Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 80 of 444
Found at i:18881330 original size:21 final size:21
Alignment explanation
Indices: 18881301--18881353 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
18881291 TTTTGGATAT
18881301 TTTCC-CCCA-TAATCCCCTAA
1 TTTCCTCCCACTAAT-CCCTAA
*
18881321 TTTCCTCCCACTTATCCCTAA
1 TTTCCTCCCACTAATCCCTAA
*
18881342 CTTCGCTCCCAC
1 TTTC-CTCCCAC
18881354 ACTTCCTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 5 0.18
21 13 0.46
22 10 0.36
ACGTcount: A:0.19, C:0.47, G:0.02, T:0.32
Consensus pattern (21 bp):
TTTCCTCCCACTAATCCCTAA
Found at i:18882636 original size:51 final size:51
Alignment explanation
Indices: 18882565--18882678 Score: 192
Period size: 51 Copynumber: 2.2 Consensus size: 51
18882555 CTGATCACAT
18882565 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* *
18882616 TTATCACTTGTCACTGATCAGATAAGTGTAGTTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* *
18882667 TTGTCGCTTGTC
1 TTATCACTTGTC
18882679 GCTTGTCACT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
Found at i:18886337 original size:18 final size:18
Alignment explanation
Indices: 18886314--18886379 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
18886304 GTAGGATTTG
18886314 TTTTGATTTGATATGACA
1 TTTTGATTTGATATGACA
* **
18886332 TTTTGATATGATAT-ATG
1 TTTTGATTTGATATGACA
* *
18886349 TTTT--TGGTAATATGACA
1 TTTTGAT-TTGATATGACA
18886366 TTTTGATTTGATAT
1 TTTTGATTTGATAT
18886380 TTGTATATGT
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
15 1 0.03
16 5 0.14
17 10 0.29
18 18 0.51
19 1 0.03
ACGTcount: A:0.27, C:0.03, G:0.17, T:0.53
Consensus pattern (18 bp):
TTTTGATTTGATATGACA
Found at i:18887341 original size:7 final size:7
Alignment explanation
Indices: 18887329--18887356 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
18887319 CTCCTTTATT
18887329 TAATTTA
1 TAATTTA
18887336 TAATTTA
1 TAATTTA
18887343 TAATTTA
1 TAATTTA
18887350 TAATTTA
1 TAATTTA
18887357 AAAACTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TAATTTA
Found at i:18887977 original size:60 final size:60
Alignment explanation
Indices: 18887910--18888042 Score: 203
Period size: 60 Copynumber: 2.2 Consensus size: 60
18887900 ATCTCGAGTT
* ** *
18887910 ACATTTTAGTCATTTATATTTGAAATGTTACGTTTTAGTCATTTACATTAACGTGTTGTA
1 ACATTTTAGTCACTTATATTTGAAACATTACGTTTTAGTCACTTACATTAACGTGTTGTA
* * *
18887970 ACATTTTAGTCACTTATATTTGAAACATTATGTTTTAGTCACTTGCATTAATGTGTTGTA
1 ACATTTTAGTCACTTATATTTGAAACATTACGTTTTAGTCACTTACATTAACGTGTTGTA
18888030 ACATTTTAGTCAC
1 ACATTTTAGTCAC
18888043 CGAGCTGTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 66 1.00
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.47
Consensus pattern (60 bp):
ACATTTTAGTCACTTATATTTGAAACATTACGTTTTAGTCACTTACATTAACGTGTTGTA
Found at i:18888332 original size:11 final size:10
Alignment explanation
Indices: 18888309--18888342 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
18888299 AGGGAAGAAG
18888309 AAAAAGAAAA
1 AAAAAGAAAA
* *
18888319 AAAAAGGAAT
1 AAAAAGAAAA
18888329 AAAAAGAAAA
1 AAAAAGAAAA
18888339 AAAA
1 AAAA
18888343 TTAAATTGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:18894277 original size:30 final size:31
Alignment explanation
Indices: 18894243--18894306 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
18894233 ATTTATTTTA
*
18894243 TTGTTAA-TTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTTATTATTATTTTAGAA-GCAT
18894273 TTGTTAATTTTTATTATTATTTTAGAAGCAT
1 TTGTTAATTTTTATTATTATTTTAGAAGCAT
18894304 TTG
1 TTG
18894307 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 7 0.23
31 22 0.71
32 2 0.06
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.58
Consensus pattern (31 bp):
TTGTTAATTTTTATTATTATTTTAGAAGCAT
Found at i:18899232 original size:30 final size:30
Alignment explanation
Indices: 18899198--18899258 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
18899188 CATAATAAGG
* *
18899198 AATGCAATCAATAAAGTTGGTTAGAATTCC
1 AATGCAATAAAAAAAGTTGGTTAGAATTCC
18899228 AATGCAATAAAAAAAGTTGGTTAGAATTCC
1 AATGCAATAAAAAAAGTTGGTTAGAATTCC
18899258 A
1 A
18899259 GTCCTAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.28
Consensus pattern (30 bp):
AATGCAATAAAAAAAGTTGGTTAGAATTCC
Found at i:18906636 original size:21 final size:21
Alignment explanation
Indices: 18906610--18906749 Score: 122
Period size: 21 Copynumber: 6.8 Consensus size: 21
18906600 CGTGTTTTAC
*
18906610 TTTCTGTTTAGCTCTTATGAG
1 TTTCTGTTCAGCTCTTATGAG
* * *
18906631 TTTCTGTTTAACTCCTATGAG
1 TTTCTGTTCAGCTCTTATGAG
18906652 TTTCTGTTCAGCTCTTATGAG
1 TTTCTGTTCAGCTCTTATGAG
* ** *
18906673 CTTCTGTTCAATTCTTAAGAG
1 TTTCTGTTCAGCTCTTATGAG
* * *
18906694 TTTCTATTCAACTCTTACGAG
1 TTTCTGTTCAGCTCTTATGAG
* * *
18906715 CTTCTGTTAAGCT-TT-CGAG
1 TTTCTGTTCAGCTCTTATGAG
* *
18906734 CTTCTGTTAAGCTCTT
1 TTTCTGTTCAGCTCTT
18906750 TTAAGCTTCT
Statistics
Matches: 101, Mismatches: 17, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
19 17 0.17
20 4 0.04
21 80 0.79
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (21 bp):
TTTCTGTTCAGCTCTTATGAG
Found at i:18906657 original size:42 final size:42
Alignment explanation
Indices: 18906610--18906722 Score: 145
Period size: 42 Copynumber: 2.7 Consensus size: 42
18906600 CGTGTTTTAC
* * * *
18906610 TTTCTGTTTAGCTCTTATGAGTTTCTGTTTAACTCCTATGAG
1 TTTCTGTTCAGCTCTTATGAGCTTCTGTTCAACTCCTAAGAG
* *
18906652 TTTCTGTTCAGCTCTTATGAGCTTCTGTTCAATTCTTAAGAG
1 TTTCTGTTCAGCTCTTATGAGCTTCTGTTCAACTCCTAAGAG
* * *
18906694 TTTCTATTCAACTCTTACGAGCTTCTGTT
1 TTTCTGTTCAGCTCTTATGAGCTTCTGTT
18906723 AAGCTTTCGA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTTATGAGCTTCTGTTCAACTCCTAAGAG
Found at i:18906720 original size:63 final size:61
Alignment explanation
Indices: 18906622--18906741 Score: 150
Period size: 63 Copynumber: 1.9 Consensus size: 61
18906612 TCTGTTTAGC
* * * * * * *
18906622 TCTTATGAGTTTCTGTTTAACTCCTATGAGTTTCTGTTCAGCTCTTATGAGCTTCTGTTCAAT
1 TCTTAAGAGTTTCTATTCAACTCCTACGAGCTTCTGTTAAGCT-TT-CGAGCTTCTGTTCAAT
*
18906685 TCTTAAGAGTTTCTATTCAACTCTTACGAGCTTCTGTTAAGCTTTCGAGCTTCTGTT
1 TCTTAAGAGTTTCTATTCAACTCCTACGAGCTTCTGTTAAGCTTTCGAGCTTCTGTT
18906742 AAGCTCTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
61 11 0.22
62 2 0.04
63 36 0.73
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (61 bp):
TCTTAAGAGTTTCTATTCAACTCCTACGAGCTTCTGTTAAGCTTTCGAGCTTCTGTTCAAT
Found at i:18906754 original size:63 final size:64
Alignment explanation
Indices: 18906611--18906750 Score: 146
Period size: 63 Copynumber: 2.2 Consensus size: 64
18906601 GTGTTTTACT
* * * * * * * *
18906611 TTCTGTTTAGCTC-TTATGAGTTTCTGTTTAACTCCTATGAGTTTCTGTTCAGCTCTTATGAGC
1 TTCTGTTAAGCTCTTTAAGAGTTTCTATTCAACTCCTACGAGCTTCTGTTAAGCTCTTACGAGC
* *
18906674 TTCTGTTCAA-TTC-TTAAGAGTTTCTATTCAACTCTTACGAGCTTCTGTTAAGCT-TT-CGAGC
1 TTCTGTT-AAGCTCTTTAAGAGTTTCTATTCAACTCCTACGAGCTTCTGTTAAGCTCTTACGAGC
18906735 TTCTGTTAAGCTCTTT
1 TTCTGTTAAGCTCTTT
18906751 TAAGCTTCTA
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
60 2 0.03
61 13 0.21
62 4 0.06
63 43 0.68
64 1 0.02
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (64 bp):
TTCTGTTAAGCTCTTTAAGAGTTTCTATTCAACTCCTACGAGCTTCTGTTAAGCTCTTACGAGC
Found at i:18906824 original size:21 final size:20
Alignment explanation
Indices: 18906759--18906824 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
18906749 TTTAAGCTTC
18906759 TATT-AACCCTTATGGGTTT
1 TATTCAACCCTTATGGGTTT
* * * *
18906778 TCGTTCAACTCTTTTGAGCTTT
1 T-ATTCAACCCTTATG-GGTTT
18906800 TATTCAACCCTTATGGGTTT
1 TATTCAACCCTTATGGGTTT
18906820 CTATT
1 -TATT
18906825 TAGCTTTCAT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
19 1 0.03
20 6 0.17
21 23 0.66
22 5 0.14
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (20 bp):
TATTCAACCCTTATGGGTTT
Found at i:18909194 original size:50 final size:51
Alignment explanation
Indices: 18909128--18909312 Score: 184
Period size: 50 Copynumber: 3.7 Consensus size: 51
18909118 ATAGGTATAT
* * *
18909128 ACATATATGATGTTATATTGGATCTTGTATATTCG-GATATAAAGGTATGA
1 ACATATGTGATATTATATTGGATCTTGTATATTCGAGATATAAAGGTATGC
* * *
18909178 ACAAATGTGATATTATATTTGAAT-TTGTATATTC-AGCCATAT-AA-GTAAGC
1 ACATATGTGATATTATA-TTGGATCTTGTATATTCGAG--ATATAAAGGTATGC
* * * * *
18909228 ACATATGTGATATTATATTTGATCTTGCATATTTGAGA-ACATAGGTATGC
1 ACATATGTGATATTATATTGGATCTTGTATATTCGAGATATAAAGGTATGC
* *
18909278 ATATATGTGATATTATATTTGATCTTGTATATTCG
1 ACATATGTGATATTATATTGGATCTTGTATATTCG
18909313 GCCAAATGAA
Statistics
Matches: 110, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
48 1 0.01
49 6 0.05
50 90 0.82
51 9 0.08
52 4 0.04
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.42
Consensus pattern (51 bp):
ACATATGTGATATTATATTGGATCTTGTATATTCGAGATATAAAGGTATGC
Found at i:18909286 original size:100 final size:100
Alignment explanation
Indices: 18909128--18909316 Score: 247
Period size: 100 Copynumber: 1.9 Consensus size: 100
18909118 ATAGGTATAT
* * *
18909128 ACATATATGATGTTATATTGGATCTTGTATATTCGGATATAAAGGTATGAACAAATGTGATATTA
1 ACATATATGATATTATATTGGATCTTGCATATTCGGATACAAAGGTATGAACAAATGTGATATTA
18909193 TATTTGAAT-TTGTATATTCAGCCATATAAGTAAGC
66 TATTTG-ATCTTGTATATTCAGCCATATAAGTAAGC
* * * * * * *
18909228 ACATATGTGATATTATATTTGATCTTGCATATTTGAGA-ACATAGGTATGCATATATGTGATATT
1 ACATATATGATATTATATTGGATCTTGCATATTCG-GATACAAAGGTATGAACAAATGTGATATT
*
18909292 ATATTTGATCTTGTATATTCGGCCA
65 ATATTTGATCTTGTATATTCAGCCA
18909317 AATGAATGAT
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
99 2 0.03
100 72 0.95
101 2 0.03
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (100 bp):
ACATATATGATATTATATTGGATCTTGCATATTCGGATACAAAGGTATGAACAAATGTGATATTA
TATTTGATCTTGTATATTCAGCCATATAAGTAAGC
Found at i:18913496 original size:50 final size:51
Alignment explanation
Indices: 18913419--18913547 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
18913409 GACCATGGCA
18913419 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
* *
18913470 A-AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
18913520 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
18913548 CTGATCAGTG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 44 0.63
51 26 0.37
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:18913561 original size:31 final size:31
Alignment explanation
Indices: 18913523--18913702 Score: 272
Period size: 31 Copynumber: 5.8 Consensus size: 31
18913513 ACAAATGACA
*
18913523 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
18913554 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
18913585 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
*
18913616 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
18913647 AGTGAAAAATGGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
18913678 AGTGAATAGTGGTAGCTTTGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
18913703 AAGTGACAAG
Statistics
Matches: 137, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
30 2 0.01
31 134 0.98
32 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:18913813 original size:47 final size:46
Alignment explanation
Indices: 18913728--18913892 Score: 171
Period size: 47 Copynumber: 3.7 Consensus size: 46
18913718 ACTGATTTCC
* *
18913728 GTATAAGACCATATCTGGGATATGGCATCAGTGTGATATATGCTACT
1 GTATAAGACCATAGCTGGGATATGGCATCAGT-TGATATATGATACT
* * *
18913775 GTATAAGACCATATCTGGGATATGGCATCAGTTAGATATGTGATTC-
1 GTATAAGACCATAGCTGGGATATGGCATCAGTT-GATATATGATACT
* * *
18913821 GTGTAAGACCATAGCTGCGCTATGG---CA-TTGATATATGAATA-T
1 GTATAAGACCATAGCTGGGATATGGCATCAGTTGATATATG-ATACT
* *
18913863 GTGTAAGACCATAGCTGGGCTATGGCATCA
1 GTATAAGACCATAGCTGGGATATGGCATCA
18913893 TTATGTGAAG
Statistics
Matches: 102, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
41 7 0.07
42 28 0.27
43 2 0.02
45 2 0.02
46 22 0.22
47 41 0.40
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (46 bp):
GTATAAGACCATAGCTGGGATATGGCATCAGTTGATATATGATACT
Found at i:18913879 original size:42 final size:43
Alignment explanation
Indices: 18913821--18913932 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 43
18913811 TATGTGATTC
* * *
18913821 GTGTAAGACCATAGCTGCGCTATGGCATTGA-TATATGAATAT
1 GTGTAAGACCATAGCTGAGCTATGGCATTCATTATATGAAGAT
* *
18913863 GTGTAAGACCATAGCTGGGCTATGGCA-TCATTATGTGAAGAT
1 GTGTAAGACCATAGCTGAGCTATGGCATTCATTATATGAAGAT
* *
18913905 GTGTAAGACCATAGTTGAACTATGGCAT
1 GTGTAAGACCATAGCTGAGCTATGGCAT
18913933 CGAGAAAACG
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 2 0.03
42 59 0.97
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGAGCTATGGCATTCATTATATGAAGAT
Found at i:18914693 original size:37 final size:37
Alignment explanation
Indices: 18914648--18914718 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
18914638 AGAAAAACGA
*
18914648 TAATAGTAATAACAACGATAATAATAAATAATAAGAG
1 TAATAGTAATAACAACAATAATAATAAATAATAAGAG
* *
18914685 TAATAGTAATAATAATAATAATAATAAATAATAA
1 TAATAGTAATAACAACAATAATAATAAATAATAA
18914719 TAACATGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (37 bp):
TAATAGTAATAACAACAATAATAATAAATAATAAGAG
Found at i:18914733 original size:3 final size:3
Alignment explanation
Indices: 18914573--18914721 Score: 115
Period size: 3 Copynumber: 49.3 Consensus size: 3
18914563 ATTTAGTAGT
* * *
18914573 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ACA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** ** * * **
18914621 ATA AT- ATAA ATA GGA ATA GA-A A-A ACG ATA ATA GTA ATA ACA ACG
1 ATA ATA AT-A ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
18914665 ATA ATA ATAA ATA ATA AGA GTA ATA GTA ATA ATA ATA ATA ATA ATAA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
18914712 ATA ATA ATA A
1 ATA ATA ATA A
18914722 CATGTAATAA
Statistics
Matches: 117, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
2 5 0.04
3 103 0.88
4 9 0.08
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:18918406 original size:15 final size:15
Alignment explanation
Indices: 18918386--18918427 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
18918376 AAATTTAAAT
*
18918386 AGAATGTAATT-CTTG
1 AGAATGTAATTAC-TA
*
18918401 AGAATGTGATTACTA
1 AGAATGTAATTACTA
18918416 AGAATGTAATTA
1 AGAATGTAATTA
18918428 TCAAGAGTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 22 0.96
16 1 0.04
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.36
Consensus pattern (15 bp):
AGAATGTAATTACTA
Found at i:18918666 original size:17 final size:18
Alignment explanation
Indices: 18918644--18918678 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
18918634 AACAAGTAAT
18918644 TTAATATT-GTTATTTTA
1 TTAATATTAGTTATTTTA
*
18918661 TTAATATTATTTATTTTA
1 TTAATATTAGTTATTTTA
18918679 AATAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
TTAATATTAGTTATTTTA
Found at i:18918739 original size:18 final size:18
Alignment explanation
Indices: 18918716--18918753 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
18918706 TGGTATATTA
* *
18918716 TCAGTGGAGTTTTTAGAC
1 TCAGTGGAATTTTTAAAC
18918734 TCAGTGGAATTTTTAAAC
1 TCAGTGGAATTTTTAAAC
18918752 TC
1 TC
18918754 TATAAATAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TCAGTGGAATTTTTAAAC
Found at i:18918830 original size:28 final size:28
Alignment explanation
Indices: 18918771--18918835 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
18918761 AAGATCAAGG
*
18918771 GTTGACAAGTATCCTATTAAAACAATGG
1 GTTGACAAGTATCCTATTAAAACAATGA
* * *
18918799 GTTGACAATTGTCCTATTAAGACTAA-GA
1 GTTGACAAGTATCCTATTAAAAC-AATGA
18918827 GTTGACAAG
1 GTTGACAAG
18918836 GGTCTAATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 29 0.94
29 2 0.06
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (28 bp):
GTTGACAAGTATCCTATTAAAACAATGA
Found at i:18919027 original size:15 final size:15
Alignment explanation
Indices: 18918991--18919032 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
18918981 ATTAAACTAG
**
18918991 TATAAATTTTAAATTT
1 TATAAA-TTTAAATCA
18919007 TA-AAATTTAAATCA
1 TATAAATTTAAATCA
18919021 TATAAATTTAAA
1 TATAAATTTAAA
18919033 AATAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 9 0.39
15 12 0.52
16 2 0.09
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
TATAAATTTAAATCA
Found at i:18928377 original size:23 final size:23
Alignment explanation
Indices: 18928351--18928397 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
18928341 TTTTTAAAAA
18928351 AATATTCATATTAT-TTTTAATTT
1 AATATTCA-ATTATATTTTAATTT
* *
18928374 AATATTTAATTATATTTTTATTT
1 AATATTCAATTATATTTTAATTT
18928397 A
1 A
18928398 TTAAGATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
AATATTCAATTATATTTTAATTT
Found at i:18929033 original size:17 final size:18
Alignment explanation
Indices: 18929006--18929051 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
18928996 AATACAACCC
18929006 AAAAT-AAAAAAT-AAAA
1 AAAATAAAAAAATGAAAA
*
18929022 AAAATAAAAAAATGAAGA
1 AAAATAAAAAAATGAAAA
*
18929040 AAAAGAAAAAAA
1 AAAATAAAAAAA
18929052 CCTAATATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 5 0.19
17 7 0.27
18 14 0.54
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.09
Consensus pattern (18 bp):
AAAATAAAAAAATGAAAA
Found at i:18930252 original size:19 final size:19
Alignment explanation
Indices: 18930228--18930284 Score: 105
Period size: 19 Copynumber: 3.0 Consensus size: 19
18930218 TTGAGATTGC
18930228 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCTTGAAAT
18930247 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCTTGAAAT
*
18930266 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCTTGAAAT
18930285 TATTCATTCC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.35
Consensus pattern (19 bp):
CAACCTATTTGCTTGAAAT
Found at i:18946107 original size:93 final size:93
Alignment explanation
Indices: 18945995--18946166 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18945985 CGCCCATAAG
* *
18945995 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18946060 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
18946088 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18946153 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
18946167 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:18946163 original size:46 final size:46
Alignment explanation
Indices: 18945988--18946163 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
18945978 TGTAACCCGC
* * *
18945988 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
18946034 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
18946084 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
18946127 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
18946164 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:18953687 original size:93 final size:93
Alignment explanation
Indices: 18953575--18953746 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18953565 CGCCCATAAG
* *
18953575 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18953640 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
18953668 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18953733 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
18953747 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:18953743 original size:46 final size:46
Alignment explanation
Indices: 18953568--18953743 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
18953558 TGTAACCCGC
* * *
18953568 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
18953614 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
18953664 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
18953707 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
18953744 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:18955761 original size:14 final size:14
Alignment explanation
Indices: 18955742--18955775 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
18955732 ATTGAACCTG
18955742 CTTAAACCATATAT-
1 CTTAAACCATA-ATC
18955756 CTTAAACCATAATC
1 CTTAAACCATAATC
18955770 CTTAAA
1 CTTAAA
18955776 ATATAATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 17 0.89
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (14 bp):
CTTAAACCATAATC
Found at i:18955999 original size:41 final size:41
Alignment explanation
Indices: 18955942--18956183 Score: 376
Period size: 41 Copynumber: 5.9 Consensus size: 41
18955932 TATGGGGTTT
* *
18955942 TTAGCGGCGTTTTACCTAAAGCGTCGCTAATGCTTTGCTTA
1 TTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGCTTA
* * *
18955983 TTAGCGGCGTTTTACCTAAAGCGCTGCTAATGCTCTGGTTT
1 TTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGCTTA
*
18956024 TTAGCGGCGTTTTACCTAAAGCGCCGCTACTGCTCTGCTTA
1 TTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGCTTA
* *
18956065 TTAGCGGCGTTTTACCTAAAGCGCCACTACTGCTCTGCTTA
1 TTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGCTTA
* * *
18956106 TTAGCGGCATTTTACCTAAAGCGCCGCTAATGCTCTGGTTT
1 TTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGCTTA
*
18956147 TTAGCGGCGTTTTACCTAAAGCGCCGCTAATACTCTG
1 TTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTG
18956184 TTTTTGGCGT
Statistics
Matches: 184, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 184 1.00
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (41 bp):
TTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGCTTA
Found at i:18956074 original size:82 final size:82
Alignment explanation
Indices: 18955937--18956237 Score: 389
Period size: 82 Copynumber: 3.7 Consensus size: 82
18955927 GGGGTTATGG
* *
18955937 GGTTTTTAGCGGCGTTTTACCTAAAGCGTCGCTAATGCTTTGCTTATTAGCGGCGTTTTACCTAA
1 GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGCTTATTAGCGGCGTTTTACCTAA
*
18956002 AGCGCTGCTAATGCTCT
66 AGCGCCGCTAATGCTCT
*
18956019 GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTACTGCTCTGCTTATTAGCGGCGTTTTACCTAA
1 GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGCTTATTAGCGGCGTTTTACCTAA
* *
18956084 AGCGCCACTACTGCTCT
66 AGCGCCGCTAATGCTCT
* * * * *
18956101 GCTTATTAGCGGCATTTTACCTAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCTAA
1 GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGCTTATTAGCGGCGTTTTACCTAA
*
18956166 AGCGCCGCTAATACTCT
66 AGCGCCGCTAATGCTCT
* * * * *
18956183 -GTTTTT---GGCGTTTTA-GTAAAAAACGCCGCTAATGCTATG-TTTTTACCGGCGTTTT
1 GGTTTTTAGCGGCGTTTTACCT--AAAGCGCCGCTAATGCTCTGCTTATTAGCGGCGTTTT
18956238 TTTTGAAACG
Statistics
Matches: 195, Mismatches: 22, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
77 1 0.01
78 23 0.12
79 18 0.09
81 4 0.02
82 149 0.76
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (82 bp):
GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGCTTATTAGCGGCGTTTTACCTAA
AGCGCCGCTAATGCTCT
Found at i:18956161 original size:123 final size:123
Alignment explanation
Indices: 18955942--18956175 Score: 414
Period size: 123 Copynumber: 1.9 Consensus size: 123
18955932 TATGGGGTTT
* * * *
18955942 TTAGCGGCGTTTTACCTAAAGCGTCGCTAATGCTTTGCTTATTAGCGGCGTTTTACCTAAAGCGC
1 TTAGCGGCGTTTTACCTAAAGCGCCACTAATGCTCTGCTTATTAGCGGCATTTTACCTAAAGCGC
*
18956007 TGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTACTGCTCTGCTTA
66 CGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTACTGCTCTGCTTA
*
18956065 TTAGCGGCGTTTTACCTAAAGCGCCACTACTGCTCTGCTTATTAGCGGCATTTTACCTAAAGCGC
1 TTAGCGGCGTTTTACCTAAAGCGCCACTAATGCTCTGCTTATTAGCGGCATTTTACCTAAAGCGC
18956130 CGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTA
66 CGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTA
18956176 ATACTCTGTT
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
123 105 1.00
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (123 bp):
TTAGCGGCGTTTTACCTAAAGCGCCACTAATGCTCTGCTTATTAGCGGCATTTTACCTAAAGCGC
CGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTACTGCTCTGCTTA
Found at i:18957369 original size:9 final size:9
Alignment explanation
Indices: 18957355--18957381 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
18957345 TACGATGAGC
18957355 ACTCGTGGA
1 ACTCGTGGA
18957364 ACTCGTGGA
1 ACTCGTGGA
18957373 ACTCGTGGA
1 ACTCGTGGA
18957382 CATGGTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.22
Consensus pattern (9 bp):
ACTCGTGGA
Found at i:18963422 original size:19 final size:19
Alignment explanation
Indices: 18963383--18963461 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
18963373 AGATTACAAG
*
18963383 ATCATATCTTCAAGGTTGCAT
1 ATCATATC-T-AAGATTGCAT
18963404 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18963423 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
18963440 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18963459 ATC
1 ATC
18963462 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
17 17 0.31
19 29 0.53
20 1 0.02
21 8 0.15
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:18963425 original size:14 final size:15
Alignment explanation
Indices: 18963405--18963461 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
18963395 AGGTTGCATA
18963405 TCATATCTAAGATTG
1 TCATATCTAAGATTG
18963420 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
18963439 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
18963456 -CATATC
1 TCATATC
18963462 CTTAAAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:18964002 original size:89 final size:87
Alignment explanation
Indices: 18963798--18964008 Score: 221
Period size: 89 Copynumber: 2.4 Consensus size: 87
18963788 TAATGTTTTT
* * *
18963798 GATCTTCTCTCCGTCGAATATAGAGATG-TCAAATCATCTTGGATCTGCTTCAGCGTAAACACCT
1 GATCTGCTCTCTGTCGAATAT-GAGATGCT-AAATCATCTTGGATCTGCTTCAGCGAAAACACCT
*
18963862 GAAGGTCAGATCTGCTATGTCATC
64 GAAGGTCAGATATGCTATGTCATC
* * * ** * * *
18963886 GATTTGCTC-CTTGT-AAACACAAGGATGCTAAATCATCTTGGATCTGCTTCAATGTGAAAATAT
1 GATCTGCTCTC-TGTCGAATATGA-GATGCTAAATCATCTTGGATCTGCTTC-A-GCGAAAACAC
*
18963949 CTGAAGGTCAGATATGCTATGTCTTC
62 CTGAAGGTCAGATATGCTATGTCATC
*
18963975 GATCTGCTCTCTGTCGAATATGAGATGCCAAATC
1 GATCTGCTCTCTGTCGAATATGAGATGCTAAATC
18964009 TATTTATTCA
Statistics
Matches: 97, Mismatches: 19, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
86 1 0.01
87 29 0.30
88 11 0.11
89 51 0.53
90 5 0.05
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (87 bp):
GATCTGCTCTCTGTCGAATATGAGATGCTAAATCATCTTGGATCTGCTTCAGCGAAAACACCTGA
AGGTCAGATATGCTATGTCATC
Found at i:18964320 original size:220 final size:220
Alignment explanation
Indices: 18963814--18964975 Score: 1918
Period size: 220 Copynumber: 5.3 Consensus size: 220
18963804 CTCTCCGTCG
* * *
18963814 AATATAGAGATGTCAAATCATCTTGGATCTGCTTCAGCGTAAACACCTGAAGGTCAGATCTGCTA
1 AATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGTGTAAACACCTGAAGGTCAGATCTGCTA
* * * *
18963879 TGTCATCGATTTGCTCCTTGTAAACACAAGGATGCTAAATCATCTTGGATCTGCTTCAATGTGAA
66 TGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCGATGTGAA
* ** * *
18963944 AATATCTGAAGGTCAGATATGCTATGTCTTCGATCTGCTCTCTGTCGAATAT-GAGATGCCAAAT
131 AACATCCAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAAT
* * *
18964008 CTATTTATTCAATTTGTTCTCTGAC
196 CTGTTTCTTCGATTTGTTCTCTGAC
*
18964033 AATACAGAGATGTCAAATCATCTTGGATCTGCTTCAGTGTAAACACCTGAAGGTCAGATCTGCTA
1 AATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGTGTAAACACCTGAAGGTCAGATCTGCTA
*
18964098 TGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTGATGTGAA
66 TGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCGATGTGAA
*
18964163 AACATCCAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCAAATATGGAGATGCCAAAT
131 AACATCCAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAAT
*
18964228 CTGTTTCTTCAATTTGTTCTCTGAC
196 CTGTTTCTTCGATTTGTTCTCTGAC
* * * *
18964253 GATACAGAGATGCCAAATCATCATGGATCTGCTTCAGTATAAACACCTGAAGGCCAGATCTGCTA
1 AATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGTGTAAACACCTGAAGGTCAGATCTGCTA
*
18964318 TGTCTTCGATTTGCTCCTTGTAAATACAAGAATGCCAAATCATCTTGGATCTGCTTCGATGTGAA
66 TGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCGATGTGAA
* * *
18964383 AACATCCAAATGTCAGATCTGCTACGTCTTCGATCTGCTCTCCGTCAAATATGGAGATGCCAAAT
131 AACATCCAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAAT
18964448 CTGTTTCTTCGATTTGTTCTCTGAC
196 CTGTTTCTTCGATTTGTTCTCTGAC
*
18964473 AATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGTGTAAACACCTGAAGGTCAGATCTACTA
1 AATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGTGTAAACACCTGAAGGTCAGATCTGCTA
* *
18964538 TGTCTTTGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTTCTTCGATGTGAA
66 TGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCGATGTGAA
* * *
18964603 AACATCCAAAGGTCAGATTTACTATGTCTTCGATCTGCTCTTCGTCGAATATGGAGATGCCAAAT
131 AACATCCAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAAT
*
18964668 CTGTTTCTTTGATTTGTTCTCTGAC
196 CTGTTTCTTCGATTTGTTCTCTGAC
18964693 AATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGTGTAAACACCTGAAGGTCAGATCTGCTA
1 AATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGTGTAAACACCTGAAGGTCAGATCTGCTA
* *
18964758 TGTCTTCGATTTTCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTACTTCGATGTGAA
66 TGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCGATGTGAA
* *
18964823 AACATCCAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTTCGTTGAATATGGAGATGCCAAAT
131 AACATCCAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAAT
18964888 CTG--T-TTCGATTTGTTCTCTGAC
196 CTGTTTCTTCGATTTGTTCTCTGAC
* * * *
18964910 AATACAGAGATACCAAATCATCTTGGATCTGCTTCAGCGTGAACACCTGAAGGCCAGATCTGCTA
1 AATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGTGTAAACACCTGAAGGTCAGATCTGCTA
18964975 T
66 T
18964976 ACTTTAACCT
Statistics
Matches: 890, Mismatches: 52, Indels: 4
0.94 0.05 0.00
Matches are distributed among these distances:
217 79 0.09
218 1 0.00
219 169 0.19
220 641 0.72
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (220 bp):
AATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGTGTAAACACCTGAAGGTCAGATCTGCTA
TGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCGATGTGAA
AACATCCAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAAT
CTGTTTCTTCGATTTGTTCTCTGAC
Found at i:18964353 original size:87 final size:89
Alignment explanation
Indices: 18964254--18964448 Score: 222
Period size: 89 Copynumber: 2.2 Consensus size: 89
18964244 TTCTCTGACG
*
18964254 ATACAGAGATGCCAAATCATCATGGATCTGCTTC-A-GT-ATAAACA-CCTGAAGGCCAGATCTG
1 ATACAGAGATGCCAAATCATCATGGATCTGCTTCGATGTGA-AAACATCC-AAAGGCCAGATCTG
* *
18964315 CTATGTCTTCGATTTGCTCCTTGTAA
64 CTACGTCTTCGATCTGCTCCTTGTAA
* * *
18964341 ATACA-AGAATGCCAAATCATCTTGGATCTGCTTCGATGTGAAAACATCCAAATGTCAGATCTGC
1 ATACAGAG-ATGCCAAATCATCATGGATCTGCTTCGATGTGAAAACATCCAAAGGCCAGATCTGC
*
18964405 TACGTCTTCGATCTGCT-CTCCGTCAA
65 TACGTCTTCGATCTGCTCCT-TGT-AA
**
18964431 ATATGGAGATGCCAAATC
1 ATACAGAGATGCCAAATC
18964449 TGTTTCTTCG
Statistics
Matches: 91, Mismatches: 9, Indels: 13
0.81 0.08 0.12
Matches are distributed among these distances:
86 2 0.02
87 30 0.33
88 3 0.03
89 36 0.40
90 18 0.20
91 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (89 bp):
ATACAGAGATGCCAAATCATCATGGATCTGCTTCGATGTGAAAACATCCAAAGGCCAGATCTGCT
ACGTCTTCGATCTGCTCCTTGTAA
Found at i:18964586 original size:87 final size:89
Alignment explanation
Indices: 18964482--18964642 Score: 238
Period size: 89 Copynumber: 1.8 Consensus size: 89
18964472 CAATACAGAG
* *
18964482 ATGCCAAATCATCTTGGATCTGCTTC-A-GTGTAAACA-CCTGAAGGTCAGATCTACTATGTCTT
1 ATGCCAAATCATCTTGGATCTGCTTCGATGTGAAAACATCC-AAAGGTCAGATCTACTATGTCTT
* *
18964544 TGATTTGCTCCTTGTAAACACAAGA
65 CGATCTGCTCCTTGTAAACACAAGA
* *
18964569 ATGCCAAATCATCTTGGATCTTCTTCGATGTGAAAACATCCAAAGGTCAGATTTACTATGTCTTC
1 ATGCCAAATCATCTTGGATCTGCTTCGATGTGAAAACATCCAAAGGTCAGATCTACTATGTCTTC
18964634 GATCTGCTC
66 GATCTGCTC
18964643 TTCGTCGAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
87 25 0.38
88 1 0.02
89 37 0.57
90 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (89 bp):
ATGCCAAATCATCTTGGATCTGCTTCGATGTGAAAACATCCAAAGGTCAGATCTACTATGTCTTC
GATCTGCTCCTTGTAAACACAAGA
Found at i:18965114 original size:44 final size:44
Alignment explanation
Indices: 18964978--18965134 Score: 155
Period size: 44 Copynumber: 3.7 Consensus size: 44
18964968 TCTGCTATAC
* * * **
18964978 TTTAACCTGTTACCCTACTGCTTAGGGG-GTTAAG--GCACATC
1 TTTAACCTGTTACCCTACTGCTTAGGGGAGATAAGATTCGCAAA
* * * *
18965019 TTTGATCTGCT-CCACTACTGCTTA-GGGAGATAAGATTCGCAAT
1 TTTAACCTGTTACC-CTACTGCTTAGGGGAGATAAGATTCGCAAA
* *
18965062 TTTGACCTGTTACCCTACTGCTTAGGGGAGATAAGA-TCTGTAAA
1 TTTAACCTGTTACCCTACTGCTTAGGGGAGATAAGATTC-GCAAA
18965106 TTTAACCTGTTACCCTACTGCTTAGGGGA
1 TTTAACCTGTTACCCTACTGCTTAGGGGA
18965135 TTTAGGCGTT
Statistics
Matches: 96, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
40 5 0.05
41 23 0.24
43 24 0.25
44 44 0.46
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (44 bp):
TTTAACCTGTTACCCTACTGCTTAGGGGAGATAAGATTCGCAAA
Found at i:18966120 original size:31 final size:31
Alignment explanation
Indices: 18966085--18966147 Score: 92
Period size: 30 Copynumber: 2.0 Consensus size: 31
18966075 CCCTGGCCTC
* *
18966085 TCTATTTTTTCTTTTTTCTTTTT-CTTTTTTT
1 TCTA-TTTTTCTTTTCTATTTTTCCTTTTTTT
18966116 TCTATTTTTCTTTTCTATTTTTCCTTTTTTT
1 TCTATTTTTCTTTTCTATTTTTCCTTTTTTT
18966147 T
1 T
18966148 TGAAATAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 16 0.55
31 13 0.45
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (31 bp):
TCTATTTTTCTTTTCTATTTTTCCTTTTTTT
Found at i:18966129 original size:13 final size:12
Alignment explanation
Indices: 18966091--18966148 Score: 59
Period size: 13 Copynumber: 4.8 Consensus size: 12
18966081 CCTCTCTATT
18966091 TTTTCTTTTTTC
1 TTTTCTTTTTTC
*
18966103 TTTT-TCTTTT-
1 TTTTCTTTTTTC
18966113 TTTTCTATTTTTC
1 TTTTCT-TTTTTC
18966126 TTTTCTATTTTTCC
1 TTTTCT-TTTTT-C
18966140 TTTT-TTTTT
1 TTTTCTTTTT
18966149 GAAATAGAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 4 0.10
11 6 0.15
12 12 0.30
13 13 0.32
14 5 0.12
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:18966146 original size:22 final size:23
Alignment explanation
Indices: 18966085--18966146 Score: 83
Period size: 22 Copynumber: 2.8 Consensus size: 23
18966075 CCCTGGCCTC
18966085 TCTATTTTTTC-TTTTTTCTTTT
1 TCTATTTTTTCTTTTTTTCTTTT
* *
18966107 TCTTTTTTTTCTATTTTTC-TTT
1 TCTATTTTTTCTTTTTTTCTTTT
*
18966129 TCTATTTTTCCTTTTTTT
1 TCTATTTTTTCTTTTTTT
18966147 TTGAAATAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 28 0.82
23 6 0.18
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.81
Consensus pattern (23 bp):
TCTATTTTTTCTTTTTTTCTTTT
Found at i:18968613 original size:2 final size:2
Alignment explanation
Indices: 18968602--18968641 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
18968592 AGCCGTGACC
*
18968602 CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT CT TT CT -T CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
18968642 TTTTAATAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
CT
Found at i:18970096 original size:16 final size:17
Alignment explanation
Indices: 18970075--18970107 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
18970065 CACATTGAAG
18970075 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
18970091 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
18970108 CTTCTTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:18970944 original size:28 final size:27
Alignment explanation
Indices: 18970894--18971007 Score: 79
Period size: 28 Copynumber: 3.9 Consensus size: 27
18970884 CTATTCAGAA
*
18970894 ATCAGTGTTAA-CTGGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCC-TAGCCCAT
18970921 ATCAGTATTAATCTGGGCCATAGCCC-T
1 ATCAGTATTAATCTGGGCC-TAGCCCAT
* *
18970948 ATTACAATATCAGAGTATACTGGGCCTAGCCCAT
1 A-T-CAGTAT--TA--AT-CTGGGCCTAGCCCAT
* *
18970982 ATCAGTATCAGTCTGGGCCGTAGCCC
1 ATCAGTATTAATCTGGGCC-TAGCCC
18971008 TATTACAAGT
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
27 19 0.27
28 21 0.30
29 5 0.07
30 1 0.01
31 1 0.01
32 5 0.07
33 9 0.13
34 9 0.13
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (27 bp):
ATCAGTATTAATCTGGGCCTAGCCCAT
Found at i:18971006 original size:61 final size:61
Alignment explanation
Indices: 18970871--18971015 Score: 188
Period size: 61 Copynumber: 2.3 Consensus size: 61
18970861 TCAAGCTTTA
* *
18970871 CTGGGCCTAAGCCCTATT-CAGAAATCAGTGTTAACTGGGCCTTAGCCCATATCAGTATTAAT
1 CTGGGCCT-AGCCCTATTACA-AAATCAGAGTTAACTGGGCCTTAGCCCATATCAGTATCAAT
* *
18970933 CTGGGCCATAGCCCTATTACAATATCAGAG-TATACTGGGCC-TAGCCCATATCAGTATCAGT
1 CTGGGCC-TAGCCCTATTACAAAATCAGAGTTA-ACTGGGCCTTAGCCCATATCAGTATCAAT
18970994 CTGGGCCGTAGCCCTATTACAA
1 CTGGGCC-TAGCCCTATTACAA
18971016 GTCGAGATAT
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
61 41 0.55
62 31 0.41
63 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (61 bp):
CTGGGCCTAGCCCTATTACAAAATCAGAGTTAACTGGGCCTTAGCCCATATCAGTATCAAT
Found at i:18971079 original size:19 final size:20
Alignment explanation
Indices: 18971036--18971091 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
18971026 ATTGGGTCTT
18971036 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* * *
18971056 GCCCATTTTAATATAGTT-G
1 GCCCATATTAACACAGTTGG
* *
18971075 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
18971092 CTCATATGAT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:18971704 original size:8 final size:8
Alignment explanation
Indices: 18971691--18971722 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
18971681 TCATAAATGC
18971691 CGGCTTTT
1 CGGCTTTT
18971699 CGGCTTTT
1 CGGCTTTT
*
18971707 TGGCTTTT
1 CGGCTTTT
18971715 CGGCTTTT
1 CGGCTTTT
18971723 ACCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.00, C:0.22, G:0.25, T:0.53
Consensus pattern (8 bp):
CGGCTTTT
Found at i:18971713 original size:16 final size:16
Alignment explanation
Indices: 18971692--18971722 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18971682 CATAAATGCC
18971692 GGCTTTTCGGCTTTTT
1 GGCTTTTCGGCTTTTT
18971708 GGCTTTTCGGCTTTT
1 GGCTTTTCGGCTTTT
18971723 ACCGATCTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.19, G:0.26, T:0.55
Consensus pattern (16 bp):
GGCTTTTCGGCTTTTT
Found at i:18975492 original size:22 final size:21
Alignment explanation
Indices: 18975466--18975526 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 21
18975456 ATTAAATATC
18975466 CAAGATTACAAGATCATATCTT
1 CAAGATTAC-AGATCATATCTT
* *
18975488 CAAGATTGCATATCATATC-T
1 CAAGATTACAGATCATATCTT
* *
18975508 -AAGATTGCATATCATATCT
1 CAAGATTACAGATCATATCT
18975527 AAGATTGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 18 0.50
20 1 0.03
21 9 0.25
22 8 0.22
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (21 bp):
CAAGATTACAGATCATATCTT
Found at i:18975513 original size:19 final size:19
Alignment explanation
Indices: 18975478--18975539 Score: 106
Period size: 19 Copynumber: 3.2 Consensus size: 19
18975468 AGATTACAAG
18975478 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
18975499 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18975518 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18975537 ATC
1 ATC
18975540 CTTAAAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 32 0.78
20 1 0.02
21 8 0.20
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:18986778 original size:28 final size:28
Alignment explanation
Indices: 18986715--18986778 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
18986705 ACTCAGTGTA
** *
18986715 CGAAATATTGAGAATGGCACTTATTGTG
1 CGAAATATTGAGAATGAAACTTAATGTG
* *
18986743 TGAGATATTGAGAATGAAACTTAATGTG
1 CGAAATATTGAGAATGAAACTTAATGTG
18986771 CGAAATAT
1 CGAAATAT
18986779 CGAATGATTC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (28 bp):
CGAAATATTGAGAATGAAACTTAATGTG
Found at i:18987219 original size:21 final size:22
Alignment explanation
Indices: 18987188--18987228 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
18987178 GAATGTATTG
*
18987188 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
18987210 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
18987229 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:19000523 original size:30 final size:30
Alignment explanation
Indices: 19000480--19000537 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
19000470 AGCCAGACCA
*
19000480 CACATCTCTGTGTCTAGCCCATGTGCTATG
1 CACATCTCTGTGTCCAGCCCATGTGCTATG
* *
19000510 CACAT-TCTCGTGTCCAGGCCGTGTGCTA
1 CACATCTCT-GTGTCCAGCCCATGTGCTA
19000538 GGCCATGCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 21 0.88
ACGTcount: A:0.16, C:0.31, G:0.22, T:0.31
Consensus pattern (30 bp):
CACATCTCTGTGTCCAGCCCATGTGCTATG
Found at i:19002958 original size:27 final size:27
Alignment explanation
Indices: 19002925--19003310 Score: 174
Period size: 27 Copynumber: 14.3 Consensus size: 27
19002915 CCTCAAATTG
*
19002925 TAAAATTACCAAAGTACCCTCGATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* ** ** *
19002952 TATAATTATTATTTTACCATCGATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
** *
19002979 TAAAATTACCATTTTACCCTCAATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* **** *
19003006 TAGAATTACTGTTTTACCCTTGATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* * ****
19003033 CAGAATTACTGTTTTACCCTCGATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* * * * *
19003060 CAAAATTACTAAAATACCCTTGGTTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* *
19003087 CAAAATTACCAAAATACCCTCGA-TTA
1 TAAAATTACCAAATTACCCTCGATTTA
* * * *
19003113 GTAAAATTACCAAAATACCCTAG-TCTG
1 -TAAAATTACCAAATTACCCTCGATTTA
* * * * * * *
19003140 TAAAATTGCTAAAATACCATTGGTTTG
1 TAAAATTACCAAATTACCCTCGATTTA
* * *
19003167 TAAAATTATCGAAA-TACCCTCAATTTG
1 TAAAATTA-CCAAATTACCCTCGATTTA
* * *
19003194 TAAAATTACCAAAATACCCT-TAGTTTG
1 TAAAATTACCAAATTACCCTCGA-TTTA
* * *
19003221 TAAAATTACCAAAATACCACT-GGTTTG
1 TAAAATTACCAAATTACC-CTCGATTTA
* * *
19003248 TAAAATTATCGAAA-TACCCTCAATTTG
1 TAAAATTA-CCAAATTACCCTCGATTTA
*
19003275 TAAAATTACCAAAATACCC-CTGATTTA
1 TAAAATTACCAAATTACCCTC-GATTTA
* *
19003302 CAAAGTTAC
1 TAAAATTAC
19003311 AGAAATACCC
Statistics
Matches: 292, Mismatches: 56, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
26 33 0.11
27 249 0.85
28 10 0.03
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (27 bp):
TAAAATTACCAAATTACCCTCGATTTA
Found at i:19003128 original size:54 final size:55
Alignment explanation
Indices: 19003047--19003366 Score: 224
Period size: 54 Copynumber: 5.9 Consensus size: 55
19003037 ATTACTGTTT
** *
19003047 TACCCTCGA-TTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGACTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
* * * ** * *
19003101 TACCCTCGA-TTAGTAAAATTACCAAAATACCC-TAGTCTGTAAAATTGCTAAAA
1 TACCCTCGACTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
* * * * * *** **
19003154 TACCATTG-GTTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGACTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
* * ** * *
19003208 TACCCT-TAGTTTGTAAAATTACCAAAATACCAC-TGGTTTGTAAAATTATCGAAA
1 TACCCTCGACTTTGTAAAATTACCAAAATACC-CTTGGTTTACAAAATTACCAAAA
* * * *
19003262 TACCCTC-AATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTCGACTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCA-AAA
* * *** * *
19003316 TACCCTTGACTTTCTAAAAATTATGGAAATATCATTGGTTTACAAAATTAC
1 TACCCTCGACTTTGT-AAAATTACCAAAATACCCTTGGTTTACAAAATTAC
19003367 TGAAATATCC
Statistics
Matches: 210, Mismatches: 46, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
53 43 0.20
54 135 0.64
55 6 0.03
56 26 0.12
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (55 bp):
TACCCTCGACTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
Found at i:19003254 original size:81 final size:80
Alignment explanation
Indices: 19003061--19003293 Score: 351
Period size: 81 Copynumber: 2.9 Consensus size: 80
19003051 CTCGATTTAC
** * * * *
19003061 AAAATTACTAAAATACC-CTTGGTTTACAAAATTACCAAAATACCCTCGATTAGTAAAATTACCA
1 AAAATTACTAAAATACCAC-TGGTTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTACCA
19003125 AAATACCCTAGTCTGT
65 AAATACCCTAGTCTGT
* *
19003141 AAAATTGCTAAAATACCATTGGTTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACCACTGGTTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTACCAA
*
19003206 AATACCCTTAGTTTGT
66 AATACCC-TAGTCTGT
*
19003222 AAAATTACCAAAATACCACTGGTTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACCACTGGTTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTACCAA
19003287 AATACCC
66 AATACCC
19003294 CTGATTTACA
Statistics
Matches: 139, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
80 63 0.45
81 76 0.55
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.30
Consensus pattern (80 bp):
AAAATTACTAAAATACCACTGGTTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTACCAA
AATACCCTAGTCTGT
Found at i:19003364 original size:27 final size:27
Alignment explanation
Indices: 19003332--19003383 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
19003322 TGACTTTCTA
19003332 AAAATTA-TGGAAATATCATTGGTTTAC
1 AAAATTACT-GAAATATCATTGGTTTAC
*
19003359 AAAATTACTGAAATATCCTTGGTTT
1 AAAATTACTGAAATATCATTGGTTT
19003384 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (27 bp):
AAAATTACTGAAATATCATTGGTTTAC
Found at i:19003528 original size:27 final size:27
Alignment explanation
Indices: 19003437--19003528 Score: 125
Period size: 27 Copynumber: 3.4 Consensus size: 27
19003427 ACCCCTATTA
*
19003437 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
19003464 GGTAAAGAT-ACCGTAAAGCCCCTGTAG
1 GGTAAA-ATGACCGTAAAGCCCCTGTAG
* *
19003491 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
19003518 GGTAAAATGAC
1 GGTAAAATGAC
19003529 GAATATGCCC
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
26 1 0.02
27 55 0.95
28 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:19004357 original size:26 final size:26
Alignment explanation
Indices: 19004328--19004499 Score: 240
Period size: 26 Copynumber: 6.7 Consensus size: 26
19004318 GAGGAAGTGC
**
19004328 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
19004354 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
19004380 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
19004406 AAAAGGGCTTATGCCTCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* * **
19004432 AAAAGGGCTTATGCCCTAATTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
19004458 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
19004483 AAAAGGGCTT-TGCCCCA
1 AAAAGGGCTTATGCCCCA
19004500 ATTATTAAAG
Statistics
Matches: 128, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
25 28 0.22
26 100 0.78
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:19004406 original size:52 final size:52
Alignment explanation
Indices: 19004328--19004497 Score: 299
Period size: 52 Copynumber: 3.3 Consensus size: 52
19004318 GAGGAAGTGC
*
19004328 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
19004380 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCTCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
19004432 AAAAGGGCTTATGCCCTAATTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
19004483 AAAAGGGCTT-TGCCC
1 AAAAGGGCTTATGCCC
19004498 CAATTATTAA
Statistics
Matches: 114, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
50 5 0.04
51 24 0.21
52 85 0.75
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:19004712 original size:42 final size:42
Alignment explanation
Indices: 19004647--19004734 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
19004637 TAGTCTCCCC
* * ** *
19004647 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATAGGCTTGCATACATCCATTGACATTACATGTGATATTG
19004689 AAATAGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATAGGCTTGCATACATCCATTGACATTACATGTGATATTG
19004731 AAAT
1 AAAT
19004735 GGGCCTAAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (42 bp):
AAATAGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:19004797 original size:31 final size:31
Alignment explanation
Indices: 19004762--19004838 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
19004752 CATTTACAGT
19004762 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
* * *
19004793 AAAGGCTTCGGCCTAGTGATATGATTTATGC
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
*
19004824 AAAGCCTTCGGCCCA
1 AAAGGCTTCGGCCCA
19004839 GTAACCGTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTTATGA
Found at i:19011041 original size:125 final size:125
Alignment explanation
Indices: 19010819--19011191 Score: 595
Period size: 125 Copynumber: 3.0 Consensus size: 125
19010809 CTCTGATAGC
* *
19010819 AATAAAATGTAACACCCCTAACCCGTAACCGTCGCCAGTATAAGATAAGAGGCATTACTAAATTC
1 AATAAAATGTAACACCCCTAACCCGTAACCGTCGCCAGTATAAGTTAAGAGGCATTACTAAACTC
* *
19010884 ATAACACAAGCCAGAATAATTAAATATCAAATATTATCTCATTGCAATAAATCTCATTAA
66 ATAACACAAACCAGAATAATTAAATATCAAATATTATCTCATTGCAGTAAATCTCATTAA
* * *
19010944 AATAAAATGTAACACCCCTAACTCGTAACCATCGCCAGTATAAGTTAAGAGGCATTACTAAACTA
1 AATAAAATGTAACACCCCTAACCCGTAACCGTCGCCAGTATAAGTTAAGAGGCATTACTAAACTC
* * *
19011009 ATGAA-ACAAACTAGAATAATTAAATATCAAATATTATCTCATTACAGTAAATCTGATTAA
66 AT-AACACAAACCAGAATAATTAAATATCAAATATTATCTCATTGCAGTAAATCTCATTAA
* * *
19011069 AATAAAATGTAACTCCCCTAACCCGTAATCGTCGCTAGTATAAGTTAAGAGGCATTACTAAACTC
1 AATAAAATGTAACACCCCTAACCCGTAACCGTCGCCAGTATAAGTTAAGAGGCATTACTAAACTC
* *
19011134 ATAACACAAACCAGAATAATTAAATATTAAATATTATCTCATTGCTGTAAATCTCATT
66 ATAACACAAACCAGAATAATTAAATATCAAATATTATCTCATTGCAGTAAATCTCATT
19011192 CATTCACATT
Statistics
Matches: 225, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
124 2 0.01
125 221 0.98
126 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.28
Consensus pattern (125 bp):
AATAAAATGTAACACCCCTAACCCGTAACCGTCGCCAGTATAAGTTAAGAGGCATTACTAAACTC
ATAACACAAACCAGAATAATTAAATATCAAATATTATCTCATTGCAGTAAATCTCATTAA
Found at i:19014271 original size:25 final size:25
Alignment explanation
Indices: 19014237--19014308 Score: 101
Period size: 25 Copynumber: 2.8 Consensus size: 25
19014227 TATTTTCTCG
19014237 AAATTTTACTAGGGGTAAAATCGTC-
1 AAATTTTACT-GGGGTAAAATCGTCA
19014262 AAATTTTACTGGAGGTAAAATCGTCA
1 AAATTTTACTGG-GGTAAAATCGTCA
*
19014288 AAATCTTACTGAGGGTAAAAT
1 AAATTTTACTG-GGGTAAAAT
19014309 AGGGATGAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
24 2 0.05
25 22 0.51
26 18 0.42
27 1 0.02
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (25 bp):
AAATTTTACTGGGGTAAAATCGTCA
Found at i:19017971 original size:27 final size:27
Alignment explanation
Indices: 19017931--19018006 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
19017921 GGCAAAACAA
* *
19017931 TCATTTTACCCTACAGGGGTATGTCAG
1 TCATTTTACACTACAAGGGTATGTCAG
* * *
19017958 TCATTTTACACTACAAAGGTATTTCGG
1 TCATTTTACACTACAAGGGTATGTCAG
*
19017985 TAATTTTACACTACAAGGGTAT
1 TCATTTTACACTACAAGGGTAT
19018007 TTCGATAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACACTACAAGGGTATGTCAG
Found at i:19018300 original size:27 final size:27
Alignment explanation
Indices: 19017975--19018301 Score: 372
Period size: 27 Copynumber: 12.1 Consensus size: 27
19017965 ACACTACAAA
* * *
19017975 GGTATTTCGGTAATTTTAC-ACTACAAG
1 GGTATTTCGATAATTTTACAAAT-CGAG
19018002 GGTATTTCGATAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
* * **
19018029 GGTGTTTCGGTAATTTTACAAATTAAG
1 GGTATTTCGATAATTTTACAAATCGAG
** *
19018056 AATATTTCGGTAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
** *
19018083 CATATTTTGATAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
* *
19018110 GGTATTTCAATAATTTTACAAATCAAG
1 GGTATTTCGATAATTTTACAAATCGAG
* *
19018137 GGTATTTCAATAATTTTACAAATCAAG
1 GGTATTTCGATAATTTTACAAATCGAG
19018164 GGTATTTCGATAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
*
19018191 GGTATTTCGGTAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
*
19018218 GGTATTT-TAGTAATTTTAC-AATCGAG
1 GGTATTTCGA-TAATTTTACAAATCGAG
* * * *
19018244 GGTATTTCGGTAATTTTGCAAATGGGG
1 GGTATTTCGATAATTTTACAAATCGAG
** * *
19018271 GGTATTTCTTTAATTTTACGAACCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
19018298 GGTA
1 GGTA
19018302 CTTTAGTAAT
Statistics
Matches: 259, Mismatches: 37, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
26 22 0.08
27 235 0.91
28 2 0.01
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (27 bp):
GGTATTTCGATAATTTTACAAATCGAG
Found at i:19018576 original size:85 final size:85
Alignment explanation
Indices: 19018433--19018595 Score: 308
Period size: 85 Copynumber: 1.9 Consensus size: 85
19018423 ATTAAGACCA
* *
19018433 CTTAAGTAACAAGCTTTCCCTAGATCCAATCCTAGACATGCATATACCTATTGCCACACCTTAAT
1 CTTAAGTAACAAGCTCTCCCTAGATCCAATCCTAGACATGCATATACCCATTGCCACACCTTAAT
19018498 CTTATGACTCGTCCACGGTC
66 CTTATGACTCGTCCACGGTC
19018518 CTTAAGTAACAAGCTCTCCCTAGATCCAATCCTAGACATGCATATACCCATTGCCACACCTTAAT
1 CTTAAGTAACAAGCTCTCCCTAGATCCAATCCTAGACATGCATATACCCATTGCCACACCTTAAT
19018583 CTTATGACTCGTC
66 CTTATGACTCGTC
19018596 TACGATCCCC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 76 1.00
ACGTcount: A:0.29, C:0.31, G:0.11, T:0.29
Consensus pattern (85 bp):
CTTAAGTAACAAGCTCTCCCTAGATCCAATCCTAGACATGCATATACCCATTGCCACACCTTAAT
CTTATGACTCGTCCACGGTC
Found at i:19018752 original size:28 final size:28
Alignment explanation
Indices: 19018715--19018834 Score: 170
Period size: 28 Copynumber: 4.3 Consensus size: 28
19018705 TGGCCCCTTT
* * *
19018715 AGGCCCAATCTCCTTCACATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
19018743 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
19018771 AGGCCCAATCACATGT-ATATAGCCCATC
1 AGGCCCAATCACAT-TCATATGGCCCATC
*
19018799 AGGCCCAATCACATTCATATGGCCTATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
19018827 AGGACCAA
1 AGGCCCAA
19018835 CTACTTCCCA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
27 1 0.01
28 81 0.98
29 1 0.01
ACGTcount: A:0.29, C:0.35, G:0.15, T:0.21
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:19021152 original size:27 final size:26
Alignment explanation
Indices: 19021122--19021181 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
19021112 CATGGGCCAA
* *
19021122 AGCCCATTACA-ATATCATTTGGGTCAT
1 AGCCCATAACAGA-ATCAATTGGG-CAT
*
19021149 AGCCCATAACAGAATCAATTGGGCCT
1 AGCCCATAACAGAATCAATTGGGCAT
19021175 AGCCCAT
1 AGCCCAT
19021182 CTTAGCCTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 9 0.31
27 19 0.66
28 1 0.03
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (26 bp):
AGCCCATAACAGAATCAATTGGGCAT
Found at i:19021755 original size:27 final size:27
Alignment explanation
Indices: 19021704--19021783 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 27
19021694 CATTTTACCT
* * * *
19021704 TACAGAGGTATGTCGATCATTTTACAC
1 TACAAAGGTATTTCGATAATCTTACAC
*
19021731 TACAAAGGTATTTCGGTAATCTTACAC
1 TACAAAGGTATTTCGATAATCTTACAC
* * *
19021758 TAGAAGGGTATTTCGATAATTTTACA
1 TACAAAGGTATTTCGATAATCTTACA
19021784 AATCGAGGGT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (27 bp):
TACAAAGGTATTTCGATAATCTTACAC
Found at i:19021792 original size:27 final size:27
Alignment explanation
Indices: 19021762--19022063 Score: 421
Period size: 27 Copynumber: 11.2 Consensus size: 27
19021752 TTACACTAGA
19021762 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
19021789 AGGGTGTTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
19021816 AGGGTATTTCGGTAATTTTACAAATCA
1 AGGGTATTTCGATAATTTTACAAATCG
19021843 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
19021870 AGGGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
19021897 AGGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
19021924 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
*
19021951 AGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
19021978 AGGGTATTTC-AGTAA-TTTA-ATAATCG
1 AGGGTATTTCGA-TAATTTTACA-AATCG
* *
19022004 AGGGTATTTCGATAATTTTATAAACCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
19022031 AGGGTATTTCGATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
19022058 AGGGTA
1 AGGGTA
19022064 GTTCAGTAAT
Statistics
Matches: 246, Mismatches: 24, Indels: 10
0.88 0.09 0.04
Matches are distributed among these distances:
25 1 0.00
26 23 0.09
27 221 0.90
28 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:19021822 original size:81 final size:80
Alignment explanation
Indices: 19021737--19022075 Score: 446
Period size: 81 Copynumber: 4.2 Consensus size: 80
19021727 ACACTACAAA
* * * * *
19021737 GGTATTTCGGTAATCTTACACTAGAAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTTGGT
1 GGTATTTCGGTAATTTTACAATAG-AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGAT
*
19021802 AATTTTACAAATTGAG
65 AATTTTACAAATCGAG
*
19021818 GGTATTTCGGTAATTTTACAAATCA-AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAA
1 GGTATTTCGGTAATTTTAC-AAT-AGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGA
19021882 TAATTTTACAAATCGAG
64 TAATTTTACAAATCGAG
* * * * *
19021899 GGTATTTCGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAATTGAGGGTGTTTCGAT
1 GGTATTTCGGTAATTTTAC-AATAGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGAT
19021964 AATTTTACAAATCGAG
65 AATTTTACAAATCGAG
* * * * * *
19021980 GGTATTTCAGTAATTTAATAATCGAGGGTATTTCGATAATTTTATAAACCGAGGGTATTTCGATA
1 GGTATTTCGGTAATTTTACAATAGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATA
*
19022045 ATTTTACAAATTGAG
66 ATTTTACAAATCGAG
* *
19022060 GGTAGTTCAGTAATTT
1 GGTATTTCGGTAATTT
19022076 CTCTTTATTA
Statistics
Matches: 230, Mismatches: 25, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
80 68 0.30
81 159 0.69
82 2 0.01
83 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (80 bp):
GGTATTTCGGTAATTTTACAATAGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATA
ATTTTACAAATCGAG
Found at i:19022441 original size:28 final size:28
Alignment explanation
Indices: 19022392--19022455 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
19022382 TGGCCCCTTT
* *
19022392 AGGCCCAATCCCATTCACATGGCCCATC
1 AGGCCCAATCACATGCACATGGCCCATC
* *
19022420 AGGCCCAATCACATGCATATGGCCCATG
1 AGGCCCAATCACATGCACATGGCCCATC
19022448 AGGCCCAA
1 AGGCCCAA
19022456 CTACTTCCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.28, C:0.38, G:0.19, T:0.16
Consensus pattern (28 bp):
AGGCCCAATCACATGCACATGGCCCATC
Found at i:19022936 original size:28 final size:28
Alignment explanation
Indices: 19022883--19022957 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
19022873 ATTGCATGAC
* *
19022883 TATGAATGTGATTGGGCTTGACGGGCCA
1 TATGAATGTGATTAGGCCTGACGGGCCA
* * *
19022911 TGTGAATGTGATTTGGCCTGATGGGCCA
1 TATGAATGTGATTAGGCCTGACGGGCCA
*
19022939 TATGAATGAGATTAGGCCT
1 TATGAATGTGATTAGGCCT
19022958 AAAGGGACCA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.23, C:0.13, G:0.33, T:0.31
Consensus pattern (28 bp):
TATGAATGTGATTAGGCCTGACGGGCCA
Found at i:19023898 original size:3 final size:3
Alignment explanation
Indices: 19023892--19023929 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
19023882 TTAATTTAGG
19023892 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
19023930 GCTTCATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:19025753 original size:21 final size:21
Alignment explanation
Indices: 19025727--19025773 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
19025717 GCCTAGACCA
*
19025727 TGTGGGGGGTCAACACGCCCG
1 TGTGGGGGGTCAACACACCCG
*
19025748 TGTGGGGGGTCAACACACCTG
1 TGTGGGGGGTCAACACACCCG
19025769 TGTGG
1 TGTGG
19025774 ATGAGGCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.15, C:0.23, G:0.43, T:0.19
Consensus pattern (21 bp):
TGTGGGGGGTCAACACACCCG
Found at i:19026474 original size:22 final size:22
Alignment explanation
Indices: 19026449--19026490 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
19026439 ACCGTTTTCA
19026449 AAGAAAAAAAAAGAAAAGAAGC
1 AAGAAAAAAAAAGAAAAGAAGC
**
19026471 AAGAACCAAAAAGAAAAGAA
1 AAGAAAAAAAAAGAAAAGAA
19026491 ACCCAGAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.76, C:0.07, G:0.17, T:0.00
Consensus pattern (22 bp):
AAGAAAAAAAAAGAAAAGAAGC
Found at i:19034414 original size:20 final size:20
Alignment explanation
Indices: 19034382--19034420 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
19034372 CTAAGTTTTT
19034382 AATTCTATTTGATTTAGTCC
1 AATTCTATTTGATTTAGTCC
19034402 AATT-TATTATGATTTAGTC
1 AATTCTATT-TGATTTAGTC
19034421 ATTGGTCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.51
Consensus pattern (20 bp):
AATTCTATTTGATTTAGTCC
Found at i:19047780 original size:9 final size:9
Alignment explanation
Indices: 19047766--19047842 Score: 93
Period size: 9 Copynumber: 8.6 Consensus size: 9
19047756 ATAAGTATAA
19047766 AATTAACCG
1 AATTAACCG
*
19047775 AATTAATCG
1 AATTAACCG
*
19047784 AATTAACTG
1 AATTAACCG
19047793 AATT-ACTCG
1 AATTAAC-CG
* *
19047802 AATTACCCA
1 AATTAACCG
19047811 AATTAACCG
1 AATTAACCG
19047820 AATTAACCG
1 AATTAACCG
*
19047829 AATTAACTG
1 AATTAACCG
19047838 AATTA
1 AATTA
19047843 TTTGTATAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
8 2 0.04
9 54 0.95
10 1 0.02
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:19047944 original size:18 final size:18
Alignment explanation
Indices: 19047921--19047958 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
19047911 ATTTTTATGA
19047921 TTGGGTTGAGTAATTGGG
1 TTGGGTTGAGTAATTGGG
* *
19047939 TTGGGTTGGGTACTTGGG
1 TTGGGTTGAGTAATTGGG
19047957 TT
1 TT
19047959 AATATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.03, G:0.45, T:0.42
Consensus pattern (18 bp):
TTGGGTTGAGTAATTGGG
Found at i:19049255 original size:8 final size:8
Alignment explanation
Indices: 19049244--19049268 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
19049234 CTAAAGTGTT
19049244 AAAATGTG
1 AAAATGTG
19049252 AAAATGTG
1 AAAATGTG
19049260 AAAATGTG
1 AAAATGTG
19049268 A
1 A
19049269 GGTCTAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (8 bp):
AAAATGTG
Found at i:19052249 original size:20 final size:20
Alignment explanation
Indices: 19052183--19052249 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
19052173 ATTTTGATAA
*
19052183 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
19052203 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
19052223 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
19052243 ACGTGAT
1 ACATGAT
19052250 GTAATCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:19052420 original size:24 final size:23
Alignment explanation
Indices: 19052300--19052418 Score: 202
Period size: 23 Copynumber: 5.1 Consensus size: 23
19052290 AGGAAGTGGA
*
19052300 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTGTGCCCCAGTTATT
19052323 AAAGGGCTTGTGCCCCAGTTATT
1 AAAGGGCTTGTGCCCCAGTTATT
19052346 AAAGGGCTTGTGCCCCAGTTATT
1 AAAGGGCTTGTGCCCCAGTTATT
*
19052369 AAAGGGCTTGTGCCCCAATTATT
1 AAAGGGCTTGTGCCCCAGTTATT
*
19052392 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTGTGCCCCAGTTATT
19052416 AAA
1 AAA
19052419 AGAGGCTAGG
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
23 70 0.77
24 21 0.23
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTGTGCCCCAGTTATT
Found at i:19052668 original size:31 final size:31
Alignment explanation
Indices: 19052633--19052696 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
19052623 CATTTACAGT
*
19052633 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
19052664 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
19052695 AA
1 AA
19052697 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:19054753 original size:13 final size:13
Alignment explanation
Indices: 19054735--19054759 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19054725 CTAAGCAGGA
19054735 ACACGCCCGTGTG
1 ACACGCCCGTGTG
19054748 ACACGCCCGTGT
1 ACACGCCCGTGT
19054760 TCGATTACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.40, G:0.28, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTG
Found at i:19062941 original size:13 final size:13
Alignment explanation
Indices: 19062918--19062969 Score: 77
Period size: 13 Copynumber: 4.0 Consensus size: 13
19062908 GCTCGACAGG
*
19062918 GACATGTCCGTGT
1 GACACGTCCGTGT
*
19062931 AACACGTCCGTGT
1 GACACGTCCGTGT
19062944 GACACGTCCGTGT
1 GACACGTCCGTGT
*
19062957 GACACGCCCGTGT
1 GACACGTCCGTGT
19062970 TCGATTACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.17, C:0.31, G:0.29, T:0.23
Consensus pattern (13 bp):
GACACGTCCGTGT
Found at i:19063947 original size:31 final size:31
Alignment explanation
Indices: 19063909--19063987 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
19063899 TTTAACGGTT
19063909 ACTGGGCCGAAGCCTTTTCATAAATCATGTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATGTC
*
19063940 ACTGGGCCGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATGTC
19063971 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
19063988 ACCGTAAACG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATGTC
Found at i:19064083 original size:42 final size:42
Alignment explanation
Indices: 19064011--19064102 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
19064001 TGGCCCATAG
* ** *
19064011 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
19064053 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
19064095 GCCCATTT
1 GCCCATTT
19064103 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:19064276 original size:25 final size:26
Alignment explanation
Indices: 19064248--19064344 Score: 162
Period size: 25 Copynumber: 3.8 Consensus size: 26
19064238 CTCTTTTAAT
19064248 AACTGGGGCA-AAGCCCTTTTCAGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
19064273 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
19064298 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
19064324 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
19064345 ACACTTCCTC
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
25 34 0.50
26 34 0.50
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAGTA
Found at i:19064318 original size:51 final size:49
Alignment explanation
Indices: 19064235--19064345 Score: 170
Period size: 51 Copynumber: 2.2 Consensus size: 49
19064225 CTGGAGGCCT
19064235 AGCCTCTTTTAATAACTGGGGCAAAGCCCTTTTCAGTAAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCAAAGCCCTTTTCAGTAAACTGGGGCATA
*
19064284 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCAGTAAACTGGGGCATA
19064336 AGCCCTTTTA
1 AGCCCTTTTA
19064346 CACTTCCTCC
Statistics
Matches: 57, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
48 5 0.09
49 7 0.12
50 10 0.18
51 25 0.44
52 10 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (49 bp):
AGCCCTTTTAATAACTGGGGCAAAGCCCTTTTCAGTAAACTGGGGCATA
Found at i:19064319 original size:26 final size:25
Alignment explanation
Indices: 19064235--19064344 Score: 152
Period size: 25 Copynumber: 4.4 Consensus size: 25
19064225 CTGGAGGCCT
19064235 AGCCTCTTTT-AAT-AACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAA
*
19064259 AGCCCTTTTCAGTAAACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
19064284 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
**
19064310 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
19064336 AGCCCTTTT
1 AGCCCTTTT
19064345 ACACTTCCTC
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
23 5 0.06
24 6 0.08
25 34 0.43
26 34 0.43
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Found at i:19065247 original size:27 final size:27
Alignment explanation
Indices: 19065147--19065230 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
19065137 GGGCATATTC
* *
19065147 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
19065174 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
19065201 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
19065228 GTC
1 GTC
19065231 TTTTTACCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:19065300 original size:27 final size:27
Alignment explanation
Indices: 19065270--19065521 Score: 218
Period size: 27 Copynumber: 9.3 Consensus size: 27
19065260 TTCATCCTAA
* *
19065270 AAGGGTATTTTGGTAAATCTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACC
* * *
19065297 AAGGGTATTTTAGTAATTTTATAAACT
1 AAGGGTATTTTGGTAATTTTACAAACC
* * * *
19065324 AATGGTATTTCT-ATAATTTTTAGAAAGTC
1 AAGGGTATTT-TGGTAA-TTTTACAAA-CC
* * ** **
19065353 AAGGGTATTTTTGTAACTTTGTAAATT
1 AAGGGTATTTTGGTAATTTTACAAACC
* **
19065380 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATTTTACAAACC
* * *
19065407 GAGGGTATTTCGGTAATTTCACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACC
*
19065434 AAGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACC
*
19065461 AGGGGTATTTTGGTAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACC
* * ** *
19065488 AATGGTATTTTAGTAATTTTGTAAATC
1 AAGGGTATTTTGGTAATTTTACAAACC
19065515 AAGGGTA
1 AAGGGTA
19065522 AAACAGTAAT
Statistics
Matches: 181, Mismatches: 40, Indels: 8
0.79 0.17 0.03
Matches are distributed among these distances:
27 153 0.85
28 16 0.09
29 12 0.07
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACC
Found at i:19065518 original size:81 final size:80
Alignment explanation
Indices: 19065270--19065521 Score: 263
Period size: 81 Copynumber: 3.1 Consensus size: 80
19065260 TTCATCCTAA
* * * * *
19065270 AAGGGTATTTTGGTAAATCTACAAACCAAGGGTATTTTAGTAATTTTATAAACTAATGGTATTTC
1 AAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAATGGTATTT-
19065335 TA-TAATTTTTAGAAAGTC
65 TAGTAATTTTT--AAA-TC
* * ** * * * * *
19065353 AAGGGTATTTTTGTAACTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTC
1 AAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAATGGTATTTT
* ** *
19065418 GGTAATTTCACAAACC
66 AGTAATTT-TTAAATC
* *
19065434 AAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAATGGTATTTT
1 AAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAATGGTATTTT
19065499 AGTAATTTTGTAAATC
66 AGTAATTTT-TAAATC
19065515 AAGGGTA
1 AAGGGTA
19065522 AAACAGTAAT
Statistics
Matches: 134, Mismatches: 32, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
81 74 0.55
82 3 0.02
83 57 0.43
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (80 bp):
AAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAATGGTATTTT
AGTAATTTTTAAATC
Found at i:19065529 original size:27 final size:27
Alignment explanation
Indices: 19065499--19065683 Score: 217
Period size: 27 Copynumber: 6.9 Consensus size: 27
19065489 ATGGTATTTT
* *
19065499 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
** *
19065526 AGTAATTCTGTAAATTAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
19065553 AGTAATTCTATAAATTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
19065580 GGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
19065607 AATAATTCTGTAAGTCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
19065634 GGTAATTATGTAAATCGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
19065661 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
19065684 CTTTGGTAAT
Statistics
Matches: 134, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 134 1.00
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:19065548 original size:81 final size:79
Alignment explanation
Indices: 19065297--19065548 Score: 220
Period size: 81 Copynumber: 3.1 Consensus size: 79
19065287 TCTACAAACC
* *
19065297 AAGGGTATTTTAGTAATTTTATAAACTAATGGTATTTCTA-TAATTTTTAGAAAGTCAAGGGTAT
1 AAGGGTATTTTGGTAATTTTACAAACTAATGGTATTT-TAGTAATTTTT--AAA-TCAAGGGTAT
*
19065361 TTTTGTAACTTTGTAAATT
62 TTTAGTAA-TTTGTAAATT
* * * * ** ** *
19065380 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
1 AAGGGTATTTTGGTAATTTTACAAACTAATGGTATTTTAGTAATTT-TTAAATCAAGGGTATTTT
* *
19065445 GGTAATTT-TACAAACT
65 AGTAATTTGT--AAATT
* * ****
19065461 AGGGGTATTTTGGTAATTTTACAAACCAATGGTATTTTAGTAATTTTGTAAATCAAGGGTAAAAC
1 AAGGGTATTTTGGTAATTTTACAAACTAATGGTATTTTAGTAATTTT-TAAATCAAGGGTATTTT
19065526 AGTAATTCTGTAAATT
65 AGTAATT-TGTAAATT
19065542 AAGGGTA
1 AAGGGTA
19065549 AAATAGTAAT
Statistics
Matches: 133, Mismatches: 29, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
79 1 0.01
80 3 0.02
81 87 0.65
82 4 0.03
83 38 0.29
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (79 bp):
AAGGGTATTTTGGTAATTTTACAAACTAATGGTATTTTAGTAATTTTTAAATCAAGGGTATTTTA
GTAATTTGTAAATT
Found at i:19065648 original size:81 final size:81
Alignment explanation
Indices: 19065500--19065683 Score: 260
Period size: 81 Copynumber: 2.3 Consensus size: 81
19065490 TGGTATTTTA
* * * *
19065500 GTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATTAAGGGTAAAATAGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAACAATAATTCTGTAAATCAAGGGTAAAATAGTAATTATATA
*
19065565 AATTGAGGGTAAAACG
66 AATCGAGGGTAAAACG
* * * *
19065581 GTAATTTTGTAAATCGAGGGTAAAACAATAATTCTGTAAGTCGAGGGTAAAATGGTAATTATGTA
1 GTAATTTTGTAAATCGAGGGTAAAACAATAATTCTGTAAATCAAGGGTAAAATAGTAATTATATA
*
19065646 AATCGGGGGTAAAACG
66 AATCGAGGGTAAAACG
* *
19065662 GTAATTCTATAAATCGAGGGTA
1 GTAATTTTGTAAATCGAGGGTA
19065684 CTTTGGTAAT
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 91 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGGTAAAACAATAATTCTGTAAATCAAGGGTAAAATAGTAATTATATA
AATCGAGGGTAAAACG
Found at i:19065705 original size:27 final size:27
Alignment explanation
Indices: 19065660--19065778 Score: 116
Period size: 27 Copynumber: 4.4 Consensus size: 27
19065650 GGGGGTAAAA
* *
19065660 CGGTAATTCTATAAATCGAGGGTACTTT
1 CGGTAATTTTACAAATCGAGGGTA-TTT
* *
19065688 -GGTAATTTTACAAGTCGAAGGTATTT
1 CGGTAATTTTACAAATCGAGGGTATTT
* *
19065714 CAGTAATTTTGCAAATCGAGGGTATTT
1 CGGTAATTTTACAAATCGAGGGTATTT
** * *
19065741 CAATATTTTTACAAA-CTAAGGGTATTT
1 CGGTAATTTTACAAATC-GAGGGTATTT
19065768 CGGTAATTTTA
1 CGGTAATTTTA
19065779 GTAAACTAAA
Statistics
Matches: 74, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
26 4 0.05
27 70 0.95
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (27 bp):
CGGTAATTTTACAAATCGAGGGTATTT
Found at i:19078479 original size:13 final size:13
Alignment explanation
Indices: 19078461--19078487 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19078451 GCATGAACTT
19078461 AGTGAACAGTAAG
1 AGTGAACAGTAAG
19078474 AGTGAACAGTAAG
1 AGTGAACAGTAAG
19078487 A
1 A
19078488 CTTTACCTGT
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:0.48, C:0.07, G:0.30, T:0.15
Consensus pattern (13 bp):
AGTGAACAGTAAG
Found at i:19092673 original size:32 final size:32
Alignment explanation
Indices: 19092637--19092701 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
19092627 GGATAAGTAA
19092637 ATATATATCTGATTCAGGCACGTTTGAATTGT
1 ATATATATCTGATTCAGGCACGTTTGAATTGT
19092669 ATATATATCTGATTCAGGCACGTTTGAATTGT
1 ATATATATCTGATTCAGGCACGTTTGAATTGT
19092701 A
1 A
19092702 AATTATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.40
Consensus pattern (32 bp):
ATATATATCTGATTCAGGCACGTTTGAATTGT
Found at i:19105701 original size:20 final size:20
Alignment explanation
Indices: 19105678--19105715 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19105668 CACATCTAAA
*
19105678 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
19105698 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
19105716 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:19107268 original size:42 final size:42
Alignment explanation
Indices: 19107117--19107269 Score: 148
Period size: 42 Copynumber: 3.6 Consensus size: 42
19107107 TAAGACTATG
* * * * *
19107117 TGTAAGACCATATCTAGGATATGACATCAATATAAGA-CTTCT
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATC-TCA
* * **
19107159 TGTAAGACCATATCTGGGATATGGCATTGATGTGAGAT-TTG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCTCA
* * * * *
19107200 TGTAAGACCATAGCTCGGCTATTGGCATCGATACGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATCTCA
19107243 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
19107270 TGGTATGATT
Statistics
Matches: 88, Mismatches: 20, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
41 19 0.22
42 51 0.58
43 18 0.20
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCTCA
Found at i:19116944 original size:9 final size:9
Alignment explanation
Indices: 19116930--19116954 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
19116920 AACATTCGAG
19116930 ATATAATTC
1 ATATAATTC
19116939 ATATAATTC
1 ATATAATTC
19116948 ATATAAT
1 ATATAAT
19116955 CTTATAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (9 bp):
ATATAATTC
Found at i:19123906 original size:3 final size:3
Alignment explanation
Indices: 19123898--19123960 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
19123888 ACACTAACAT
19123898 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19123946 ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA
19123961 GTATATAAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19125960 original size:56 final size:56
Alignment explanation
Indices: 19125884--19125992 Score: 209
Period size: 56 Copynumber: 1.9 Consensus size: 56
19125874 ATTTTGAAAA
19125884 AAAAAAAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
1 AAAAAAAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
*
19125940 AAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAAAAAAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
19125993 GAAAACATGA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.29
Consensus pattern (56 bp):
AAAAAAAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Found at i:19126159 original size:89 final size:84
Alignment explanation
Indices: 19125959--19126437 Score: 332
Period size: 88 Copynumber: 5.6 Consensus size: 84
19125949 AATTAAAAGG
**
19125959 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-CATG-AATTAAAACAGAAATTGGGA
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAGCA-GAAATTAAAACAGAAATTGAAA
*
19126022 ATACCTCAGCATGCCTTGAGG
64 ATACCTCAGCATGCCTTGAGA
* * *
19126043 CTCAACTCTCCTCTCGCAATATGAGTTGATTTTGGAAAAGTAGAAATTGAAAAGCAGAATTTGAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTT-GAAAAGCAGAAATT-AAAA-CAGAAATTGAA
*
19126108 AATACCTCAGCGTGTGACC-TGAGA
63 AATACCTCAGC--ATG-CCTTGAGA
** * *
19126132 CTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAGCAGAAATTAAAA-ATG--CCT--CAG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAGCAGAAATTAAAACA-GAAATTGAAAA
** *
19126192 TA--TGTG-A-GCC--GAGG
65 TACCTCAGCATGCCTTGAGA
* * * *
19126206 CTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAAAAAAAACAGAAC
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAGCAGAAATT-------AAAACAGAAA
* *
19126271 TTGAAAATTCCTCAGCATGTGAGCC--GAGG
58 TTGAAAATACCTCAGCA--T--GCCTTGAGA
* * *
19126300 CTCAACTCACCTCTCGCAATATGAGTTGATTTCTCTGAAAA-TATAAACTGAAAAACAGAAATTG
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TT-T-TGAAAAGCAGAAA-T-TAAAACAGAAATTG
* ** *
19126364 AAAATACCTCAGCGTGCCCCGAGG
61 AAAATACCTCAGCATGCCTTGAGA
*
19126388 CTCAACTCACCTCTCGCAATATGAGTTGA-TTT-AAAAACAGAAA-TAAAACA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAGCAGAAATTAAAACA
19126438 TCAAAATACC
Statistics
Matches: 321, Mismatches: 37, Indels: 77
0.74 0.09 0.18
Matches are distributed among these distances:
74 31 0.10
75 18 0.06
76 1 0.00
80 2 0.01
81 6 0.02
82 8 0.02
83 9 0.03
84 42 0.13
85 7 0.02
86 11 0.03
87 23 0.07
88 49 0.15
89 39 0.12
90 26 0.08
94 38 0.12
95 5 0.02
96 6 0.02
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (84 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAGCAGAAATTAAAACAGAAATTGAAAAT
ACCTCAGCATGCCTTGAGA
Found at i:19126210 original size:74 final size:75
Alignment explanation
Indices: 19126089--19126258 Score: 236
Period size: 74 Copynumber: 2.3 Consensus size: 75
19126079 AAAGTAGAAA
* * *
19126089 TTGAAAAGCAGAATTTGAAAATACCTCAGCGTGTGACCTGAGACTCAACTCACCTCTCGCAATAT
1 TTGAAAAGCAGAAATTAAAAATACCTCAGCATGTGACCTGAGACTCAACTCACCTCTCGCAATAT
19126154 GAGTTGA-TT
66 GAGTTGATTT
* * * *
19126163 TTGAAAAGCAGAAATTAAAAATGCCTCAGTATGTGAGCC-GAGGCTCAACTCACTTCTCGCAATA
1 TTGAAAAGCAGAAATTAAAAATACCTCAGCATGTGA-CCTGAGACTCAACTCACCTCTCGCAATA
19126227 TGAGTTGATTT
65 TGAGTTGATTT
* *
19126238 TTAAAAAACAGAAATTAAAAA
1 TTGAAAAGCAGAAATTAAAAA
19126259 AAAAAACAGA
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
74 62 0.73
75 23 0.27
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (75 bp):
TTGAAAAGCAGAAATTAAAAATACCTCAGCATGTGACCTGAGACTCAACTCACCTCTCGCAATAT
GAGTTGATTT
Found at i:19126354 original size:94 final size:90
Alignment explanation
Indices: 19126166--19126435 Score: 304
Period size: 94 Copynumber: 3.0 Consensus size: 90
19126156 GTTGATTTTG
* * * * *
19126166 AAAAGCAGAAATTAAAAATGCCTCAGTATGTGAGCCGAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
19126231 TTGATTTTTAAAAAACAGAAATTAAAAAA
66 TTGATTTTTAAAAAACAGAAACT----AA
* *
19126260 AAAAACAGAACTTGAAAATTCCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAG
* * * *
19126325 TTGATTTCTCT-GAAAATATAAACT-G
66 TTGATTT-T-TAAAAAACAGAAACTAA
**
19126350 AAAAACAGAAATTGAAAATACCTCAGC--GTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAG
19126413 TTGA--TTT-AAAAACAGAAA-TAA
66 TTGATTTTTAAAAAACAGAAACTAA
19126434 AA
1 AA
19126436 CATCAAAATA
Statistics
Matches: 154, Mismatches: 19, Indels: 16
0.81 0.10 0.08
Matches are distributed among these distances:
83 1 0.01
84 11 0.07
85 1 0.01
86 1 0.01
88 38 0.25
90 25 0.16
94 66 0.43
95 10 0.06
96 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (90 bp):
AAAAACAGAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTAAAAAACAGAAACTAA
Found at i:19134804 original size:4 final size:4
Alignment explanation
Indices: 19134754--19134785 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
19134744 TGGGATATGC
19134754 AATG AATG AATG AATG AATG AATG AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG
19134786 CATAAATGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
AATG
Found at i:19138550 original size:45 final size:46
Alignment explanation
Indices: 19138486--19138699 Score: 308
Period size: 45 Copynumber: 4.7 Consensus size: 46
19138476 GGCAACCTGA
19138486 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT-AAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
19138531 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
*
19138577 GTGTAA-ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
*** * *
19138622 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAAT
* * * *
19138668 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
19138700 TCATGTCAAA
Statistics
Matches: 155, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
45 83 0.54
46 72 0.46
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
Found at i:19138647 original size:91 final size:91
Alignment explanation
Indices: 19138486--19138699 Score: 306
Period size: 91 Copynumber: 2.4 Consensus size: 91
19138476 GGCAACCTGA
***
19138486 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAATGTGTAAGACCATGGTTGAAA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAATGAACAAGACCATGGTTGAAA
* *
19138551 GATACCATGGCAACCTGATATG-AAAT
66 GATACCATGGCAACATGACA-GAAAAT
*
19138577 GTGTAA-ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAGACCATGGTTGAA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT-AAATGAACAAGACCATGGTTGAA
19138641 AGATACCATGGCAACATGACAGAAAAT
65 AGATACCATGGCAACATGACAGAAAAT
* * * *
19138668 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
19138700 TCATGTCAAA
Statistics
Matches: 110, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
90 34 0.31
91 54 0.49
92 22 0.20
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (91 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAATGAACAAGACCATGGTTGAAA
GATACCATGGCAACATGACAGAAAAT
Found at i:19143843 original size:46 final size:46
Alignment explanation
Indices: 19143776--19143991 Score: 315
Period size: 46 Copynumber: 4.7 Consensus size: 46
19143766 GGCAACCTGA
19143776 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
19143822 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* *
19143868 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
19143914 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
19143960 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
19143992 TCATGTCAAA
Statistics
Matches: 156, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 156 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:19143971 original size:138 final size:130
Alignment explanation
Indices: 19143726--19143991 Score: 379
Period size: 138 Copynumber: 2.0 Consensus size: 130
19143716 AGTGTGCTCT
*
19143726 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
* * * * * *
19143791 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
*
19143856 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--A-G---TG--CAAG
*
19143921 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACT
58 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACC
19143986 ATGGCA
123 ATGGCA
19143992 TCATGTCAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
130 48 0.40
132 1 0.01
133 1 0.01
136 2 0.02
138 67 0.56
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Done.