
65 CATTTATTACTCCAATCGAAATGAAA-AGATATCACTATTCCATCTTAAAA-TCAATATTGATTC
919655 GAG
128 GAG
* * ** * *
919658 TGAAAACGATAATATCTAATGATTTATAATCGAGAATAAATGACATCTCATACCTTACAGCAGAC
1 AGAAAATGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAGAC
* *
919723 ATTTATTGCTCCAATCGAAATGAAAAGATATCAGTATTCCATCTTTAAAATCAATATTGATTCGA
66 ATTTATTACTCCAATCGAAATGAAAAGATATCACTATTCCATC-TTAAAATCAATATTGATTCGA
919788 G
130 G
**
919789 AG-AAATGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCATTC
1 AGAAAATGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAGAC
* * * *
919853 ATTTATTGCTCCAATCGAAATGAAGAGATATCACTATTCCATCATAAAAATCAATATTGTTTCGA
66 ATTTATTACTCCAATCGAAATGAAAAGATATCACTATTCCATC-TTAAAATCAATATTGATTCGA
919918 G
130 G
* * * *
919919 AGAAAACT-ATAATATCGAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAGT
1 AGAAAA-TGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAGA
* * *
919983 CATTTATTACTCCAACCGAGATGAAAAGATATTACTATTC
65 CATTTATTACTCCAATCGAAATGAAAAGATATCACTATTC
920023 TCGATATCGA
Statistics
Matches: 320, Mismatches: 40, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
130 118 0.37
131 191 0.60
132 11 0.03
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (130 bp):
AGAAAATGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAGAC
ATTTATTACTCCAATCGAAATGAAAAGATATCACTATTCCATCTTAAAATCAATATTGATTCGAG
Found at i:920009 original size:261 final size:261
Alignment explanation
Indices: 919530--920014 Score: 709
Period size: 261 Copynumber: 1.9 Consensus size: 261
919520 CAATGAAAGA
* * *
919530 AAATGATAATATCTAATTATTTCCGATCGAGAATAAATGACCTCTCATGCCTTAAACCAATCATT
1 AAATGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAACCAATCATT
* * * * *
919595 TATTACTCCAATCAAAATAAAGAGATATCACTATTTCTTCTTAAAATTCAATATCAAATCGAGTG
66 TATTACTCCAATCAAAATAAAGAGATATCACTATTCCATCATAAAAATCAATATCAAATCGAGAG
* * *
919660 AAAACGATAATATCTAATGATTTATAATCGAGAATAAATGACATCTCATACCTTACAGCAGACAT
131 AAAACGATAATATCGAATGATTTACAATCGAGAATAAATGACATCTCATACCTTAAAGCAGACAT
* *
919725 TTATTGCTCCAATCGAAATGAAAAGATATCAGTATTCCATCTTTAAAATCAATATTGATTCGAGA
196 TTATTACTCCAACCGAAATGAAAAGATATCAGTATTCCATCTTTAAAATCAATATTGATTCGAGA
919790 G
261 G
* *
919791 AAATGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCATTCATT
1 AAATGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAACCAATCATT
* * * ****
919856 TATTGCTCCAATCGAAATGAAGAGATATCACTATTCCATCATAAAAATCAATATTGTTTCGAGAG
66 TATTACTCCAATCAAAATAAAGAGATATCACTATTCCATCATAAAAATCAATATCAAATCGAGAG
* * * * * *
919921 AAAACTATAATATCGAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAGTCAT
131 AAAACGATAATATCGAATGATTTACAATCGAGAATAAATGACATCTCATACCTTAAAGCAGACAT
*
919986 TTATTACTCCAACCGAGATGAAAAGATAT
196 TTATTACTCCAACCGAAATGAAAAGATAT
920015 TACTATTCTC
Statistics
Matches: 195, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
261 195 1.00
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (261 bp):
AAATGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAACCAATCATT
TATTACTCCAATCAAAATAAAGAGATATCACTATTCCATCATAAAAATCAATATCAAATCGAGAG
AAAACGATAATATCGAATGATTTACAATCGAGAATAAATGACATCTCATACCTTAAAGCAGACAT
TTATTACTCCAACCGAAATGAAAAGATATCAGTATTCCATCTTTAAAATCAATATTGATTCGAGA
G
Found at i:922186 original size:21 final size:21
Alignment explanation
Indices: 922161--922207 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
922151 GGATCTGTAA
922161 AATAAAAAAATTAATAATAAT
1 AATAAAAAAATTAATAATAAT
* * * *
922182 AATAATAATATTATTATTAAT
1 AATAAAAAAATTAATAATAAT
922203 AATAA
1 AATAA
922208 TTATAAAGCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AATAAAAAAATTAATAATAAT
Found at i:922906 original size:41 final size:40
Alignment explanation
Indices: 922861--922969 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 40
922851 CCTGAAGGTT
* *
922861 TTATAGATGGCCCGAAGTACTTATCATCTTGCTCGAAAGGC
1 TTATAGATGGCCCGAAG-ACTTATCATCATGCTCGAAAGAC
* * *
922902 TTATAGATGACCCAAAGAGTTTAATCATCATGCTCGAAAGAC
1 TTATAGATGGCCCGAAGA-CTT-ATCATCATGCTCGAAAGAC
922944 TTACT-GATGGCCCGAAGGACTTATCA
1 TTA-TAGATGGCCCGAA-GACTTATCA
922970 ATTTTGGAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
40 1 0.02
41 21 0.38
42 31 0.55
43 3 0.05
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (40 bp):
TTATAGATGGCCCGAAGACTTATCATCATGCTCGAAAGAC
Found at i:923416 original size:41 final size:40
Alignment explanation
Indices: 923371--923468 Score: 99
Period size: 41 Copynumber: 2.4 Consensus size: 40
923361 GGATGGCCCA
*
923371 AAGGACTTATCATCTTGCTCAAAAGACTTA-TAGATGAACAG
1 AAGGACTTATCATCATGCTCAAAAGACTTACT-GATG-ACAG
* * ** *
923412 AAGGATTTAAGCATCATGCTTGAAAGACTTACTGATGACCG
1 AAGGACTT-ATCATCATGCTCAAAAGACTTACTGATGACAG
923453 AAGGACTTACTCATCA
1 AAGGACTTA-TCATCA
923469 AGAAACCCAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
40 1 0.02
41 22 0.48
42 22 0.48
43 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (40 bp):
AAGGACTTATCATCATGCTCAAAAGACTTACTGATGACAG
Found at i:923418 original size:238 final size:237
Alignment explanation
Indices: 922984--923463 Score: 558
Period size: 238 Copynumber: 2.0 Consensus size: 237
922974 TGGAAATATT
* * * **
922984 TTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTTATTTTCTGAAAATAC
1 TTACTAAGTAAGAAACTTTGGAAATCACTTTCTTACTATTCAAAAAATCAATTTTCTGAAAATAC
*
923049 TAAATGAGAAACTTTGAAAATCGTTTTCTCATTTTTCGAAAATCATGTGAAATCATACTGCTCAA
66 TAAATGAGAAACTTTGAAAATCATTTTCTCATTTTTCGAAAATCATGTGAAATCATACTGCTCAA
** * * ** *
923114 AGGTCTTATAGATGACCTGAAGGATTTATCTTCTTGCTTGAAAGACTAAAAGATGACCCAAAGGA
131 AGGTCTTATAGATGACCCAAAGGACTTATCATCTTGCTCAAAAGACTAAAAGATGACACAAAGGA
* * *
923179 TTTAAGCATCATGCTCAAAAGACATAGTGATGGCTCGAGGGAC
196 TTTAAGCATCATGCTCAAAAGACATACTGATGAC-CGAAGGAC
*** *
923222 TTACTAAGTAAGAAACTTTGGAAATTGTTTTCTTAC-ATT-AAAAAATCAATTTTTTAGAAAATA
1 TTACTAAGTAAGAAACTTTGGAAATCACTTTCTTACTATTCAAAAAATCAATTTTCT-GAAAATA
* * * * *
923285 TTTAAATGAGAAACTTTGAAAATCATTTTTTCATTTTAT-GAACATCATTTGAAA--ATGTCATG
65 -CTAAATGAGAAACTTTGAAAATCATTTTCTCATTTT-TCGAAAATCATGTGAAATCAT-AC-TG
* * * * *
923347 CTCGAAGGTCTTATGGATGGCCCAAAGGACTTATCATCTTGCTCAAAAGACTTATAGATGA-ACA
126 CTCAAAGGTCTTATAGATGACCCAAAGGACTTATCATCTTGCTCAAAAGACTAAAAGATGACACA
** *
923411 GAAGGATTTAAGCATCATGCTTGAAAGACTTACTGATGACCGAAGGAC
191 -AAGGATTTAAGCATCATGCTCAAAAGACATACTGATGACCGAAGGAC
923459 TTACT
1 TTACT
923464 CATCAAGAAA
Statistics
Matches: 203, Mismatches: 33, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
236 14 0.07
237 24 0.12
238 164 0.81
239 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (237 bp):
TTACTAAGTAAGAAACTTTGGAAATCACTTTCTTACTATTCAAAAAATCAATTTTCTGAAAATAC
TAAATGAGAAACTTTGAAAATCATTTTCTCATTTTTCGAAAATCATGTGAAATCATACTGCTCAA
AGGTCTTATAGATGACCCAAAGGACTTATCATCTTGCTCAAAAGACTAAAAGATGACACAAAGGA
TTTAAGCATCATGCTCAAAAGACATACTGATGACCGAAGGAC
Found at i:923599 original size:57 final size:58
Alignment explanation
Indices: 923463--923621 Score: 189
Period size: 57 Copynumber: 2.7 Consensus size: 58
923453 AAGGACTTAC
* * * *
923463 TCATCAAGAAACCCATGAAAATTAAGCTTAGTTTC-TTAAAAACTTTCATTTACAATTA
1 TCATCAAGAAACCCATGAAAATTAGGCTTAGCTTCTTTAAAAAC-TTCATTGACAATAA
* * *
923521 TCATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAA-TTCATTGGA-AGTAA
1 TCATCAAGAAACCCATGAAAATTAGGCTTAGCTTCTTTAAAAACTTCATT-GACAATAA
* *
923578 TCATCAAGAAACCCATGAAAATTAGGCTTATCTTATTTTAAAAA
1 TCATCAAGAAACCCATGAAAATTAGGCTTAGCTT-CTTTAAAAA
923622 GTCCATCATG
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
57 40 0.46
58 40 0.46
59 7 0.08
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (58 bp):
TCATCAAGAAACCCATGAAAATTAGGCTTAGCTTCTTTAAAAACTTCATTGACAATAA
Found at i:923725 original size:55 final size:55
Alignment explanation
Indices: 923632--923802 Score: 179
Period size: 55 Copynumber: 3.2 Consensus size: 55
923622 GTCCATCATG
* * *
923632 TCAAGAAACCTCTAAAA--ATGACTTAGTTCCTTTGAAAACTCATTTAAAAATTA
1 TCAAGAAACTTCTAAAATTAAGACTTAGTTTCTTTGAAAACTCATTTAAAAATTA
* * *
923685 TCAAGAAACTTCTAAAATTAAGAGTTAGTTTCTTTGAAAACTCATTTAAGAATCA
1 TCAAGAAACTTCTAAAATTAAGACTTAGTTTCTTTGAAAACTCATTTAAAAATTA
* * * * * * * *
923740 TCGAGAAATTTTTGAAAATT-GGACTTAGCTTCTTTCAAAACTTATTTGAAAA-TA
1 TCAAGAAACTTCT-AAAATTAAGACTTAGTTTCTTTGAAAACTCATTTAAAAATTA
923794 TCAAGAAAC
1 TCAAGAAAC
923803 CCTTGAAAAT
Statistics
Matches: 96, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
53 16 0.17
54 8 0.08
55 66 0.69
56 6 0.06
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.34
Consensus pattern (55 bp):
TCAAGAAACTTCTAAAATTAAGACTTAGTTTCTTTGAAAACTCATTTAAAAATTA
Found at i:923811 original size:54 final size:52
Alignment explanation
Indices: 923651--923826 Score: 167
Period size: 55 Copynumber: 3.2 Consensus size: 52
923641 CTCTAAAAAT
* * *
923651 GACTTAGTTCCTTTGAAAACTCATTTAAAAATTATCAAGAAACTTCTAAAATTAA
1 GACTTAGTTTCTTTGAAAACTCATTT-AAAA-TATCAAGAAACTT-GAAAATTAG
* * *
923706 GAGTTAGTTTCTTTGAAAACTCATTTAAGAATCATCGAGAAATTTTTGAAAATT-G
1 GACTTAGTTTCTTTGAAAACTCATTTAA-AAT-ATCAAGAAA--CTTGAAAATTAG
* * *
923761 GACTTAGCTTCTTTCAAAACTTATTTGAAAATATCAAGAAACCCTTGAAAATTAG
1 GACTTAGTTTCTTTGAAAACTCATTT-AAAATATCAAGAAA--CTTGAAAATTAG
923816 G-CTTAGTTTCT
1 GACTTAGTTTCT
923827 AAAAATTCTT
Statistics
Matches: 100, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
54 29 0.29
55 61 0.61
56 8 0.08
57 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (52 bp):
GACTTAGTTTCTTTGAAAACTCATTTAAAATATCAAGAAACTTGAAAATTAG
Found at i:923855 original size:52 final size:52
Alignment explanation
Indices: 923784--923893 Score: 166
Period size: 52 Copynumber: 2.1 Consensus size: 52
923774 TCAAAACTTA
* * * * *
923784 TTTGAAAATATCAAGAAACCCTTGAAAATTAGGCTTAGTTTCTAAAAATTCT
1 TTTGAAAACATCAAAAAACCCCTGAAAATCAGGCTTAGTTTCTAAAAAATCT
*
923836 TTTGAAAACATCAAAAAACCCCTGACAATCAGGCTTAGTTTCTAAAAAATCT
1 TTTGAAAACATCAAAAAACCCCTGAAAATCAGGCTTAGTTTCTAAAAAATCT
923888 TTTGAA
1 TTTGAA
923894 TCACCAAGTC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (52 bp):
TTTGAAAACATCAAAAAACCCCTGAAAATCAGGCTTAGTTTCTAAAAAATCT
Found at i:928280 original size:13 final size:13
Alignment explanation
Indices: 928254--928290 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
928244 AGCATTATGA
*
928254 ATGC-AAATGTAG
1 ATGCAAAATGAAG
928266 ATGCAAAATGAAG
1 ATGCAAAATGAAG
928279 ATGCAAAATGAA
1 ATGCAAAATGAA
928291 AATTAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 4 0.17
13 19 0.83
ACGTcount: A:0.51, C:0.08, G:0.22, T:0.19
Consensus pattern (13 bp):
ATGCAAAATGAAG
Found at i:934356 original size:21 final size:21
Alignment explanation
Indices: 934332--934377 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
934322 ACCTTTCGGA
934332 TAACCTCAAGGAGAGGTATAT
1 TAACCTCAAGGAGAGGTATAT
934353 TAACCTCAAGGAGAGGTATAT
1 TAACCTCAAGGAGAGGTATAT
934374 TAAC
1 TAAC
934378 TTCCACTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (21 bp):
TAACCTCAAGGAGAGGTATAT
Found at i:938052 original size:18 final size:18
Alignment explanation
Indices: 938026--938060 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
938016 AGTTTCATGG
*
938026 GTATTAGACTCGTTTTGA
1 GTATCAGACTCGTTTTGA
938044 GTATCAGACTCGTTTTG
1 GTATCAGACTCGTTTTG
938061 TGTAGCAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.14, G:0.23, T:0.43
Consensus pattern (18 bp):
GTATCAGACTCGTTTTGA
Found at i:938069 original size:18 final size:18
Alignment explanation
Indices: 938031--938069 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
938021 CATGGGTATT
*
938031 AGACTCGTTTTGAGTATC
1 AGACTCGTTTTGAGTAGC
*
938049 AGACTCGTTTTGTGTAGC
1 AGACTCGTTTTGAGTAGC
938067 AGA
1 AGA
938070 GTTATATGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (18 bp):
AGACTCGTTTTGAGTAGC
Found at i:941361 original size:53 final size:53
Alignment explanation
Indices: 941267--941573 Score: 375
Period size: 53 Copynumber: 5.8 Consensus size: 53
941257 TGACGGGTCT
* * * *** *
941267 GCTCCCTCTTG-TTTAGGGATTAAGGAAATCGAACAATCTTCTAAAAATAGGTTC
1 GCTCCCTCTTGCTTCAGGGAGT-A-GAACTCGAACAATCTTCTACCTATGGGTTC
* * * * * *
941321 GCTCCCTATTGCTTCAGGGAGTAGAACTCGAATAATCTTCTGCTTACGAGTTC
1 GCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACCTATGGGTTC
* *
941374 GCTCCCTCTTGCTTCAAGGG-GTAGAACTCGAACAATCTTCTGCCTACGGGTTC
1 GCTCCCTCTTGCTTC-AGGGAGTAGAACTCGAACAATCTTCTACCTATGGGTTC
* * * * *
941427 ACTCCCTCTTGCTTCAGGGAGTAGAAATCGAACAATCTTTTGCCTACGGGTTC
1 GCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACCTATGGGTTC
* *
941480 GCTCCCTCTTACTTCAGGGAGTAAAACTCGAACAATCTTCTACCTATGGGTTC
1 GCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACCTATGGGTTC
941533 GCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCT
1 GCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCT
941574 GGTGTGATTC
Statistics
Matches: 222, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
52 4 0.02
53 195 0.88
54 15 0.07
55 8 0.04
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (53 bp):
GCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACCTATGGGTTC
Found at i:942186 original size:122 final size:123
Alignment explanation
Indices: 941969--942377 Score: 500
Period size: 122 Copynumber: 3.2 Consensus size: 123
941959 CGAATGACTT
* ** * *
941969 ATCATCTTGCTCGAAAGACTTACAAATGACCCGAAGGATTTCATCATCATGCTCGAAAGACTTAC
1 ATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACTTAC
* * * * *
942034 TGATGGATTTGCTTCACTAGTC-TTCGGTGAAGGCTTAAAAATTACCCGAAGGATTTA
66 TGATGGGTTTACTTTACTACTCTTTCGGTGAAGGCTTAAAAATTTCCCGAAGGATTTA
* * *
942091 ATCATCATGCTCAAAAGACTTACTGATGGCCCAAATGACTTCATCATCATGCTCGAAAGACTTAC
1 ATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACTTAC
*
942156 TGATGGGTTTACTTTACTACTCTTTC-GTGAAGGCTTACAAATTTCCCGAAGGATTTA
66 TGATGGGTTTACTTTACTACTCTTTCGGTGAAGGCTTAAAAATTTCCCGAAGGATTTA
* *
942213 ATCATCATGCTCTAAAGACTTACTGATGGCCCGAAGGACTTCATCATCATGCTTGAAAGACTTAC
1 ATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACTTAC
* * * *
942278 TGAT-GGTACTTACTGATGGGTTTGCTTCACTGCTCTTCTGTGAAGGCTTACAAATTTCCCGAAT
66 TGATGGGT--TTAC-------TTTAC-T-ACT-CT-TTCGGTGAAGGCTTAAAAATTTCCCGAAG
942342 GATTTA
118 GATTTA
942348 ATCATCATGCTCGAAAGACTTACTGATGGC
1 ATCATCATGCTCGAAAGACTTACTGATGGC
942378 ACTTACTGAT
Statistics
Matches: 251, Mismatches: 21, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
121 3 0.01
122 169 0.67
123 7 0.03
130 4 0.02
131 1 0.00
132 3 0.01
133 2 0.01
134 3 0.01
135 59 0.24
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (123 bp):
ATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACTTAC
TGATGGGTTTACTTTACTACTCTTTCGGTGAAGGCTTAAAAATTTCCCGAAGGATTTA
Found at i:942248 original size:42 final size:42
Alignment explanation
Indices: 942200--942283 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
942190 TTACAAATTT
*
942200 CCCGAAGGATTTAATCATCATGCTCT-AAAGACTTACTGATGG
1 CCCGAAGGACTTAATCATCATGCT-TGAAAGACTTACTGATGG
*
942242 CCCGAAGGACTTCATCATCATGCTTGAAAGACTTACTGATGG
1 CCCGAAGGACTTAATCATCATGCTTGAAAGACTTACTGATGG
942284 TACTTACTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
41 1 0.03
42 38 0.97
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (42 bp):
CCCGAAGGACTTAATCATCATGCTTGAAAGACTTACTGATGG
Found at i:942290 original size:13 final size:13
Alignment explanation
Indices: 942272--942296 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
942262 TGCTTGAAAG
942272 ACTTACTGATGGT
1 ACTTACTGATGGT
942285 ACTTACTGATGG
1 ACTTACTGATGG
942297 GTTTGCTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (13 bp):
ACTTACTGATGGT
Found at i:942383 original size:13 final size:13
Alignment explanation
Indices: 942365--942389 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
942355 TGCTCGAAAG
942365 ACTTACTGATGGC
1 ACTTACTGATGGC
942378 ACTTACTGATGG
1 ACTTACTGATGG
942390 GTTTGCTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (13 bp):
ACTTACTGATGGC
Found at i:942390 original size:93 final size:93
Alignment explanation
Indices: 942255--942470 Score: 360
Period size: 93 Copynumber: 2.3 Consensus size: 93
942245 GAAGGACTTC
* *
942255 ATCATCATGCTTGAAAGACTTACTGATGGTACTTACTGATGGGTTTGCTTCACTGCTCTTCTGTG
1 ATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGGTTTGCTTCACTGCTCTTCTGTG
*
942320 AAGGCTTACAAATTTCCCGAATGATTTA
66 AAGGCTTACAAATTACCCGAATGATTTA
*
942348 ATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGGTTTGCTTCACTGCTCTTTTGTG
1 ATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGGTTTGCTTCACTGCTCTTCTGTG
*
942413 AAGGCTTACAAATTACCCTAATGATTTA
66 AAGGCTTACAAATTACCCGAATGATTTA
* * *
942441 ATCATCAAGCTCAAAATACTTACTGATGGC
1 ATCATCATGCTCGAAAGACTTACTGATGGC
942471 CCTAAGGATT
Statistics
Matches: 115, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 115 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (93 bp):
ATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGGTTTGCTTCACTGCTCTTCTGTG
AAGGCTTACAAATTACCCGAATGATTTA
Found at i:942481 original size:42 final size:42
Alignment explanation
Indices: 942428--942519 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
942418 TTACAAATTA
* * *
942428 CCCTAATGATTTAATCATCAAGCTCAAAATACTTACTGATGG
1 CCCTAAGGATTTAAGCATCAAGCTCAAAAGACTTACTGATGG
* * *
942470 CCCTAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGG
1 CCCTAAGGATTTAAGCATCAAGCTCAAAAGACTTACTGATGG
*
942512 CCCGAAGG
1 CCCTAAGG
942520 GCTTACTAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (42 bp):
CCCTAAGGATTTAAGCATCAAGCTCAAAAGACTTACTGATGG
Found at i:953005 original size:17 final size:17
Alignment explanation
Indices: 952983--953037 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
952973 AATTAAGAGT
952983 TAGTTTAAAAAATGAAC
1 TAGTTTAAAAAATGAAC
** *
953000 TAGTTTAATTAATAAAC
1 TAGTTTAAAAAATGAAC
* *
953017 TAACTTTATAAAATGAAC
1 T-AGTTTAAAAAATGAAC
953035 TAG
1 TAG
953038 ATACATGAAT
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (17 bp):
TAGTTTAAAAAATGAAC
Found at i:955271 original size:16 final size:16
Alignment explanation
Indices: 955250--955286 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
955240 CTCTTCAAAC
955250 TTTTT-CTTTCTTTTAT
1 TTTTTCCTTT-TTTTAT
955266 TTTTTCCTTTTTTTAT
1 TTTTTCCTTTTTTTAT
955282 TTTTT
1 TTTTT
955287 ATTTTGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTCCTTTTTTTAT
Found at i:962558 original size:12 final size:11
Alignment explanation
Indices: 962533--962571 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
962523 CTGTAAAAGA
962533 AATAAAATAA-
1 AATAAAATAAT
962543 AATATAAATAAT
1 AATA-AAATAAT
962555 AATAATAATAAT
1 AATAA-AATAAT
962567 AATAA
1 AATAA
962572 CAATCTCTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 4 0.15
11 7 0.27
12 15 0.58
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:963096 original size:132 final size:130
Alignment explanation
Indices: 962853--963108 Score: 293
Period size: 132 Copynumber: 2.0 Consensus size: 130
962843 GAATCGAGTA
* * * *
962853 AGATTTGTTCCACTGCTCCTCAAGGAATATCAATTCTGAAAAAGGGATCTACTCTACTGCTCTTC
1 AGATTTGTTCCACTGCTCCTCAAGGAAGATCAATTATGAAAAAGAGATCTACTCTACTGCTCTTA
* * * * * *
962918 AGGGTAGATCTGATCTAACAACGTTGATACACTCTACTGCTCTTTAGGGTATATTAAATTAAGGT
66 AGGGTAGATCAGATATAACAACATTGATACACTCCACTGCTCTTTAGGGAATATCAAATTAAGGT
* * *
962983 AGATTTGTTCCACTGCTCCTCAAGGAAGATCTAA-TATGAAAGAGAGAGATCTTCTCTGCTTCTC
1 AGATTTGTTCCACTGCTCCTCAAGGAAGATC-AATTATGAAA-A-AGAGATCTACTCTACTGCTC
* ** *
963047 TTTAAGGG-AGATCAGATATGGA-AACATTGATTTATTCCACTGCTCTTTAGGGAATATCAAAT
63 -TTAAGGGTAGATCAGATAT-AACAACATTGATACACTCCACTGCTCTTTAGGGAATATCAAAT
963109 CTAAAAAAAA
Statistics
Matches: 104, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
130 36 0.35
131 3 0.03
132 58 0.56
133 7 0.07
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (130 bp):
AGATTTGTTCCACTGCTCCTCAAGGAAGATCAATTATGAAAAAGAGATCTACTCTACTGCTCTTA
AGGGTAGATCAGATATAACAACATTGATACACTCCACTGCTCTTTAGGGAATATCAAATTAAGGT
Found at i:964035 original size:19 final size:18
Alignment explanation
Indices: 964011--964108 Score: 90
Period size: 19 Copynumber: 5.2 Consensus size: 18
964001 CCAGTTTTCA
*
964011 ACCGGTTCTGACCGGTTTG
1 ACCGGTT-TGACCGGTCTG
*
964030 ACCGGTTTCAACCGGT-TCG
1 ACCGGTTT-GACCGGTCT-G
964049 AACCGGTTTGACCGGTCTG
1 -ACCGGTTTGACCGGTCTG
* *
964068 AATCGGTTTGACCGGTCTTA
1 -ACCGGTTTGACCGGTC-TG
*
964088 ATCGGTTTGACCGGTCTG
1 ACCGGTTTGACCGGTCTG
964106 ACC
1 ACC
964109 CGACCCGACC
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
18 5 0.07
19 53 0.78
20 10 0.15
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.30
Consensus pattern (18 bp):
ACCGGTTTGACCGGTCTG
Found at i:964042 original size:29 final size:29
Alignment explanation
Indices: 963991--964108 Score: 109
Period size: 29 Copynumber: 4.1 Consensus size: 29
963981 ACTGCTGGAA
*
963991 ACCGGTTTAACCAGTTTTCAACCGGTTCTG
1 ACCGGTTTAACC-GGTTTCAACCGGTTCTG
*
964021 ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 ACCGGTTTAACCGGTTTCAACCGGTTCTG
* * * *
964049 AACCGGTTTGACCGGTCTGAATCGGTT-TG
1 -ACCGGTTTAACCGGTTTCAACCGGTTCTG
* *
964078 ACCGGTCTTAATCGGTTT-GACCGG-TCTG
1 ACCGGT-TTAACCGGTTTCAACCGGTTCTG
964106 ACC
1 ACC
964109 CGACCCGACC
Statistics
Matches: 74, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
27 1 0.01
28 16 0.22
29 46 0.62
30 11 0.15
ACGTcount: A:0.17, C:0.26, G:0.26, T:0.31
Consensus pattern (29 bp):
ACCGGTTTAACCGGTTTCAACCGGTTCTG
Found at i:964082 original size:38 final size:39
Alignment explanation
Indices: 964010--964106 Score: 110
Period size: 38 Copynumber: 2.5 Consensus size: 39
964000 ACCAGTTTTC
*
964010 AACCGGTTCTGACCGGTTTG-ACCGGTTTCAACCGGT-TCG
1 AACCGGTT-TGACCGGTCTGAACCGGTTTCAACCGGTCT-G
* * *
964049 AACCGGTTTGACCGGTCTGAATCGGTTT-GACCGGTCTT
1 AACCGGTTTGACCGGTCTGAACCGGTTTCAACCGGTCTG
*
964087 AATCGGTTTGACCGGTCTGA
1 AACCGGTTTGACCGGTCTGA
964107 CCCGACCCGA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
38 35 0.69
39 16 0.31
ACGTcount: A:0.16, C:0.25, G:0.29, T:0.30
Consensus pattern (39 bp):
AACCGGTTTGACCGGTCTGAACCGGTTTCAACCGGTCTG
Found at i:964115 original size:5 final size:5
Alignment explanation
Indices: 964105--964179 Score: 69
Period size: 5 Copynumber: 13.8 Consensus size: 5
964095 TGACCGGTCT
* *
964105 GACCC GACCC GACCATT GACCC GACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
*
964154 GACCGTT GACCC GACCC GACCC GACC
1 GACC--C GACCC GACCC GACCC GACC
964180 GTTGACCGTT
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
5 46 0.79
7 12 0.21
ACGTcount: A:0.20, C:0.51, G:0.21, T:0.08
Consensus pattern (5 bp):
GACCC
Found at i:964126 original size:17 final size:17
Alignment explanation
Indices: 964104--964174 Score: 88
Period size: 17 Copynumber: 3.9 Consensus size: 17
964094 TTGACCGGTC
964104 TGACCCGACCCGACCAT
1 TGACCCGACCCGACCAT
964121 TGACCCGACCCGACCCGACCGT
1 TGACCCGACCCGA-CC-A---T
*
964143 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCAT
964160 TGACCCGACCCGACC
1 TGACCCGACCCGACC
964175 CGACCGTTGA
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
17 29 0.60
18 2 0.04
19 1 0.02
21 2 0.04
22 14 0.29
ACGTcount: A:0.20, C:0.49, G:0.21, T:0.10
Consensus pattern (17 bp):
TGACCCGACCCGACCAT
Found at i:964130 original size:22 final size:22
Alignment explanation
Indices: 964105--964186 Score: 120
Period size: 22 Copynumber: 4.0 Consensus size: 22
964095 TGACCGGTCT
*
964105 GACCCGACCCGACCATTGACCC
1 GACCCGACCCGACCGTTGACCC
964127 GACCCGACCCGACCGTT-----
1 GACCCGACCCGACCGTTGACCC
964144 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
964166 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
964187 GTTGACCGTT
Statistics
Matches: 54, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
17 17 0.31
22 37 0.69
ACGTcount: A:0.20, C:0.49, G:0.22, T:0.10
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:964152 original size:39 final size:39
Alignment explanation
Indices: 964104--964186 Score: 157
Period size: 39 Copynumber: 2.1 Consensus size: 39
964094 TTGACCGGTC
964104 TGACCCGACCCGACCATTGACCCGACCCGACCCGACCGT
1 TGACCCGACCCGACCATTGACCCGACCCGACCCGACCGT
*
964143 TGACCCGACCCGACCGTTGACCCGACCCGACCCGACCGT
1 TGACCCGACCCGACCATTGACCCGACCCGACCCGACCGT
964182 TGACC
1 TGACC
964187 GTTGACCGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.19, C:0.48, G:0.22, T:0.11
Consensus pattern (39 bp):
TGACCCGACCCGACCATTGACCCGACCCGACCCGACCGT
Found at i:964186 original size:17 final size:17
Alignment explanation
Indices: 964127--964174 Score: 96
Period size: 17 Copynumber: 2.8 Consensus size: 17
964117 CCATTGACCC
964127 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
964144 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
964161 GACCCGACCCGACC
1 GACCCGACCCGACC
964175 CGACCGTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.19, C:0.50, G:0.23, T:0.08
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:964188 original size:7 final size:7
Alignment explanation
Indices: 964176--964206 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
964166 GACCCGACCC
964176 GACCGTT
1 GACCGTT
964183 GACCGTT
1 GACCGTT
964190 GACCGTT
1 GACCGTT
964197 GACCGTT
1 GACCGTT
964204 GAC
1 GAC
964207 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:966308 original size:28 final size:28
Alignment explanation
Indices: 966276--966339 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
966266 CGTCTTTAAT
**
966276 TACCCCTAACTTGCTTAAACCTTTTATG
1 TACCCCTAACTTAATTAAACCTTTTATG
966304 TACCCCTAACTTAATTAAACCTTTTATG
1 TACCCCTAACTTAATTAAACCTTTTATG
966332 TACCCCTA
1 TACCCCTA
966340 GGTTTTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.28, C:0.30, G:0.05, T:0.38
Consensus pattern (28 bp):
TACCCCTAACTTAATTAAACCTTTTATG
Found at i:973924 original size:10 final size:9
Alignment explanation
Indices: 973889--973987 Score: 72
Period size: 10 Copynumber: 10.3 Consensus size: 9
973879 ACTGCTGGAA
*
973889 ACCGGTTTA
1 ACCGGTTTG
*
973898 ACCGGTTTTCA
1 ACCGG-TTT-G
973909 ACCGGTTCTG
1 ACCGGTT-TG
973919 ACCGGTTTG
1 ACCGGTTTG
*
973928 ACCGGTTTCA
1 ACCGGTTT-G
*
973938 ACCGGTTCG
1 ACCGGTTTG
*
973947 AACCGATTTG
1 -ACCGGTTTG
*
973957 ACCGGTCTG
1 ACCGGTTTG
*
973966 AATCGGTTTG
1 -ACCGGTTTG
*
973976 ACCGGTCTG
1 ACCGGTTTG
973985 ACC
1 ACC
973988 CGACCCGACC
Statistics
Matches: 72, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
9 32 0.44
10 33 0.46
11 7 0.10
ACGTcount: A:0.17, C:0.27, G:0.26, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:973933 original size:19 final size:19
Alignment explanation
Indices: 973890--973987 Score: 69
Period size: 19 Copynumber: 5.1 Consensus size: 19
973880 CTGCTGGAAA
* * *
973890 CCGGTTTAACCGGTTTTCAA
1 CCGGTTTGACCGGTTCT-GA
973910 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
973929 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
*
973949 CCGATTTGACCGG-TCTGAA
1 CCGGTTTGACCGGTTCTG-A
*
973968 TCGGTTTGACCGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
973986 CC
1 CC
973988 CGACCCGACC
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
18 5 0.08
19 38 0.58
20 14 0.22
21 8 0.12
ACGTcount: A:0.16, C:0.28, G:0.27, T:0.30
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:973951 original size:29 final size:30
Alignment explanation
Indices: 973888--973987 Score: 109
Period size: 29 Copynumber: 3.4 Consensus size: 30
973878 GACTGCTGGA
*
973888 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
973919 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
* * * *
973947 AACCGATTTGACCGGTCTGAATCGGTT-TG
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
*
973976 -ACCGGTCTGACC
1 AACCGGTTTGACC
973988 CGACCCGACC
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
28 11 0.18
29 36 0.60
30 13 0.22
ACGTcount: A:0.18, C:0.27, G:0.26, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:973994 original size:5 final size:5
Alignment explanation
Indices: 973984--974041 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
973974 TGACCGGTCT
* * *
973984 GACCC GACCC GACCGTT GACCA GACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
974033 GACCC GACC
1 GACCC GACC
974042 GTTGACCGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
5 36 0.82
7 8 0.18
ACGTcount: A:0.21, C:0.50, G:0.22, T:0.07
Consensus pattern (5 bp):
GACCC
Found at i:974010 original size:22 final size:22
Alignment explanation
Indices: 973984--974048 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
973974 TGACCGGTCT
973984 GACCCGACCCGACCGTTGACCA
1 GACCCGACCCGACCGTTGACCA
*
974006 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCA
974028 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
974049 GTTGACCGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.20, C:0.48, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCA
Found at i:974050 original size:7 final size:7
Alignment explanation
Indices: 974038--974068 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
974028 GACCCGACCC
974038 GACCGTT
1 GACCGTT
974045 GACCGTT
1 GACCGTT
974052 GACCGTT
1 GACCGTT
974059 GACCGTT
1 GACCGTT
974066 GAC
1 GAC
974069 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Done.