Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 41 of 73
Found at i:9911929 original size:65 final size:64
Alignment explanation
Indices: 9911731--9911938 Score: 194
Period size: 65 Copynumber: 3.2 Consensus size: 64
9911721 GCACCAAGTG
* * * ** *
9911731 TGCATCGATGCATGAAATGTATTCGATGTTTGAAAAATAGCCTGATGCATCGATGCATGT-CTTG
1 TGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGATGCATCGATGCATGTAC-TG
9911795 -
64 A
* * * *
9911795 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA--G
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGA-TGCATCGATGCATGTACTG
9911858 A
64 A
* *
9911859 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGATGCATCGATGCATGTAC
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GATGCATCGATGCATGTAC
9911922 TGA
62 TGA
9911925 TGCATCGGTGCATG
1 TGCATCGGTGCATG
9911939 CCTTTGAATA
Statistics
Matches: 121, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
62 3 0.02
63 8 0.07
64 50 0.41
65 58 0.48
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (64 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGATGCATCGATGCATGTACTGA
Found at i:9918534 original size:22 final size:21
Alignment explanation
Indices: 9918492--9918531 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9918482 TGAGTTGTTT
*
9918492 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
9918513 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
9918532 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:9920592 original size:19 final size:19
Alignment explanation
Indices: 9920568--9920618 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
9920558 GAAAATATTC
9920568 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
9920587 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
9920606 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
9920619 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:9920596 original size:65 final size:64
Alignment explanation
Indices: 9920463--9920620 Score: 187
Period size: 65 Copynumber: 2.5 Consensus size: 64
9920453 TGCACCAAGT
* ****
9920463 GTGCATCGATGCATGAAATGCATTCGATG--TGAAAAATAGCCTGATGCATCGATGCATGTCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
* **
9920525 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCAGA-TGCATCGATGCATGGAG
9920589 A
64 A
* *
9920590 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
9920621 CAATTAATTC
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
62 28 0.35
64 11 0.14
65 42 0.52
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:9921045 original size:23 final size:24
Alignment explanation
Indices: 9921019--9921069 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
9921009 TTTTTTCTTA
*
9921019 ACATAAATTACACTATA-TAATTT
1 ACATAAATTAAACTATATTAATTT
*
9921042 ACATAAATTAAATTATATTAATTT
1 ACATAAATTAAACTATATTAATTT
9921066 ACAT
1 ACAT
9921070 TTAATCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (24 bp):
ACATAAATTAAACTATATTAATTT
Found at i:9921158 original size:13 final size:13
Alignment explanation
Indices: 9921125--9921151 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9921115 TAATTTACAT
9921125 TTAAATAATTTTA
1 TTAAATAATTTTA
9921138 TTAAATAATTTTA
1 TTAAATAATTTTA
9921151 T
1 T
9921152 ATAATAAATC
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:9928377 original size:154 final size:155
Alignment explanation
Indices: 9928097--9928412 Score: 616
Period size: 154 Copynumber: 2.0 Consensus size: 155
9928087 ATGGATTACA
9928097 TATTTAGATGAATTTGTGGATAAAATTGAAGATGCAAAAGTTTAGGGACTAGTTTAGAATGATAT
1 TATTTAGATGAATTTGTGGATAAAATTGAAGATGCAAAAGTTTAGGGACTAGTTTAGAATGATAT
9928162 CATAGTTTGGGAATGAGTTTGGAATGTTCAAAAGTTTAAGGACTAATTCAAAAATTGAGATAAAA
66 CATAGTTTGGGAATGAGTTTGGAATGTTCAAAAGTTTAAGGACTAATTCAAAAATTGAGATAAAA
9928227 TTGAAATA-TTAAAAATTTAAAGAC
131 TTGAAATATTTAAAAATTTAAAGAC
9928251 TATTTAGATGAATTTGTGGATAAAATTGAAGATGCAAAAGTTTAGGGACTAGTTTAGAATGATAT
1 TATTTAGATGAATTTGTGGATAAAATTGAAGATGCAAAAGTTTAGGGACTAGTTTAGAATGATAT
9928316 CATAGTTTGGGAATGAGTTTGGAATGTTCAAAAGTTTAAGGACTAATTCAAAAATTGAGATAAAA
66 CATAGTTTGGGAATGAGTTTGGAATGTTCAAAAGTTTAAGGACTAATTCAAAAATTGAGATAAAA
9928381 TTGAAATATTTAAAAATTTAAAGAC
131 TTGAAATATTTAAAAATTTAAAGAC
9928406 TAATTTA
1 T-ATTTA
9928413 AAACGAGGGT
Statistics
Matches: 160, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
154 138 0.86
155 17 0.11
156 5 0.03
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.34
Consensus pattern (155 bp):
TATTTAGATGAATTTGTGGATAAAATTGAAGATGCAAAAGTTTAGGGACTAGTTTAGAATGATAT
CATAGTTTGGGAATGAGTTTGGAATGTTCAAAAGTTTAAGGACTAATTCAAAAATTGAGATAAAA
TTGAAATATTTAAAAATTTAAAGAC
Found at i:9929312 original size:2 final size:2
Alignment explanation
Indices: 9929305--9929352 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
9929295 TTCTCACCTC
9929305 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9929347 AT AT AT
1 AT AT AT
9929353 GGCCAATTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9932687 original size:46 final size:46
Alignment explanation
Indices: 9932635--9932929 Score: 455
Period size: 46 Copynumber: 6.4 Consensus size: 46
9932625 ACATTTAAAT
* *
9932635 TATGGCATCCTTTCATGCCTTAATGCATCATTCCATGCATTTTAGT
1 TATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGA
* *
9932681 TATGGCATCCTTTGATGCCTTAATGCATCCTTTCATGCATTTTAGA
1 TATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGA
* * *
9932727 TATGTCATCCTTTCATACCTTAATGCATCATTTCATACATTTTAGA
1 TATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGA
* * *
9932773 TATGGTATCCTTTCGTGCCTTAATGCATCATTTCATGAATTTTAGA
1 TATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGA
*
9932819 TATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTTAGT
1 TATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCA-TTTTAGA
* * *
9932866 TATGGCATCCTTTCATTCCTTAATGCATCCTTTCAGGCATTTTAGA
1 TATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGA
9932912 TATGGCATCCTTTCATGC
1 TATGGCATCCTTTCATGC
9932930 ATTTTAGATA
Statistics
Matches: 224, Mismatches: 24, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
46 182 0.81
47 42 0.19
ACGTcount: A:0.23, C:0.22, G:0.13, T:0.42
Consensus pattern (46 bp):
TATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGA
Found at i:9932698 original size:26 final size:25
Alignment explanation
Indices: 9932635--9932955 Score: 162
Period size: 26 Copynumber: 13.7 Consensus size: 25
9932625 ACATTTAAAT
*
9932635 TATGGCATCCTTTCATGC--CTTA-
1 TATGGCATCCTTTCATGCATTTTAG
* *
9932657 -AT-GCATCATTCCATGCATTTTAG
1 TATGGCATCCTTTCATGCATTTTAG
* *
9932680 TTATGGCATCCTTTGATGC--CTTA-
1 -TATGGCATCCTTTCATGCATTTTAG
9932703 -AT-GCATCCTTTCATGCATTTTAG
1 TATGGCATCCTTTCATGCATTTTAG
* **
9932726 ATATGTCATCCTTTCAT--ACCTTA-
1 -TATGGCATCCTTTCATGCATTTTAG
* *
9932749 -AT-GCATCATTTCATACATTTTAG
1 TATGGCATCCTTTCATGCATTTTAG
* * *
9932772 ATATGGTATCCTTTCGTGC--CTTA-
1 -TATGGCATCCTTTCATGCATTTTAG
* *
9932795 -AT-GCATCATTTCATGAATTTTAG
1 TATGGCATCCTTTCATGCATTTTAG
*
9932818 ATATGGCATCCTTTCATGC--CTTA-
1 -TATGGCATCCTTTCATGCATTTTAG
*
9932841 -AT-GCATCATTTCATGCATTTTTAG
1 TATGGCATCCTTTCATGCA-TTTTAG
* *
9932865 TTATGGCATCCTTTCATTC--CTTA-
1 -TATGGCATCCTTTCATGCATTTTAG
*
9932888 -AT-GCATCCTTTCAGGCATTTTAG
1 TATGGCATCCTTTCATGCATTTTAG
9932911 ATATGGCATCCTTTCATGCATTTTAG
1 -TATGGCATCCTTTCATGCATTTTAG
* *
9932937 ATATGACATCATTTCATGC
1 -TATGGCATCCTTTCATGC
9932956 CTTAATGCAT
Statistics
Matches: 222, Mismatches: 40, Indels: 70
0.67 0.12 0.21
Matches are distributed among these distances:
20 70 0.32
21 12 0.05
22 16 0.07
23 3 0.01
24 16 0.07
25 10 0.05
26 83 0.37
27 12 0.05
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.42
Consensus pattern (25 bp):
TATGGCATCCTTTCATGCATTTTAG
Found at i:9933479 original size:95 final size:95
Alignment explanation
Indices: 9933378--9933576 Score: 274
Period size: 95 Copynumber: 2.1 Consensus size: 95
9933368 ACACTAGTAC
* * * * *
9933378 CGATACTTCTATTCTATGGTACCGATACCCCCTTCCGGTATCGATACCTAAATTAGCTTCGATG-
1 CGATACTACTATACTATGGTACCGATA-CCCCTTACGGTATCGATACCAAAATTAGATTCGATGT
*
9933442 TTGCCTAGTATAGATACCCTTACCATGGTAT
65 TTGCCTAGTATAGATACCCTTACAATGGTAT
* *
9933473 TGATACTACTATACTATGGTACCGATACCCTTTACGGTATCGATACCAAAATTAGATTCGATGTT
1 CGATACTACTATACTATGGTACCGATACCCCTTACGGTATCGATACCAAAATTAGATTCGATGTT
* * * *
9933538 TGCTTGGTATCGATACCTTTACAATGGTAT
66 TGCCTAGTATAGATACCCTTACAATGGTAT
9933568 CGATACTAC
1 CGATACTAC
9933577 CTCAATGGTA
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
94 32 0.36
95 58 0.64
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (95 bp):
CGATACTACTATACTATGGTACCGATACCCCTTACGGTATCGATACCAAAATTAGATTCGATGTT
TGCCTAGTATAGATACCCTTACAATGGTAT
Found at i:9934530 original size:54 final size:54
Alignment explanation
Indices: 9934453--9934844 Score: 606
Period size: 54 Copynumber: 7.3 Consensus size: 54
9934443 TAACATTTTA
*
9934453 GCACACATAGTGTCC-AAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
1 GCACACTTAGTG-CCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
* * *
9934507 GCACACTTAGTGCTGAAATGGTTATTCATCCACATAGGATGAATTCTGTGAAAT
1 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
* * * **
9934561 GTATACTTAGTTCCGAAACGGTTATTCATCCACATAGGATGAATTATGTGAAAT
1 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
* *
9934615 GCACACTTAGTGCCGAAACGATTATTCATCCACATAGGATGAATTCTGTGAAAT
1 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
* * *
9934669 ACACACTTAGTGCGGAAACGGTTATTCATACACATAGGATGAATTCCGTGAAAT
1 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
* *
9934723 GCACACTTAGTGCCAAAACAGTTATTCATCCACATAGGATGAATTCCGTGAAAT
1 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
* *
9934777 ACACACTTAGTGTCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
1 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
9934831 GCACACTTAGTGCC
1 GCACACTTAGTGCC
9934845 TTTTTGGTAA
Statistics
Matches: 306, Mismatches: 31, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
53 1 0.00
54 305 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (54 bp):
GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
Found at i:9935317 original size:28 final size:28
Alignment explanation
Indices: 9935285--9935348 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
9935275 TTTTCAGAGT
9935285 GATGCACCGATGCACCAATCCATGCATC
1 GATGCACCGATGCACCAATCCATGCATC
9935313 GATGCACCGATGCACCAATCCATGCATC
1 GATGCACCGATGCACCAATCCATGCATC
9935341 GATGCACC
1 GATGCACC
9935349 ATTAATTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.28, C:0.36, G:0.19, T:0.17
Consensus pattern (28 bp):
GATGCACCGATGCACCAATCCATGCATC
Found at i:9935431 original size:65 final size:63
Alignment explanation
Indices: 9935362--9935521 Score: 196
Period size: 65 Copynumber: 2.5 Consensus size: 63
9935352 AATTAAATTG
* * *
9935362 AACATCGAATTCATTTCATGCATCGATGCACATACCATGCACCGATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACA-ACCATGCACCGATGCACTCAGGATATTT-T-A
9935426 A
63 A
* * * * *
9935427 AACATCAAATGCATTTGAAGCATCGATGCACCAACCATGCATCGATGCACTCTGGCTATTTTAA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAACCATGCACCGATGCACTCAGGATATTTTAA
*
9935491 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
9935522 TCTTAGTGCA
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
63 1 0.01
64 29 0.35
65 47 0.57
66 5 0.06
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAACCATGCACCGATGCACTCAGGATATTTTAA
Found at i:9941344 original size:20 final size:21
Alignment explanation
Indices: 9941319--9941413 Score: 70
Period size: 21 Copynumber: 4.4 Consensus size: 21
9941309 TTGTGCTTCA
9941319 TGCATCGATACACC-T-AACAG
1 TGCATCGATACACCTTGAA-AG
* *
9941339 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CCTTGAAAG
* *
9941361 TGCATCGATACACCATGAAGG
1 TGCATCGATACACCTTGAAAG
* *
9941382 TGCACCGATGA-ATGCCTTGAATG
1 TGCATCGAT-ACA--CCTTGAAAG
9941405 TGCATCGAT
1 TGCATCGAT
9941414 GCACAAGGCC
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
20 11 0.18
21 18 0.30
22 14 0.23
23 17 0.28
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (21 bp):
TGCATCGATACACCTTGAAAG
Found at i:9941407 original size:23 final size:22
Alignment explanation
Indices: 9941338--9941414 Score: 86
Period size: 21 Copynumber: 3.5 Consensus size: 22
9941328 ACACCTAACA
*
9941338 GTGCATCGATGCATCCTTGAAT
1 GTGCATCGATGAATCCTTGAAT
* *
9941360 GTGCATCGAT-ACA-CCATGAAG
1 GTGCATCGATGA-ATCCTTGAAT
*
9941381 GTGCACCGATGAATGCCTTGAAT
1 GTGCATCGATGAAT-CCTTGAAT
9941404 GTGCATCGATG
1 GTGCATCGATG
9941415 CACAAGGCCA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
21 16 0.36
22 12 0.27
23 16 0.36
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (22 bp):
GTGCATCGATGAATCCTTGAAT
Found at i:9941409 original size:44 final size:42
Alignment explanation
Indices: 9941319--9941413 Score: 129
Period size: 44 Copynumber: 2.2 Consensus size: 42
9941309 TTGTGCTTCA
* *
9941319 TGCATCGATACACCTAACAGTGCATCGATGCATCCTTGAATG
1 TGCATCGATACACCTAACAGTGCACCGATGAATCCTTGAATG
*
9941361 TGCATCGATACACCATGAA-GGTGCACCGATGAATGCCTTGAATG
1 TGCATCGATACACC-T-AACAGTGCACCGATGAAT-CCTTGAATG
9941405 TGCATCGAT
1 TGCATCGAT
9941414 GCACAAGGCC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
42 14 0.30
43 13 0.28
44 20 0.43
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (42 bp):
TGCATCGATACACCTAACAGTGCACCGATGAATCCTTGAATG
Found at i:9943008 original size:21 final size:21
Alignment explanation
Indices: 9942966--9943009 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
9942956 ACCCCGGGAG
*
9942966 CTAGCTCTTCATGAGCTGCTC
1 CTAGCTCTTCATGAGCTCCTC
*
9942987 CTAGCTCTTC-TCGTGCTCCTC
1 CTAGCTCTTCAT-GAGCTCCTC
9943008 CT
1 CT
9943010 CCTCCTACGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.09, C:0.39, G:0.16, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTCATGAGCTCCTC
Found at i:9944113 original size:65 final size:63
Alignment explanation
Indices: 9944041--9944223 Score: 190
Period size: 65 Copynumber: 2.8 Consensus size: 63
9944031 AATTAAATTG
* *
9944041 AACATCGAATGCATTTCATGCATCGATACACATACTATGCACCGATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACAT-CTATGCACCGATGCACTGAGGATATTT-TG-
9944105 A
63 A
* * * * ** *
9944106 AACATCGAATACATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTTTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CATCTATGCACCGATGCACTGAGGATATTTTGA
* * *
9944170 AACATTGAATGCACTTGATGCATCGATGCAC-TCTTAGTACACCGATGCACTGAG
1 AACATCGAATGCATTTGATGCATCGATGCACATC-TA-TGCACCGATGCACTGAG
9944224 AGTTCAACGG
Statistics
Matches: 96, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
62 1 0.01
63 2 0.02
64 41 0.43
65 47 0.49
66 5 0.05
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACATCTATGCACCGATGCACTGAGGATATTTTGA
Found at i:9958082 original size:224 final size:227
Alignment explanation
Indices: 9957667--9958119 Score: 842
Period size: 224 Copynumber: 2.0 Consensus size: 227
9957657 ATTACTAGGT
9957667 CGGTTCAAAGTTTAAGAAAATACTACAACCCATTGCTTATGTGGATCATACTTGTGTTTCTCTCG
1 CGGTTCAAAGTTTAAGAAAATACTACAACCCATTGCTTATGTGGATCATACTTGTGTTTCTCTCG
9957732 AATACAAGTATTAATAGCTAAGTTTCTCTCCAACACCTAGCCTTCATCTAAGTAATGGACACTCT
66 AATACAAGTATTAATAGCTAAGTTTCTCTCCAACACCTAGCCTTCATCTAAGTAATGGACACTCT
9957797 TATGCCTCCTACAACTTAGATGATTAAGCATTCATAAGAAAAATAAGTAAATACAAAAAAAT-AA
131 TATGCCTCCTACAACTTAGATGATTAAGCATTCATAAGAAAAATAAGTAAATACAAAAAAATAAA
9957861 -AT-ATCTACCATTAAAATAATGTTAAACATC
196 TATAATCTACCATTAAAATAATGTTAAACATC
*
9957891 CGGTTCAAAGTTTAAGAAAATACTACACCCCATTGCTTATGTGGATCATACTTGTGTTTCTCTCG
1 CGGTTCAAAGTTTAAGAAAATACTACAACCCATTGCTTATGTGGATCATACTTGTGTTTCTCTCG
9957956 AATACAAGTATTAATAGCTAAGTTTCTCTCCAACACCTAGCCTTCATCTAAGTAATGGACACTCT
66 AATACAAGTATTAATAGCTAAGTTTCTCTCCAACACCTAGCCTTCATCTAAGTAATGGACACTCT
9958021 TATGCCTCCTACAAACTTAGATGATTAAGCATTCATAAGAAAAATAAGTAAATAC-AAAAAATAA
131 TATGCCTCCTAC-AACTTAGATGATTAAGCATTCATAAGAAAAATAAGTAAATACAAAAAAATAA
*
9958085 ATATAAATCTACCATTAAAATTATGTTAAACATC
195 ATAT-AATCTACCATTAAAATAATGTTAAACATC
9958119 C
1 C
9958120 ATAAAATCAA
Statistics
Matches: 222, Mismatches: 2, Indels: 6
0.97 0.01 0.03
Matches are distributed among these distances:
224 148 0.67
225 44 0.20
226 2 0.01
228 28 0.13
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (227 bp):
CGGTTCAAAGTTTAAGAAAATACTACAACCCATTGCTTATGTGGATCATACTTGTGTTTCTCTCG
AATACAAGTATTAATAGCTAAGTTTCTCTCCAACACCTAGCCTTCATCTAAGTAATGGACACTCT
TATGCCTCCTACAACTTAGATGATTAAGCATTCATAAGAAAAATAAGTAAATACAAAAAAATAAA
TATAATCTACCATTAAAATAATGTTAAACATC
Found at i:9958335 original size:72 final size:72
Alignment explanation
Indices: 9958218--9958366 Score: 280
Period size: 72 Copynumber: 2.1 Consensus size: 72
9958208 CCCAGTTGAA
9958218 GCCTTCAACGCGCACAGTTGGAGCTCTCCTCAACCAGCACGACTCGCCTTAGCTCGCTAGCTCCT
1 GCCTTCAACGCGCACAGTTGGAGCTCTCCTCAACCAGCACGACTCGCCTTAGCTCGCTAGCTCCT
9958283 CTCAAAC
66 CTCAAAC
*
9958290 GCCTTCAACGCGCACAGTTGGAGCTCTCCTCAACCAGCACGACTCGCCTTGGCTCGCTAGCTCCT
1 GCCTTCAACGCGCACAGTTGGAGCTCTCCTCAACCAGCACGACTCGCCTTAGCTCGCTAGCTCCT
*
9958355 CTCAGAC
66 CTCAAAC
9958362 GCCTT
1 GCCTT
9958367 GCTCGCCACT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 75 1.00
ACGTcount: A:0.19, C:0.40, G:0.19, T:0.21
Consensus pattern (72 bp):
GCCTTCAACGCGCACAGTTGGAGCTCTCCTCAACCAGCACGACTCGCCTTAGCTCGCTAGCTCCT
CTCAAAC
Found at i:9972591 original size:2 final size:2
Alignment explanation
Indices: 9972584--9972619 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9972574 TAATCTATCA
9972584 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9972620 TCCAGTAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9982039 original size:12 final size:12
Alignment explanation
Indices: 9982022--9982149 Score: 71
Period size: 12 Copynumber: 10.8 Consensus size: 12
9982012 TATTGATATC
*
9982022 GTATTGATGCAG
1 GTATTGATACAG
9982034 GTATTGATACCA-
1 GTATTGATA-CAG
*
9982046 -TATTGATATAG
1 GTATTGATACAG
*
9982057 GTATTGATACTG
1 GTATTGATACAG
* * *
9982069 TTATTGATGCGG
1 GTATTGATACAG
* **
9982081 GTATAGATATTG
1 GTATTGATACAG
* *
9982093 GTATTGATGCGG
1 GTATTGATACAG
* **
9982105 GTATAGATATTG
1 GTATTGATACAG
*
9982117 GTATTGATGCAG
1 GTATTGATACAG
* **
9982129 GTATTGACATTG
1 GTATTGATACAG
9982141 GTATTGATA
1 GTATTGATA
9982150 TTAGTGTCGA
Statistics
Matches: 84, Mismatches: 29, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
10 1 0.01
11 8 0.10
12 73 0.87
13 2 0.02
ACGTcount: A:0.27, C:0.06, G:0.27, T:0.39
Consensus pattern (12 bp):
GTATTGATACAG
Found at i:9982083 original size:24 final size:24
Alignment explanation
Indices: 9982012--9982148 Score: 134
Period size: 24 Copynumber: 5.8 Consensus size: 24
9982002 TATTTGACAT
*
9982012 TATTGATA-TCGTATTGATGCAGG
1 TATTGATACTGGTATTGATGCAGG
** **
9982035 TATTGATAC-CATATTGATATAGG
1 TATTGATACTGGTATTGATGCAGG
* *
9982058 TATTGATACTGTTATTGATGCGGG
1 TATTGATACTGGTATTGATGCAGG
* * *
9982082 TATAGATATTGGTATTGATGCGGG
1 TATTGATACTGGTATTGATGCAGG
* *
9982106 TATAGATATTGGTATTGATGCAGG
1 TATTGATACTGGTATTGATGCAGG
* *
9982130 TATTGACATTGGTATTGAT
1 TATTGATACTGGTATTGAT
9982149 ATTAGTGTCG
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
23 28 0.29
24 70 0.71
ACGTcount: A:0.27, C:0.07, G:0.26, T:0.40
Consensus pattern (24 bp):
TATTGATACTGGTATTGATGCAGG
Found at i:9988963 original size:12 final size:11
Alignment explanation
Indices: 9988944--9989013 Score: 59
Period size: 12 Copynumber: 5.9 Consensus size: 11
9988934 ATATATATAC
9988944 TGGTATTGATG
1 TGGTATTGATG
*
9988955 TGTGTATTGATAC
1 TG-GTATTGAT-G
9988968 TGGTATTGATG
1 TGGTATTGATG
* *
9988979 TGGGTATAGATAC
1 T-GGTATTGAT-G
9988992 TGGTATTGATG
1 TGGTATTGATG
*
9989003 CAGGTATTGAT
1 -TGGTATTGAT
9989014 ACCAATATTG
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
11 3 0.06
12 41 0.87
13 3 0.06
ACGTcount: A:0.23, C:0.04, G:0.31, T:0.41
Consensus pattern (11 bp):
TGGTATTGATG
Found at i:9988971 original size:24 final size:23
Alignment explanation
Indices: 9988940--9989015 Score: 107
Period size: 24 Copynumber: 3.2 Consensus size: 23
9988930 GAAAATATAT
9988940 ATACTGGTATTGATGTGTGTATTG
1 ATACTGGTATTGATGTG-GTATTG
*
9988964 ATACTGGTATTGATGTGGGTATAG
1 ATACTGGTATTGATGT-GGTATTG
*
9988988 ATACTGGTATTGATGCAGGTATTG
1 ATACTGGTATTGATG-TGGTATTG
9989012 ATAC
1 ATAC
9989016 CAATATTGCT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
24 46 0.98
25 1 0.02
ACGTcount: A:0.25, C:0.07, G:0.29, T:0.39
Consensus pattern (23 bp):
ATACTGGTATTGATGTGGTATTG
Found at i:9989123 original size:20 final size:20
Alignment explanation
Indices: 9989098--9989137 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
9989088 ATTCATCCTA
*
9989098 ATTCATATAGTATCGATACT
1 ATTCATATAGCATCGATACT
* *
9989118 ATTCATCTAGCATTGATACT
1 ATTCATATAGCATCGATACT
9989138 CAAACCTAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (20 bp):
ATTCATATAGCATCGATACT
Found at i:9992415 original size:90 final size:88
Alignment explanation
Indices: 9992306--9992481 Score: 289
Period size: 90 Copynumber: 2.0 Consensus size: 88
9992296 TAATCCCGAA
* * *
9992306 TATTTAATTTCAATTAATTAAATATAGATTTTATTAATTTGAAATAATAAAATCCCTAATATAAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATAAT
9992371 TAGGGTAACTTGGATATAAAAGGAT
65 TA-GGTAACTTGGATATAAAAGGAT
*
9992396 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATAATT
*
9992461 AGGTAACTTGGCTATAAAAGG
66 AGGTAACTTGGATATAAAAGG
9992482 GCGTGCTAGG
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
88 19 0.23
89 13 0.16
90 49 0.60
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (88 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATAATT
AGGTAACTTGGATATAAAAGGAT
Found at i:9995674 original size:182 final size:182
Alignment explanation
Indices: 9995381--9996026 Score: 927
Period size: 182 Copynumber: 3.5 Consensus size: 182
9995371 TACAAATGAA
* * * * *
9995381 AAATGTATCGATCCATAGCAATATAATAGGTAAAAATATGATAAAACCGGTGTC-ATTATGATAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGA-AATGATAA
** * * *
9995445 AACCGGTAAACCGCTACCGGATATATTGAAAGTGTCAATAAATTAATATAAGTACCGACACTTTT
65 AACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTC
*
9995510 GTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATATTTTATAC
130 GTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
* * *
9995563 AAATGTATCGATTCATAGCAATATAACAGGTAATAATATGACAAAACATGTCTCGAAATGATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
* * *
9995628 ATCGGTAAAAAGCTACCGGATATATTGAAAGTATCGATACATTAATATAAGTATCGACACTTTCG
66 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTCG
* * *
9995693 TAATTTAAAAGAGAATAAGTAATAGCGCCTAAAAAGTGTTGATACTTTATAC
131 TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
*
9995745 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
*
9995810 ACCGGTAAAAAGATACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTCG
66 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTCG
* *
9995875 TAATTTAAAAGAGAAGAAATTATAGCGCCTAAAAAGTGTCGATGCTTTATGA-
131 TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTAT-AC
* ** * * * * * *
9995927 AAACGTATCGATCCATAAAAATATAATAGTTAAAAATCTGACAAAACCGGTATCGAAATGACAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
** * *
9995992 ACCGGTAAAGCGCTACCGGTTATGTTGAAAGTGTC
66 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTC
9996027 AGTACTTTAA
Statistics
Matches: 416, Mismatches: 46, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
182 414 1.00
183 2 0.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (182 bp):
AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTCG
TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
Found at i:9997926 original size:22 final size:22
Alignment explanation
Indices: 9997876--9997931 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
9997866 ATGTTTTTTG
*
9997876 TTTTTTTATATAAAATGATGGTA
1 TTTTATTATATAAAATGAT-GTA
9997899 TATTTATTATATAAAATGAT-TAA
1 T-TTTATTATATAAAATGATGT-A
9997922 TTTTATTATA
1 TTTTATTATA
9997932 AATGCAGGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 17 0.57
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (22 bp):
TTTTATTATATAAAATGATGTA
Found at i:9998181 original size:9 final size:9
Alignment explanation
Indices: 9998169--9998211 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
9998159 TCAAGGACGT
9998169 AGAGGAGGC
1 AGAGGAGGC
*
9998178 AGAGAAGGC
1 AGAGGAGGC
9998187 AGAGGAGGC
1 AGAGGAGGC
* *
9998196 ATAGGAGGT
1 AGAGGAGGC
9998205 AGAGGAG
1 AGAGGAG
9998212 ATGGAAGAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.37, C:0.07, G:0.51, T:0.05
Consensus pattern (9 bp):
AGAGGAGGC
Found at i:9998263 original size:15 final size:15
Alignment explanation
Indices: 9998245--9998273 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9998235 GGTGGATGAC
9998245 GGTCAGGGGGATTAT
1 GGTCAGGGGGATTAT
9998260 GGTCAGGGGGATTA
1 GGTCAGGGGGATTA
9998274 CGATCAGGGA
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:0.21, C:0.07, G:0.48, T:0.24
Consensus pattern (15 bp):
GGTCAGGGGGATTAT
Found at i:9998280 original size:15 final size:15
Alignment explanation
Indices: 9998247--9998282 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
9998237 TGGATGACGG
* *
9998247 TCAGGGGGATTATGG
1 TCAGGGGGATTACGA
9998262 TCAGGGGGATTACGA
1 TCAGGGGGATTACGA
9998277 TCAGGG
1 TCAGGG
9998283 AAAACAGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.44, T:0.22
Consensus pattern (15 bp):
TCAGGGGGATTACGA
Found at i:9998661 original size:18 final size:18
Alignment explanation
Indices: 9998638--9998676 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
9998628 GAGAAAATTT
*
9998638 GAAGAATAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
9998656 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
9998674 GAA
1 GAA
9998677 ATGAAGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.36, T:0.08
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:9999000 original size:17 final size:17
Alignment explanation
Indices: 9998978--9999013 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
9998968 TTTAAATATT
9998978 TCATGAAAAGATATTAA
1 TCATGAAAAGATATTAA
9998995 TCATGAAAAGATATTAA
1 TCATGAAAAGATATTAA
9999012 TC
1 TC
9999014 CTAATGATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (17 bp):
TCATGAAAAGATATTAA
Found at i:10000188 original size:19 final size:19
Alignment explanation
Indices: 10000164--10000213 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
10000154 AAATGTAGGG
10000164 TTAATTTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
10000183 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
10000202 ATAATTTTGTAT
1 TTAATTTTGTAT
10000214 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:10000838 original size:203 final size:199
Alignment explanation
Indices: 10000487--10001109 Score: 1022
Period size: 203 Copynumber: 3.1 Consensus size: 199
10000477 TTTTGTCCAA
**
10000487 GTATACTTTGTGTCCAGAATGATTTCCTTACCAA-GTGCATGGA-AATGTGTCGATACATTTATA
1 GTATACTTTGTGTCCAGAATGATTTCCTTACCAAGGT-CA-CCATAATGTGTCGATACATTTATA
* *
10000550 AAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATTTA
64 AAAAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTA
* * *
10000615 ACCGGTCTAAATACACCGGTTTATGAGAAAATAGGTATACATAAAGTATCGACACTTTTTTAATT
129 ACCGGTCTAATTACACCGGTTTATGAGAAAATAGGTGTACATGAAGTATCGACACTTTTTTAATT
10000680 TGTGTC
194 TGTGTC
* *
10000686 GATCACATACTTTGTGTCCACAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATCTA
1 G-T---ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATTTA
*
10000751 TAAAAAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATATAATAGGTAAATTATCAATC
62 TAAAAAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATC
*
10000816 TAACCGGTCTAATTACACCGGTTTATGAGAAAATAGGTGTACATGAAGTATCGACACTTTTTGAA
127 TAACCGGTCTAATTACACCGGTTTATGAGAAAATAGGTGTACATGAAGTATCGACACTTTTTTAA
10000881 TTTGTGTC
192 TTTGTGTC
*
10000889 G-ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTTGATACATTTATAAA
1 GTATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATTTATAAA
*
10000953 AAGTATCGATCCAAAAAACATCGAGA-CCATAATCATAATGTAATAGGTAAATTATCAATCTAAC
66 AAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAAC
* *
10001017 CGGTCTAATTACACCGGTTTATGAGAAAACAGTTGTACATGAAGTATCGACACTTTTTTAATTTG
131 CGGTCTAATTACACCGGTTTATGAGAAAATAGGTGTACATGAAGTATCGACACTTTTTTAATTTG
10001082 TGTC
196 TGTC
10001086 -TATACTTTGTGTCCAGAATGATTT
1 GTATACTTTGTGTCCAGAATGATTT
10001110 TGGGTCACCA
Statistics
Matches: 398, Mismatches: 19, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
197 125 0.31
198 86 0.22
199 1 0.00
200 1 0.00
202 1 0.00
203 182 0.46
204 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (199 bp):
GTATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATTTATAAA
AAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAAC
CGGTCTAATTACACCGGTTTATGAGAAAATAGGTGTACATGAAGTATCGACACTTTTTTAATTTG
TGTC
Found at i:10002834 original size:20 final size:20
Alignment explanation
Indices: 10002787--10002837 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
10002777 GATAATTATT
*
10002787 ATGTAACAGGTAAATTTACA
1 ATGTAACCGGTAAATTTACA
10002807 ATGTAACCGGTAAATTTACA
1 ATGTAACCGGTAAATTTACA
10002827 ATGTAACCGGT
1 ATGTAACCGGT
10002838 TAAAATATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (20 bp):
ATGTAACCGGTAAATTTACA
Found at i:10003175 original size:86 final size:86
Alignment explanation
Indices: 10003072--10003229 Score: 226
Period size: 86 Copynumber: 1.8 Consensus size: 86
10003062 AGGTCAATAT
* * * * * *
10003072 AAGCGCTACTTATTACATTATATAAGCGCTACTTAATTTGTTATTGTACTTGATAATATTTCCAG
1 AAGCGCTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTACTTGATAATACTCCCAG
10003137 TTAAATGCCTATTTTATTATA
66 TTAAATGCCTATTTTATTATA
* ** *
10003158 AAGCGCTACCTATTACATTATATAAGTACTACCTAATATGTTATTGTGTTTGATAATACTCCCGG
1 AAGCGCTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTACTTGATAATACTCCCAG
10003223 TTAAATG
66 TTAAATG
10003230 ATATATCATA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
86 62 1.00
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (86 bp):
AAGCGCTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTACTTGATAATACTCCCAG
TTAAATGCCTATTTTATTATA
Found at i:10005440 original size:15 final size:15
Alignment explanation
Indices: 10005422--10005468 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 15
10005412 ATCAAATTAG
10005422 ATTATAAAAAAATAT
1 ATTATAAAAAAATAT
*
10005437 ATTA-ATAAAAATAT
1 ATTATAAAAAAATAT
10005451 AATTATAATAAAAATAT
1 -ATTATAA-AAAAATAT
10005468 A
1 A
10005469 AAATGAACTG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 9 0.33
15 8 0.30
16 2 0.07
17 8 0.30
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATTATAAAAAAATAT
Found at i:10005459 original size:17 final size:17
Alignment explanation
Indices: 10005422--10005469 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 17
10005412 ATCAAATTAG
10005422 ATTATAA-AAAAATAT-
1 ATTATAATAAAAATATA
10005437 A-T-TAATAAAAATATA
1 ATTATAATAAAAATATA
10005452 ATTATAATAAAAATATA
1 ATTATAATAAAAATATA
10005469 A
1 A
10005470 AATGAACTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.10
14 9 0.31
15 2 0.07
16 1 0.03
17 14 0.48
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATTATAATAAAAATATA
Found at i:10007594 original size:23 final size:23
Alignment explanation
Indices: 10007566--10007611 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
10007556 TAGATTTAGG
10007566 GAGAGAAAAAAATAGAGAAGAAATC
1 GAGAG-AAAAAATAGA-AAGAAATC
* *
10007591 GAGAGAGAAAATCGAAAGAAA
1 GAGAGAAAAAATAGAAAGAAA
10007612 GAACAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 8 0.42
25 5 0.26
ACGTcount: A:0.63, C:0.04, G:0.26, T:0.07
Consensus pattern (23 bp):
GAGAGAAAAAATAGAAAGAAATC
Found at i:10009183 original size:16 final size:17
Alignment explanation
Indices: 10009151--10009183 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10009141 CAATTTTCTA
10009151 TCTTAAAATTGATTTTT
1 TCTTAAAATTGATTTTT
10009168 TCTTAAAATT-ATTTTT
1 TCTTAAAATTGATTTTT
10009184 AAAAGATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (17 bp):
TCTTAAAATTGATTTTT
Found at i:10009426 original size:18 final size:20
Alignment explanation
Indices: 10009403--10009441 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10009393 TAGAATTTTA
10009403 TAAATT-TGAACC-TTTAAT
1 TAAATTATGAACCTTTTAAT
*
10009421 TAAATTATGATCCTTTTAAT
1 TAAATTATGAACCTTTTAAT
10009441 T
1 T
10009442 TCAATTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 5 0.28
20 7 0.39
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (20 bp):
TAAATTATGAACCTTTTAAT
Found at i:10013820 original size:25 final size:25
Alignment explanation
Indices: 10013784--10013838 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
10013774 TTTCAAAAAC
*
10013784 TTCATCAGACAT-TCTTCAAAATTAT
1 TTCATCAAACATCT-TTCAAAATTAT
*
10013809 TTCATCAAACATCTTTCAAAATTCT
1 TTCATCAAACATCTTTCAAAATTAT
10013834 TTCAT
1 TTCAT
10013839 TATTTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 26 0.96
26 1 0.04
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.42
Consensus pattern (25 bp):
TTCATCAAACATCTTTCAAAATTAT
Found at i:10015265 original size:45 final size:45
Alignment explanation
Indices: 10015211--10015318 Score: 128
Period size: 46 Copynumber: 2.4 Consensus size: 45
10015201 TGCACCAATC
10015211 CATGCATCGATGCACCAAGAATCAAATTG-AACATCGAATGCATTT
1 CATGCATCGATGCACCAAGAATCAAA-TGAAACATCGAATGCATTT
** * ***
10015256 CATGCATCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTT
1 CATGCATCGATGCACCAAGAATCAAATG-AAACATCGAATGCATTT
*
10015302 GATGCATCGATGCACCA
1 CATGCATCGATGCACCA
10015319 GCCATGCATC
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
44 2 0.04
45 20 0.38
46 30 0.58
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (45 bp):
CATGCATCGATGCACCAAGAATCAAATGAAACATCGAATGCATTT
Found at i:10021122 original size:20 final size:21
Alignment explanation
Indices: 10021097--10021191 Score: 79
Period size: 23 Copynumber: 4.4 Consensus size: 21
10021087 TTGTGCTTAA
10021097 TGCATCGATACACC-T-AACAG
1 TGCATCGATACACCTTGAA-AG
* *
10021117 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CCTTGAAAG
* *
10021139 TGCATCGATACACCATGAAGG
1 TGCATCGATACACCTTGAAAG
*
10021160 TGCACCGATGCACACCTTGAATA-
1 TGCATCGAT--ACACCTTGAA-AG
10021183 TGCATCGAT
1 TGCATCGAT
10021192 GTGCAAGGCC
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
20 11 0.18
21 17 0.28
22 13 0.22
23 19 0.32
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.24
Consensus pattern (21 bp):
TGCATCGATACACCTTGAAAG
Found at i:10021186 original size:23 final size:23
Alignment explanation
Indices: 10021116--10021192 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 23
10021106 ACACCTAACA
*
10021116 GTGCATCGATGCA-TCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
* *
10021138 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCACACCTTGAAT
*
10021159 GTGCACCGATGCACACCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
*
10021182 ATGCATCGATG
1 GTGCATCGATG
10021193 TGCAAGGCCA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
20 1 0.02
21 15 0.34
22 10 0.23
23 18 0.41
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (23 bp):
GTGCATCGATGCACACCTTGAAT
Found at i:10021188 original size:44 final size:42
Alignment explanation
Indices: 10021096--10021191 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 42
10021086 TTTGTGCTTA
* *
10021096 ATGCATCGATACACCTAACAGTGCATCGATGCATCCTTGAAT
1 ATGCATCGATACACCTAACAGTGCACCGATGCAACCTTGAAT
* *
10021138 GTGCATCGATACACCATGAA-GGTGCACCGATGCACACCTTGAAT
1 ATGCATCGATACACC-T-AACAGTGCACCGATGCA-ACCTTGAAT
10021182 ATGCATCGAT
1 ATGCATCGAT
10021192 GTGCAAGGCC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 14 0.30
43 13 0.28
44 19 0.41
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (42 bp):
ATGCATCGATACACCTAACAGTGCACCGATGCAACCTTGAAT
Found at i:10023812 original size:12 final size:13
Alignment explanation
Indices: 10023795--10023823 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
10023785 CAAGCTCGGT
10023795 CTTCAAACTCC-A
1 CTTCAAACTCCAA
10023807 CTTCAAACTCCAA
1 CTTCAAACTCCAA
10023820 CTTC
1 CTTC
10023824 GGTCTTGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.31, C:0.41, G:0.00, T:0.28
Consensus pattern (13 bp):
CTTCAAACTCCAA
Found at i:10028787 original size:21 final size:21
Alignment explanation
Indices: 10028761--10028802 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
10028751 TTTTCTGTGC
10028761 GCTAGGTATCGATACCCCCTT
1 GCTAGGTATCGATACCCCCTT
10028782 GCTAGGTATCGATACCCCCTT
1 GCTAGGTATCGATACCCCCTT
10028803 TGAAGGGGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.33, G:0.19, T:0.29
Consensus pattern (21 bp):
GCTAGGTATCGATACCCCCTT
Found at i:10029337 original size:12 final size:13
Alignment explanation
Indices: 10029311--10029343 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
10029301 TATTGATTTC
10029311 CAAACATTGTTTT
1 CAAACATTGTTTT
10029324 CAAACATT-TTTT
1 CAAACATTGTTTT
10029336 CAAA-ATTG
1 CAAACATTG
10029344 CCCATTAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.16
12 8 0.42
13 8 0.42
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.42
Consensus pattern (13 bp):
CAAACATTGTTTT
Found at i:10032375 original size:16 final size:16
Alignment explanation
Indices: 10032356--10032390 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
10032346 AGAAAACGTG
10032356 CATCAGCACAAACATA
1 CATCAGCACAAACATA
*
10032372 CATCAGTACAAACATA
1 CATCAGCACAAACATA
10032388 CAT
1 CAT
10032391 GAATTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.49, C:0.29, G:0.06, T:0.17
Consensus pattern (16 bp):
CATCAGCACAAACATA
Found at i:10033617 original size:5 final size:5
Alignment explanation
Indices: 10033607--10033631 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10033597 GGAAAGATGT
10033607 TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC
10033632 AAGGCTATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:10033765 original size:2 final size:2
Alignment explanation
Indices: 10033760--10033811 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
10033750 AGTCAATCAA
10033760 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10033802 AT AT AT AT AT
1 AT AT AT AT AT
10033812 TTATTTATCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10044459 original size:11 final size:11
Alignment explanation
Indices: 10044433--10044473 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
10044423 TAATGTTAGG
10044433 AAAAATAAAATTA
1 AAAAATAAAA--A
10044446 AAAATATAAAAA
1 AAAA-ATAAAAA
10044458 AAAAATAAAAA
1 AAAAATAAAAA
10044469 AAAAA
1 AAAAA
10044474 ATACCCATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 12 0.44
12 5 0.19
13 4 0.15
14 6 0.22
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAATAAAAA
Found at i:10044468 original size:12 final size:12
Alignment explanation
Indices: 10044433--10044476 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
10044423 TAATGTTAGG
**
10044433 AAAAATAAAATT
1 AAAAATAAAAAA
10044445 AAAAATATAAAAA
1 AAAAATA-AAAAA
10044458 AAAAATAAAAAA
1 AAAAATAAAAAA
10044470 AAAAATA
1 AAAAATA
10044477 CCCATTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 19 0.66
13 10 0.34
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAATAAAAAA
Found at i:10045134 original size:293 final size:292
Alignment explanation
Indices: 10044569--10045136 Score: 802
Period size: 293 Copynumber: 1.9 Consensus size: 292
10044559 CAAATTACAC
* ** *
10044569 TAAAACTAAATTTCTAGATGAAATTGCAAATATCGGTGATCAAATTGAATTATACATCAGAAGAT
1 TAAAACTAAATTTCTAGATGAAATTGCAAAAATCGACGATCAAATTGAATTATACATCAAAAGAT
* *
10044634 GGGGGATTGCGAAAAAGATTTAAGAATTTAGTAATTACACTTTAGCTCTGCTATAACAATCCCAA
66 GGGGGAATGCGAAAAAGATTTAAGAATTTAGTAATTACACTTTACCTCTGCTATAACAATCCCAA
*
10044699 TTTAATTTTATTATTTTATTTGATTAATTTTCGGGGACCAAATCGTAAGATTCTAAAAACCTTAG
131 TTTAATTTTATTATTTTATTTGATTAATTTTC-GGGACCAAATCGTAAGATTCTAAAAACCGTAG
* * * * *
10044764 GTCAGTTTTCAAAATTTTATAAAAAAAGGGACTTAATTTGGATTTTGACCATCATTGGTTTAAAA
195 GTCAGTTTTCAAAATTTTATAAAAAAAGGGACTTAAATTGGAATTTAACCATCATTAGTTGAAAA
10044829 AAAAGAGAAAAGAGAAAAATGATTGAATTGCAT
260 AAAAGAGAAAAGAGAAAAATGATTGAATTGCAT
* * * * *
10044862 TAAAATTAAATTTCTGGATGAAGTTGCAAAAATCGACGA-CTAAATTGAATTATATATCAAAAGT
1 TAAAACTAAATTTCTAGATGAAATTGCAAAAATCGACGATC-AAATTGAATTATACATCAAAAGA
* *
10044926 TGGGGGAATGCGAAAAAGATTTAAGAATTTAGTAATTACACTCTTCCCTCT-CTATAACAATCCT
65 TGGGGGAATGCGAAAAAGATTTAAGAATTTAGTAATTACACT-TTACCTCTGCTATAACAATCCC
* * * *
10044990 AATTTAATTTTATTATTTTATTTGATTAATGTTT-GGGATCAATTTGTAAGATTCTAAAAATCGT
129 AATTTAATTTTATTATTTTATTTGATTAAT-TTTCGGGACCAAATCGTAAGATTCTAAAAACCGT
*** *
10045054 AGGTCAGTTTTCAAAATTTTATAAAGCTCAGGGACTTAAATTGGAATTTAACCATCGTTAGTCTG
193 AGGTCAGTTTTCAAAATTTTATAAA-AAAAGGGACTTAAATTGGAATTTAACCATCATTAGT-TG
*
10045119 GAAAAAAAG-GAAAAGAGA
256 AAAAAAAAGAGAAAAGAGA
10045137 GAATTAGGTA
Statistics
Matches: 242, Mismatches: 28, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
292 51 0.21
293 173 0.71
294 18 0.07
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (292 bp):
TAAAACTAAATTTCTAGATGAAATTGCAAAAATCGACGATCAAATTGAATTATACATCAAAAGAT
GGGGGAATGCGAAAAAGATTTAAGAATTTAGTAATTACACTTTACCTCTGCTATAACAATCCCAA
TTTAATTTTATTATTTTATTTGATTAATTTTCGGGACCAAATCGTAAGATTCTAAAAACCGTAGG
TCAGTTTTCAAAATTTTATAAAAAAAGGGACTTAAATTGGAATTTAACCATCATTAGTTGAAAAA
AAAGAGAAAAGAGAAAAATGATTGAATTGCAT
Found at i:10045944 original size:30 final size:31
Alignment explanation
Indices: 10045910--10045980 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 31
10045900 AACAAAGTCA
10045910 ACTGAGTCAACA-CGTGTTGAGTAAACTCGC
1 ACTGAGTCAACATCGTGTTGAGTAAACTCGC
10045940 ACTGAGTCAA-ATCGTGTTGAGTAAACTCGC
1 ACTGAGTCAACATCGTGTTGAGTAAACTCGC
10045970 ACTGAGTCAAC
1 ACTGAGTCAAC
10045981 TCACATCGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
29 1 0.03
30 38 0.97
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (31 bp):
ACTGAGTCAACATCGTGTTGAGTAAACTCGC
Found at i:10045945 original size:15 final size:15
Alignment explanation
Indices: 10045927--10045982 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
10045917 CAACACGTGT
10045927 TGAGTAAACTCGCAC
1 TGAGTAAACTCGCAC
***
10045942 TGAGTCAAA-TCGTGT
1 TGAGT-AAACTCGCAC
10045957 TGAGTAAACTCGCAC
1 TGAGTAAACTCGCAC
*
10045972 TGAGTCAACTC
1 TGAGTAAACTC
10045983 ACATCGAGTC
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
14 3 0.09
15 26 0.81
16 3 0.09
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.25
Consensus pattern (15 bp):
TGAGTAAACTCGCAC
Found at i:10045982 original size:45 final size:45
Alignment explanation
Indices: 10045943--10046036 Score: 125
Period size: 45 Copynumber: 2.1 Consensus size: 45
10045933 AACTCGCACT
** *
10045943 GAGTCAAATCGTGTTGAGTAAACTCGCACTGAGTCAACTCACATC
1 GAGTCAAATCACGTCGAGTAAACTCGCACTGAGTCAACTCACATC
* * * *
10045988 GAGTCAACTCACGTCGAGTCAACTCGCATTGAGTCAACTCACGTC
1 GAGTCAAATCACGTCGAGTAAACTCGCACTGAGTCAACTCACATC
10046033 GAGT
1 GAGT
10046037 TAACTCAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (45 bp):
GAGTCAAATCACGTCGAGTAAACTCGCACTGAGTCAACTCACATC
Found at i:10045991 original size:15 final size:15
Alignment explanation
Indices: 10045973--10046048 Score: 98
Period size: 15 Copynumber: 5.1 Consensus size: 15
10045963 AACTCGCACT
10045973 GAGTCAACTCACATC
1 GAGTCAACTCACATC
*
10045988 GAGTCAACTCACGTC
1 GAGTCAACTCACATC
* *
10046003 GAGTCAACTCGCATT
1 GAGTCAACTCACATC
*
10046018 GAGTCAACTCACGTC
1 GAGTCAACTCACATC
* *
10046033 GAGTTAACTCAAATC
1 GAGTCAACTCACATC
10046048 G
1 G
10046049 GTATAAACTG
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 51 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (15 bp):
GAGTCAACTCACATC
Found at i:10045997 original size:30 final size:30
Alignment explanation
Indices: 10045910--10046027 Score: 114
Period size: 30 Copynumber: 3.9 Consensus size: 30
10045900 AACAAAGTCA
* **
10045910 ACTGAGTCAACACGTGTTGAGTAAACTCGC
1 ACTGAGTCAACTCGCATTGAGTAAACTCGC
* **
10045940 ACTGAGTCAAATCGTGTTGAGTAAACTCGC
1 ACTGAGTCAACTCGCATTGAGTAAACTCGC
* * *
10045970 ACTGAGTCAACTCACATCGAGTCAACT--C
1 ACTGAGTCAACTCGCATTGAGTAAACTCGC
*
10045998 ACGTCGAGTCAACTCGCATTGAGTCAACTC
1 AC-T-GAGTCAACTCGCATTGAGTAAACTC
10046028 ACGTCGAGTT
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
28 3 0.04
29 1 0.01
30 71 0.95
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (30 bp):
ACTGAGTCAACTCGCATTGAGTAAACTCGC
Found at i:10046028 original size:30 final size:30
Alignment explanation
Indices: 10045973--10046048 Score: 116
Period size: 30 Copynumber: 2.5 Consensus size: 30
10045963 AACTCGCACT
10045973 GAGTCAACTCACATCGAGTCAACTCACGTC
1 GAGTCAACTCACATCGAGTCAACTCACGTC
* *
10046003 GAGTCAACTCGCATTGAGTCAACTCACGTC
1 GAGTCAACTCACATCGAGTCAACTCACGTC
* *
10046033 GAGTTAACTCAAATCG
1 GAGTCAACTCACATCG
10046049 GTATAAACTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (30 bp):
GAGTCAACTCACATCGAGTCAACTCACGTC
Found at i:10046042 original size:45 final size:45
Alignment explanation
Indices: 10045958--10046043 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
10045948 AAATCGTGTT
10045958 GAGTAAACTCGCACTGAGTCAACTCACATCGAGTCAACTCACGTC
1 GAGTAAACTCGCACTGAGTCAACTCACATCGAGTCAACTCACGTC
* * * *
10046003 GAGTCAACTCGCATTGAGTCAACTCACGTCGAGTTAACTCA
1 GAGTAAACTCGCACTGAGTCAACTCACATCGAGTCAACTCA
10046044 AATCGGTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
GAGTAAACTCGCACTGAGTCAACTCACATCGAGTCAACTCACGTC
Found at i:10047889 original size:45 final size:45
Alignment explanation
Indices: 10047838--10048101 Score: 312
Period size: 45 Copynumber: 5.9 Consensus size: 45
10047828 ATTGTAACAT
* * * *
10047838 CTTTTCTAATGATAATGCAACCATATGCATTTCAACTATAGTATA
1 CTTTTCTATTGATAATGTACCCATATACATTTCAACTATAGTATA
*
10047883 CTTTTCTATTGATAATGTACCCATATACATTTCAACCATAGTATA
1 CTTTTCTATTGATAATGTACCCATATACATTTCAACTATAGTATA
** * * * * *
10047928 CCGTTCTGTTGATAATGTACCCATATACATTTCAAATCTAGCATG
1 CTTTTCTATTGATAATGTACCCATATACATTTCAACTATAGTATA
* * * * * *
10047973 CTCTTCTATTGATAATGCACCCAGATGCATTTCAACTCTAGCATA
1 CTTTTCTATTGATAATGTACCCATATACATTTCAACTATAGTATA
* * * *
10048018 CTTTTCTGTTGATAATGTTCCCATATACATATCAACCATAGTATA
1 CTTTTCTATTGATAATGTACCCATATACATTTCAACTATAGTATA
* *
10048063 CTTTTCTGTTGATAATGTACCCATGTACATTTCAACTAT
1 CTTTTCTATTGATAATGTACCCATATACATTTCAACTAT
10048102 GTCATCCTTT
Statistics
Matches: 184, Mismatches: 35, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 184 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (45 bp):
CTTTTCTATTGATAATGTACCCATATACATTTCAACTATAGTATA
Found at i:10048033 original size:135 final size:135
Alignment explanation
Indices: 10047841--10048097 Score: 415
Period size: 135 Copynumber: 1.9 Consensus size: 135
10047831 GTAACATCTT
* *
10047841 TTCTAATGATAATGCAACCATATGCATTTCAACTATAGTATACTTTTCTATTGATAATGTACCCA
1 TTCTAATGATAATGCAACCAGATGCATTTCAACTATAGCATACTTTTCTATTGATAATGTACCCA
*
10047906 TATACATTTCAACCATAGTATACCGTTCTGTTGATAATGTACCCATATACATTTCAAATCTAGCA
66 TATACATATCAACCATAGTATACCGTTCTGTTGATAATGTACCCATATACATTTCAAATCTAGCA
10047971 TGCTC
131 TGCTC
* * * * *
10047976 TTCTATTGATAATGCACCCAGATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGTTCCCA
1 TTCTAATGATAATGCAACCAGATGCATTTCAACTATAGCATACTTTTCTATTGATAATGTACCCA
** *
10048041 TATACATATCAACCATAGTATACTTTTCTGTTGATAATGTACCCATGTACATTTCAA
66 TATACATATCAACCATAGTATACCGTTCTGTTGATAATGTACCCATATACATTTCAA
10048098 CTATGTCATC
Statistics
Matches: 111, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
135 111 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (135 bp):
TTCTAATGATAATGCAACCAGATGCATTTCAACTATAGCATACTTTTCTATTGATAATGTACCCA
TATACATATCAACCATAGTATACCGTTCTGTTGATAATGTACCCATATACATTTCAAATCTAGCA
TGCTC
Found at i:10048123 original size:135 final size:135
Alignment explanation
Indices: 10047841--10048138 Score: 408
Period size: 135 Copynumber: 2.2 Consensus size: 135
10047831 GTAACATCTT
* * *
10047841 TTCTAATGATAATGCAACCATATGCATTTCAACTATAGTATACTTTTCTATTGATAATGTACCCA
1 TTCTATTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTATTGATAATGTACCCA
*
10047906 TATACATTTCAACCATAGTATACCGTTCTGTTGATAATGTACCCATATACATTTCAAATCTAGCA
66 TATACATATCAACCATAGTATACCGTTCTGTTGATAATGTACCCATATACATTTCAAATCTAGCA
*
10047971 TGCTC
131 TCCTC
* * * *
10047976 TTCTATTGATAATGCACCCAGATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGTTCCCA
1 TTCTATTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTATTGATAATGTACCCA
** *
10048041 TATACATATCAACCATAGTATACTTTTCTGTTGATAATGTACCCATGTACATTTC-AA-CTATGT
66 TATACATATCAACCATAGTATACCGTTCTGTTGATAATGTACCCATATACATTTCAAATCTA-G-
10048104 CATCCT-
129 CATCCTC
10048110 TTC-A-TGCCAATAATGCACCCATATGCATT
1 TTCTATTG---ATAATGCACCCATATGCATT
10048139 AGTATTTTCA
Statistics
Matches: 145, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
132 2 0.01
133 4 0.03
134 6 0.04
135 133 0.92
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (135 bp):
TTCTATTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTATTGATAATGTACCCA
TATACATATCAACCATAGTATACCGTTCTGTTGATAATGTACCCATATACATTTCAAATCTAGCA
TCCTC
Found at i:10048131 original size:90 final size:91
Alignment explanation
Indices: 10047847--10048138 Score: 308
Period size: 90 Copynumber: 3.2 Consensus size: 91
10047837 TCTTTTCTAA
* * * *
10047847 TGATAATGCAACCATATGCATTTCAACTATAGTATACTTTTCTATTGATAATGTACCCATATACA
1 TGATAATGCACCCATATACATTTCAACCATAGTATACTTTTCTATTGATAATGTACCCATGTACA
* *
10047912 TTTCAACCATAGT-ATACCGTTCTGT
66 TTTCAACTATAGTCATACCTTTCTGT
* * * * * * *
10047937 TGATAATGTACCCATATACATTTCAAATC-TAGCATGCTCTTCTATTGATAATGCACCCA-GATG
1 TGATAATGCACCCATATACATTTC-AACCATAGTATACTTTTCTATTGATAATGTACCCATG-TA
* *
10048000 CATTTCAACTCTAG-CATACTTTTCTGT
64 CATTTCAACTATAGTCATACCTTTCTGT
** * *
10048027 TGATAATGTTCCCATATACATATCAACCATAGTATACTTTTCTGTTGATAATGTACCCATGTACA
1 TGATAATGCACCCATATACATTTCAACCATAGTATACTTTTCTATTGATAATGTACCCATGTACA
*
10048092 TTTCAACTAT-GTCAT-CCTTTCATGC
66 TTTCAACTATAGTCATACCTTTC-TGT
** *
10048117 CAATAATGCACCCATATGCATT
1 TGATAATGCACCCATATACATT
10048139 AGTATTTTCA
Statistics
Matches: 162, Mismatches: 33, Indels: 14
0.78 0.16 0.07
Matches are distributed among these distances:
89 9 0.06
90 150 0.93
91 3 0.02
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.37
Consensus pattern (91 bp):
TGATAATGCACCCATATACATTTCAACCATAGTATACTTTTCTATTGATAATGTACCCATGTACA
TTTCAACTATAGTCATACCTTTCTGT
Found at i:10048694 original size:20 final size:20
Alignment explanation
Indices: 10048629--10048722 Score: 125
Period size: 20 Copynumber: 4.5 Consensus size: 20
10048619 ATGTGGCCCA
*
10048629 GTATCGATACCCTTACCATAG
1 GTATCGATACCCTCACCAT-G
*
10048650 GTATCGATACCGCTACACTATG
1 GTATCGATACC-CT-CACCATG
*
10048672 GTACCGATACCCTCACCATG
1 GTATCGATACCCTCACCATG
*
10048692 GTATTGATACCCTCACCATG
1 GTATCGATACCCTCACCATG
10048712 GTATCGATACC
1 GTATCGATACC
10048723 ACTTCATTAG
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
20 34 0.53
21 13 0.20
22 13 0.20
23 4 0.06
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (20 bp):
GTATCGATACCCTCACCATG
Found at i:10053385 original size:45 final size:45
Alignment explanation
Indices: 10053310--10053618 Score: 318
Period size: 45 Copynumber: 6.9 Consensus size: 45
10053300 TACTTTAAAT
* * * * *
10053310 TATAACAT-CTTTTCTATCGATAATGCACCCATATGCATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
*
10053354 TATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* * * * *
10053399 CATAGTATA-TCGTTCTGTGGATAATGTACCCATATACATTTCAAA
1 TATAGCATACT-TTTCTGTTGATAATGTACCCATATACATTTCAAC
* * * ** *
10053444 TCTAGCATGCTCTTCTGTTGATAATACACCCATATGCATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* * *
10053489 TCTAGCATACTTTTCTGTTGATAATGTTCCCATATACATATCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* * *
10053534 CATAGTATACTTTTCTGTTGATAATGTACTCATATACATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* * * * * *
10053579 TATGGCAT-CCTTTCATGCTAATAATGCACCCATATGCATT
1 TATAGCATACTTTTC-TGTTGATAATGTACCCATATACATT
10053619 AATATTTGCA
Statistics
Matches: 219, Mismatches: 42, Indels: 7
0.82 0.16 0.03
Matches are distributed among these distances:
44 12 0.05
45 206 0.94
46 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (45 bp):
TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
Found at i:10053514 original size:135 final size:135
Alignment explanation
Indices: 10053328--10053618 Score: 424
Period size: 135 Copynumber: 2.2 Consensus size: 135
10053318 CTTTTCTATC
*
10053328 GATAATGCACCCATATGCATTTCAACTATAGTATACTTTTCTGTTGATAATGTACCCATATACAT
1 GATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGTACCCATATACAT
* * *
10053393 TTCAACCATAGTATA-TCGTTCTGTGGATAATGTACCCATATACATTTCAAATCTAGCATGCTCT
66 ATCAACCATAGTATACT-GTTCTGTGGATAATGTACCCATATACATTTCAAATATAGCATCCT-T
*
10053457 TC-TGTT
129 TCATGCT
* * *
10053463 GATAATACACCCATATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGTTCCCATATACAT
1 GATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGTACCCATATACAT
* * * * *
10053528 ATCAACCATAGTATACTTTTCTGTTGATAATGTACTCATATACATTTCAACTATGGCATCCTTTC
66 ATCAACCATAGTATACTGTTCTGTGGATAATGTACCCATATACATTTCAAATATAGCATCCTTTC
10053593 ATGCT
131 ATGCT
*
10053598 AATAATGCACCCATATGCATT
1 GATAATGCACCCATATGCATT
10053619 AATATTTGCA
Statistics
Matches: 139, Mismatches: 15, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
134 3 0.02
135 135 0.97
136 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (135 bp):
GATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGTACCCATATACAT
ATCAACCATAGTATACTGTTCTGTGGATAATGTACCCATATACATTTCAAATATAGCATCCTTTC
ATGCT
Found at i:10054150 original size:96 final size:94
Alignment explanation
Indices: 10054050--10054235 Score: 214
Period size: 96 Copynumber: 1.9 Consensus size: 94
10054040 ATACTTCTAT
* *
10054050 ACTATAGTACCGATACTCCCTT-CGGGTATCAATACCAAAAATAGGTTCGATGTGGCCCA-GTAT
1 ACTATAGTACCGATA--CCCTTAAGGGTATCAATACCAAAAATAGGTTCGATGT-GACCAGGTAT
*
10054113 CAATACCCTTACCATAGGTATCGATACCGCGAC
63 CAATACCCTCACCAT-GGTATCGATACCGCGAC
* * * * * * *
10054146 ACTATGGTACCTATACCCTTAAATGGTATCGATACCAAAATTAGGTTCGATGTTACCAGGTATCG
1 ACTATAGTACCGATACCCTT-AAGGGTATCAATACCAAAAATAGGTTCGATGTGACCAGGTATCA
*
10054211 ATACCCTCACCATGGTATTGATACC
65 ATACCCTCACCATGGTATCGATACC
10054236 ACTTCATTAG
Statistics
Matches: 76, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
94 5 0.07
95 14 0.18
96 57 0.75
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (94 bp):
ACTATAGTACCGATACCCTTAAGGGTATCAATACCAAAAATAGGTTCGATGTGACCAGGTATCAA
TACCCTCACCATGGTATCGATACCGCGAC
Found at i:10056249 original size:2 final size:2
Alignment explanation
Indices: 10056242--10056273 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10056232 CCATAAAATT
10056242 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10056274 GATCTTTCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10058865 original size:45 final size:45
Alignment explanation
Indices: 10058800--10059151 Score: 379
Period size: 45 Copynumber: 7.9 Consensus size: 45
10058790 CATTTTAAAT
* *
10058800 TATAACAT-CTTTTCTGTTGATAATGCACCCATATGCATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGCACCCATATACATTTCAAC
* * * * *
10058844 TATAGTATACTTTTTTATTGATAATGTAGCCATATACATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGCACCCATATACATTTCAAC
* * *
10058889 CATAGTATACCTTTCTGTTGATAATGCACCCATATACATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGCACCCATATACATTTCAAC
* * * * *
10058934 TCTAGCATGCTCTTCTGTTGATAATGCACCCATATGCATTTCAAA
1 TATAGCATACTTTTCTGTTGATAATGCACCCATATACATTTCAAC
* * **
10058979 TCTAGCATACATTTC-GTTGATAATGC-CCCATATGGATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGCACCCATATACATTTCAAC
* * *
10059022 TCTAGCATACTTTTCTGTTGATAATGTACCCATTTACATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGCACCCATATACATTTCAAC
* * * *
10059067 CATAGTATACTTTTCTGTTCATAATGTACCCATATACATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGCACCCATATACATTTCAAC
* * *** *
10059112 TAT-GACATCCTTTTATGACAATAATGCACCCATATGCATT
1 TATAG-CATACTTTTCTGTTGATAATGCACCCATATACATT
10059152 AGTGTTTTCA
Statistics
Matches: 259, Mismatches: 45, Indels: 7
0.83 0.14 0.02
Matches are distributed among these distances:
43 29 0.11
44 28 0.11
45 202 0.78
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (45 bp):
TATAGCATACTTTTCTGTTGATAATGCACCCATATACATTTCAAC
Found at i:10059060 original size:133 final size:135
Alignment explanation
Indices: 10058811--10059110 Score: 374
Period size: 133 Copynumber: 2.2 Consensus size: 135
10058801 ATAACATCTT
* * * * *
10058811 TTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTTTATTGATAATGTAGCCA
1 TTCTGTTGATAATGCACCCATATGCATTTCAAATATAGCATACTATTTCATTGATAATGTACCCA
*
10058876 TATACATTTCAACCATAGTATACCTTTCTGTTGATAATGCACCCATATACATTTCAACTC-TAGC
66 TATACATTTCAACCATAGCATACCTTTCTGTTGATAATGCACCCATATACATTTCAAC-CATAGC
*
10058940 ATGCTC
130 ATACTC
* * *
10058946 TTCTGTTGATAATGCACCCATATGCATTTCAAATCTAGCATAC-ATTTCGTTGATAATG-CCCCA
1 TTCTGTTGATAATGCACCCATATGCATTTCAAATATAGCATACTATTTCATTGATAATGTACCCA
** * * * *
10059009 TATGGATTTCAACTC-TAGCATACTTTTCTGTTGATAATGTACCCATTTACATTTCAACCATAGT
66 TATACATTTCAAC-CATAGCATACCTTTCTGTTGATAATGCACCCATATACATTTCAACCATAGC
*
10059073 ATACTT
130 ATACTC
* * *
10059079 TTCTGTTCATAATGTACCCATATACATTTCAA
1 TTCTGTTGATAATGCACCCATATGCATTTCAA
10059111 CTATGACATC
Statistics
Matches: 143, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
132 1 0.01
133 89 0.62
134 13 0.09
135 40 0.28
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (135 bp):
TTCTGTTGATAATGCACCCATATGCATTTCAAATATAGCATACTATTTCATTGATAATGTACCCA
TATACATTTCAACCATAGCATACCTTTCTGTTGATAATGCACCCATATACATTTCAACCATAGCA
TACTC
Found at i:10059138 original size:178 final size:180
Alignment explanation
Indices: 10058810--10059151 Score: 501
Period size: 178 Copynumber: 1.9 Consensus size: 180
10058800 TATAACATCT
* * *
10058810 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTTTATTGATAATGTAGCC
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTATTGATAATGTACCC
* *
10058875 ATATACATTTCAACCATAGTATACCTTTCTGTTGATAATGCACCCATATACATTTCAACTCTAGC
66 ATATACATTTCAACCATAGTATACCTTTCTGTTCATAATGCACCCATATACATTTCAACTATAGC
* * ***
10058940 ATGCTCTTCTGTTGATAATGCACCCATATGCATTTCAAATCTAGCATACA
131 ATCCTCTTATGACAATAATGCACCCATATGCATTTCAAATCTAGCATACA
* * *
10058990 TTTC-GTTGATAATGC-CCCATATGGATTTCAACTCTAGCATACTTTTCTGTTGATAATGTACCC
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTATTGATAATGTACCC
* * *
10059053 ATTTACATTTCAACCATAGTATACTTTTCTGTTCATAATGTACCCATATACATTTCAACTAT-GA
66 ATATACATTTCAACCATAGTATACCTTTCTGTTCATAATGCACCCATATACATTTCAACTATAG-
*
10059117 CATCCTTTTATGACAATAATGCACCCATATGCATT
130 CATCCTCTTATGACAATAATGCACCCATATGCATT
10059152 AGTGTTTTCA
Statistics
Matches: 144, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
177 1 0.01
178 128 0.89
179 11 0.08
180 4 0.03
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (180 bp):
TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTATTGATAATGTACCC
ATATACATTTCAACCATAGTATACCTTTCTGTTCATAATGCACCCATATACATTTCAACTATAGC
ATCCTCTTATGACAATAATGCACCCATATGCATTTCAAATCTAGCATACA
Found at i:10059540 original size:21 final size:22
Alignment explanation
Indices: 10059514--10059586 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 22
10059504 ATGTGGCCCA
*
10059514 GTATCGATACCCTTAC-CATAT-
1 GTATCGATACCCCTACAC-TATG
10059535 GTATCGATACCCCTACACTATG
1 GTATCGATACCCCTACACTATG
* *
10059557 GTACCGATACCCCT--A-TCTG
1 GTATCGATACCCCTACACTATG
10059576 GTATCGATACC
1 GTATCGATACC
10059587 AAAAGTAGGT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
19 13 0.28
20 1 0.02
21 18 0.39
22 14 0.30
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.29
Consensus pattern (22 bp):
GTATCGATACCCCTACACTATG
Found at i:10059564 original size:22 final size:21
Alignment explanation
Indices: 10059518--10059571 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
10059508 GGCCCAGTAT
* *
10059518 CGATACCCTTACCATATGTAT
1 CGATACCCCTACCATATGTAC
10059539 CGATACCCCTA-CACTATGGTAC
1 CGATACCCCTACCA-TAT-GTAC
10059561 CGATACCCCTA
1 CGATACCCCTA
10059572 TCTGGTATCG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 13 0.45
22 14 0.48
ACGTcount: A:0.28, C:0.35, G:0.11, T:0.26
Consensus pattern (21 bp):
CGATACCCCTACCATATGTAC
Found at i:10059581 original size:96 final size:96
Alignment explanation
Indices: 10059455--10059660 Score: 233
Period size: 96 Copynumber: 2.2 Consensus size: 96
10059445 ATACTTCTAT
* *
10059455 ACTATGGTACTAATACCCCCTTCGGGTATCGATA-CAAAATATAGGTTCAATGTGGCCCA-GTAT
1 ACTATGGTACCAATACCCCCTTCGGGTATCGATACCAAAA-ATAGGTTCAATGT-GACCAGGTAT
*
10059518 CGATACCCTTACCATATGTATCGATACCCCTAC
64 CGATACCCTCACCATATGTATCGATACCCCTAC
* * * * *
10059551 ACTATGGTACCGATA-CCCCTATCTGGTATCGATACCAAAAGTAGGTTCGATGTTACCAGGTATC
1 ACTATGGTACCAATACCCCCT-TCGGGTATCGATACCAAAAATAGGTTCAATGTGACCAGGTATC
* * * *
10059615 GATACCCTCACCAT-GGTATCAATACCACTTC
65 GATACCCTCACCATATGTATCGATACCCCTAC
*
10059646 ATTA-GGTACCAATAC
1 ACTATGGTACCAATAC
10059661 TGATTGAATC
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
94 9 0.10
95 24 0.26
96 54 0.59
97 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (96 bp):
ACTATGGTACCAATACCCCCTTCGGGTATCGATACCAAAAATAGGTTCAATGTGACCAGGTATCG
ATACCCTCACCATATGTATCGATACCCCTAC
Found at i:10068116 original size:156 final size:156
Alignment explanation
Indices: 10067808--10068410 Score: 607
Period size: 161 Copynumber: 3.9 Consensus size: 156
10067798 TAAAAGCAAG
* * * * * *
10067808 CTTAAAAT-AAGGATGAATCGGAGAAAT-AGGAAAATTATGAAAAATTAAGGGACTAAATTGAAA
1 CTTAAAATAAAGGATGAATTGAAGAAATAAAG-AAATTATAAAAAATTGAGGGACTAAATTAAAA
* * * * * * *
10067871 AATAGAAATTTTTTTATCAAAAAATAGGAATTTAAAGAACATATGCATTCTACGA-GGTTTTAGG
65 AATAGAAAATTTGTTATC-AAAAAGAGAAATTGAAAGTACATATGCATTCTATGATGG-TTTAGG
* *
10067935 AGCATGTGGTTCAAAGTTGGTAAAAATAGA
128 AGCATGTGATTCAAATTTGGTAAAAAT-GA
* * * * * *
10067965 TTTAAAATAAAAGATTAATTGAAGAAATAATGAAATTAT-AAAAATTGAGGGATTAAATAAAAAA
1 CTTAAAATAAAGGATGAATTGAAGAAATAAAGAAATTATAAAAAATTGAGGGACTAAATTAAAAA
* * * * *
10068029 ATAAAAAATGTGTTATCAAAAAGAGAAATTGAAATTACATATGTATTCTATGATGGTTTAGAAGC
66 ATAGAAAATTTGTTATCAAAAAGAGAAATTGAAAGTACATATGCATTCTATGATGGTTTAGGAGC
10068094 ATGTGATTCAAATTTGGTAAAAAAAAATGGA
131 ATGTGATTCAAATTTGGT----AAAAAT-GA
* * * *
10068125 CTTAAAATAGAGGATGAATTGAAGAAATAAAGAAATTATAAAAAAATGATGGATTAAATTAAAAA
1 CTTAAAATAAAGGATGAATTGAAGAAATAAAGAAATTATAAAAAATTGAGGGACTAAATTAAAAA
* * * * * *
10068190 ATAGAAAATTTATTATCAAGAAGAGGAATTGAAAGTACATATGTATTATATGATGTTTTAGGAGC
66 ATAGAAAATTTGTTATCAAAAAGAGAAATTGAAAGTACATATGCATTCTATGATGGTTTAGGAGC
* * *
10068255 -TTTTAGTTCAAATTTGG-AAACATGA
131 ATGTGA-TTCAAATTTGGTAAAAATGA
* * ** *
10068280 CTTAAAATTAAGGATGAATTGAAGAAATAAAAAAAATTATAAAAAATT-AAAGACTAAATTGAAA
1 CTTAAAATAAAGGATGAATTGAAGAAAT-AAAGAAATTATAAAAAATTGAGGGACTAAATTAAAA
* * *
10068344 AATAGAAAATTTGTTAT-AAAAA-A-ATA-TGAAAGTACATATGCATTCTAAGATGGTTAAGGAG
65 AATAGAAAATTTGTTATCAAAAAGAGAAATTGAAAGTACATATGCATTCTATGATGGTTTAGGAG
10068405 CATGTG
130 CATGTG
10068411 GGTAAAAAAC
Statistics
Matches: 371, Mismatches: 64, Indels: 27
0.80 0.14 0.06
Matches are distributed among these distances:
151 31 0.08
152 3 0.01
153 1 0.00
154 4 0.01
155 56 0.15
156 75 0.20
157 43 0.12
158 22 0.06
159 2 0.01
160 45 0.12
161 89 0.24
ACGTcount: A:0.49, C:0.04, G:0.17, T:0.29
Consensus pattern (156 bp):
CTTAAAATAAAGGATGAATTGAAGAAATAAAGAAATTATAAAAAATTGAGGGACTAAATTAAAAA
ATAGAAAATTTGTTATCAAAAAGAGAAATTGAAAGTACATATGCATTCTATGATGGTTTAGGAGC
ATGTGATTCAAATTTGGTAAAAATGA
Found at i:10079057 original size:22 final size:21
Alignment explanation
Indices: 10079032--10079078 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
10079022 GATAAAGAAA
*
10079032 GAGACAGAGAGTGTATGTGGGG
1 GAGA-AGAGAGTGTATGTGAGG
*
10079054 GAG-AGAGAGTGTTTGTGAGG
1 GAGAAGAGAGTGTATGTGAGG
10079074 GAGAA
1 GAGAA
10079079 AGTGAGTGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 18 0.82
21 1 0.05
22 3 0.14
ACGTcount: A:0.30, C:0.02, G:0.49, T:0.19
Consensus pattern (21 bp):
GAGAAGAGAGTGTATGTGAGG
Found at i:10079062 original size:20 final size:20
Alignment explanation
Indices: 10079037--10079077 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
10079027 AGAAAGAGAC
*
10079037 AGAGAGTGTATGTGGGGGAG
1 AGAGAGTGTATGTGAGGGAG
*
10079057 AGAGAGTGTTTGTGAGGGAG
1 AGAGAGTGTATGTGAGGGAG
10079077 A
1 A
10079078 AAGTGAGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.51, T:0.22
Consensus pattern (20 bp):
AGAGAGTGTATGTGAGGGAG
Found at i:10079450 original size:19 final size:19
Alignment explanation
Indices: 10079428--10079465 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
10079418 AGAACGAAAG
10079428 AAAGAGATGAGA-GAGATAA
1 AAAGAGA-GAGAGGAGATAA
*
10079447 AAAGGGAGAGAGGAGATAA
1 AAAGAGAGAGAGGAGATAA
10079466 CTATAGAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.55, C:0.00, G:0.37, T:0.08
Consensus pattern (19 bp):
AAAGAGAGAGAGGAGATAA
Found at i:10079553 original size:16 final size:16
Alignment explanation
Indices: 10079470--10079589 Score: 80
Period size: 16 Copynumber: 7.4 Consensus size: 16
10079460 AGATAACTAT
**
10079470 AGAGAGAGAAAGAGAG
1 AGAGAGAGGGAGAGAG
* * *
10079486 TGTGAGTGGGAGAGAG
1 AGAGAGAGGGAGAGAG
* *
10079502 TAGGTGAGAGAGAGAGAG
1 -A-GAGAGAGGGAGAGAG
* *
10079520 AAAGAGAGGGAGGGAG
1 AGAGAGAGGGAGAGAG
*
10079536 AGAGAGTGGGAGAGAG
1 AGAGAGAGGGAGAGAG
* *
10079552 AGATTA-TGGGAGAGAG
1 AGA-GAGAGGGAGAGAG
* *
10079568 GGAGAGAGGGAGAGAA
1 AGAGAGAGGGAGAGAG
10079584 AGAGAG
1 AGAGAG
10079590 CAAGAGTGGG
Statistics
Matches: 79, Mismatches: 21, Indels: 8
0.73 0.19 0.07
Matches are distributed among these distances:
15 1 0.01
16 63 0.80
17 2 0.03
18 13 0.16
ACGTcount: A:0.41, C:0.00, G:0.52, T:0.07
Consensus pattern (16 bp):
AGAGAGAGGGAGAGAG
Found at i:10079608 original size:2 final size:2
Alignment explanation
Indices: 10079470--10079589 Score: 62
Period size: 2 Copynumber: 59.0 Consensus size: 2
10079460 AGATAACTAT
* * * * * *
10079470 AG AG AG AG AA AG AG AG TG TG AG TG GG AG AG AG TAG -G TG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -AG AG AG AG AG
* * * * *
10079512 AG AG AG AG AA AG AG AG GG AG GG AG AG AG AG TG GG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * *
10079554 ATT ATG GG AG AG AG GG AG AG AG GG AG AG AA AG AG AG
1 A-G A-G AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10079590 CAAGAGTGGG
Statistics
Matches: 88, Mismatches: 27, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
1 1 0.01
2 83 0.94
3 4 0.05
ACGTcount: A:0.41, C:0.00, G:0.52, T:0.07
Consensus pattern (2 bp):
AG
Found at i:10081266 original size:12 final size:12
Alignment explanation
Indices: 10081249--10081273 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10081239 CTTAGCGCTT
10081249 GAGTGAGACTAA
1 GAGTGAGACTAA
10081261 GAGTGAGACTAA
1 GAGTGAGACTAA
10081273 G
1 G
10081274 TTTTTATCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.36, T:0.16
Consensus pattern (12 bp):
GAGTGAGACTAA
Found at i:10090450 original size:36 final size:36
Alignment explanation
Indices: 10090403--10090482 Score: 124
Period size: 36 Copynumber: 2.2 Consensus size: 36
10090393 TATATGGGAA
* ** *
10090403 GAAATGCCATGACATCACATGTTGTTGAAGCGGATT
1 GAAATGCCATGACATCACACGTTACTGAAGCAGATT
10090439 GAAATGCCATGACATCACACGTTACTGAAGCAGATT
1 GAAATGCCATGACATCACACGTTACTGAAGCAGATT
10090475 GAAATGCC
1 GAAATGCC
10090483 TTGGCATTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (36 bp):
GAAATGCCATGACATCACACGTTACTGAAGCAGATT
Found at i:10092141 original size:20 final size:20
Alignment explanation
Indices: 10092116--10092168 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
10092106 AGAGGGAGAG
10092116 AGAGTGAGATAAAGAAGT-AA
1 AGAGTGAGATAAAG-AGTGAA
* * *
10092136 AGAGTGTGAGAGAGAGTGAA
1 AGAGTGAGATAAAGAGTGAA
*
10092156 AGAGTGGGATAAA
1 AGAGTGAGATAAA
10092169 TTGGGTGAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.47, C:0.00, G:0.38, T:0.15
Consensus pattern (20 bp):
AGAGTGAGATAAAGAGTGAA
Found at i:10092362 original size:24 final size:24
Alignment explanation
Indices: 10092335--10092380 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
10092325 TTAGAGTTGG
*
10092335 AGAGAGTG-GGTGAGAGAGAGATGA
1 AGAGAGTGAGGT-AGAGACAGATGA
*
10092359 AGAGTGTGAGGTAGAGACAGAT
1 AGAGAGTGAGGTAGAGACAGAT
10092381 AGAGAACAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.37, C:0.02, G:0.46, T:0.15
Consensus pattern (24 bp):
AGAGAGTGAGGTAGAGACAGATGA
Found at i:10092998 original size:28 final size:29
Alignment explanation
Indices: 10092952--10093016 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
10092942 AGTAAGAGAA
* * *
10092952 TGAGAGATAATGAGTGGG-AGAGAGTGGG
1 TGAGAGAAAAAGAGAGGGAAGAGAGTGGG
10092980 TGAGAGAAAAAGAGAGGGAAAGAGAGTGGG
1 TGAGAGAAAAAGAGAGGG-AAGAGAGTGGG
10093010 TGAGAGA
1 TGAGAGA
10093017 GTGTGAGAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 15 0.47
30 17 0.53
ACGTcount: A:0.40, C:0.00, G:0.48, T:0.12
Consensus pattern (29 bp):
TGAGAGAAAAAGAGAGGGAAGAGAGTGGG
Found at i:10093025 original size:30 final size:29
Alignment explanation
Indices: 10092952--10093038 Score: 79
Period size: 30 Copynumber: 3.0 Consensus size: 29
10092942 AGTAAGAGAA
* * *
10092952 TGAGAGATAATGAGTGG-GAGAGAGTGGG
1 TGAGAGAAAAAGAGAGGTGAGAGAGTGGG
10092980 TGAGAGAAAAAGAGAGG-GAAAGAGAGTGGG
1 TGAGAGAAAAAGAGAGGTG--AGAGAGTGGG
****
10093010 TGAGAGAGTGTGAGAGGTGAGAGAGTGGG
1 TGAGAGAAAAAGAGAGGTGAGAGAGTGGG
10093039 AGGAAGATAG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 15 0.31
29 10 0.20
30 23 0.47
31 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.51, T:0.14
Consensus pattern (29 bp):
TGAGAGAAAAAGAGAGGTGAGAGAGTGGG
Found at i:10093767 original size:24 final size:22
Alignment explanation
Indices: 10093740--10093783 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
10093730 GATCAAGAGA
10093740 GAGGTAGAGAGAAAAAGAAATATG
1 GAGGTA-A-AGAAAAAGAAATATG
*
10093764 GAGGTAAAGATAAAGAAATA
1 GAGGTAAAGAAAAAGAAATA
10093784 GTAGATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 1 0.05
24 6 0.32
ACGTcount: A:0.57, C:0.00, G:0.30, T:0.14
Consensus pattern (22 bp):
GAGGTAAAGAAAAAGAAATATG
Found at i:10093972 original size:22 final size:21
Alignment explanation
Indices: 10093932--10093982 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
10093922 GTCTGAGTGT
10093932 GGGAGAGAGTGGACAAGAATAA
1 GGGAGAGAGTGGACAAGAAT-A
*
10093954 GGGAGAGAGTGAGA-GAGAATA
1 GGGAGAGAGTG-GACAAGAATA
10093975 -GGAGAGAG
1 GGGAGAGAG
10093983 GAAAAAAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 8 0.30
21 1 0.04
22 16 0.59
23 2 0.07
ACGTcount: A:0.43, C:0.02, G:0.47, T:0.08
Consensus pattern (21 bp):
GGGAGAGAGTGGACAAGAATA
Found at i:10094003 original size:33 final size:32
Alignment explanation
Indices: 10093963--10094045 Score: 125
Period size: 33 Copynumber: 2.6 Consensus size: 32
10093953 AGGGAGAGAG
10093963 TGAGAGAGAATAG-GAGAGAGGAAAAAAAGTGGA
1 TGAGAGAGAATAGAGAGAGA-G-AAAAAAGTGGA
10093996 TGAGAGAGAATAAGAGAGAGAGAAAAAAGTGGA
1 TGAGAGAGAAT-AGAGAGAGAGAAAAAAGTGGA
10094029 TGAGAGAG-ATAGAGAGA
1 TGAGAGAGAATAGAGAGA
10094046 AAATGTGAGA
Statistics
Matches: 48, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
31 7 0.15
32 2 0.04
33 30 0.62
34 3 0.06
35 6 0.12
ACGTcount: A:0.52, C:0.00, G:0.39, T:0.10
Consensus pattern (32 bp):
TGAGAGAGAATAGAGAGAGAGAAAAAAGTGGA
Found at i:10114496 original size:29 final size:29
Alignment explanation
Indices: 10114464--10114530 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 29
10114454 TGAAAATGTT
* *
10114464 GAAAAGTAAAGGTATAAAT-TAAAATAATA
1 GAAAAGTAAAGGGAAAAATGT-AAATAATA
10114493 G-AAAGTTAAAGGGAAAAATGTAAATAATA
1 GAAAAG-TAAAGGGAAAAATGTAAATAATA
*
10114522 TAAAA-TAAA
1 GAAAAGTAAA
10114531 CCAATCGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
28 8 0.25
29 20 0.62
30 4 0.12
ACGTcount: A:0.63, C:0.00, G:0.15, T:0.22
Consensus pattern (29 bp):
GAAAAGTAAAGGGAAAAATGTAAATAATA
Found at i:10115919 original size:20 final size:20
Alignment explanation
Indices: 10115877--10115913 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
10115867 TGGCTGATAA
10115877 GTTTAGGTTGTGGGCTTGGT
1 GTTTAGGTTGTGGGCTTGGT
10115897 GTTTA-GTT-TGGGCTTGG
1 GTTTAGGTTGTGGGCTTGG
10115914 GTTGTTGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 3 0.18
20 5 0.29
ACGTcount: A:0.05, C:0.05, G:0.43, T:0.46
Consensus pattern (20 bp):
GTTTAGGTTGTGGGCTTGGT
Found at i:10115958 original size:3 final size:3
Alignment explanation
Indices: 10115950--10115994 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
10115940 TTTTACATAG
*
10115950 TAA TAA TAA TAA TAA TAA T-A TAA TAG TAA TAA TAAA TATA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TA-A TAA TA
10115995 TATATAGCCC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 29 0.78
4 6 0.16
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:10115979 original size:20 final size:20
Alignment explanation
Indices: 10115950--10115994 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
10115940 TTTTACATAG
10115950 TAATAATAATAAT-AATAATA
1 TAATAATAATAATAAAT-ATA
*
10115970 TAATAGTAATAATAAATATA
1 TAATAATAATAATAAATATA
10115990 TAATA
1 TAATA
10115995 TATATAGCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
TAATAATAATAATAAATATA
Found at i:10116456 original size:42 final size:42
Alignment explanation
Indices: 10116258--10116452 Score: 222
Period size: 42 Copynumber: 4.8 Consensus size: 42
10116248 GTTGACCCAA
**
10116258 GATGATGTTGATCCAACT-C--ATGTGATGGACGAG-CCAA-
1 GATGATGTTGATCCAACTCCTTATGTGATGGACGAGAAAAAT
* * * *
10116295 GGTGACGCTGATCCAACTCCTTATGTGATGGACGA-ACGAAAT
1 GATGATGTTGATCCAACTCCTTATGTGATGGACGAGA-AAAAT
*
10116337 GATGATGTTGATCCAACTCCTTATGTGATGGACGAGCAAAAT
1 GATGATGTTGATCCAACTCCTTATGTGATGGACGAGAAAAAT
* * *
10116379 GATGATGTTGATCCAACTCTTTATATGATGGATGAGAAAAAT
1 GATGATGTTGATCCAACTCCTTATGTGATGGACGAGAAAAAT
* * *
10116421 GATGATGATAATTCAACTCCTTATGTGATGGA
1 GATGATGTTGATCCAACTCCTTATGTGATGGA
10116453 TGAGCCAAGG
Statistics
Matches: 132, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
37 15 0.11
38 1 0.01
40 13 0.10
41 2 0.02
42 101 0.77
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
GATGATGTTGATCCAACTCCTTATGTGATGGACGAGAAAAAT
Found at i:10116716 original size:117 final size:117
Alignment explanation
Indices: 10116469--10116732 Score: 280
Period size: 117 Copynumber: 2.3 Consensus size: 117
10116459 AAGGTCAATG
* ** * * *
10116469 TTGTTCCAACTCCTTATGCGATGAAATCAACCTAAGGTTGAACAAGTTCTTCTCATTATAAATTT
1 TTGTTCCAACTCCTTCTATGATGAAATCAACCTAAAGTTGAACAAGTTCTTCTCACTATAAACTT
** * * *
10116534 CTTCTCCCTCATCGGACGAGTTCTTTTCATTATGAACCCTCCACAGGAAATG
66 CTTCTCCCTCATCCAACGAATTCTTTTCATTATGAACCCTCAACAGGAAATA
**** * * * * * *
10116586 TCAACCCACCTCCTTCTATGATGAAATCGAGCTAAAGTTGAACAAGTTCTTCTTACTATGAGCTT
1 TTGTTCCAACTCCTTCTATGATGAAATCAACCTAAAGTTGAACAAGTTCTTCTCACTATAAACTT
*
10116651 CTTCTCCCTCATCCAACGAATTCTTCTT-ATTATGAACCCTTAACTA-GAAATA
66 CTTCTCCCTCATCCAACGAATTCTT-TTCATTATGAACCCTCAAC-AGGAAATA
* *
10116703 TTGTTCCATCTCCTTCTATGATGGAATCAA
1 TTGTTCCAACTCCTTCTATGATGAAATCAA
10116733 TCGTAGTGTT
Statistics
Matches: 116, Mismatches: 29, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
117 113 0.97
118 3 0.03
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.34
Consensus pattern (117 bp):
TTGTTCCAACTCCTTCTATGATGAAATCAACCTAAAGTTGAACAAGTTCTTCTCACTATAAACTT
CTTCTCCCTCATCCAACGAATTCTTTTCATTATGAACCCTCAACAGGAAATA
Found at i:10116921 original size:116 final size:115
Alignment explanation
Indices: 10116781--10116988 Score: 272
Period size: 116 Copynumber: 1.8 Consensus size: 115
10116771 ATAAGTCAAT
* * * * * *
10116781 GTTGAAGAAGTTCTTCTCATTATGAACTTCTTCTTCCTGATTGGATAAGTTATTCTCACTATGAA
1 GTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCATCGGACAAGTTATTCTCACTATGAA
* *
10116846 CTCTCCATTGGAAATATTGATCCACCTCCTTCGGTGATGGATTGAACTAAG
66 C-CCCCACTGGAAATATTGATCCACCTCCTTCGGTGATGGATTGAACTAAG
* * * * *
10116897 GTTGAACAAGTTATTTTCATTATGAACTTTTTCTCCCTCATCGGACGAGTTTTTCTCATTATGAA
1 GTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCATCGGACAAGTTATTCTCACTATGAA
* *
10116962 CCCCCACTGGAAGTGTTGATCCACCTC
66 CCCCCACTGGAAATATTGATCCACCTC
10116989 ATTCTATGGT
Statistics
Matches: 77, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
115 22 0.29
116 55 0.71
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (115 bp):
GTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCATCGGACAAGTTATTCTCACTATGAA
CCCCCACTGGAAATATTGATCCACCTCCTTCGGTGATGGATTGAACTAAG
Found at i:10117301 original size:116 final size:117
Alignment explanation
Indices: 10117097--10117328 Score: 351
Period size: 116 Copynumber: 2.0 Consensus size: 117
10117087 AAATCGAGTT
* *
10117097 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCCTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTACCTCATCGGATGAGTTCCTCTCATTAT
* *
10117162 GAACTCTCCACTGGAAATGTTGATCC-CCT-CTTACTGTGATGGAATCAAACC
66 GAACTCTCCACTAGAAATGTTGATCCACCTCCTT-CTGTGATAGAATCAAACC
* * *
10117213 AAGGTTGAACAAGTTCTTCTCATTATGAGCTTATTCTACCTCGTCGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTACCTCATCGGATGAGTTCCTCTCATTAT
* * *
10117278 TAACTGTCTACTAGAAATGTTGATCCACCTCCTTCTGTGATAGAATCAAAC
66 GAACTCTCCACTAGAAATGTTGATCCACCTCCTTCTGTGATAGAATCAAAC
10117329 AAAGTGATAA
Statistics
Matches: 104, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
116 82 0.79
117 19 0.18
118 3 0.03
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.35
Consensus pattern (117 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTACCTCATCGGATGAGTTCCTCTCATTAT
GAACTCTCCACTAGAAATGTTGATCCACCTCCTTCTGTGATAGAATCAAACC
Found at i:10117393 original size:319 final size:318
Alignment explanation
Indices: 10116742--10117511 Score: 865
Period size: 319 Copynumber: 2.4 Consensus size: 318
10116732 ATCGTAGTGT
* * * * *
10116742 TGATGTCGATCCAACTCCTTATATGATGGATA--AG-TCAATGTTGAAGAAGTTCTTCTCATTAT
1 TGATGTTGATCCAACTCCTTATGTGATGGAAACGAGCT-AAGGTTGAACAAGTTCTTCTCATTAT
* * * * * * *
10116804 GAACTTCTTCTTCCTGATTGGATAAGTTATTCTCACTATGAACTCTCCATTGGAAATATTGATCC
65 GAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAATGGAAATATTGATCC
** * * * *
10116869 ACCTCCTTCGGTGATGGATTGAACTAAGGTTGAACAAGTTATTTTCATTATGAACTTTTTCTCCC
130 ACCT-CTTCGGTGATGGATCAAACCAAGGTTGAACAAGTTATTCTCATTATGAACTTATTCTACC
* * * *
10116934 TCATCGGACGAGTTTTTCTCATTATGAACCCCCACTGGAAGTGTTGATCCACCTCATTCTATGGT
194 TCATCGGACGAGTTCTTCTCATTATGAACCCCCACTAGAAATGTTGATCCACCTCATTCTATGAT
* * ** * * * * * * *
10116999 GGAATCAATCATGGTGCTGATGTTGATTCCAAATCCTTATGTGATGGACGAGAAAAATGA
259 AGAATCAAACAAAGTGATAAAGCTGAATCCAAATCCATATGTCATGGACGAGAAAAATGA
*
10117059 TGATGTTGATCCAACTCCTTATAGT-AT-GAAATCGAGTTAAGGTTGAACAAGTTCTTCTCATTA
1 TGATGTTGATCCAACTCCTTAT-GTGATGGAAA-CGAGCTAAGGTTGAACAAGTTCTTCTCATTA
* * *
10117122 TGAACTTCTTCTCCCTCATCGGATGAGTTCCTCTCATTATGAACTCTCCACTGGAAATGTTGATC
64 TGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAATGGAAATATTGATC
* * *
10117187 C-CCTCTTACTGTGATGGAATCAAACCAAGGTTGAACAAGTTCTTCTCATTATGAGCTTATTCTA
129 CACCTCTT-CGGTGATGG-ATCAAACCAAGGTTGAACAAGTTATTCTCATTATGAACTTATTCTA
* * * ** * * *
10117251 CCTCGTCGGATGAGTTCTTCTCATTATTAACTGTCTACTAGAAATGTTGATCCACCTCCTTCTGT
192 CCTCATCGGACGAGTTCTTCTCATTATGAAC-CCCCACTAGAAATGTTGATCCACCTCATTCTAT
* * ** *
10117316 GATAGAATCAAACAAAGTGATAAAGCT-AATCCAACTCCATATG-CATTGGATGAGCCAAGT-A
256 GATAGAATCAAACAAAGTGATAAAGCTGAATCCAAATCCATATGTCA-TGGACGAGAAAAATGA
* * *
10117377 TTGGTGTTGTTCCAACTCCTTATGTGATGGAAACGAGCTAAGGTTGAACAAGTTCTTCTCATTGT
1 -TGATGTTGATCCAACTCCTTATGTGATGGAAACGAGCTAAGGTTGAACAAGTTCTTCTCATTAT
* * *
10117442 GAACTTCTTCTCGCTCATCGGATGAGTTCTTCTCATTATGAACTCTCTAATGAAAATATTGATCC
65 GAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAATGGAAATATTGATCC
10117507 ACCTC
130 ACCTC
10117512 CTTATTTGAT
Statistics
Matches: 379, Mismatches: 61, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
316 3 0.01
317 26 0.07
318 16 0.04
319 281 0.74
320 53 0.14
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (318 bp):
TGATGTTGATCCAACTCCTTATGTGATGGAAACGAGCTAAGGTTGAACAAGTTCTTCTCATTATG
AACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAATGGAAATATTGATCCA
CCTCTTCGGTGATGGATCAAACCAAGGTTGAACAAGTTATTCTCATTATGAACTTATTCTACCTC
ATCGGACGAGTTCTTCTCATTATGAACCCCCACTAGAAATGTTGATCCACCTCATTCTATGATAG
AATCAAACAAAGTGATAAAGCTGAATCCAAATCCATATGTCATGGACGAGAAAAATGA
Found at i:10117553 original size:203 final size:201
Alignment explanation
Indices: 10117213--10118142 Score: 1159
Period size: 203 Copynumber: 4.6 Consensus size: 201
10117203 GAATCAAACC
* * *
10117213 AAGGTTGAACAAGTTCTTCTCATTATGAGCTTATTCTACCTCGTCGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT-CCTCATCGGATGAGTTCTTCTCATTAT
* * * * * *
10117278 TAACTGTCTACTAGAAATGTTGATCCACCTCCTTCTGTGATAGAATCAAACAAAGTGATAA-A-G
65 GAACTCTCCACTAGAAATATTGATCCACCTCCTT-TTTGATAGAATCGAACAAAGT-A-AAGATG
*
10117341 CTAATCCAACTCCATATGC-ATTGGATGAGCCAAGTATTGGTGTTGTTCCAACTCCTTATGTGAT
127 CTAATCCAACTCCATATGCGA-TGGATGAGCCAAGTATTGGTGTTGTTCCAACTCCTTATATGAT
10117405 GGAAACGAGCT
191 GGAAACGAGCT
*
10117416 AAGGTTGAACAAGTTCTTCTCATTGTGAACTTCTTCTCGCTCATCGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTC-CTCATCGGATGAGTTCTTCTCATTAT
* *
10117481 GAACTCTCTAAT-GAAAATATTGATCCACCTCCTTATTTGATAGAATCGAACAAAGTAAAGATGC
65 GAACTCTCCACTAG-AAATATTGATCCACCTCCTT-TTTGATAGAATCGAACAAAGTAAAGATGC
* * * * * *
10117545 TGATCCAACTCCATATACGATGGATGAGCCAAGTATTGGTGTTATTCTAACTCCTTATGTGATAG
128 TAATCCAACTCCATATGCGATGGATGAGCCAAGTATTGGTGTTGTTCCAACTCCTTATATGATGG
*
10117610 AAGCGAGCT
193 AAACGAGCT
* * * *
10117619 AAGGTTGAACAAGTTTTTCTCGTTATGAA-TTTTTCTCCTTCATCGGATGTGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCC-TCATCGGATGAGTTCTTCTCATTAT
* * * * * * * * *
10117683 GAACTCTCCACTGGAAATATTGATCCACTTCCTTTTGTGATAGAATCAAAAAAAAATGATGAAGT
65 GAACTCTCCACTAGAAATATTGATCCACCTCCTTTT-TGATAGAATC-GAACAAAGTAAAGATGC
* * * *
10117748 TGATCCAACTCCATATGCGATGGATAAGCCAAGTATTAGTGTTGTTTCAACTCCTTATATGATGG
128 TAATCCAACTCCATATGCGATGGATGAGCCAAGTATTGGTGTTGTTCCAACTCCTTATATGATGG
10117813 AAACGAGCT
193 AAACGAGCT
* * *
10117822 AAGGGTGAACAAGTCCTTCTCATTATGAACTTCTTCTCCCTCATCGGATTAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT-CCTCATCGGATGAGTTCTTCTCATTAT
* * * * * *
10117887 GAACTCTCCACTATAAATTTTGATCCACCTCCTTCTATGATAGAATCGAACAAAGTGATGATGTT
65 GAACTCTCCACTAGAAATATTGATCCACCTCCTT-TTTGATAGAATCGAACAAAGTAAAGATGCT
* * *
10117952 AATCCAACTCCATATGCGATGCATGAGCCAAGTATTGGTGTTGTTGTTCAAACTGCTTATATGAT
129 AATCCAACTCCATATGCGATGGATGAGCCAAGTATT-G-G-TGTTGTTCCAACTCCTTATATGAT
10118017 GGAAACGAGCT
191 GGAAACGAGCT
* * *
10118028 ACGGTTGAAGAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGAATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT-CCTCATCGGATGAGTTCTTCTCATTAT
* * * *
10118093 GATCTCTCCACTAGAAATGTTGATCCACCTCATTTTGTGATGGAATCGAA
65 GAACTCTCCACTAGAAATATTGATCCACCTCCTTTT-TGATAGAATCGAA
10118143 ACAAGGTTGA
Statistics
Matches: 635, Mismatches: 76, Indels: 29
0.86 0.10 0.04
Matches are distributed among these distances:
201 5 0.01
202 74 0.12
203 348 0.55
204 70 0.11
205 5 0.01
206 133 0.21
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (201 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTCATCGGATGAGTTCTTCTCATTATG
AACTCTCCACTAGAAATATTGATCCACCTCCTTTTTGATAGAATCGAACAAAGTAAAGATGCTAA
TCCAACTCCATATGCGATGGATGAGCCAAGTATTGGTGTTGTTCCAACTCCTTATATGATGGAAA
CGAGCT
Found at i:10117965 original size:406 final size:407
Alignment explanation
Indices: 10117213--10118139 Score: 1288
Period size: 406 Copynumber: 2.3 Consensus size: 407
10117203 GAATCAAACC
* *
10117213 AAGGTTGAACAAGTTCTTCTCATTATGAGCTTATTCTACCTCGTCGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGA-ATTATTCT-CCTCATCGGATGAGTTCTTCTCATTAT
* * * * * *
10117278 TAACTGTCTACTAGAAATGTTGATCCACCTCCTTCTGTGATAGAATCAAACAAAGTGATAAAGCT
64 GAACTCTCCACTAGAAATGTTGATCCACCTCCTTTTGTGATAGAATCAAAAAAAATGATAAAGCT
* * *
10117343 AATCCAACTCCATATGCATTGGATGAGCCAAGTATTGGTGTTGTTCCAACTCCTTATGTGATGGA
129 AATCCAACTCCATATGCATTGGATAAGCCAAGTATTAGTGTTGTTCCAACTCCTTATATGATGGA
* * * *
10117408 AACGAGCTAAGGTTGAACAAGTTCTTCTCATTGTGAACTTCTTCTCGCTCATCGGATGAGTTCTT
194 AACGAGCTAAGGGTGAACAAGTCCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTT
* *
10117473 CTCATTATGAACTCTCTAATGAAAATATTGATCCACCTCCTTATTTGATAGAATCGAACAAAGTA
259 CTCATTATGAACTCTCCAATGAAAATATTGATCCACCTCCTTATATGATAGAATCGAACAAAGTA
* * *
10117538 AAGATGCTGATCCAACTCCATATACGATGGATGAGCCAAGTATT-G-G-TGTTATTCTAACTCCT
324 AAGATGCTAATCCAACTCCATATACGATGCATGAGCCAAGTATTGGTGTTGTTATTCAAACTCCT
* *
10117600 TATGTGATAGAAGCGAGCT
389 TATATGATAGAAACGAGCT
* * * *
10117619 AAGGTTGAACAAGTTTTTCTCGTTATGAATTTTTCTCCTTCATCGGATGTGTTCTTCTCATTATG
1 AAGGTTGAACAAGTTCTTCTCATTATGAATTATTCTCC-TCATCGGATGAGTTCTTCTCATTATG
* * * * *
10117684 AACTCTCCACTGGAAATATTGATCCACTTCCTTTTGTGATAGAATCAAAAAAAAATGATGAAGTT
65 AACTCTCCACTAGAAATGTTGATCCACCTCCTTTTGTGATAGAATC-AAAAAAAATGATAAAGCT
* *
10117749 GATCCAACTCCATATGCGA-TGGATAAGCCAAGTATTAGTGTTGTTTCAACTCCTTATATGATGG
129 AATCCAACTCCATATGC-ATTGGATAAGCCAAGTATTAGTGTTGTTCCAACTCCTTATATGATGG
*
10117813 AAACGAGCTAAGGGTGAACAAGTCCTTCTCATTATGAACTTCTTCTCCCTCATCGGATTAGTTCT
193 AAACGAGCTAAGGGTGAACAAGTCCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCT
* * *
10117878 TCTCATTATGAACTCTCCACT-ATAAATTTTGATCCACCTCCTTCTATGATAGAATCGAACAAAG
258 TCTCATTATGAACTCTCCAATGA-AAATATTGATCCACCTCCTTATATGATAGAATCGAACAAAG
* * * * * *
10117942 TGATGATGTTAATCCAACTCCATATGCGATGCATGAGCCAAGTATTGGTGTTGTTGTTCAAACTG
322 TAAAGATGCTAATCCAACTCCATATACGATGCATGAGCCAAGTATTGGTGTTGTTATTCAAACTC
*
10118007 CTTATATGATGGAAACGAGCT
387 CTTATATGATAGAAACGAGCT
* * * *
10118028 ACGGTTGAAGAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGAATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAA-TTATTCT-CCTCATCGGATGAGTTCTTCTCATTAT
* * *
10118093 GATCTCTCCACTAGAAATGTTGATCCACCTCATTTTGTGATGGAATC
64 GAACTCTCCACTAGAAATGTTGATCCACCTCCTTTTGTGATAGAATC
10118140 GAAACAAGGT
Statistics
Matches: 455, Mismatches: 57, Indels: 14
0.87 0.11 0.03
Matches are distributed among these distances:
404 2 0.00
405 70 0.15
406 254 0.56
407 2 0.00
408 1 0.00
409 54 0.12
410 70 0.15
411 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (407 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAATTATTCTCCTCATCGGATGAGTTCTTCTCATTATGA
ACTCTCCACTAGAAATGTTGATCCACCTCCTTTTGTGATAGAATCAAAAAAAATGATAAAGCTAA
TCCAACTCCATATGCATTGGATAAGCCAAGTATTAGTGTTGTTCCAACTCCTTATATGATGGAAA
CGAGCTAAGGGTGAACAAGTCCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCT
CATTATGAACTCTCCAATGAAAATATTGATCCACCTCCTTATATGATAGAATCGAACAAAGTAAA
GATGCTAATCCAACTCCATATACGATGCATGAGCCAAGTATTGGTGTTGTTATTCAAACTCCTTA
TATGATAGAAACGAGCT
Found at i:10120012 original size:33 final size:34
Alignment explanation
Indices: 10119974--10120051 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 34
10119964 AAGAAACTTC
*
10119974 TAAAAATCAGA-CTTAGTTTCTTT-AAAATTCATT
1 TAAAAATCAGATC-TAGTGTCTTTAAAAATTCATT
* *
10120007 TAAAAATTAGATCTAGTGTCTTTAAAAATTCTTT
1 TAAAAATCAGATCTAGTGTCTTTAAAAATTCATT
10120041 TGAAAACATCA
1 T-AAAA-ATCA
10120052 TGTTAATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
33 19 0.51
34 11 0.30
35 4 0.11
36 3 0.08
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.40
Consensus pattern (34 bp):
TAAAAATCAGATCTAGTGTCTTTAAAAATTCATT
Found at i:10122203 original size:8 final size:8
Alignment explanation
Indices: 10122190--10122293 Score: 55
Period size: 8 Copynumber: 11.6 Consensus size: 8
10122180 TATTTCTCTT
10122190 TTTTTTTC
1 TTTTTTTC
10122198 TTTTTTTC
1 TTTTTTTC
*
10122206 CTTTTTTC
1 TTTTTTTC
* * *
10122214 CTCTTTTG
1 TTTTTTTC
*
10122222 TTTTTTGC
1 TTTTTTTC
10122230 TTCTTTTCTC
1 TT-TTTT-TC
*
10122240 TCTTTTTATG
1 T-TTTTT-TC
10122250 TTTTTCCTTC
1 TTTTT--TTC
10122260 TTCTTTTTC
1 TT-TTTTTC
10122269 TATATCTTTTC
1 T-T-T-TTTTC
10122280 TTTTTTCTC
1 TTTTTT-TC
10122289 TTTTT
1 TTTTT
10122294 GTTATCAACT
Statistics
Matches: 75, Mismatches: 12, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
8 30 0.40
9 20 0.27
10 14 0.19
11 11 0.15
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.75
Consensus pattern (8 bp):
TTTTTTTC
Found at i:10122218 original size:19 final size:20
Alignment explanation
Indices: 10122182--10122220 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
10122172 TCTTGAAGTA
**
10122182 TTTCTCTTTTTTTTTCTTTT
1 TTTCTCTTTTTTCCTCTTTT
10122202 TTTC-CTTTTTTCCTCTTTT
1 TTTCTCTTTTTTCCTCTTTT
10122221 GTTTTTTGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTCTCTTTTTTCCTCTTTT
Found at i:10122261 original size:27 final size:24
Alignment explanation
Indices: 10122199--10122261 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 24
10122189 TTTTTTTTCT
*
10122199 TTTTTTCCTT-TTTTCCTCTTTTG
1 TTTTTTCCTTCTTTTCCTCTTTTA
*
10122222 TTTTTTGCTTCTTTTCTCTCTTTTTA
1 TTTTTTCCTTCTTTTC-CTC-TTTTA
10122248 TGTTTTTCCTTCTT
1 T-TTTTTCCTTCTT
10122262 CTTTTTCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 9 0.27
24 5 0.15
25 3 0.09
26 5 0.15
27 11 0.33
ACGTcount: A:0.02, C:0.21, G:0.05, T:0.73
Consensus pattern (24 bp):
TTTTTTCCTTCTTTTCCTCTTTTA
Found at i:10130587 original size:41 final size:41
Alignment explanation
Indices: 10130522--10130603 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
10130512 ATAACTATTC
* * * *
10130522 ATATATTTTAAGAACTTTATATTTTCAATATATATATATAT
1 ATATATTTTAAGAACTATACATTTTCAAAATAAATATATAT
10130563 ATATACTTTTAA-AACTATACATTTTCAAAATAAATATATAT
1 ATATA-TTTTAAGAACTATACATTTTCAAAATAAATATATAT
10130604 TTTAAAAACT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
41 30 0.83
42 6 0.17
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.46
Consensus pattern (41 bp):
ATATATTTTAAGAACTATACATTTTCAAAATAAATATATAT
Found at i:10130600 original size:39 final size:39
Alignment explanation
Indices: 10130509--10130603 Score: 104
Period size: 41 Copynumber: 2.4 Consensus size: 39
10130499 ATTAATTAAT
* * *
10130509 AAAATAACTAT-TCATATATTTTAAGAACTTTATATTTTC
1 AAAATAAATATAT-ATATATTTTAAGAACTATACATTTTC
*
10130548 AATATATATATATATATATACTTTTAA-AACTATACATTTTC
1 AA-A-ATAAATATATATATA-TTTTAAGAACTATACATTTTC
10130589 AAAATAAATATATAT
1 AAAATAAATATATAT
10130604 TTTAAAAACT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
39 13 0.28
40 2 0.04
41 25 0.53
42 7 0.15
ACGTcount: A:0.46, C:0.08, G:0.01, T:0.44
Consensus pattern (39 bp):
AAAATAAATATATATATATTTTAAGAACTATACATTTTC
Found at i:10130605 original size:19 final size:19
Alignment explanation
Indices: 10130578--10130640 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
10130568 CTTTTAAAAC
*
10130578 TATACATTTTCAAAA-TAAA
1 TATATATTTTCAAAACT-AA
* *
10130597 TATATATTTTAAAAACTAT
1 TATATATTTTCAAAACTAA
10130616 TCATATATTTTC--AACT-A
1 T-ATATATTTTCAAAACTAA
10130633 TATATATT
1 TATATATT
10130641 AAAATCATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
16 7 0.19
17 1 0.03
18 4 0.11
19 15 0.41
20 10 0.27
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (19 bp):
TATATATTTTCAAAACTAA
Found at i:10130612 original size:35 final size:39
Alignment explanation
Indices: 10130522--10130615 Score: 106
Period size: 41 Copynumber: 2.5 Consensus size: 39
10130512 ATAACTATTC
* * *
10130522 ATATATTTTAAGAACTTTATATTTTCAATATATATATAT
1 ATATATTTTAAAAACTATACATTTTCAATATATATATAT
*
10130561 ATATATACTTTTAAAACTATACATTTTCAA-A-ATA-A-AT
1 ATATAT--TTTAAAAACTATACATTTTCAATATATATATAT
10130598 ATATATTTTAAAAACTAT
1 ATATATTTTAAAAACTAT
10130616 TCATATATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
35 11 0.23
37 8 0.17
38 1 0.02
39 9 0.19
40 1 0.02
41 18 0.38
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.46
Consensus pattern (39 bp):
ATATATTTTAAAAACTATACATTTTCAATATATATATAT
Found at i:10130639 original size:18 final size:19
Alignment explanation
Indices: 10130558--10130639 Score: 59
Period size: 18 Copynumber: 4.5 Consensus size: 19
10130548 AATATATATA
10130558 TATATATATACTTTTAAAAC
1 TATATATATA-TTTTAAAAC
* *
10130578 --TATACAT-TTTCAAAA-
1 TATATATATATTTTAAAAC
*
10130593 TAAATATATATTTTAAAAAC
1 TATATATATATTTT-AAAAC
*
10130613 TAT-TCATATATTTT-CAAC
1 TATAT-ATATATTTTAAAAC
10130631 TATATATAT
1 TATATATAT
10130640 TAAAATCATA
Statistics
Matches: 48, Mismatches: 7, Indels: 16
0.68 0.10 0.23
Matches are distributed among these distances:
16 7 0.15
17 5 0.10
18 19 0.40
19 6 0.12
20 11 0.23
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (19 bp):
TATATATATATTTTAAAAC
Found at i:10132754 original size:30 final size:30
Alignment explanation
Indices: 10132718--10132832 Score: 140
Period size: 30 Copynumber: 3.8 Consensus size: 30
10132708 CAAAAAAACC
* *
10132718 AAAAACATAAACTTAAAAGATTAAAATAGA
1 AAAAACAGAAACTTAAAGGATTAAAATAGA
* * *
10132748 AAAAACAGAAAGTTAAAGGATCAAAATAGC
1 AAAAACAGAAACTTAAAGGATTAAAATAGA
* *
10132778 AAAAACAGAAACTCAAAGGACTAAAATAGA
1 AAAAACAGAAACTTAAAGGATTAAAATAGA
* * *
10132808 AAAAACAAAAAGTTAAAGGACTAAA
1 AAAAACAGAAACTTAAAGGATTAAA
10132833 CTGGTATTAA
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 72 1.00
ACGTcount: A:0.64, C:0.10, G:0.12, T:0.14
Consensus pattern (30 bp):
AAAAACAGAAACTTAAAGGATTAAAATAGA
Found at i:10132757 original size:61 final size:60
Alignment explanation
Indices: 10132686--10132828 Score: 178
Period size: 60 Copynumber: 2.4 Consensus size: 60
10132676 AGAATGGATT
* * * * * *
10132686 AAAAATCAGAAACTTGAAGGACCAAAAAAACCAAAAACATAAACTTAAAAGATTAAAATAG
1 AAAAAACAGAAAGTTAAAGGACC-AAAAAACCAAAAACAGAAACTCAAAAGACTAAAATAG
* * * *
10132747 AAAAAACAGAAAGTTAAAGGATCAAAATAGCAAAAACAGAAACTCAAAGGACTAAAATAG
1 AAAAAACAGAAAGTTAAAGGACCAAAAAACCAAAAACAGAAACTCAAAAGACTAAAATAG
*
10132807 AAAAAACAAAAAGTTAAAGGAC
1 AAAAAACAGAAAGTTAAAGGAC
10132829 TAAACTGGTA
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
60 51 0.73
61 19 0.27
ACGTcount: A:0.63, C:0.12, G:0.13, T:0.13
Consensus pattern (60 bp):
AAAAAACAGAAAGTTAAAGGACCAAAAAACCAAAAACAGAAACTCAAAAGACTAAAATAG
Found at i:10132856 original size:30 final size:30
Alignment explanation
Indices: 10132718--10132856 Score: 120
Period size: 30 Copynumber: 4.6 Consensus size: 30
10132708 CAAAAAAACC
* *
10132718 AAAAACATAAACTTAAAA-GATTAAAATAGA
1 AAAAACAGAAAC-TAAAAGGACTAAAATAGA
* * *
10132748 AAAAACAGAAAGTTAAAGGA-TCAAAATAGC
1 AAAAACAGAAACTAAAAGGACT-AAAATAGA
*
10132778 AAAAACAGAAACTCAAAGGACTAAAATAGA
1 AAAAACAGAAACTAAAAGGACTAAAATAGA
* * * * * *
10132808 AAAAACAAAAAGTTAAAGGACTAAACTGGT
1 AAAAACAGAAACTAAAAGGACTAAAATAGA
**
10132838 ATTAACAGAAACTAAAAGG
1 AAAAACAGAAACTAAAAGG
10132857 GATAAACAGT
Statistics
Matches: 88, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
29 5 0.06
30 82 0.93
31 1 0.01
ACGTcount: A:0.61, C:0.10, G:0.14, T:0.15
Consensus pattern (30 bp):
AAAAACAGAAACTAAAAGGACTAAAATAGA
Found at i:10133395 original size:2 final size:2
Alignment explanation
Indices: 10133388--10133413 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10133378 TCATCAAACC
10133388 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
10133414 TTCACATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10134406 original size:3 final size:3
Alignment explanation
Indices: 10134398--10134449 Score: 68
Period size: 3 Copynumber: 16.3 Consensus size: 3
10134388 ATGTAAATTA
*
10134398 AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT ATAT AAT AGATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT A-A-T AAT
10134446 AAT A
1 AAT A
10134450 TTTATTTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
3 37 0.84
4 5 0.11
5 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Done.