Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 117 of 373
Found at i:38245872 original size:36 final size:36
Alignment explanation
Indices: 38245832--38245931 Score: 164
Period size: 36 Copynumber: 2.8 Consensus size: 36
38245822 AGGTTAATTG
* *
38245832 ATGGAAAATTTGATGGTTTGATTTTGTTAACATACT
1 ATGGATAATTTGATGGTTTTATTTTGTTAACATACT
*
38245868 ATGGATAATTTGATGGTTTTATTTTGTTAACATGCT
1 ATGGATAATTTGATGGTTTTATTTTGTTAACATACT
*
38245904 ATGGATAATTTGACGGTTTTATTTTGTT
1 ATGGATAATTTGATGGTTTTATTTTGTT
38245932 GGTTCATTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.26, C:0.05, G:0.20, T:0.49
Consensus pattern (36 bp):
ATGGATAATTTGATGGTTTTATTTTGTTAACATACT
Found at i:38246488 original size:50 final size:50
Alignment explanation
Indices: 38246431--38246530 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
38246421 TTTATTTCTC
*
38246431 ACATTCAATAAAAAGAAAAAAGAAAAATCAGAATATTAAAAACCTAATAA
1 ACATTCAACAAAAAGAAAAAAGAAAAATCAGAATATTAAAAACCTAATAA
38246481 ACATTCAACAAAAAGAAAAAAGAAAAATCAGAATATTAAAAACCTAATAA
1 ACATTCAACAAAAAGAAAAAAGAAAAATCAGAATATTAAAAACCTAATAA
38246531 TGCATCTTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.66, C:0.11, G:0.06, T:0.17
Consensus pattern (50 bp):
ACATTCAACAAAAAGAAAAAAGAAAAATCAGAATATTAAAAACCTAATAA
Found at i:38247394 original size:37 final size:37
Alignment explanation
Indices: 38247325--38247396 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
38247315 ATATATTTAA
*
38247325 AATATAAATGTATATTCAAAATTAATATATAATAAAT
1 AATATAAATATATATTCAAAATTAATATATAATAAAT
*
38247362 AATA-AAATATATGATTTAAAATTAAT-TAATAATAA
1 AATATAAATATAT-ATTCAAAATTAATAT-ATAATAA
38247397 TGATGAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 8 0.26
37 23 0.74
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (37 bp):
AATATAAATATATATTCAAAATTAATATATAATAAAT
Found at i:38250735 original size:22 final size:22
Alignment explanation
Indices: 38250708--38250784 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
38250698 AAGTAAGTTA
38250708 TATTTTTATGAGGGTATATTTT
1 TATTTTTATGAGGGTATATTTT
* ** * *
38250730 TATTTTTATATAAAAAGTA-AGTTA
1 TA-TTTT-TAT-GAGGGTATATTTT
*
38250754 TATTATTATGAGGGTATATTTT
1 TATTTTTATGAGGGTATATTTT
38250776 TATTTTTAT
1 TATTTTTAT
38250785 TTTATATAAA
Statistics
Matches: 39, Mismatches: 12, Indels: 8
0.66 0.20 0.14
Matches are distributed among these distances:
21 4 0.10
22 16 0.41
23 7 0.18
24 8 0.21
25 4 0.10
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (22 bp):
TATTTTTATGAGGGTATATTTT
Found at i:38250757 original size:46 final size:46
Alignment explanation
Indices: 38250690--38250784 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
38250680 TAAAATGTCC
* *
38250690 TATATACAAAGTAAGTTATATTTTTATGAGGGTATATTTTTATTTT
1 TATATAAAAAGTAAGTTATATTATTATGAGGGTATATTTTTATTTT
38250736 TATATAAAAAGTAAGTTATATTATTATGAGGGTATATTTTTATTTT
1 TATATAAAAAGTAAGTTATATTATTATGAGGGTATATTTTTATTTT
38250782 TAT
1 TAT
38250785 TTTATATAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.35, C:0.01, G:0.13, T:0.52
Consensus pattern (46 bp):
TATATAAAAAGTAAGTTATATTATTATGAGGGTATATTTTTATTTT
Found at i:38251628 original size:2 final size:2
Alignment explanation
Indices: 38251621--38251653 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
38251611 ACCTAGTTAA
*
38251621 AT AT AT AT AT AT AT AG AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
38251654 AATCAACAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:38252204 original size:18 final size:18
Alignment explanation
Indices: 38252181--38252218 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
38252171 GTAATAAAAT
38252181 ATGTAT-AATAAAATTAAA
1 ATGTATAAAT-AAATTAAA
38252199 ATGTATAAATAAATTAAA
1 ATGTATAAATAAATTAAA
38252217 AT
1 AT
38252219 AAGGTCTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (18 bp):
ATGTATAAATAAATTAAA
Found at i:38252268 original size:23 final size:23
Alignment explanation
Indices: 38252240--38252286 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
38252230 ACTAATGATA
38252240 AATTTAATTTTTTTAATGTAATG
1 AATTTAATTTTTTTAATGTAATG
38252263 AATTTAATTTTTTTAATGTAATG
1 AATTTAATTTTTTTAATGTAATG
38252286 A
1 A
38252287 GTATAGGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (23 bp):
AATTTAATTTTTTTAATGTAATG
Found at i:38253479 original size:26 final size:27
Alignment explanation
Indices: 38253450--38253512 Score: 92
Period size: 29 Copynumber: 2.3 Consensus size: 27
38253440 CATTATTATC
*
38253450 TTCAAATAA-CAAAATATGTAATTTTT
1 TTCAAATAACCAAAATATATAATTTTT
38253476 TTCAAATAAATCCAAAATATATAATTTTT
1 TTCAAAT-AA-CCAAAATATATAATTTTT
38253505 TTCAAATA
1 TTCAAATA
38253513 CATGTAACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
26 7 0.21
27 2 0.06
28 1 0.03
29 23 0.70
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.41
Consensus pattern (27 bp):
TTCAAATAACCAAAATATATAATTTTT
Found at i:38256661 original size:20 final size:20
Alignment explanation
Indices: 38256636--38256674 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
38256626 AAAATTTCAA
38256636 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
38256656 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
38256675 AACAACCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:38262683 original size:42 final size:42
Alignment explanation
Indices: 38262595--38262754 Score: 189
Period size: 42 Copynumber: 3.8 Consensus size: 42
38262585 TAAGTCTATG
* *
38262595 TGTAAGACCATATGTGGGATATGGCATCT--TATGAGATTTCG
1 TGTAAGACCATATCTGGGATATGGCAT-TGATATGAGATTTCA
*
38262636 TGTAAGACCATATCTGGGATATGGCGTTGATATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATTGATATGAGATTTCA
* * * ** * *
38262678 TGTAAGACCATAGCTAGGCTATTGGCATCAATATGATATTACA
1 TGTAAGACCATATCTGGGATA-TGGCATTGATATGAGATTTCA
*
38262721 TGTAAGACCATATCTGGGATATGGCATTGGTATG
1 TGTAAGACCATATCTGGGATATGGCATTGATATG
38262755 GTATCGTGTG
Statistics
Matches: 99, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 1 0.01
41 25 0.25
42 39 0.39
43 34 0.34
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATTGATATGAGATTTCA
Found at i:38264260 original size:37 final size:37
Alignment explanation
Indices: 38264186--38264275 Score: 105
Period size: 37 Copynumber: 2.5 Consensus size: 37
38264176 AGTACACAAG
*
38264186 TAATCCAACCGA-AACATGCTAAACGATCATACAAGC
1 TAATCCAACCGATAACATGCTAAACGATCATAAAAGC
* *
38264222 TAATCCAACCGATAACATGAC-AAATGCTC-TAAATAGC
1 TAATCCAACCGATAACATG-CTAAACGATCATAAA-AGC
*
38264259 TAATCCAACTGATAACA
1 TAATCCAACCGATAACA
38264276 CGCCACATCA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
36 15 0.32
37 31 0.66
38 1 0.02
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.20
Consensus pattern (37 bp):
TAATCCAACCGATAACATGCTAAACGATCATAAAAGC
Found at i:38269554 original size:964 final size:949
Alignment explanation
Indices: 38267840--38269618 Score: 2647
Period size: 964 Copynumber: 1.9 Consensus size: 949
38267830 AGCCTAGGTC
* * * *
38267840 GTGTTGCTCAGGAACATGTCTGTGTGGCCAAGTCGTGTATAATTTGAATTAAGGGTCACATGGCC
1 GTGTGGCTCAGGAACATGTCTGTGTGGCCAAATCGTGTACAATTTGAATTAAGGGTCACACGGCC
* * *
38267905 ATGTCGTAGGCCGTGCTCTAGAATGTGTGAATATTCGAAATAAGGTCACACGACCGTGTCTCCAT
66 ATGTCGTAGGCCATACTCTAGAATGTGTGAATATTCGAAATAAGGTCACACGACCGTGTCGCCAT
* * * * * * * * *
38267970 GCCGTGTGAAGAATCTTGACTTAAAATGAAAAAAGACACACGATTTTGTGAGGAGACTATGCGAG
131 GCCATGTAAAGAATCTTCACTCAAAATAAAAAAAGACACACGATTGTGAGAGGAGACCATGCAAG
* * * * *
38268035 GCATATGGCCATGTGACAGCCCGTGTCCCAGGCCCTGTGCACCTTAAATAGCTTTCAAAACAAAG
196 GCACACGGCCATGTGACAGCCCATGTCCCAGGCCCTGTCCACCTTAAATAGCTTTCAAAACAAAA
*
38268100 CAAAATTTCATCGAAACTTAGGTACCAAGTCAAACAAAAAAAAAACCATTTCCATACCTTTAAAA
261 CAAAATTTCATCCAAACTTAGGTACCAAGTCAAACAAAAAAAAAACCATTTCCATACCTTTAAAA
*
38268165 CACATTGAAACATGCTTAAAACATATGAATACATTCAACCTAAGTCCCTAACCAATGTGCCCTTA
326 CACATTGAAACATGCTTAAAACA-AT-AATACA-T-AACCTAAGTCCCTAACCAATGTGCCCTCA
* * *
38268230 TTGAAACCACAATTCAATAATCAAACCAAATACACATTTCATACTAAACTAGTTTGTATTCAAAG
387 TTGAAACCACAATTCAATAATCAAACCAAATACACATTTCATACCAAACAAGTTTGCATTCAAAG
* *
38268295 TTCACAAGTCCATACATTAAACAAATACCAACCTTACCTTTTCATCCAATCCATTTAAATTCAAT
452 TTCACAAGTCCATACATTAAACAAATACCAAACTTACCTTTTCATCCAATCCATTTAAAGTCAAT
* *
38268360 CAAGCCATGTTTTAAAACTTTTATAAGGTTTATGTCAAATAACCAAAAATGACTATACATGGACA
517 CAAGCCATATTTTAAAACTTTTATAAGGTTTATATCAAATAACCAAAAATGACTATACATGGACA
38268425 TTTACATACCATAAGTTAAAGGCACATACATAAACAAGCTCAAACAACTTTATACCAACCTAAGA
582 TTTACATACCATAAGTTAAAGGCACATACATAAACAAGCTCAAACAACTTTATACCAACCTAAGA
* * * *
38268490 TGAAACACATGTACTAAGTATTCAAAAAATATACAAAACACATCTATTACTTGTCATATAACCCT
647 TGAAACACATGTACTAAGTATCCAAAAAATATACAAAAAACACCTATTACATGTCATATAACCCT
*
38268555 AAGATAAACATGTCAAAATTTATCGATAAGTATCTGGAT-AGTGTGATCTTCAGGTTGATCCAAT
712 AAGATAAACATGTCAAAATCTATCGATAAGTATCTGGATCA-TGTGATCTTCAGGTTGATCCAAT
38268619 TGCCCGATTCCAAAAAATATTATCTACAAA-AAACATATGTACTAAGTATCCAAAACATATACAA
776 TGCCCGATT-CAAAAAATATTATCTACAAAGAAACATATGTACTAAGTATCCAAAACATATACAA
38268683 AACACACCTATTACATGTCATATAACCCTAAGATAAAAATGTCAAAAATATATCGATAGGTATCT
840 AACACACCTATTACATGTCATATAACCCTAAGATAAAAATGTCAAAAATATATCGATAGGTATCT
38268748 GGATAGTGTGATCTTCAGGTTGGGCCATATGACAGTGCCCAGGCT
905 GGATAGTGTGATCTTCAGGTTGGGCCATATGACAGTGCCCAGGCT
38268793 GTGTGGCTCAGGAACATGTAC-GTGTGGCCAAATCGTGTACAATTTGAATTAAGGGTCACACGGC
1 GTGTGGCTCAGGAACATGT-CTGTGTGGCCAAATCGTGTACAATTTGAATTAAGGGTCACACGGC
* * * * *
38268857 CGTGTTGTAGGCCATACTTTAGAGTGTGTGAATATTTGAAATAAGGTCACACGACTATGTCTCTA
65 CATGTCGTAGGCCATACTCTAGAATGTGTGAATATTCGAAATAAGGT--CAC-AC---G-----A
*
38268922 GGCCGTGTAACAGCCTGATGCCATGTAAATAATCTTACACTCAAAATAAAAAAAGACACACGATT
119 --CCGTGT--C-GCC--ATGCCATGTAAAGAATCTT-CACTCAAAATAAAAAAAGACACACGATT
* * * * *
38268987 GTGAGAGGAGACCGTTCAAGGCACACGGCCTTGTGATAGCCCATGTCCCAGGCCTTGTCCACCTT
176 GTGAGAGGAGACCATGCAAGGCACACGGCCATGTGACAGCCCATGTCCCAGGCCCTGTCCACCTT
*
38269052 AAATAGCTTTCAAAACAAAACAAAATTTCATCCAAACTTAGGTACCAAGTCAAAC-AAAAAACAA
241 AAATAGCTTTCAAAACAAAACAAAATTTCATCCAAACTTAGGTACCAAGTCAAACAAAAAAAAAA
* * * *
38269116 CCATTTCCATACCTTTGAAACACATTGAAACATGCTTAAAAC-AT-A-AGA-AACCTTAGTGCCT
306 CCATTTCCATACCTTTAAAACACATTGAAACATGCTTAAAACAATAATACATAACCTAAGTCCCT
* *
38269177 AACCAATGTGCCCTCATTGAAACCACAATTCGATAATCAAACCAAATGCACATTTCATACCAAAC
371 AACCAATGTGCCCTCATTGAAACCACAATTCAATAATCAAACCAAATACACATTTCATACCAAAC
* * *
38269242 AAGTTTGCATTCAAAGTTCACAAGTCTATACATTAATCACATACCAAACTTACCTTTTCATCCAA
436 AAGTTTGCATTCAAAGTTCACAAGTCCATACATTAAACAAATACCAAACTTACCTTTTCATCCAA
*
38269307 TCCATTTACAGTCAATCAAGCCATATTTTAAACACTTTTATAAGGTTTATATCAAATAACCAAAA
501 TCCATTTAAAGTCAATCAAGCCATATTTTAAA-ACTTTTATAAGGTTTATATCAAATAACCAAAA
*
38269372 ATGACTTTACATGGACATTTACATACCATAAGTTAAAGGCACATACATAAACAAGCTCAAACAAC
565 ATGACTATACATGGACATTTACATACCATAAGTTAAAGGCACATACATAAACAAGCTCAAACAAC
* *
38269437 TTTATACCAACGTAAGATGAAACACATGTACTAAGTATCCAAAACATATACAAAAAACACCTATT
630 TTTATACCAACCTAAGATGAAACACATGTACTAAGTATCCAAAAAATATACAAAAAACACCTATT
* *
38269502 ACATGTCATATAACCCTAAGATAAACATGTTAAAATCTATCGATAGGTATCTGGATCATGTGATC
695 ACATGTCATATAACCCTAAGATAAACATGTCAAAATCTATCGATAAGTATCTGGATCATGTGATC
** * * * *
38269567 TTCAGGTTGATCTGATTGCCTGATTCACAAAATGTTATCTATAAAGAAACAT
760 TTCAGGTTGATCCAATTGCCCGATTCAAAAAATATTATCTACAAAGAAACAT
38269619 GAAAAATGAC
Statistics
Matches: 735, Mismatches: 68, Indels: 35
0.88 0.08 0.04
Matches are distributed among these distances:
953 98 0.13
954 1 0.00
955 3 0.00
956 2 0.00
959 1 0.00
963 177 0.24
964 243 0.33
965 1 0.00
966 8 0.01
967 1 0.00
968 1 0.00
969 4 0.01
971 65 0.09
972 130 0.18
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (949 bp):
GTGTGGCTCAGGAACATGTCTGTGTGGCCAAATCGTGTACAATTTGAATTAAGGGTCACACGGCC
ATGTCGTAGGCCATACTCTAGAATGTGTGAATATTCGAAATAAGGTCACACGACCGTGTCGCCAT
GCCATGTAAAGAATCTTCACTCAAAATAAAAAAAGACACACGATTGTGAGAGGAGACCATGCAAG
GCACACGGCCATGTGACAGCCCATGTCCCAGGCCCTGTCCACCTTAAATAGCTTTCAAAACAAAA
CAAAATTTCATCCAAACTTAGGTACCAAGTCAAACAAAAAAAAAACCATTTCCATACCTTTAAAA
CACATTGAAACATGCTTAAAACAATAATACATAACCTAAGTCCCTAACCAATGTGCCCTCATTGA
AACCACAATTCAATAATCAAACCAAATACACATTTCATACCAAACAAGTTTGCATTCAAAGTTCA
CAAGTCCATACATTAAACAAATACCAAACTTACCTTTTCATCCAATCCATTTAAAGTCAATCAAG
CCATATTTTAAAACTTTTATAAGGTTTATATCAAATAACCAAAAATGACTATACATGGACATTTA
CATACCATAAGTTAAAGGCACATACATAAACAAGCTCAAACAACTTTATACCAACCTAAGATGAA
ACACATGTACTAAGTATCCAAAAAATATACAAAAAACACCTATTACATGTCATATAACCCTAAGA
TAAACATGTCAAAATCTATCGATAAGTATCTGGATCATGTGATCTTCAGGTTGATCCAATTGCCC
GATTCAAAAAATATTATCTACAAAGAAACATATGTACTAAGTATCCAAAACATATACAAAACACA
CCTATTACATGTCATATAACCCTAAGATAAAAATGTCAAAAATATATCGATAGGTATCTGGATAG
TGTGATCTTCAGGTTGGGCCATATGACAGTGCCCAGGCT
Found at i:38276610 original size:27 final size:26
Alignment explanation
Indices: 38276579--38276643 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 26
38276569 CATAACCATT
38276579 TAATCTCATTAAGCATATAAC-ACATAA
1 TAAT-TCATTAAG-ATATAACAACATAA
38276606 TAA-TCATTTAAGATATAACTAACATAA
1 TAATTCA-TTAAGATATAAC-AACATAA
*
38276633 TTATTCATTAA
1 TAATTCATTAA
38276644 CATTTAAGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
25 10 0.30
26 5 0.15
27 15 0.45
28 3 0.09
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.35
Consensus pattern (26 bp):
TAATTCATTAAGATATAACAACATAA
Found at i:38276612 original size:25 final size:26
Alignment explanation
Indices: 38276584--38276643 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
38276574 CCATTTAATC
38276584 TCATTAAGCATATAAC-ACATAA-TAA
1 TCATTAAG-ATATAACAACATAATTAA
*
38276609 TCATTTAAGATATAACTAACATAATTAT
1 TCA-TTAAGATATAAC-AACATAATTAA
38276637 TCATTAA
1 TCATTAA
38276644 CATTTAAGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 10 0.33
26 5 0.17
27 10 0.33
28 5 0.17
ACGTcount: A:0.48, C:0.13, G:0.03, T:0.35
Consensus pattern (26 bp):
TCATTAAGATATAACAACATAATTAA
Found at i:38279445 original size:19 final size:19
Alignment explanation
Indices: 38279412--38279456 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
38279402 ATGAAATTTT
*
38279412 AATAAATATATAAATATTA
1 AATAAATATATAAATACTA
38279431 AATAAATA-ATAAAATACTA
1 AATAAATATAT-AAATACTA
*
38279450 ACTAAAT
1 AATAAAT
38279457 GATCAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (19 bp):
AATAAATATATAAATACTA
Found at i:38282520 original size:20 final size:20
Alignment explanation
Indices: 38282497--38282534 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
38282487 TTAAATTCCA
*
38282497 AAAGATAAATACAAATAATT
1 AAAGATAAATAAAAATAATT
38282517 AAAGATAAATAAAAATAA
1 AAAGATAAATAAAAATAA
38282535 ATACTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAGATAAATAAAAATAATT
Found at i:38282586 original size:14 final size:13
Alignment explanation
Indices: 38282550--38282587 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
38282540 AAAATTGAAT
38282550 CTAAATAATTATC
1 CTAAATAATTATC
*
38282563 CTTAATAATTATC
1 CTAAATAATTATC
38282576 CTAATATAATTA
1 CTAA-ATAATTA
38282588 GAATTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:38283164 original size:3 final size:3
Alignment explanation
Indices: 38283156--38283180 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
38283146 TATTAATATA
38283156 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
38283181 TTAATTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:38285960 original size:15 final size:14
Alignment explanation
Indices: 38285937--38286019 Score: 75
Period size: 14 Copynumber: 5.7 Consensus size: 14
38285927 ATCAACATCC
38285937 AAAAATAAAATAAT
1 AAAAATAAAATAAT
38285951 AAATAATAAAATAA-
1 AAA-AATAAAATAAT
38285965 AGTAAAATAAAAT-AT
1 A--AAAATAAAATAAT
38285980 AAATAA-ATAAATAAAT
1 AAA-AATA-AAAT-AAT
38285996 AAAAAT-AAATAAAT
1 AAAAATAAAAT-AAT
38286010 AAAAATAAAA
1 AAAAATAAAA
38286020 ATTGGGTTGC
Statistics
Matches: 59, Mismatches: 0, Indels: 19
0.76 0.00 0.24
Matches are distributed among these distances:
13 3 0.05
14 25 0.42
15 24 0.41
16 7 0.12
ACGTcount: A:0.77, C:0.00, G:0.01, T:0.22
Consensus pattern (14 bp):
AAAAATAAAATAAT
Found at i:38285970 original size:10 final size:9
Alignment explanation
Indices: 38285939--38286019 Score: 80
Period size: 10 Copynumber: 8.9 Consensus size: 9
38285929 CAACATCCAA
38285939 AAATAAAAT
1 AAATAAAAT
38285948 -AAT-AAAT
1 AAATAAAAT
38285955 -AATAAAAT
1 AAATAAAAT
38285963 AAAGTAAAAT
1 AAA-TAAAAT
38285973 AAAATATAAAT
1 -AAATA-AAAT
38285984 AAAT-AAAT
1 AAATAAAAT
38285992 AAATAAAAAT
1 AAAT-AAAAT
*
38286002 AAATAAATAA
1 AAATAAA-AT
38286012 AAATAAAA
1 AAATAAAA
38286020 ATTGGGTTGC
Statistics
Matches: 63, Mismatches: 1, Indels: 16
0.79 0.01 0.20
Matches are distributed among these distances:
7 7 0.11
8 15 0.24
9 6 0.10
10 28 0.44
11 7 0.11
ACGTcount: A:0.77, C:0.00, G:0.01, T:0.22
Consensus pattern (9 bp):
AAATAAAAT
Found at i:38285987 original size:4 final size:4
Alignment explanation
Indices: 38285939--38286012 Score: 68
Period size: 4 Copynumber: 18.8 Consensus size: 4
38285929 CAACATCCAA
*
38285939 AAAT AAA- ATAAT AAAT -AAT AAAAT AAAGT AAAAT AAA- ATAT AAAT
1 AAAT AAAT A-AAT AAAT AAAT -AAAT AAA-T -AAAT AAAT AAAT AAAT
38285984 AAAT AAAT AAAT -AA- AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
38286013 AATAAAAATT
Statistics
Matches: 59, Mismatches: 2, Indels: 18
0.75 0.03 0.23
Matches are distributed among these distances:
3 10 0.17
4 40 0.68
5 6 0.10
6 3 0.05
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:38285991 original size:29 final size:29
Alignment explanation
Indices: 38285938--38286012 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
38285928 TCAACATCCA
38285938 AAAATAAAATAATAAAT-AATAAAATAAAGT
1 AAAATAAAAT-ATAAATAAATAAAATAAA-T
38285968 AAAATAAAATATAAATAAAT-AAATAAAT
1 AAAATAAAATATAAATAAATAAAATAAAT
*
38285996 AAAA-ATAA-ATAAATAAA
1 AAAATAAAATATAAATAAA
38286013 AATAAAAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
26 9 0.21
27 3 0.07
28 5 0.12
29 13 0.30
30 13 0.30
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.23
Consensus pattern (29 bp):
AAAATAAAATATAAATAAATAAAATAAAT
Found at i:38298281 original size:20 final size:20
Alignment explanation
Indices: 38298258--38298295 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
38298248 TTAAATTCCA
*
38298258 AAAGATAAATACAAATAATT
1 AAAGATAAATAAAAATAATT
38298278 AAAGATAAATAAAAATAA
1 AAAGATAAATAAAAATAA
38298296 ATCCTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAGATAAATAAAAATAATT
Found at i:38301721 original size:50 final size:50
Alignment explanation
Indices: 38301654--38301981 Score: 338
Period size: 50 Copynumber: 6.5 Consensus size: 50
38301644 TCTGGTACGT
*
38301654 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAAAATATGGTACAC
1 ATAGTAGCCTGCACTTAGTACTACACACGCGACCTAAAAATATGGTACAC
* * * ** *
38301704 GTAGTAGCCTGCACTTAGTACTACAAACGTGACCTAACCATCA-GATACAC
1 ATAGTAGCCTGCACTTAGTACTACACACGCGACCTAAAAAT-ATGGTACAC
* * ** *
38301754 ATAGTAGCCTGCACTTAGTACTACAAACGTGACCTAACCAT-CGGATACAC
1 ATAGTAGCCTGCACTTAGTACTACACACGCGACCTAAAAATATGG-TACAC
* * * **
38301804 ATAGTAGCCTGCACTTAGTACTACACACGTGATC-GAAGCTATCGGGTACAC
1 ATAGTAGCCTGCACTTAGTACTACACACGCGACCTAAAAATAT--GGTACAC
* * * *
38301855 ATAGTAGCCTGCACTTAGTACTACGCATGCGACCTAACAATTTGGTACAC
1 ATAGTAGCCTGCACTTAGTACTACACACGCGACCTAAAAATATGGTACAC
* * ***
38301905 GTAGTAGCCTGCACTTAGTACTACACACGCGACCTAAAACCATTTTAAACAC
1 ATAGTAGCCTGCACTTAGTACTACACACGCGACCTAAAA--ATATGGTACAC
*
38301957 ATAGTAGCCTGCACATAGTACTACA
1 ATAGTAGCCTGCACTTAGTACTACA
38301982 AATATGTTCT
Statistics
Matches: 235, Mismatches: 34, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
49 3 0.01
50 160 0.68
51 36 0.15
52 36 0.15
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (50 bp):
ATAGTAGCCTGCACTTAGTACTACACACGCGACCTAAAAATATGGTACAC
Found at i:38301875 original size:151 final size:151
Alignment explanation
Indices: 38301654--38301981 Score: 408
Period size: 151 Copynumber: 2.2 Consensus size: 151
38301644 TCTGGTACGT
* *
38301654 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAAAATATGGTACACGTAGTAGCCTGCACT
1 ATAGTAGCCTGCACTTAGTACTACACACGCGACCTAAAAATATGGTACACATAGTAGCCTGCACT
* * *
38301719 TAGTACTACAAACGTGACCTAACCATCAGATACACATAGTAGCCTGCACTTAGTACTACAAACGT
66 TAGTACTACAAACGCGACCTAACAATCAGATACACATAGTAGCCTGCACTTAGTACTACAAACGC
*
38301784 GACCT-AACCATCGGATACAC
131 GACCTAAACCATCGGAAACAC
* * * **
38301804 ATAGTAGCCTGCACTTAGTACTACACACGTGATC-GAAGCTATCGGGTACACATAGTAGCCTGCA
1 ATAGTAGCCTGCACTTAGTACTACACACGCGACCTAAAAATAT--GGTACACATAGTAGCCTGCA
** * ** * * *
38301868 CTTAGTACTACGCATGCGACCTAACAATTTGGTACACGTAGTAGCCTGCACTTAGTACTACACAC
64 CTTAGTACTACAAACGCGACCTAACAATCAGATACACATAGTAGCCTGCACTTAGTACTACAAAC
***
38301933 GCGACCTAAAACCATTTTAAACAC
129 GCGACCT-AAACCATCGGAAACAC
*
38301957 ATAGTAGCCTGCACATAGTACTACA
1 ATAGTAGCCTGCACTTAGTACTACA
38301982 AATATGTTCT
Statistics
Matches: 151, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
149 5 0.03
150 31 0.21
151 80 0.53
153 35 0.23
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (151 bp):
ATAGTAGCCTGCACTTAGTACTACACACGCGACCTAAAAATATGGTACACATAGTAGCCTGCACT
TAGTACTACAAACGCGACCTAACAATCAGATACACATAGTAGCCTGCACTTAGTACTACAAACGC
GACCTAAACCATCGGAAACAC
Found at i:38304955 original size:15 final size:15
Alignment explanation
Indices: 38304936--38304980 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
38304926 AACCAGAATT
*
38304936 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
*
38304951 GAGAAATCCAAGATA
1 AAGAAATCCAAGATA
38304966 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
38304981 CAATATCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.56, C:0.13, G:0.18, T:0.13
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:38304956 original size:30 final size:30
Alignment explanation
Indices: 38304922--38304980 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
38304912 ATAGATAACA
* *
38304922 AGAAAACC-AGAATTAAGAAGTCCAAGATAG
1 AGAAAACCAAG-ATAAAGAAATCCAAGATAG
*
38304952 AGAAATCCAAGATAAAGAAATCCAAGATA
1 AGAAAACCAAGATAAAGAAATCCAAGATA
38304981 CAATATCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.14
Consensus pattern (30 bp):
AGAAAACCAAGATAAAGAAATCCAAGATAG
Found at i:38308504 original size:50 final size:50
Alignment explanation
Indices: 38308441--38308676 Score: 273
Period size: 50 Copynumber: 4.7 Consensus size: 50
38308431 TGGTATGCAC
*
38308441 AGTAGCCTGCACTTAGTACTACACA-TTCGACCTAACAATCTGGTACACGT
1 AGTAGCCTGCACTTAGTACTACACACGT-GACCTAACAATCTGGTACACGT
* *
38308491 AGTAGCCTGCACTTAGTACTACAAACGTGACCTAACCAT-TGGATACACGT
1 AGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGG-TACACGT
* * * * ** *
38308541 AGTAGCCTGCACTTAGTACTACACACGTGATCAAAGCTATCGGGTATGCAT
1 AGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CAATCTGGTACACGT
**
38308592 AGTAGCCTGCACTTAGTACTA-AGCATC-AAACCTAACAATCTGGTACACGT
1 AGTAGCCTGCACTTAGTACTACA-CA-CGTGACCTAACAATCTGGTACACGT
* *
38308642 AGTAGCCTGCACTTACTACTACACACGTGATCTAA
1 AGTAGCCTGCACTTAGTACTACACACGTGACCTAA
38308677 AACCATTTTA
Statistics
Matches: 154, Mismatches: 24, Indels: 16
0.79 0.12 0.08
Matches are distributed among these distances:
49 4 0.03
50 111 0.72
51 36 0.23
52 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
AGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACGT
Found at i:38308625 original size:101 final size:100
Alignment explanation
Indices: 38308441--38308673 Score: 276
Period size: 101 Copynumber: 2.3 Consensus size: 100
38308431 TGGTATGCAC
* * * * *
38308441 AGTAGCCTGCACTTAGTACTACACA-TTCGACCTAACAATCTGGTACACGTAGTAGCCTGCACTT
1 AGTAGCCTGCACTTAGTACTACACACGT-GATCAAACAATCGGGTACACATAGTAGCCTGCACTT
** *
38308505 AGTACTACAAACGTGACCTAACCAT-TGGATACACGT
65 AGTACTACAAACGAAACCTAACAATCTGG-TACACGT
* **
38308541 AGTAGCCTGCACTTAGTACTACACACGTGATCAAAGCTATCGGGTATGCATAGTAGCCTGCACTT
1 AGTAGCCTGCACTTAGTACTACACACGTGATCAAA-CAATCGGGTACACATAGTAGCCTGCACTT
*
38308606 AGTACTA-AGCATC-AAACCTAACAATCTGGTACACGT
65 AGTACTACA--AACGAAACCTAACAATCTGGTACACGT
*
38308642 AGTAGCCTGCACTTACTACTACACACGTGATC
1 AGTAGCCTGCACTTAGTACTACACACGTGATC
38308674 TAAAACCATT
Statistics
Matches: 115, Mismatches: 13, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
100 31 0.27
101 79 0.69
102 5 0.04
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (100 bp):
AGTAGCCTGCACTTAGTACTACACACGTGATCAAACAATCGGGTACACATAGTAGCCTGCACTTA
GTACTACAAACGAAACCTAACAATCTGGTACACGT
Found at i:38324362 original size:13 final size:13
Alignment explanation
Indices: 38324344--38324372 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
38324334 TTTAGTTTAA
38324344 TTAGTTAATTAGT
1 TTAGTTAATTAGT
38324357 TTAGTTAATTAGT
1 TTAGTTAATTAGT
38324370 TTA
1 TTA
38324373 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:38327367 original size:47 final size:47
Alignment explanation
Indices: 38327309--38327797 Score: 825
Period size: 47 Copynumber: 10.4 Consensus size: 47
38327299 GCCAAGACAA
*
38327309 TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
38327356 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
38327403 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
38327450 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
38327497 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
38327544 TGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 TG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
38327593 TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
38327640 TGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
38327687 TGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * * * * *
38327734 TGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
38327781 TGCATATATGTGATAAG
1 TGTATATATGTGATAAG
38327798 TCCCGAAGGG
Statistics
Matches: 419, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 373 0.89
49 46 0.11
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
Found at i:38327726 original size:237 final size:235
Alignment explanation
Indices: 38327309--38327797 Score: 843
Period size: 237 Copynumber: 2.1 Consensus size: 235
38327299 GCCAAGACAA
38327309 TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
* * *
38327374 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGAT
66 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTGAT
38327439 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
131 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * *
38327504 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
196 ATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAG
38327544 TGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 TG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
38327609 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTG
64 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTG
*
38327674 ATGAATGTGAAAGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
129 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * *
38327739 ATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
194 ATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAG
*
38327781 TGCATATATGTGATAAG
1 TGTATATATGTGATAAG
38327798 TCCCGAAGGG
Statistics
Matches: 239, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
235 16 0.07
237 223 0.93
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (235 bp):
TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTGAT
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAG
Found at i:38327972 original size:37 final size:37
Alignment explanation
Indices: 38327916--38327994 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
38327906 CCGAGCTCTA
* *
38327916 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
38327953 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
38327990 AAGAC
1 AAGAC
38327995 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:38336682 original size:15 final size:15
Alignment explanation
Indices: 38336662--38336692 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
38336652 AAATACGAAA
38336662 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
38336677 GATATGTTTTGTATT
1 GATATGTTTTGGATT
38336692 G
1 G
38336693 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:38337306 original size:45 final size:45
Alignment explanation
Indices: 38337242--38337337 Score: 156
Period size: 45 Copynumber: 2.1 Consensus size: 45
38337232 AGGACTATGC
*
38337242 TATGTGTTTTCGTGTAAGACCACATCTGGGAGGTTGGCATCAATA
1 TATGTGTTTTCATGTAAGACCACATCTGGGAGGTTGGCATCAATA
* **
38337287 TATGTGTTTTCATGTAAGACCACATCTGGGATGTTGGCATTGATA
1 TATGTGTTTTCATGTAAGACCACATCTGGGAGGTTGGCATCAATA
38337332 TATGTG
1 TATGTG
38337338 GTTACGAGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (45 bp):
TATGTGTTTTCATGTAAGACCACATCTGGGAGGTTGGCATCAATA
Found at i:38339206 original size:3 final size:3
Alignment explanation
Indices: 38339198--38339234 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
38339188 ACCAAATGGA
38339198 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
38339235 CAAGTCATAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:38339986 original size:34 final size:34
Alignment explanation
Indices: 38339943--38340011 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
38339933 AAACCGAGAA
38339943 CATTTGATAAACTTTGGCCACTTTGGAAAATTTT
1 CATTTGATAAACTTTGGCCACTTTGGAAAATTTT
38339977 CATTTGATAAACTTTGGCCACTTTGGAAAATTTT
1 CATTTGATAAACTTTGGCCACTTTGGAAAATTTT
38340011 C
1 C
38340012 CTTATCTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (34 bp):
CATTTGATAAACTTTGGCCACTTTGGAAAATTTT
Found at i:38341476 original size:19 final size:19
Alignment explanation
Indices: 38341452--38341497 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
38341442 CTTACTGTAA
38341452 CACATGTAGGATCTCAAAC
1 CACATGTAGGATCTCAAAC
38341471 CACATGTAGGATCTCAAAC
1 CACATGTAGGATCTCAAAC
38341490 CACATGTA
1 CACATGTA
38341498 ATTACGGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (19 bp):
CACATGTAGGATCTCAAAC
Found at i:38350112 original size:94 final size:94
Alignment explanation
Indices: 38349951--38350129 Score: 349
Period size: 94 Copynumber: 1.9 Consensus size: 94
38349941 CTTCTGGTTG
*
38349951 CTAAGATAATTGGCACTTCTTTGTCTGATTCAAAGTCTAGAATAACAAAATCAGTAGGGAAAATA
1 CTAAGATAATTGGCACTTCTTTGTCTGATTCAAAGTCTAAAATAACAAAATCAGTAGGGAAAATA
38350016 AATTTATCTATATGTACCAAACGGTCTTC
66 AATTTATCTATATGTACCAAACGGTCTTC
38350045 CTAAGATAATTGGCACTTCTTTGTCTGATTCAAAGTCTAAAATAACAAAATCAGTAGGGAAAATA
1 CTAAGATAATTGGCACTTCTTTGTCTGATTCAAAGTCTAAAATAACAAAATCAGTAGGGAAAATA
38350110 AATTTATCTATATGTACCAA
66 AATTTATCTATATGTACCAA
38350130 TACATCCTTG
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 84 1.00
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (94 bp):
CTAAGATAATTGGCACTTCTTTGTCTGATTCAAAGTCTAAAATAACAAAATCAGTAGGGAAAATA
AATTTATCTATATGTACCAAACGGTCTTC
Found at i:38364143 original size:24 final size:24
Alignment explanation
Indices: 38364127--38364186 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
38364117 TGTACATTGG
*
38364127 CACTATGTGTGCGGTGTAGTATGC
1 CACTATGTGTGCGGTGTAATATGC
*
38364151 CACTATGTGTGCGGAGTTTAATA-G-
1 CACTATGTGTGC-G-GTGTAATATGC
38364175 CACTATGTGTGC
1 CACTATGTGTGC
38364187 TGATTTGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 24 0.75
25 2 0.06
26 6 0.19
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (24 bp):
CACTATGTGTGCGGTGTAATATGC
Found at i:38370610 original size:39 final size:39
Alignment explanation
Indices: 38370561--38370637 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
38370551 AGCTTAGTAA
*
38370561 GCTCGTATGATTAATAAATATAACCTACCATTCATTCAT
1 GCTCATATGATTAATAAATATAACCTACCATTCATTCAT
*
38370600 GCTCATATGATTAATAATTATAACCTACCATTCATTCA
1 GCTCATATGATTAATAAATATAACCTACCATTCATTCA
38370638 CCAATTAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (39 bp):
GCTCATATGATTAATAAATATAACCTACCATTCATTCAT
Found at i:38376820 original size:15 final size:15
Alignment explanation
Indices: 38376802--38376832 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
38376792 TATTTCTTTT
*
38376802 GTCAATATCGGCAAA
1 GTCAATATAGGCAAA
38376817 GTCAATATAGGCAAA
1 GTCAATATAGGCAAA
38376832 G
1 G
38376833 CTGCTGCAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (15 bp):
GTCAATATAGGCAAA
Found at i:38385012 original size:6 final size:6
Alignment explanation
Indices: 38385001--38385038 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
38384991 GTGAGTAAGC
38385001 GAGGTT GAGGTT GAGGTT GAGGTT GAGGTT GAGGTT GA
1 GAGGTT GAGGTT GAGGTT GAGGTT GAGGTT GAGGTT GA
38385039 CGATGCTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.18, C:0.00, G:0.50, T:0.32
Consensus pattern (6 bp):
GAGGTT
Found at i:38386446 original size:51 final size:51
Alignment explanation
Indices: 38386383--38386508 Score: 171
Period size: 51 Copynumber: 2.5 Consensus size: 51
38386373 CAATCAAATC
* * * *
38386383 TCTAAGAATATAAAATCATATCTTCTAAGATTACCTATCTTATCTAAGATA
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
* ** * *
38386434 TGTAATCTTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATC
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
38386485 TCTAAGATTATAAAATCATATCTT
1 TCTAAGATTATAAAATCATATCTT
38386509 TCAAGATCAT
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (51 bp):
TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
Found at i:38391648 original size:51 final size:51
Alignment explanation
Indices: 38391585--38391710 Score: 171
Period size: 51 Copynumber: 2.5 Consensus size: 51
38391575 CAATCAAATC
* * * *
38391585 TCTAAGAATATAAAATCATATCTTCTAAGATTACCTATCTTATCTAAGATA
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
* ** * *
38391636 TGTAATCTTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATC
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
38391687 TCTAAGATTATAAAATCATATCTT
1 TCTAAGATTATAAAATCATATCTT
38391711 TCAAGATCAT
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (51 bp):
TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
Found at i:38392576 original size:21 final size:20
Alignment explanation
Indices: 38392552--38392608 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
38392542 TCAATTCAAC
38392552 TCTCAATTTTCACAATTTG-AT
1 TCTCAATTTT--CAATTTGTAT
38392573 TCTCAATTTTCAATTTGTTAT
1 TCTCAATTTTCAATTTG-TAT
*
38392594 TCTCAATTGTCAATT
1 TCTCAATTTTCAATT
38392609 CTCGATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 7 0.21
21 26 0.79
ACGTcount: A:0.26, C:0.18, G:0.05, T:0.51
Consensus pattern (20 bp):
TCTCAATTTTCAATTTGTAT
Found at i:38392635 original size:28 final size:28
Alignment explanation
Indices: 38392571--38392637 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
38392561 TCACAATTTG
* * *
38392571 ATTCTCAATTTTCAATTTGTTATTCTCA
1 ATTCTCAATTCTCAATTTATTATTCTAA
* *
38392599 ATTGTCAATTCTCGATTTATTATTCTAA
1 ATTCTCAATTCTCAATTTATTATTCTAA
*
38392627 ATTCCCAATTC
1 ATTCTCAATTC
38392638 CAGAATTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.27, C:0.19, G:0.04, T:0.49
Consensus pattern (28 bp):
ATTCTCAATTCTCAATTTATTATTCTAA
Found at i:38396908 original size:63 final size:62
Alignment explanation
Indices: 38396814--38396981 Score: 176
Period size: 63 Copynumber: 2.7 Consensus size: 62
38396804 AACATTATGT
* * * * * **
38396814 GCAATCATTCCCTACAACAACACAGCAATCACTAGTTTATTTTACACAAGTATCACTGCACGC
1 GCAATCATTCCCTACACCGACACAACCATCACTA-TTTATTTTACACAAGCATCACAACACGC
* * * * * *
38396877 GCAATCATTCCCTACACCGACATATCCATCACCAATTTATTTCACACAAGCATCACAACATGT
1 GCAATCATTCCCTACACCGACACAACCATCA-CTATTTATTTTACACAAGCATCACAACACGC
*
38396940 GCAATCATT-CATACACCGACACAACCATCATCTATTTATTTT
1 GCAATCATTCCCTACACCGACACAACCATCA-CTATTTATTTT
38396982 TTTCATAAGC
Statistics
Matches: 86, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
62 27 0.31
63 57 0.66
64 2 0.02
ACGTcount: A:0.35, C:0.31, G:0.07, T:0.27
Consensus pattern (62 bp):
GCAATCATTCCCTACACCGACACAACCATCACTATTTATTTTACACAAGCATCACAACACGC
Found at i:38403549 original size:23 final size:23
Alignment explanation
Indices: 38403519--38403569 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
38403509 CCATTTACGC
38403519 TAAAACGAATTACTTGATTATAA
1 TAAAACGAATTACTTGATTATAA
*
38403542 TAAAACGAATTACTTGATTATAC
1 TAAAACGAATTACTTGATTATAA
38403565 TAAAA
1 TAAAA
38403570 TGCCAGTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (23 bp):
TAAAACGAATTACTTGATTATAA
Found at i:38404137 original size:29 final size:29
Alignment explanation
Indices: 38404095--38404152 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
38404085 TGGTGCCAAA
38404095 GTGATTTTGGCTAATCACTAATATATTTG
1 GTGATTTTGGCTAATCACTAATATATTTG
38404124 GTGATTTTGGCTAATCACTAATATATTTG
1 GTGATTTTGGCTAATCACTAATATATTTG
38404153 AACATTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (29 bp):
GTGATTTTGGCTAATCACTAATATATTTG
Found at i:38404159 original size:29 final size:29
Alignment explanation
Indices: 38404098--38404159 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
38404088 TGCCAAAGTG
***
38404098 ATTTTGGCTAATCACTAATATATTTGGTG
1 ATTTTGGCTAATCACTAATATATTTGAAC
38404127 ATTTTGGCTAATCACTAATATATTTGAAC
1 ATTTTGGCTAATCACTAATATATTTGAAC
38404156 ATTT
1 ATTT
38404160 ATAAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (29 bp):
ATTTTGGCTAATCACTAATATATTTGAAC
Found at i:38404776 original size:22 final size:22
Alignment explanation
Indices: 38404750--38404800 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
38404740 TGCACTATTG
38404750 AACAGAGAGCACTAAA-GTGCTA
1 AACAGAGAGCAC-AAATGTGCTA
*
38404772 TACAGAGAGCACAAATGTGCTA
1 AACAGAGAGCACAAATGTGCTA
38404794 AACAGAG
1 AACAGAG
38404801 GAGCGCACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 3 0.12
22 23 0.88
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.14
Consensus pattern (22 bp):
AACAGAGAGCACAAATGTGCTA
Found at i:38407687 original size:36 final size:36
Alignment explanation
Indices: 38407647--38407728 Score: 146
Period size: 36 Copynumber: 2.2 Consensus size: 36
38407637 TGAAACTATG
38407647 TAGTAATTTATATTTTGTGATGAAAGATTGCTCTTA
1 TAGTAATTTATATTTTGTGATGAAAGATTGCTCTTA
*
38407683 TAGTAATTTATATTTTGTGATGAAAGATTGTTCTTA
1 TAGTAATTTATATTTTGTGATGAAAGATTGCTCTTA
38407719 TAGTACATTT
1 TAGTA-ATTT
38407729 TGTTTCTTCG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
36 40 0.91
37 4 0.09
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (36 bp):
TAGTAATTTATATTTTGTGATGAAAGATTGCTCTTA
Found at i:38414890 original size:15 final size:17
Alignment explanation
Indices: 38414872--38414903 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
38414862 TAGCATAATT
38414872 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
38414887 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
38414904 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:38421248 original size:39 final size:39
Alignment explanation
Indices: 38421194--38421284 Score: 137
Period size: 39 Copynumber: 2.3 Consensus size: 39
38421184 TTTTTTCCAT
* *
38421194 TTATTACTTTATTGATTTCAGCTCTTTATTATTTCTCTTA
1 TTATTAC-ATATTGATTTCAGCTATTTATTATTTCTCTTA
* *
38421234 TTATTACGTATTGATTTTAGCTATTTATTATTTCTCTTA
1 TTATTACATATTGATTTCAGCTATTTATTATTTCTCTTA
38421273 TTATTACATATT
1 TTATTACATATT
38421285 CTTATTTTCA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 40 0.85
40 7 0.15
ACGTcount: A:0.23, C:0.12, G:0.05, T:0.59
Consensus pattern (39 bp):
TTATTACATATTGATTTCAGCTATTTATTATTTCTCTTA
Found at i:38429111 original size:18 final size:18
Alignment explanation
Indices: 38429090--38429159 Score: 83
Period size: 18 Copynumber: 3.9 Consensus size: 18
38429080 ACAATAATCA
38429090 TAAAAATAGAAAC-AAAAC
1 TAAAAATA-AAACTAAAAC
*
38429108 TAAAACTAAAACTAAAAC
1 TAAAAATAAAACTAAAAC
*
38429126 TAAAACTAAAACTTAAAA-
1 TAAAAATAAAAC-TAAAAC
38429144 TAAAAATAAAA-TAAAA
1 TAAAAATAAAACTAAAA
38429160 TGAATGGACT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
16 5 0.10
17 4 0.08
18 34 0.71
19 5 0.10
ACGTcount: A:0.71, C:0.10, G:0.01, T:0.17
Consensus pattern (18 bp):
TAAAAATAAAACTAAAAC
Found at i:38429114 original size:6 final size:6
Alignment explanation
Indices: 38429099--38429159 Score: 83
Period size: 6 Copynumber: 10.5 Consensus size: 6
38429089 ATAAAAATAG
38429099 AAAC-A AAACTA AAACTA AAACTA AAACTA AAACTA AAACTTA AAA-TA
1 AAACTA AAACTA AAACTA AAACTA AAACTA AAACTA AAAC-TA AAACTA
*
38429146 AAAATA AAA-TA AAA
1 AAACTA AAACTA AAA
38429160 TGAATGGACT
Statistics
Matches: 53, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
5 14 0.26
6 34 0.64
7 5 0.09
ACGTcount: A:0.72, C:0.11, G:0.00, T:0.16
Consensus pattern (6 bp):
AAACTA
Found at i:38430860 original size:34 final size:34
Alignment explanation
Indices: 38430822--38430890 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 34
38430812 TAAAGAAACA
38430822 AGTAA-AAACAATGAAAATAATAA-AATAAAATAAT
1 AGTAATAAACAA--AAAATAATAACAATAAAATAAT
*
38430856 AGTAATAAAGAAAAAATAATAACAATAAAATAAT
1 AGTAATAAACAAAAAATAATAACAATAAAATAAT
38430890 A
1 A
38430891 AAAGACTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 10 0.31
34 17 0.53
35 5 0.16
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.20
Consensus pattern (34 bp):
AGTAATAAACAAAAAATAATAACAATAAAATAAT
Found at i:38430873 original size:20 final size:19
Alignment explanation
Indices: 38430839--38430876 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
38430829 ACAATGAAAA
*
38430839 TAATAAAATAAAATAATAG
1 TAATAAAAAAAAATAATAG
38430858 TAATAAAGAAAAAATAATA
1 TAATAAA-AAAAAATAATA
38430877 ACAATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (19 bp):
TAATAAAAAAAAATAATAG
Found at i:38433810 original size:19 final size:20
Alignment explanation
Indices: 38433778--38433822 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
38433768 TGATTCAACG
38433778 GACAT-AAAACTCTTGACAT
1 GACATGAAAACTCTTGACAT
*
38433797 GACATGAAAA-TCTTGAGAT
1 GACATGAAAACTCTTGACAT
*
38433816 GAAATGA
1 GACATGA
38433823 TAATGACTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.24
Consensus pattern (20 bp):
GACATGAAAACTCTTGACAT
Found at i:38440605 original size:20 final size:20
Alignment explanation
Indices: 38440580--38440618 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
38440570 AGGGACTAAA
* *
38440580 ATGAAAAGTTTTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
38440600 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
38440619 TATGGATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:38445932 original size:16 final size:16
Alignment explanation
Indices: 38445911--38445944 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38445901 TCGGTAAATC
**
38445911 CCGAAATGTTGAAAAG
1 CCGAAATGCCGAAAAG
38445927 CCGAAATGCCGAAAAG
1 CCGAAATGCCGAAAAG
38445943 CC
1 CC
38445945 AGAAGTTTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.24, G:0.24, T:0.12
Consensus pattern (16 bp):
CCGAAATGCCGAAAAG
Found at i:38446201 original size:28 final size:28
Alignment explanation
Indices: 38446161--38446263 Score: 145
Period size: 28 Copynumber: 3.7 Consensus size: 28
38446151 ATTGCATGAC
* *
38446161 TATGAGTGTGATTGGGCCTGACGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
38446189 TATGAAAGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
38446217 TATGAATGTGATTGGG-CTCGATGGGCCA
1 TATGAATGTGATTGGGCCT-GATGGGCCA
* *
38446245 CATGAATGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
38446264 AAAAGGGCCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 2 0.03
28 63 0.94
29 2 0.03
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:38448894 original size:24 final size:23
Alignment explanation
Indices: 38448866--38448918 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 23
38448856 TTGTATTTAT
*
38448866 GGTATATGGCATGTATAAGCTAGA
1 GGTATATGG-ATGTATAAGCTAAA
*
38448890 GGTATTTTGGATGTATAAGCTAAA
1 GGTA-TATGGATGTATAAGCTAAA
38448914 GGTAT
1 GGTAT
38448919 TTTGGTATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 1 0.04
24 21 0.81
25 4 0.15
ACGTcount: A:0.32, C:0.06, G:0.28, T:0.34
Consensus pattern (23 bp):
GGTATATGGATGTATAAGCTAAA
Found at i:38448919 original size:24 final size:24
Alignment explanation
Indices: 38448876--38448923 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
38448866 GGTATATGGC
*
38448876 ATGTATAAGCTAGAGGTATTTTGG
1 ATGTATAAGCTAAAGGTATTTTGG
38448900 ATGTATAAGCTAAAGGTATTTTGG
1 ATGTATAAGCTAAAGGTATTTTGG
38448924 TATACTTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.04, G:0.27, T:0.38
Consensus pattern (24 bp):
ATGTATAAGCTAAAGGTATTTTGG
Found at i:38449000 original size:13 final size:13
Alignment explanation
Indices: 38448982--38449013 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
38448972 TTGGTATGCA
38448982 TGGCCTTATAAGT
1 TGGCCTTATAAGT
38448995 TGGCCTTATAAGT
1 TGGCCTTATAAGT
38449008 TGGCCT
1 TGGCCT
38449014 AAATGATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (13 bp):
TGGCCTTATAAGT
Found at i:38457690 original size:13 final size:13
Alignment explanation
Indices: 38457658--38457704 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
38457648 TAATTTAGCC
*
38457658 ATTTTTTATTTTA
1 ATTTTTTAATTTA
* *
38457671 ATATTTTAATTTG
1 ATTTTTTAATTTA
38457684 ATTTTTTAATTTA
1 ATTTTTTAATTTA
38457697 ATCTTTTT
1 AT-TTTTT
38457705 GTTTGTTTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
13 23 0.82
14 5 0.18
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (13 bp):
ATTTTTTAATTTA
Found at i:38459006 original size:10 final size:11
Alignment explanation
Indices: 38458983--38459007 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38458973 ACTCAATTTT
38458983 AAAACATTGAA
1 AAAACATTGAA
38458994 AAAACATTGAA
1 AAAACATTGAA
38459005 AAA
1 AAA
38459008 TTAGCAAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (11 bp):
AAAACATTGAA
Found at i:38461430 original size:51 final size:53
Alignment explanation
Indices: 38461352--38461493 Score: 179
Period size: 51 Copynumber: 2.8 Consensus size: 53
38461342 TCCGTTGTGA
* *
38461352 GTCACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTACC-CATT-A-ACTTC
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCACATTGATACGTC
* * *
38461402 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTC
1 G-TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCACATTGATACGTC
*
38461456 GT-A--TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCA
38461494 GAGAGCTTCG
Statistics
Matches: 81, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
50 34 0.42
51 37 0.46
52 4 0.05
53 2 0.02
54 4 0.05
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (53 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCACATTGATACGTC
Found at i:38464153 original size:12 final size:13
Alignment explanation
Indices: 38464136--38464168 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
38464126 TTCATTTTTT
38464136 AAAAAAAAA-TAG
1 AAAAAAAAATTAG
*
38464148 AAAAAAAAATTTG
1 AAAAAAAAATTAG
38464161 AAAAAAAA
1 AAAAAAAA
38464169 GTGGTCCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (13 bp):
AAAAAAAAATTAG
Found at i:38464580 original size:6 final size:6
Alignment explanation
Indices: 38464569--38464601 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
38464559 TATTTTATTT
38464569 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT- ATTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTT
38464602 ATTTATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.70
Consensus pattern (6 bp):
ATTTTG
Found at i:38464604 original size:4 final size:4
Alignment explanation
Indices: 38464595--38464621 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
38464585 TGATTTTGAT
38464595 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
38464622 TATTATGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:38464627 original size:12 final size:12
Alignment explanation
Indices: 38464563--38464627 Score: 55
Period size: 12 Copynumber: 5.3 Consensus size: 12
38464553 GTTTTATATT
38464563 TTATTTATTTTGA
1 TTATTTATTTT-A
*
38464576 TT-TTGATTTTGA
1 TTATTTATTTT-A
*
38464588 TT-TTGATTTTA
1 TTATTTATTTTA
38464599 TTTATTTA-TTTA
1 -TTATTTATTTTA
38464611 TTTATTTATTTTA
1 -TTATTTATTTTA
38464624 TTAT
1 TTAT
38464628 GCACTGTACT
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
11 1 0.02
12 37 0.79
13 9 0.19
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (12 bp):
TTATTTATTTTA
Found at i:38474654 original size:18 final size:18
Alignment explanation
Indices: 38474630--38474763 Score: 135
Period size: 18 Copynumber: 7.4 Consensus size: 18
38474620 TATCAATATC
38474630 ATTCAGTAAC-GATCAATT
1 ATTCAGTAACAG-TCAATT
* **
38474648 GTTCAGTAACAGTCGGTT
1 ATTCAGTAACAGTCAATT
* *
38474666 ATTCAGTAACAATCATTT
1 ATTCAGTAACAGTCAATT
*
38474684 ATTCAATAACAGTCAATT
1 ATTCAGTAACAGTCAATT
* * *
38474702 ATTCAGTAATAATCAGTT
1 ATTCAGTAACAGTCAATT
* *
38474720 ATTTAGTAACAGTCATTT
1 ATTCAGTAACAGTCAATT
* *
38474738 ATTCAGTAAGAGTTAATT
1 ATTCAGTAACAGTCAATT
38474756 ATTCAGTA
1 ATTCAGTA
38474764 GCAATTAGTT
Statistics
Matches: 93, Mismatches: 22, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
18 92 0.99
19 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (18 bp):
ATTCAGTAACAGTCAATT
Found at i:38474670 original size:36 final size:36
Alignment explanation
Indices: 38474630--38474781 Score: 160
Period size: 36 Copynumber: 4.2 Consensus size: 36
38474620 TATCAATATC
* * *
38474630 ATTCAGTAACGATCAATTGTTCAGTAACAGTCGGTT
1 ATTCAGTAACAATCAATTATTCAGTAACAGTCAGTT
* * *
38474666 ATTCAGTAACAATCATTTATTCAATAACAGTCAATT
1 ATTCAGTAACAATCAATTATTCAGTAACAGTCAGTT
* * * *
38474702 ATTCAGTAATAATCAGTTATTTAGTAACAGTCATTT
1 ATTCAGTAACAATCAATTATTCAGTAACAGTCAGTT
* * * * * *
38474738 ATTCAGTAAGAGTTAATTATTCAGTAGCAATTAGTT
1 ATTCAGTAACAATCAATTATTCAGTAACAGTCAGTT
38474774 ATTCAGTA
1 ATTCAGTA
38474782 CCTTTATTTA
Statistics
Matches: 96, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 96 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (36 bp):
ATTCAGTAACAATCAATTATTCAGTAACAGTCAGTT
Found at i:38474707 original size:54 final size:54
Alignment explanation
Indices: 38474642--38474781 Score: 181
Period size: 54 Copynumber: 2.6 Consensus size: 54
38474632 TCAGTAACGA
* * *
38474642 TCAATTGTTCAGTAACAGTCGGTTATTCAGTAACAATCATTTATTCAATAACAG
1 TCAATTATTCAGTAACAATCAGTTATTCAGTAACAATCATTTATTCAATAACAG
* * * * *
38474696 TCAATTATTCAGTAATAATCAGTTATTTAGTAACAGTCATTTATTCAGTAAGAG
1 TCAATTATTCAGTAACAATCAGTTATTCAGTAACAATCATTTATTCAATAACAG
* * *
38474750 TTAATTATTCAGTAGCAATTAGTTATTCAGTA
1 TCAATTATTCAGTAACAATCAGTTATTCAGTA
38474782 CCTTTATTTA
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 73 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.39
Consensus pattern (54 bp):
TCAATTATTCAGTAACAATCAGTTATTCAGTAACAATCATTTATTCAATAACAG
Found at i:38474775 original size:18 final size:18
Alignment explanation
Indices: 38474630--38474781 Score: 133
Period size: 18 Copynumber: 8.4 Consensus size: 18
38474620 TATCAATATC
* *
38474630 ATTCAGTAACGATCAATT
1 ATTCAGTAACAATCAGTT
* * *
38474648 GTTCAGTAACAGTCGGTT
1 ATTCAGTAACAATCAGTT
*
38474666 ATTCAGTAACAATCATTT
1 ATTCAGTAACAATCAGTT
* * *
38474684 ATTCAATAACAGTCAATT
1 ATTCAGTAACAATCAGTT
*
38474702 ATTCAGTAATAATCAGTT
1 ATTCAGTAACAATCAGTT
* * *
38474720 ATTTAGTAACAGTCATTT
1 ATTCAGTAACAATCAGTT
* * * *
38474738 ATTCAGTAAGAGTTAATT
1 ATTCAGTAACAATCAGTT
* *
38474756 ATTCAGTAGCAATTAGTT
1 ATTCAGTAACAATCAGTT
38474774 ATTCAGTA
1 ATTCAGTA
38474782 CCTTTATTTA
Statistics
Matches: 106, Mismatches: 28, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 106 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (18 bp):
ATTCAGTAACAATCAGTT
Found at i:38475026 original size:44 final size:44
Alignment explanation
Indices: 38474935--38475026 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
38474925 CCGAAGTAAC
*
38474935 AGTAACAGTACGACACATGAAGTGCCTCATCGACACAAAGTCGA
1 AGTAACAGTACGACACATGAAGTGCCTCATCGACACAAAGTCAA
* * * **
38474979 AGTAACAGTATGACACTAT-TAGTGCCTCATCGACCCATGGTCAA
1 AGTAACAGTACGACAC-ATGAAGTGCCTCATCGACACAAAGTCAA
38475023 AGTA
1 AGTA
38475027 TCCCTGTACA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 39 0.95
45 2 0.05
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACGACACATGAAGTGCCTCATCGACACAAAGTCAA
Found at i:38475147 original size:19 final size:20
Alignment explanation
Indices: 38475123--38475160 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
38475113 TTTCATCAGT
38475123 ATATATT-TCAATTAAATAG
1 ATATATTCTCAATTAAATAG
*
38475142 ATATATTCTCAATTCAATA
1 ATATATTCTCAATTAAATA
38475161 TATTTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.42
Consensus pattern (20 bp):
ATATATTCTCAATTAAATAG
Found at i:38475791 original size:16 final size:16
Alignment explanation
Indices: 38475767--38475834 Score: 50
Period size: 16 Copynumber: 4.1 Consensus size: 16
38475757 TTAAATTTAT
*
38475767 TTATTATATAAATATC
1 TTATAATATAAATATC
*
38475783 TTATAATATAATTA-C
1 TTATAATATAAATATC
*
38475798 TTA-ATTAATAAATATC
1 TTATAAT-ATAAATATC
38475814 TTTTATAAATAGTAAATATC
1 --TTAT-AATA-TAAATATC
38475834 T
1 T
38475835 ATTAGTAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
14 2 0.05
15 10 0.25
16 13 0.32
18 4 0.10
19 1 0.03
20 10 0.25
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.47
Consensus pattern (16 bp):
TTATAATATAAATATC
Found at i:38475934 original size:13 final size:13
Alignment explanation
Indices: 38475916--38475947 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
38475906 CACATTTGTC
38475916 TTTATTTATTTAT
1 TTTATTTATTTAT
38475929 TTTATTTATTTAT
1 TTTATTTATTTAT
38475942 TTTATT
1 TTTATT
38475948 AAATTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTATTTAT
Found at i:38477557 original size:43 final size:42
Alignment explanation
Indices: 38477466--38477568 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 42
38477456 GATTTACGTG
* * * * *
38477466 TAAGACCATGTATGGGACATTGGCATCGTATTTGATCTCGTC
1 TAAGACCCTGTCTGGGACAATGGCATCGTATTTGATCTCATA
*
38477508 TGAGACCCTGTCTGGGACAATGGCATCGATATTTGAT-TACATA
1 TAAGACCCTGTCTGGGACAATGGCATCG-TATTTGATCT-CATA
38477551 TAAGACCAC-GTCTGGGAC
1 TAAGACC-CTGTCTGGGAC
38477569 GTTGGCATTG
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
42 25 0.49
43 25 0.49
44 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.29
Consensus pattern (42 bp):
TAAGACCCTGTCTGGGACAATGGCATCGTATTTGATCTCATA
Found at i:38477575 original size:43 final size:42
Alignment explanation
Indices: 38477466--38477576 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 42
38477456 GATTTACGTG
* * * *
38477466 TAAGACCATGTATGGGACATTGGCATCGTATTTGATCTCGTC
1 TAAGACCACGTCTGGGACATTGGCATCGTATTTGATCTCATA
* *
38477508 TGAGACC-CTGTCTGGGACAATGGCATCGATATTTGAT-TACATA
1 TAAGACCAC-GTCTGGGACATTGGCATCG-TATTTGATCT-CATA
*
38477551 TAAGACCACGTCTGGGACGTTGGCAT
1 TAAGACCACGTCTGGGACATTGGCAT
38477577 TGTACGAGCT
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
42 24 0.43
43 31 0.55
44 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (42 bp):
TAAGACCACGTCTGGGACATTGGCATCGTATTTGATCTCATA
Found at i:38482617 original size:25 final size:25
Alignment explanation
Indices: 38482589--38482683 Score: 111
Period size: 25 Copynumber: 3.8 Consensus size: 25
38482579 CTCTTTTAAT
*
38482589 AACTGGGGCAAAGTCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* * *
38482614 AACTGAGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
38482639 AACTAGGGCAAAGCCC-TTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTTGA-TA
*
38482664 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
38482684 AGCACTTCCT
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
24 3 0.05
25 51 0.89
26 3 0.05
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:38482648 original size:50 final size:50
Alignment explanation
Indices: 38482589--38482683 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
38482579 CTCTTTTAAT
* * *
38482589 AACTGGGGCAAAGTCCTTTT-TGATAAACTGAGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCAG-TAAACTGAGGCAAAGCCCTTTTCGGTA
* *
38482639 AACTAGGGCAAAGCCCTTTTCAGTAAACTGGGGCATAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTTCAGTAAACTGAGGCAAAGCCCTTTT
38482684 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 38 0.97
51 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (50 bp):
AACTAGGGCAAAGCCCTTTTCAGTAAACTGAGGCAAAGCCCTTTTCGGTA
Found at i:38483555 original size:27 final size:27
Alignment explanation
Indices: 38483493--38483567 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
38483483 GGGCATATTC
* *
38483493 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
*
38483520 GTCACTTTACCCTATAGGGGCT-TTACG
1 GTCATTTTACCCTATAGGGG-TATTACG
*
38483547 GTCTTTTTA-CCTATTAGGGGT
1 GTCATTTTACCCTA-TAGGGGT
38483568 TTTTTAGTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 5 0.12
27 35 0.85
28 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTACG
Found at i:38483641 original size:27 final size:27
Alignment explanation
Indices: 38483611--38483842 Score: 137
Period size: 27 Copynumber: 8.4 Consensus size: 27
38483601 GTAAATCTAC
*
38483611 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCGGTAATTTTGT
* * **
38483638 AAACCAATGGTATTCCTATAATTTT-T
1 AAACCAAGGGTATTTCGGTAATTTTGT
* *
38483664 AAAAAAAGTCAAGGGTATTTCTGTAATTTTGT
1 ----AAA-CCAAGGGTATTTCGGTAATTTTGT
* * * * **
38483696 AAATCAGGGGTATTTTGATAATTTTAC
1 AAACCAAGGGTATTTCGGTAATTTTGT
*** *
38483723 AAA-TTGGTGGTATTTCGGTAATTTCT-C
1 AAACCAAG-GGTATTTCGGTAATTT-TGT
* * **
38483750 AAACCAATGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCGGTAATTTTGT
* * *
38483777 AAACTAGGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTCGGTAATTTTGT
* *
38483804 AAATCAAGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTCGGTAATTTTGT
*
38483831 AAATCAAGGGTA
1 AAACCAAGGGTA
38483843 AAATGGTAAT
Statistics
Matches: 164, Mismatches: 31, Indels: 20
0.76 0.14 0.09
Matches are distributed among these distances:
26 4 0.02
27 134 0.82
28 4 0.02
30 3 0.02
31 18 0.11
32 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCGGTAATTTTGT
Found at i:38483762 original size:54 final size:54
Alignment explanation
Indices: 38483588--38483828 Score: 191
Period size: 54 Copynumber: 4.4 Consensus size: 54
38483578 TTTCATCCTA
* * * * * * *
38483588 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTTGCAAAC
* * * * * * * * *
38483642 CAATGGTATTCCT-ATAATTTTTAAAAAAAGTCAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATT-TTGGTAA-TTTT--ACAAACT-AGGGGTATTTCGGTAATTTTGCAAAC
* * *
38483700 CAGGGGTATTTTGATAATTTTACAAA-TTGGTGGTATTTCGGTAATTTCT-CAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACTAGG-GGTATTTCGGTAATTT-TGCAAAC
* * * *
38483754 CAATGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTTGCAAAC
38483808 CAAGGGTATTTTGGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
38483829 GTAAATCAAG
Statistics
Matches: 149, Mismatches: 28, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
53 2 0.01
54 91 0.61
55 11 0.07
57 9 0.06
58 36 0.24
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTTGCAAAC
Found at i:38483842 original size:54 final size:54
Alignment explanation
Indices: 38483672--38483950 Score: 179
Period size: 54 Copynumber: 5.2 Consensus size: 54
38483662 TTAAAAAAAG
* * **
38483672 TCAAGGGTATTTCT-GTAATTTTGTAAATCAGGGGTATTTTGATAATTTTACAAA
1 TCAAGGGTATTT-TGGTAATTTTGTAAATCAAGGGTATTTTGGTAATTTTGTAAA
** * * * * **
38483726 T-TGGTGGTATTTCGGTAATTTCT-CAAACCAATGGTATTTTGGTAATTTTACAAA
1 TCAAG-GGTATTTTGGTAATTT-TGTAAATCAAGGGTATTTTGGTAATTTTGTAAA
*
38483780 -CTAGGGGTATTTTGGTAATTTTGTAAATCAAGGGTATTTTGGTAATTTTGTAAA
1 TC-AAGGGTATTTTGGTAATTTTGTAAATCAAGGGTATTTTGGTAATTTTGTAAA
*** * * **** * *
38483834 TCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTGAA
1 TCAAGGGTATTTTGGTAATTTTGTAAATCAAGGGTATTTTGGTAATTTTGTAAA
*** * * * **** *
38483888 TCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAA
1 TCAAGGGTATTTTGGTAATTTTGTAAATCAAGGGTATTTTGGTAATTTTGTAAA
38483942 TCAAGGGTA
1 TCAAGGGTA
38483951 AAACGATAAT
Statistics
Matches: 189, Mismatches: 29, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
53 2 0.01
54 183 0.97
55 4 0.02
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (54 bp):
TCAAGGGTATTTTGGTAATTTTGTAAATCAAGGGTATTTTGGTAATTTTGTAAA
Found at i:38483849 original size:27 final size:27
Alignment explanation
Indices: 38483792--38483967 Score: 235
Period size: 27 Copynumber: 6.5 Consensus size: 27
38483782 AGGGGTATTT
* ***
38483792 TGGTAATTTTGTAAATCAAGGGTATTT
1 TGGTAATTCTGTAAATCAAGGGTAAAA
*
38483819 TGGTAATTTTGTAAATCAAGGGTAAAA
1 TGGTAATTCTGTAAATCAAGGGTAAAA
*
38483846 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCAAGGGTAAAA
* *
38483873 CGGTAATTCTGTGAATCAAGGGTAAAA
1 TGGTAATTCTGTAAATCAAGGGTAAAA
* *
38483900 TGGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCAAGGGTAAAA
*
38483927 CGGTAATTCTGTAAATCAAGGGTAAAA
1 TGGTAATTCTGTAAATCAAGGGTAAAA
* *
38483954 CGATAATTCTGTAA
1 TGGTAATTCTGTAA
38483968 CTTTGGTAAT
Statistics
Matches: 133, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 133 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.32
Consensus pattern (27 bp):
TGGTAATTCTGTAAATCAAGGGTAAAA
Found at i:38488314 original size:16 final size:16
Alignment explanation
Indices: 38488293--38488324 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
38488283 CCTCTAGAGC
38488293 CATGGAAATTTGATTA
1 CATGGAAATTTGATTA
38488309 CATGGAAATTTGATTA
1 CATGGAAATTTGATTA
38488325 TACTCTGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (16 bp):
CATGGAAATTTGATTA
Found at i:38490828 original size:50 final size:50
Alignment explanation
Indices: 38490753--38490853 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
38490743 ATGAAACTAG
38490753 ATTCAATAAGATTTAATCTCATATCTTATTAAGTCTCTAATTCAATTTCC
1 ATTCAATAAGATTTAATCTCATATCTTATTAAGTCTCTAATTCAATTTCC
*
38490803 ATTCAATAAGATTTAATCTCATATCTTATTAAGTCTCTAATTCATTTTCC
1 ATTCAATAAGATTTAATCTCATATCTTATTAAGTCTCTAATTCAATTTCC
38490853 A
1 A
38490854 CAATTTTTGG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.34, C:0.18, G:0.04, T:0.45
Consensus pattern (50 bp):
ATTCAATAAGATTTAATCTCATATCTTATTAAGTCTCTAATTCAATTTCC
Found at i:38491367 original size:43 final size:43
Alignment explanation
Indices: 38491303--38491385 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
38491293 AACATGTATA
**
38491303 CATCCATAATGAACTTGGACCTCTCAACGAGCCCGGATGCTTG
1 CATCCATAATGAACTCAGACCTCTCAACGAGCCCGGATGCTTG
*
38491346 CATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGC
1 CATCCATAATGAACTCAGACCTCTCAACGAGCCCGGATGC
38491386 CACATATATC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (43 bp):
CATCCATAATGAACTCAGACCTCTCAACGAGCCCGGATGCTTG
Found at i:38491445 original size:43 final size:43
Alignment explanation
Indices: 38491351--38491469 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 43
38491341 GCTTGCATCC
* * * * * *
38491351 ATAATGAACTCAGACCTCTCAACGAGCTCGGATGC-CACATAT
1 ATAACGAACTCGGACCACTCAACAAGCTTGGATTCTCACATAT
* * * *
38491393 ATCATGAACTTGGACCACTCAACAAGTTTGGATTCTCACATAT
1 ATAACGAACTCGGACCACTCAACAAGCTTGGATTCTCACATAT
*
38491436 ATAACGAACTCGGACCACTCAACGAGCTTGGATT
1 ATAACGAACTCGGACCACTCAACAAGCTTGGATT
38491470 TCTAACTTCC
Statistics
Matches: 63, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 27 0.43
43 36 0.57
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
ATAACGAACTCGGACCACTCAACAAGCTTGGATTCTCACATAT
Found at i:38494569 original size:48 final size:48
Alignment explanation
Indices: 38494490--38494689 Score: 158
Period size: 48 Copynumber: 4.2 Consensus size: 48
38494480 ATTTGGGTTG
* * * ** *
38494490 ATGATATCCCGTATAAGTCCATGCCTGGGACATGGCATC-GACATCGAT
1 ATGAGATCCTGTATAAGACCATGTTTAGGACATGGCATCAG-CATCGAT
*
38494538 ATGAGATCCTGTATAAGATCATGTTTAGGACATGGCATCAGCATC-ATT
1 ATGAGATCCTGTATAAGACCATGTTTAGGACATGGCATCAGCATCGA-T
* * * * * * *
38494586 ACGAGACCCTGTATAAAACCACGTTTGGGACCTGGCATC-GACGTCG-T
1 ATGAGATCCTGTATAAGACCATGTTTAGGACATGGCATCAG-CATCGAT
* * * *
38494633 ATGAGAT-CTCGTATAAGACCATATCTAGGATATGGCATCAGCATTGAT
1 ATGAGATCCT-GTATAAGACCATGTTTAGGACATGGCATCAGCATCGAT
*
38494681 TTGAGATCC
1 ATGAGATCC
38494690 CATGTAAGAC
Statistics
Matches: 117, Mismatches: 27, Indels: 15
0.74 0.17 0.09
Matches are distributed among these distances:
46 2 0.02
47 33 0.28
48 80 0.68
49 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (48 bp):
ATGAGATCCTGTATAAGACCATGTTTAGGACATGGCATCAGCATCGAT
Found at i:38500086 original size:42 final size:41
Alignment explanation
Indices: 38499974--38500095 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 41
38499964 CACCATACCA
* * *
38499974 ATGCCATATCCCAGATATGGTCTTACATTGGATCTGATATCG
1 ATGCCATATCCCAGATATGGTCTTACA-CGAATCTCATATCG
* *
38500016 ATGCCAATAGCCTA-ACTATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGA-TATGGTCTTACACGAA-TCTCATATCG
38500059 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACG-AATCTCA
38500096 AATAACCCTA
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
42 33 0.49
43 35 0.51
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAATCTCATATCG
Found at i:38503318 original size:46 final size:46
Alignment explanation
Indices: 38503265--38503437 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
38503255 TTGTTGAGCA
38503265 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * *
38503311 TCCGAACTCGTTGAGTTGAGTCAGTGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
38503356 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
38503404 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
38503438 GGGGCAGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.57
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38505569 original size:34 final size:33
Alignment explanation
Indices: 38505520--38505608 Score: 106
Period size: 34 Copynumber: 2.7 Consensus size: 33
38505510 TTCTAATTGG
*
38505520 GCTAAGGCTCACACTGATACTGTTACTGAATTAA
1 GCTAAGGCTCTCACTGATACTGTTACTGAA-TAA
* * * **
38505554 GCTAAGGCCCTCACTGATATTATTACTGAATGG
1 GCTAAGGCTCTCACTGATACTGTTACTGAATAA
*
38505587 GCTAAGGCTCTAACTGATACTG
1 GCTAAGGCTCTCACTGATACTG
38505609 GACTGTTACT
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
33 19 0.42
34 26 0.58
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (33 bp):
GCTAAGGCTCTCACTGATACTGTTACTGAATAA
Found at i:38518644 original size:42 final size:42
Alignment explanation
Indices: 38518588--38518673 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
38518578 TGGAGTCTAA
38518588 AAATACATGCCATTTTAGAACCTATGATAATGTGATGTCTCT
1 AAATACATGCCATTTTAGAACCTATGATAATGTGATGTCTCT
38518630 AAATACATGCCATTTTAGAACCTATGATAATGTGATGTCTCT
1 AAATACATGCCATTTTAGAACCTATGATAATGTGATGTCTCT
38518672 AA
1 AA
38518674 CTTAATGTGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (42 bp):
AAATACATGCCATTTTAGAACCTATGATAATGTGATGTCTCT
Found at i:38531196 original size:19 final size:18
Alignment explanation
Indices: 38531172--38531208 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
38531162 ATTTATAGAG
*
38531172 ATGTGAATGAATTGTTGTT
1 ATGTGAATAAATT-TTGTT
38531191 ATGTGAATAAATTTTGTT
1 ATGTGAATAAATTTTGTT
38531209 TGATGATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (18 bp):
ATGTGAATAAATTTTGTT
Found at i:38532732 original size:47 final size:47
Alignment explanation
Indices: 38532681--38532872 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
38532671 TTAGGATTTT
38532681 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
38532728 ATGTGATAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
38532775 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
38532822 ATGTGGTGAATATGAACATGC--ATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
38532867 ATGTGA
1 ATGTGA
38532873 AATATATATA
Statistics
Matches: 133, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
45 25 0.19
47 108 0.81
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:38532734 original size:22 final size:22
Alignment explanation
Indices: 38532706--38532781 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
38532696 ACATGCATAT
38532706 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
38532728 ATGTGATAAATGTG-AGCAT-GCATA
1 ATGTGAT-AA-G-GCCGAATGGC-CA
38532752 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
38532775 ATGTGAT
1 ATGTGAT
38532782 GAATGTGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:38532830 original size:25 final size:25
Alignment explanation
Indices: 38532755--38532830 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
38532745 ATGCATATAT
38532755 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
38532780 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
38532802 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
38532827 GTGA
1 GTGA
38532831 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:38532904 original size:50 final size:50
Alignment explanation
Indices: 38532831--38532977 Score: 235
Period size: 50 Copynumber: 3.0 Consensus size: 50
38532821 AATGTGGTGA
*
38532831 ATATGA-ACATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
*
38532880 ATATGAGATATGCATATGTGGTAAAGCCGACTGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
* *
38532930 ATATGAGATATGTATATGTGGTAAAGCCGAATGG-CTAGTGTGAAATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTC-AATGTGAAATAT
38532978 GTAGGTGATG
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
49 7 0.08
50 84 0.92
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (50 bp):
ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
Found at i:38532995 original size:50 final size:50
Alignment explanation
Indices: 38532843--38533001 Score: 164
Period size: 50 Copynumber: 3.2 Consensus size: 50
38532833 ATGAACATGC
* *
38532843 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGC--
1 ATATGTGGTAAAGCCGAATGGTCAATGTG-AA-ATATATATGTGATGTGCGT
* * **
38532893 ATATGTGGTAAAGCCGACTGGTCAATGTGAAATATATATATGA-GATATGT
1 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATGTGATG-TGCGT
* * *
38532943 ATATGTGGTAAAGCCGAATGG-CTAGTGTGAAATATGTAGGTGATGTGCGT
1 ATATGTGGTAAAGCCGAATGGTC-AATGTGAAATATATATGTGATGTGCGT
38532993 ATATTGTGG
1 ATA-TGTGG
38533002 CCGAACGACC
Statistics
Matches: 90, Mismatches: 13, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
48 11 0.12
49 3 0.03
50 70 0.78
51 6 0.07
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (50 bp):
ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATGTGATGTGCGT
Found at i:38533226 original size:37 final size:37
Alignment explanation
Indices: 38533127--38533234 Score: 182
Period size: 36 Copynumber: 2.9 Consensus size: 37
38533117 GGTAATATAT
*
38533127 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
38533164 TCCGGGTAAGA-CCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
38533200 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
38533235 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
36 35 0.52
37 32 0.48
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:38536564 original size:50 final size:49
Alignment explanation
Indices: 38536443--38536679 Score: 239
Period size: 50 Copynumber: 4.8 Consensus size: 49
38536433 CGAAGCTATA
* * * **
38536443 TGATACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAACAATC
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATC
* *
38536492 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATC
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AACAATC
* * *
38536542 TGATACACGTAATAGCCTGCACTTAGTACTACACACGTAATCGAAGTC-AT-
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA--CAATC
* * * *
38536592 TGAGA-ATGCATAGTAGCCTGCACTTAGTACTACACATGCGA-CAACAATC
1 TGATACA--CGTAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATC
* * *
38536641 TGGTACATGTAGTAGCTTGCACTTAGTACTACACACGTG
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
38536680 TATTCACAAT
Statistics
Matches: 154, Mismatches: 25, Indels: 19
0.78 0.13 0.10
Matches are distributed among these distances:
47 1 0.01
48 29 0.19
49 43 0.28
50 49 0.32
51 31 0.20
52 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (49 bp):
TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATC
Found at i:38551825 original size:50 final size:48
Alignment explanation
Indices: 38551719--38551994 Score: 275
Period size: 50 Copynumber: 5.6 Consensus size: 48
38551709 CTGATACGTA
* * * *
38551719 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATT-GATACACG
* * *
38551768 TAGTAGCCTACGCTTAGTACTACACACGTGACCTCACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCAT-TGATACACG
* * *
38551818 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGA-ACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-CCATTGATACACG
* * * * *
38551867 CATGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTACGCA
1 TA-GTAGCCTGCACTTAGTACTACACACGTGA-CCAA-CCATTGA-TACACG
* * * * *
38551919 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCAT-TGATACACG
38551968 TAGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
38551995 ATGTATTCAC
Statistics
Matches: 191, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
49 65 0.34
50 91 0.48
51 33 0.17
52 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.24
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATTGATACACG
Found at i:38557672 original size:48 final size:48
Alignment explanation
Indices: 38557576--38558123 Score: 847
Period size: 48 Copynumber: 11.4 Consensus size: 48
38557566 TGTAGTGAAT
* *
38557576 ATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCAGAATGGCTA
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
38557626 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* * *
38557674 CTGTGAAATATATATGAGATATGTATATGCGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* *
38557722 ATGTGAAATATGTATGAAAAATGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
38557772 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* * * * *
38557820 CTGTGAAATATATATGATATATGTATATGCGGTAAAGCTGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* * *
38557868 ATGTGAAATATGTATGAGAAATGTATATATGGGGTAAAGGCGAATGGCTA
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
38557918 ATGTGAAATATGTATGAGA-ATGTATATGTGGTAAAG-CGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
38557964 ATGTG-AA-A--TATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
38558008 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
38558056 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* *
38558104 GTGTGAAATATGTAGGAGAT
1 ATGTGAAATATGTATGAGAT
38558124 GTGTGTATAT
Statistics
Matches: 461, Mismatches: 27, Indels: 22
0.90 0.05 0.04
Matches are distributed among these distances:
42 7 0.02
43 17 0.04
44 16 0.03
45 4 0.01
46 16 0.03
47 13 0.03
48 277 0.60
49 3 0.01
50 108 0.23
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.30
Consensus pattern (48 bp):
ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
Found at i:38557842 original size:146 final size:146
Alignment explanation
Indices: 38557576--38558123 Score: 932
Period size: 146 Copynumber: 3.8 Consensus size: 146
38557566 TGTAGTGAAT
*
38557576 ATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCAGAATGGCTAATGTGAAATATGTAT
1 ATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
38557641 GAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATATATGAGATATGTATATGCGG
66 GAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATATATGAGATATGTATATGCGG
38557706 TAAAGCCGAATGGCTA
131 TAAAGCCGAATGGCTA
*
38557722 ATGTGAAATATGTATGAAAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
1 ATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
*
38557787 GAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATATATGATATATGTATATGCGG
66 GAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATATATGAGATATGTATATGCGG
*
38557852 TAAAGCTGAATGGCTA
131 TAAAGCCGAATGGCTA
* *
38557868 ATGTGAAATATGTATGAGAAATGTATATATGGGGTAAAGGCGAATGGCTAATGTGAAATATGTAT
1 ATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
* *
38557933 GAGA-ATGTATATGTGGTAAAG-CGAATGGCTAATGTG--A-A-ATATGAGATATGTATATGTGG
66 GAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATATATGAGATATGTATATGCGG
38557992 TAAAGCCGAATGGCTA
131 TAAAGCCGAATGGCTA
*
38558008 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
1 ATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
* * *
38558071 GAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
66 GAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATATATGAGAT
38558124 GTGTGTATAT
Statistics
Matches: 379, Mismatches: 17, Indels: 14
0.92 0.04 0.03
Matches are distributed among these distances:
138 42 0.11
139 17 0.04
140 70 0.18
141 1 0.00
142 2 0.01
143 1 0.00
144 21 0.06
145 17 0.04
146 208 0.55
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.30
Consensus pattern (146 bp):
ATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
GAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATATATGAGATATGTATATGCGG
TAAAGCCGAATGGCTA
Found at i:38559838 original size:120 final size:120
Alignment explanation
Indices: 38559616--38559990 Score: 537
Period size: 120 Copynumber: 3.1 Consensus size: 120
38559606 ATTGAGAGTT
* * ** * *
38559616 ATATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGTTATAGCCGGGCTAAGTCCCGAAGA
1 ATATATCCAGGCTAAGTTTCGAAGAGCATTCGTGCTGATGTTATATCCGGGCTAAGTTCCGAAGA
*
38559681 GCATTCGTGCT-G--ATGTTATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-GATG
66 GCATTCGTGCTAGTAATG-TAT--CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAG-TG
* *
38559736 TTATATCCGGGCTAAGTTTCGAAGAGCATTCGTGCTGATGTTATATCCGGGCTAAGTTCCGAAGA
1 ATATATCCAGGCTAAGTTTCGAAGAGCATTCGTGCTGATGTTATATCCGGGCTAAGTTCCGAAGA
38559801 GCATTCGTGCTAGTAATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
66 GCATTCGTGCTAGTAATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* * *
38559856 ATGTATCCAGGCTAAGTTTCGAAGAGCATTCGTGCT-A-GTAATGTATCCGGGCTAAGTTTCGAA
1 ATATATCCAGGCTAAGTTTCGAAGAGCATTCGTGCTGATGT--TATATCCGGGCTAAGTTCCGAA
*
38559919 GAGCATTCATGCTAGTAATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
64 GAGCATTCGTGCTAGTAATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
38559976 ATATATCCAGGCTAA
1 ATATATCCAGGCTAA
38559991 ACCTCGAAGG
Statistics
Matches: 235, Mismatches: 14, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
118 2 0.01
119 1 0.00
120 224 0.95
121 2 0.01
122 3 0.01
123 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (120 bp):
ATATATCCAGGCTAAGTTTCGAAGAGCATTCGTGCTGATGTTATATCCGGGCTAAGTTCCGAAGA
GCATTCGTGCTAGTAATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
Found at i:38559972 original size:40 final size:39
Alignment explanation
Indices: 38559622--38559990 Score: 453
Period size: 40 Copynumber: 9.2 Consensus size: 39
38559612 AGTTATATAG
*
38559622 CCGGGCTAAGTCCCGAAGAGCATTCGTGCT-G-ATGTTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTATG-TAT
*
38559660 AGCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-G-ATGTTAT
1 --CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTATG-TAT
* *
38559700 AGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT-TATAT
1 --CCGGGCTAAGTTCCGAAGAGCATTCGTGCT-A-GTATGTAT
* *
38559742 CCGGGCTAAGTTTCGAAGAGCATTCGTGCTGATGT-TATAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCT-A-GTATGTAT
38559782 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT-ATGTAT
38559822 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT-ATGTAT
* *
38559862 CCAGGCTAAGTTTCGAAGAGCATTCGTGCTAGTAATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT-ATGTAT
* *
38559902 CCGGGCTAAGTTTCGAAGAGCATTCATGCTAGTAATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT-ATGTAT
*
38559942 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT-ATGTAT
*
38559982 CCAGGCTAA
1 CCGGGCTAA
38559991 ACCTCGAAGG
Statistics
Matches: 307, Mismatches: 16, Indels: 12
0.92 0.05 0.04
Matches are distributed among these distances:
38 2 0.01
39 1 0.00
40 299 0.97
42 3 0.01
43 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTATGTAT
Found at i:38560103 original size:29 final size:28
Alignment explanation
Indices: 38560022--38560121 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
38560012 GAGTTATGAG
* * * *
38560022 GCACTGTGTGTGCAAGTTCTTCAACTGA
1 GCACTATGTGTGCGAGTTCTTTAATTGA
**
38560050 GCACTATGTGTGCGAGATT-GGTAATTGA
1 GCACTATGTGTGCGAG-TTCTTTAATTGA
*
38560078 GGCACTATGTGTGCGAGTTCTTTAATCGA
1 -GCACTATGTGTGCGAGTTCTTTAATTGA
*
38560107 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
38560122 AATCAGTCAG
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
28 35 0.59
29 24 0.41
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (28 bp):
GCACTATGTGTGCGAGTTCTTTAATTGA
Found at i:38563494 original size:48 final size:48
Alignment explanation
Indices: 38563348--38563903 Score: 905
Period size: 48 Copynumber: 11.4 Consensus size: 48
38563338 TGTAGTGAAT
*
38563348 ATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
* * *
38563398 ATGTGAAATATGCATGAGAAATGTATATATGTGGTAAAGCCAAATGGCTA
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
38563448 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* * *
38563496 CTGTGAAATATATATGAGATATGTATATGCGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
*
38563544 ATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
38563594 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* * *
38563642 CTGTGAAATATATATGAGATATGTATATGCGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* *
38563690 ATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCAGAATGGCTA
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
38563740 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
38563788 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
38563836 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* *
38563884 GTGTGAAATATGTAGGAGAT
1 ATGTGAAATATGTATGAGAT
38563904 GTGTGTATAT
Statistics
Matches: 477, Mismatches: 25, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
48 317 0.66
50 160 0.34
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (48 bp):
ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
Found at i:38563503 original size:98 final size:96
Alignment explanation
Indices: 38563348--38563903 Score: 905
Period size: 98 Copynumber: 5.7 Consensus size: 96
38563338 TGTAGTGAAT
* *
38563348 ATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCAT
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
* *
38563413 GAGAAATGTATATATGTGGTAAAGCCAAATGGCTA
64 GAGATATG--TATATGTGGTAAAGCCGAATGGCTA
* *
38563448 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATATATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
*
38563513 GATATGTATATGCGGTAAAGCCGAATGGCTA
66 GATATGTATATGTGGTAAAGCCGAATGGCTA
*
38563544 ATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
38563609 GAGATATGTATATGTGGTAAAGCCGAATGGCTA
64 GAGATATGTATATGTGGTAAAGCCGAATGGCTA
* * *
38563642 CTGTGAAATATATATGAGATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
* *
38563707 GAAATGTATATATGTGGTAAAGCAGAATGGCTA
66 GATATG--TATATGTGGTAAAGCCGAATGGCTA
38563740 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
38563805 GATATGTATATGTGGTAAAGCCGAATGGCTA
66 GATATGTATATGTGGTAAAGCCGAATGGCTA
* *
38563836 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
38563901 GAT
66 GAT
38563904 GTGTGTATAT
Statistics
Matches: 428, Mismatches: 24, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
96 181 0.42
98 225 0.53
100 22 0.05
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (96 bp):
ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
GATATGTATATGTGGTAAAGCCGAATGGCTA
Found at i:38563615 original size:146 final size:146
Alignment explanation
Indices: 38563349--38563903 Score: 970
Period size: 146 Copynumber: 3.8 Consensus size: 146
38563339 GTAGTGAATA
* * * *
38563349 TGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCATG
1 TGTGAAATATATATGAGATATG--TATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
38563414 AGAAATGTATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGATATGTATATGTG
64 AGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTG
38563479 GTAAAGCCGAATGGCTAC
129 GTAAAGCCGAATGGCTAC
38563497 TGTGAAATATATATGAGATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 TGTGAAATATATATGAGATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
38563562 AAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
66 AAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
38563627 AAAGCCGAATGGCTAC
131 AAAGCCGAATGGCTAC
38563643 TGTGAAATATATATGAGATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 TGTGAAATATATATGAGATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
38563708 AAATGTATATATGTGGTAAAGCAGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
66 AAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
*
38563773 AAAGCCGAATGGCTAA
131 AAAGCCGAATGGCTAC
* *
38563789 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 TGTGAAATATATATGAGATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
38563854 ATATG--TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
66 AAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
38563904 GTGTGTATAT
Statistics
Matches: 394, Mismatches: 13, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
144 42 0.11
146 332 0.84
148 20 0.05
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (146 bp):
TGTGAAATATATATGAGATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
AAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAC
Found at i:38567060 original size:44 final size:43
Alignment explanation
Indices: 38566988--38567193 Score: 144
Period size: 43 Copynumber: 4.9 Consensus size: 43
38566978 GATTACGTTA
*
38566988 TCTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACT
1 TCTGATTTCGTGTAAGACCACGTCTGGGACGTCGGCATCGACT
* * *
38567031 TCTGTTTTACGTGTAAGACCATGTGTGGGACGTCGGCATC-A-T
1 TCTGATTT-CGTGTAAGACCACGTCTGGGACGTCGGCATCGACT
* * * * *
38567073 ATCTAATTTC---TAAGACCATGTGTGGGACATCGGAATC-A-T
1 -TCTGATTTCGTGTAAGACCACGTCTGGGACGTCGGCATCGACT
* * *
38567112 ATCTGATTTCGTGTAAGACC-CTATCTGGGATAGT-GGCATTGA-T
1 -TCTGATTTCGTGTAAGACCAC-GTCTGGGA-CGTCGGCATCGACT
* * * *
38567155 GTTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 -TCTGATTTCGTGTAAGACCACGTCTGGGACGTCGGCAT
38567194 TGTATATGTT
Statistics
Matches: 131, Mismatches: 22, Indels: 20
0.76 0.13 0.12
Matches are distributed among these distances:
39 36 0.27
42 21 0.16
43 45 0.34
44 29 0.22
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (43 bp):
TCTGATTTCGTGTAAGACCACGTCTGGGACGTCGGCATCGACT
Found at i:38567098 original size:39 final size:39
Alignment explanation
Indices: 38567044--38567121 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
38567034 GTTTTACGTG
* *
38567044 TAAGACCATGTGTGGGACGTCGGCATCATATCTAATTTC
1 TAAGACCATGTGTGGGACATCGGAATCATATCTAATTTC
*
38567083 TAAGACCATGTGTGGGACATCGGAATCATATCTGATTTC
1 TAAGACCATGTGTGGGACATCGGAATCATATCTAATTTC
38567122 GTGTAAGACC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (39 bp):
TAAGACCATGTGTGGGACATCGGAATCATATCTAATTTC
Found at i:38569446 original size:30 final size:30
Alignment explanation
Indices: 38569410--38569470 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
38569400 CATTTAATAC
*
38569410 AAACTTTGGAAAAATTACATTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
38569440 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
38569470 A
1 A
38569471 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Done.