Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 153 of 211
Found at i:45301231 original size:56 final size:56
Alignment explanation
Indices: 45301156--45301407 Score: 434
Period size: 56 Copynumber: 4.5 Consensus size: 56
45301146 CTTACATAAA
* *
45301156 TATATATCATATCAAAACTTACATAACTTACATAA-TTCACATAACTTAATAACTTT
1 TATATATCATATCATAACTTACATAACTCACATAACTT-ACATAACTTAATAACTTT
*
45301212 TATATATCATATCATAACTTACATAACTCACATAATTTACATAACTTAATAACTTT
1 TATATATCATATCATAACTTACATAACTCACATAACTTACATAACTTAATAACTTT
* *
45301268 TATATATCATATCATAACTTACATAACTCACATAACTTACATAAATTAATAACTTA
1 TATATATCATATCATAACTTACATAACTCACATAACTTACATAACTTAATAACTTT
*
45301324 TATATATCATATCATAACTTACCTAACTCACATAACTTACATAACTTAATAACTTT
1 TATATATCATATCATAACTTACATAACTCACATAACTTACATAACTTAATAACTTT
45301380 TATATATCATATCATAACTTACATAACT
1 TATATATCATATCATAACTTACATAACT
45301408 TGCATGATAT
Statistics
Matches: 186, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
56 184 0.99
57 2 0.01
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (56 bp):
TATATATCATATCATAACTTACATAACTCACATAACTTACATAACTTAATAACTTT
Found at i:45307228 original size:23 final size:23
Alignment explanation
Indices: 45307198--45307243 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
45307188 GCGTTGCTAA
*
45307198 AGGTCATGTTCTTTAGTGGCGTT
1 AGGTCATGTTCTTTAGTAGCGTT
45307221 AGGTCATGTTCTTTAGTAGCGTT
1 AGGTCATGTTCTTTAGTAGCGTT
45307244 TGTGATACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.15, C:0.13, G:0.28, T:0.43
Consensus pattern (23 bp):
AGGTCATGTTCTTTAGTAGCGTT
Found at i:45307328 original size:43 final size:43
Alignment explanation
Indices: 45307280--45307428 Score: 149
Period size: 43 Copynumber: 3.5 Consensus size: 43
45307270 TAAAACCCCG
* * *
45307280 CTAAAGGTCATGTTCTTTATCAGCGTTTGTGACAAAAGCGCCA
1 CTAAAGGTCATGATCTTTAGCAGCGTTTGTGATAAAAGCGCCA
** * * * * ** *
45307323 CTAAAGAACATGACCTTTAGCAGTGCTTCTCTTTAAA-CGCCA
1 CTAAAGGTCATGATCTTTAGCAGCGTTTGTGATAAAAGCGCCA
45307365 CTAAAGGTCATGATCTTTAGCAGCGTTTGTGATAAAAGCGCC-
1 CTAAAGGTCATGATCTTTAGCAGCGTTTGTGATAAAAGCGCCA
* *
45307407 CTTAGAGGTCATGTTCTTTAGC
1 C-TAAAGGTCATGATCTTTAGC
45307429 GGCATTTATG
Statistics
Matches: 81, Mismatches: 23, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
42 34 0.42
43 47 0.58
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (43 bp):
CTAAAGGTCATGATCTTTAGCAGCGTTTGTGATAAAAGCGCCA
Found at i:45314119 original size:39 final size:39
Alignment explanation
Indices: 45314065--45314147 Score: 148
Period size: 39 Copynumber: 2.1 Consensus size: 39
45314055 CGATTTATTA
*
45314065 TGAGTAAATCATGTTGCATGAATCCTTCTCCAATTAATT
1 TGAGTAAATCATGTTGCATGAATCATTCTCCAATTAATT
*
45314104 TGAGTAACTCATGTTGCATGAATCATTCTCCAATTAATT
1 TGAGTAAATCATGTTGCATGAATCATTCTCCAATTAATT
45314143 TGAGT
1 TGAGT
45314148 CGATTTAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (39 bp):
TGAGTAAATCATGTTGCATGAATCATTCTCCAATTAATT
Found at i:45315107 original size:21 final size:20
Alignment explanation
Indices: 45315062--45315137 Score: 109
Period size: 21 Copynumber: 3.8 Consensus size: 20
45315052 ATCTTCAAGG
*
45315062 ATATGTAATCTTAGATATG-
1 ATATGCAATCTTAGATATGA
45315081 ATATGCAATCTTAGATATGAA
1 ATATGCAATCTTAGATATG-A
45315102 ATATGCAATCTTAGATATGA
1 ATATGCAATCTTAGATATGA
*
45315122 TTTATGCAATCTTAGA
1 -ATATGCAATCTTAGA
45315138 AGATATGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 18 0.35
20 1 0.02
21 33 0.63
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.38
Consensus pattern (20 bp):
ATATGCAATCTTAGATATGA
Found at i:45315484 original size:3 final size:3
Alignment explanation
Indices: 45315476--45315520 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
45315466 TGTTATTAAG
* * *
45315476 TTA TTA TTA TTG TTA TTA TTA TTA TCA TTA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45315521 CTATATATAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:45315490 original size:20 final size:20
Alignment explanation
Indices: 45315434--45315493 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
45315424 TTTTTTTTAT
* *
45315434 TTATTATTTATTTTTATTAAAT
1 TTATTA-TTATTGTTATT-AAG
*
45315456 TTGATT-TTCTTGTTATTAAG
1 TT-ATTATTATTGTTATTAAG
45315476 TTATTATTATTGTTATTA
1 TTATTATTATTGTTATTA
45315494 TTATTATCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 3 0.09
20 15 0.47
21 9 0.28
22 2 0.06
23 3 0.09
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.65
Consensus pattern (20 bp):
TTATTATTATTGTTATTAAG
Found at i:45315674 original size:17 final size:17
Alignment explanation
Indices: 45315643--45315686 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
45315633 CATAACTTTT
*
45315643 ATATACA-TGTATATAC
1 ATATACATTTTATATAC
*
45315659 ATTTACATTTTATATAC
1 ATATACATTTTATATAC
45315676 ATATACATTTT
1 ATATACATTTT
45315687 TTATTTCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (17 bp):
ATATACATTTTATATAC
Found at i:45315883 original size:30 final size:31
Alignment explanation
Indices: 45315849--45315906 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
45315839 TATTTGTTTA
*
45315849 TATATATATGTA-ATTATCTTTTTTATAATC
1 TATATATATGTATATAATCTTTTTTATAATC
*
45315879 TATATATATGTATATAATTTTTTTTATA
1 TATATATATGTATATAATCTTTTTTATA
45315907 TATGTACATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (31 bp):
TATATATATGTATATAATCTTTTTTATAATC
Found at i:45315899 original size:28 final size:27
Alignment explanation
Indices: 45315847--45315926 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 27
45315837 ATTATTTGTT
*
45315847 TATATATATATGTAATTATCTTTTTTATAA
1 TATATATATATGT-A-TAT-ATTTTTATAA
* * *
45315877 TCTATATATATGTATATAATTTTTTTTA
1 TATATATATATGTATAT-ATTTTTATAA
* *
45315905 TATATGTACATGTATATATTTT
1 TATATATATATGTATATATTTT
45315927 GTACCATTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 5 0.12
28 24 0.57
29 1 0.02
30 12 0.29
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (27 bp):
TATATATATATGTATATATTTTTATAA
Found at i:45320412 original size:88 final size:88
Alignment explanation
Indices: 45320248--45320638 Score: 557
Period size: 88 Copynumber: 4.4 Consensus size: 88
45320238 GTGAAGATAA
* * * *
45320248 CAGATCTTACCTTCCTGCACCGACATCGAAGCAGATCGAAGACACCAACCTTGTCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
*
45320313 GTAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * ** * * *
45320336 TAGATATTGCCTTCCTGCACTAACAGCGAAGCAGATCGAAGACACTAGCTTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
*
45320401 GCAGCGTAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * *
45320424 TAGATCTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
* *
45320489 GCAGCGAAGCAGGTTAAAAATAC
66 GCAGCGGAGCAGGTTAAAAATAG
* * *
45320512 CAGATCTTGCCTTCCTGCACCGACAGCAAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
* *
45320577 GTAGCGGAACAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* *
45320600 CAGATCTTGCCTTCCTGCACCGACAGTGAAGCAAATCGA
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
45320639 TGACCCCAAC
Statistics
Matches: 266, Mismatches: 37, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 266 1.00
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.22
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
GCAGCGGAGCAGGTTAAAAATAG
Found at i:45320434 original size:44 final size:44
Alignment explanation
Indices: 45320297--45320528 Score: 117
Period size: 44 Copynumber: 5.3 Consensus size: 44
45320287 AGACACCAAC
* * * *
45320297 CTTGTCTCCCTAGGTTGTAGCGGAGCAGGTTAAAAATAGTAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGTAGAT
* * ** ** * ** * * * *
45320341 ATTGCCTTCCTGCACTAACAGCGAAGCAGATCGAAGACACTAGCT
1 CTTGCCTCCCTG-GGTTGCAGCGAAGCAGGTTAAAAATAGTAGAT
*
45320386 -TTGCCTCCCTGGGTTGCAGCGTAGCAGGTTAAAAATAGTAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGTAGAT
* **** * * ** * ** *
45320429 CTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGATACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGAAGCAGGTTAAAAATAGTAGAT
* **
45320473 CTTGCCTCCCTAGGTTGCAGCGAAGCAGGTTAAAAATACCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGTAGAT
*
45320517 CTTGCCTTCCTG
1 CTTGCCTCCCTG
45320529 CACCGACAGC
Statistics
Matches: 126, Mismatches: 58, Indels: 8
0.66 0.30 0.04
Matches are distributed among these distances:
43 40 0.32
44 50 0.40
45 36 0.29
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.25
Consensus pattern (44 bp):
CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGTAGAT
Found at i:45320497 original size:43 final size:42
Alignment explanation
Indices: 45320448--45320582 Score: 108
Period size: 43 Copynumber: 3.1 Consensus size: 42
45320438 CTGCACCGAT
45320448 AGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGC
1 AGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCT-GGTTGC
* ** * * * ***
45320491 AGCGAAGCAGGTTAAAAATACCAGATCTTGCCTTCCTGCACCGAC
1 AGCGAAGCAGATCGAAGATACCAG-CCTTGCCTCCCTG-GTTG-C
* * * *
45320536 AGCAAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGT
1 AGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCT-GGTTGC
45320579 AGCG
1 AGCG
45320583 GAACAGGTTA
Statistics
Matches: 65, Mismatches: 23, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 24 0.37
44 22 0.34
45 19 0.29
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.19
Consensus pattern (42 bp):
AGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGTTGC
Found at i:45320565 original size:44 final size:44
Alignment explanation
Indices: 45320429--45320572 Score: 130
Period size: 44 Copynumber: 3.3 Consensus size: 44
45320419 AATAGTAGAT
* *
45320429 CTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGATACCAGC
1 CTTGCCTCCCTGCACCGACAGCGAAGCAGATCGAAGATACCAGC
*** * ** * *
45320473 CTTGCCTCCCTAG-GTTG-CAGCGAAGCAGGTTAAAAATACCAGAT
1 CTTGCCTCCCT-GCACCGACAGCGAAGCAGATCGAAGATACCAG-C
* * * *
45320517 CTTGCCTTCCTGCACCGACAGCAAAGTAGATCGAAGACACCAGC
1 CTTGCCTCCCTGCACCGACAGCGAAGCAGATCGAAGATACCAGC
45320561 CTTGCCTCCCTG
1 CTTGCCTCCCTG
45320573 GGTTGTAGCG
Statistics
Matches: 73, Mismatches: 23, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
43 21 0.29
44 33 0.45
45 19 0.26
ACGTcount: A:0.26, C:0.32, G:0.22, T:0.20
Consensus pattern (44 bp):
CTTGCCTCCCTGCACCGACAGCGAAGCAGATCGAAGATACCAGC
Found at i:45321187 original size:44 final size:44
Alignment explanation
Indices: 45321090--45321211 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 44
45321080 GAAGATGGCG
* * * *
45321090 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCAAAT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAACCAAAT
* *
45321134 AAT-TCTATCTCCCTGAAGTTGCAGTAGAGTGGATTAAAACCACA-
1 AATCT-TATCTCCCTGAAGTTGCAGTAGAGTAGATT-AAACCAAAT
* * *
45321178 GATCTTATCTCTCTGAAGTTGAAGTAGAGTAGAT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGTAGAT
45321212 CACATCGGGT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
43 1 0.02
44 57 0.88
45 7 0.11
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAACCAAAT
Found at i:45321679 original size:19 final size:19
Alignment explanation
Indices: 45321644--45321762 Score: 121
Period size: 19 Copynumber: 5.8 Consensus size: 19
45321634 AGTATTCAAG
*
45321644 GATATGTAATATTAGATAT
1 GATATGTAATCTTAGATAT
* *
45321663 GATCTGCAATCTTAGATAT
1 GATATGTAATCTTAGATAT
45321682 GATATGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
45321701 GATATATGTAATCTTAGATAT
1 G--ATATGTAATCTTAGATAT
*
45321722 GATTTATGCAATCTTAGAAGATAT
1 GA--TATGTAATCTT---AGATAT
*
45321746 GATTCTGTAATCTTAGA
1 GA-TATGTAATCTTAGA
45321763 GATTTAATTT
Statistics
Matches: 85, Mismatches: 8, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
19 35 0.41
20 3 0.04
21 29 0.34
23 10 0.12
24 8 0.09
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (19 bp):
GATATGTAATCTTAGATAT
Found at i:45321761 original size:23 final size:24
Alignment explanation
Indices: 45321695--45321762 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 24
45321685 ATGTAATCTT
* *
45321695 AGATATGATATATGTAATCTT---
1 AGATATGATTTATGCAATCTTAGA
45321716 AGATATGATTTATGCAATCTTAGA
1 AGATATGATTTATGCAATCTTAGA
* *
45321740 AGATATGA-TTCTGTAATCTTAGA
1 AGATATGATTTATGCAATCTTAGA
45321763 GATTTAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.47
23 13 0.32
24 8 0.20
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (24 bp):
AGATATGATTTATGCAATCTTAGA
Found at i:45322093 original size:12 final size:12
Alignment explanation
Indices: 45322066--45322098 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
45322056 TTTGATTTTC
45322066 TTATTATTA-AG
1 TTATTATTATAG
*
45322077 TTATTATTATTG
1 TTATTATTATAG
45322089 TTATTATTAT
1 TTATTATTAT
45322099 CATCATCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (12 bp):
TTATTATTATAG
Found at i:45322278 original size:17 final size:17
Alignment explanation
Indices: 45322247--45322290 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
45322237 CATAACTTTT
*
45322247 ATATACA-TATATATAC
1 ATATACATTTTATATAC
*
45322263 ATTTACATTTTATATAC
1 ATATACATTTTATATAC
45322280 ATATACATTTT
1 ATATACATTTT
45322291 TTATTTCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATACATTTTATATAC
Found at i:45322509 original size:30 final size:30
Alignment explanation
Indices: 45322454--45322510 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
45322444 TATTTGTTTT
* *
45322454 TATATATATGTAATTATCTTTTTTATAATC
1 TATATATATGTAATAATCTTCTTTATAATC
45322484 TATATATATGTATATAAT-TTCTTTATA
1 TATATATATGTA-ATAATCTTCTTTATA
45322511 TATGTACATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (30 bp):
TATATATATGTAATAATCTTCTTTATAATC
Found at i:45324581 original size:70 final size:70
Alignment explanation
Indices: 45324483--45325403 Score: 794
Period size: 70 Copynumber: 13.2 Consensus size: 70
45324473 ATTAAACTAA
* * * * * * *
45324483 CGAGCCTTTAGAATCCAGCTGGGAGCATAAGCTCGTGCTAACTGTTTTGGAGGCTCTGGTATTGA
1 CGAGCCTTAAGATTCCAGTTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTCTGGTATTGA
*
45324548 ACTTG
66 ACCTG
* * * * * *
45324553 TGAGCCTTTAGATTCTAGTTGGGTGCATAGGCTCGCGCTAACTATTTTGGAGGCTGTGGTATTGA
1 CGAGCCTTAAGATTCCAGTTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTCTGGTATTGA
*
45324618 CCCTG
66 ACCTG
* * * * *
45324623 CGAGGCTTAAGATCCCAGTTGGGAGCGTAGGCTCGCCCTAACTATTTTAGAGGTTGC-GGTATTG
1 CGAGCCTTAAGATTCCAGTTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCT-CTGGTATTG
* *
45324687 AACGTA
65 AACCTG
* * * * * * * *
45324693 CGAGCCTTAAGATTCTAGCTAGGAGCGTAAGCTCGAGCGAATTATTTTGGAGGCTGC-GTTATTG
1 CGAGCCTTAAGATTCCAGTTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCT-CTGGTATTG
*
45324757 AACTTG
65 AACCTG
* * * * * ** ** *
45324763 CGAGACTTAAGATTCCAACTT-GAAGCGTAAGCTTGCGCTAGTTATTTTATAGGCTGC-AGTATT
1 CGAGCCTTAAGATTCC-AGTTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCT-CTGGTATT
* *
45324826 AAACCTA
64 GAACCTG
* * * * * * *
45324833 CGAGCCTTAAGATTCCAGATAGGAGCATAGGCCCGCGCTAACTATTTTAGAGGCTATGATATTGA
1 CGAGCCTTAAGATTCCAGTTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTCTGGTATTGA
45324898 ACCTG
66 ACCTG
* * * * * * * * *
45324903 CGAGCCTTAAGATTACAGCTAGGAGTGTAGGCTTGCACTAAATCTTTTGGAGGCTGTGGTATTGA
1 CGAGCCTTAAGATTCCAGTTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTCTGGTATTGA
45324968 ACCTG
66 ACCTG
* * * * * * *
45324973 TGAACCTTAAGATTCCAGTTGGGAGCGTAAGCTCGCGTTAACTATTTTTGAGGTTAC-GATATTG
1 CGAGCCTTAAGATTCCAGTTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCT-CTGGTATTG
*
45325037 AACTTG
65 AACCTG
* * * * *
45325043 CGAGCCTTAAGATTCTAGTTGGGAGCATAGGCTTGCGCTAACTATTTTGGAGGTTGTGGTATTGA
1 CGAGCCTTAAGATTCCAGTTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTCTGGTATTGA
*
45325108 ACCTA
66 ACCTG
* * ** * * * *
45325113 CAAACC-TAAGATTAAAGCTGGGAGCGTAGGCTCGCGTTAACTATTTTGGAGGCTGTGATATTGA
1 CGAGCCTTAAGATTCCAGTTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTCTGGTATTGA
45325177 ACCTG
66 ACCTG
* ** * * * * * *
45325182 TGAGCCTTAAGATTAGAGCTGGGAGCGTAGGCTCTCGTTAACTATTTTGGAGGTTATGATATTGA
1 CGAGCCTTAAGATTCCAGTTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTCTGGTATTGA
45325247 ACCTG
66 ACCTG
* * * * **
45325252 CGAGCCTTAAGATTACAGTTGGGAGTGTAGACTCGCGCTAACTATTTTGAAGGCTGGGGTATTGA
1 CGAGCCTTAAGATTCCAGTTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTCTGGTATTGA
*
45325317 ACTTG
66 ACCTG
** * * * * *
45325322 CGAGCCTTAAGATTGTAGCTGGGAGCATAAGCTCGCACTAACTATTTTGGAGGCTGC-AGTATTG
1 CGAGCCTTAAGATTCCAGTTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCT-CTGGTATTG
45325386 AACCTG
65 AACCTG
*
45325392 CAAGCCTTAAGA
1 CGAGCCTTAAGA
45325404 ATGCCCTGTC
Statistics
Matches: 686, Mismatches: 157, Indels: 16
0.80 0.18 0.02
Matches are distributed among these distances:
69 59 0.09
70 625 0.91
71 2 0.00
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (70 bp):
CGAGCCTTAAGATTCCAGTTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTCTGGTATTGA
ACCTG
Found at i:45331147 original size:29 final size:29
Alignment explanation
Indices: 45331114--45331169 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
45331104 TCAAAAAAAA
45331114 TAAAATGGATGTTATATTCGACAAGAAAC
1 TAAAATGGATGTTATATTCGACAAGAAAC
*
45331143 TAAAATGGATGTTTTATTCGACAAGAA
1 TAAAATGGATGTTATATTCGACAAGAA
45331170 CTAGGAATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (29 bp):
TAAAATGGATGTTATATTCGACAAGAAAC
Found at i:45341292 original size:205 final size:205
Alignment explanation
Indices: 45340932--45341319 Score: 731
Period size: 205 Copynumber: 1.9 Consensus size: 205
45340922 TTAAACACAA
45340932 CACAATACCACAATACTCATATATATATACTAACCACAGAGAGTTTAAGTTTAGAAACTCACCAG
1 CACAATACCACAATACTCATATATATATACTAACCACAGAGAGTTTAAGTTTAGAAACTCACCAG
45340997 CAAAATACCTAAAAGCTAGTACCGATTACACCTGCTTAGACTTTCGTATCACCTGAGCCTCCTCC
66 CAAAATACCTAAAAGCTAGTACCGATTACACCTGCTTAGACTTTCGTATCACCTGAGCCTCCTCC
45341062 TTCTCAGTTTAGTAAATCCTCAATCACTTAAGCTGATACATTATTTTCTCCCCAAAATAATGTAT
131 TTCTCAGTTTAGTAAATCCTCAATCACTTAAGCTGATACATTATTTTCTCCCCAAAATAATGTAT
45341127 ATATACTAAC
196 ATATACTAAC
* * *
45341137 CACAATAGCACAATACTCATATATATATACTAACCATAGAGAGTTTGAGTTTAGAAACTCACCAG
1 CACAATACCACAATACTCATATATATATACTAACCACAGAGAGTTTAAGTTTAGAAACTCACCAG
45341202 CAAAATACCTAAAAGCTAGTACCGATTACACCTGCTTAGACTTTCGTATCACCTGAGCCTCCTCC
66 CAAAATACCTAAAAGCTAGTACCGATTACACCTGCTTAGACTTTCGTATCACCTGAGCCTCCTCC
**
45341267 TTCTCAGTTTAGTAAATTGTCAATCACTTAAGCTGATACATTATTTTCTCCCC
131 TTCTCAGTTTAGTAAATCCTCAATCACTTAAGCTGATACATTATTTTCTCCCC
45341320 TTATGCAGAT
Statistics
Matches: 178, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
205 178 1.00
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.30
Consensus pattern (205 bp):
CACAATACCACAATACTCATATATATATACTAACCACAGAGAGTTTAAGTTTAGAAACTCACCAG
CAAAATACCTAAAAGCTAGTACCGATTACACCTGCTTAGACTTTCGTATCACCTGAGCCTCCTCC
TTCTCAGTTTAGTAAATCCTCAATCACTTAAGCTGATACATTATTTTCTCCCCAAAATAATGTAT
ATATACTAAC
Found at i:45343630 original size:44 final size:43
Alignment explanation
Indices: 45343528--45343642 Score: 151
Period size: 44 Copynumber: 2.7 Consensus size: 43
45343518 AGCTCATACA
* * *
45343528 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATTACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACAAATCG
* **
45343571 ATGCC-ACAATCCCAGACAAGGTCTTACACGTAAATCACAAATCG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACACGT-AATCACAAATCG
45343615 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
45343643 TGATAACAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 2 0.03
43 24 0.40
44 32 0.53
45 2 0.03
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACAAATCG
Found at i:45344407 original size:17 final size:17
Alignment explanation
Indices: 45344374--45344407 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
45344364 CAAAGCAACG
45344374 ATTACAAAAACGAAAAA
1 ATTACAAAAACGAAAAA
*
45344391 ATTATCAAAAACCAAAA
1 ATTA-CAAAAACGAAAA
45344408 TAAAAACTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.68, C:0.15, G:0.03, T:0.15
Consensus pattern (17 bp):
ATTACAAAAACGAAAAA
Found at i:45351574 original size:25 final size:23
Alignment explanation
Indices: 45351516--45351574 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 23
45351506 TTAAATAATG
*
45351516 TAATTAATATTT--TTTATATATG
1 TAATT-ATATTTAATTTATATATA
*
45351538 TAATTATTTTTAATTTATATATA
1 TAATTATATTTAATTTATATATA
45351561 TACATGTATATTTA
1 TA-AT-TATATTTA
45351575 TTGTTTTCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 5 0.17
22 5 0.17
23 11 0.37
24 2 0.07
25 7 0.23
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (23 bp):
TAATTATATTTAATTTATATATA
Found at i:45352159 original size:15 final size:15
Alignment explanation
Indices: 45352139--45352172 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
45352129 TTTCTATGCC
45352139 ATTGTTGTATTTATT
1 ATTGTTGTATTTATT
*
45352154 ATTGTTGTATTTGTT
1 ATTGTTGTATTTATT
45352169 ATTG
1 ATTG
45352173 CGACATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.65
Consensus pattern (15 bp):
ATTGTTGTATTTATT
Found at i:45364056 original size:45 final size:44
Alignment explanation
Indices: 45363996--45364117 Score: 129
Period size: 43 Copynumber: 2.8 Consensus size: 44
45363986 TATCTCCCTG
* *
45363996 AGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCATA
1 AGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTCCATA
*** * * * * *
45364040 TATTGGCAGTGAAGTAGATCGAAGATACCAG-CCTTGTCTCCATA
1 -AGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTCCATA
*
45364084 AGCAGTAGTGGAGTAGGTTGAAGATAGCAGATCT
1 AGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCT
45364118 CACCTTTCTG
Statistics
Matches: 57, Mismatches: 19, Indels: 3
0.72 0.24 0.04
Matches are distributed among these distances:
43 22 0.39
44 13 0.23
45 22 0.39
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (44 bp):
AGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTCCATA
Found at i:45364107 original size:43 final size:43
Alignment explanation
Indices: 45363980--45364109 Score: 116
Period size: 43 Copynumber: 3.0 Consensus size: 43
45363970 GGTGAAACTT
* * * * *
45363980 CAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAG
1 CAGCCTTGTCTCCATAAGCAGCAGTGGAGTAGGTTGAAGATAC
* * *** * * *
45364023 CAGATCTTGTCTTCATATATTGGCAGTGAAGTAGATCGAAGATAC
1 CAG-CCTTGTCTCCATA-AGCAGCAGTGGAGTAGGTTGAAGATAC
*
45364068 CAGCCTTGTCTCCATAAGCAGTAGTGGAGTAGGTTGAAGATA
1 CAGCCTTGTCTCCATAAGCAGCAGTGGAGTAGGTTGAAGATA
45364110 GCAGATCTCA
Statistics
Matches: 63, Mismatches: 22, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
43 22 0.35
44 19 0.30
45 22 0.35
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (43 bp):
CAGCCTTGTCTCCATAAGCAGCAGTGGAGTAGGTTGAAGATAC
Found at i:45364137 original size:88 final size:88
Alignment explanation
Indices: 45363980--45364152 Score: 204
Period size: 88 Copynumber: 2.0 Consensus size: 88
45363970 GGTGAAACTT
* * *** * *
45363980 CAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCATATATTG
1 CAGCCTTATCTCCATAAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTCACCTTCATATACTA
**
45364045 GCAGTGAAGTAGATCGAAGATAC
66 GCAGTGAAACAGATCGAAGATAC
* * * * *
45364068 CAGCCTTGTCTCCATAAGCAGTAGTGGAGTAGGTTGAAGATAGCAGATCTCACCTTTC-TGTGCT
1 CAGCCTTATCTCCATAAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTCACC-TTCATATACT
45364132 AGCAGTGAAACAGATCGAAGA
65 AGCAGTGAAACAGATCGAAGA
45364153 CATTAGTCTT
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
88 67 0.96
89 3 0.04
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (88 bp):
CAGCCTTATCTCCATAAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTCACCTTCATATACTA
GCAGTGAAACAGATCGAAGATAC
Found at i:45364566 original size:44 final size:44
Alignment explanation
Indices: 45364469--45364629 Score: 122
Period size: 44 Copynumber: 3.8 Consensus size: 44
45364459 AAAGGTGGCG
*
45364469 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAAT
* * *
45364513 AATCCTATCTCCCTAAAGTTACAGTGGAGC-GTATTGAAA-TCACA-
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAG-ATT-AAAGCCA-AT
* * * * *
45364557 GATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATT---G-CATCT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCA-AT
* **
45364597 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGA
45364630 CTCAAGAAAG
Statistics
Matches: 93, Mismatches: 17, Indels: 17
0.73 0.13 0.13
Matches are distributed among these distances:
39 2 0.02
40 20 0.22
41 7 0.08
43 8 0.09
44 52 0.56
45 4 0.04
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAAT
Found at i:45366433 original size:18 final size:20
Alignment explanation
Indices: 45366389--45366432 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
45366379 TTTTTTTTAT
45366389 TTTTTTAAATAATGTAATTA
1 TTTTTTAAATAATGTAATTA
*
45366409 TTTTTTATAT-ATGTAATTA
1 TTTTTTAAATAATGTAATTA
45366428 TTTTT
1 TTTTT
45366433 AATTTATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTTTTAAATAATGTAATTA
Found at i:45366458 original size:25 final size:23
Alignment explanation
Indices: 45366412--45366458 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
45366402 GTAATTATTT
* *
45366412 TTTATATATGTAATTATTTTTAA
1 TTTATATATATAATTATATTTAA
45366435 TTTATATATATACATGTATATTTA
1 TTTATATATATA-AT-TATATTTA
45366459 TTGTTTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 11 0.55
24 2 0.10
25 7 0.35
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (23 bp):
TTTATATATATAATTATATTTAA
Found at i:45369073 original size:41 final size:40
Alignment explanation
Indices: 45368962--45369074 Score: 144
Period size: 41 Copynumber: 2.9 Consensus size: 40
45368952 TACTTATCCC
*
45368962 TCAAAAGTTTA-ATTAAATAATGTTATTAACAA-AAAAAA
1 TCAAAATTTTAGATTAAATAATGTTATTAACAATAAAAAA
*
45369000 TCAAAATTTTAGATTAAATAA-GTTACTAACAATACAAAAA
1 TCAAAATTTTAGATTAAATAATGTTATTAACAATA-AAAAA
* *
45369040 TCCAAAATTTTAGCTTAAA-AATATTATTAACAATA
1 T-CAAAATTTTAGATTAAATAATGTTATTAACAATA
45369075 GAATATTTAC
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
38 20 0.31
39 10 0.15
40 8 0.12
41 27 0.42
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (40 bp):
TCAAAATTTTAGATTAAATAATGTTATTAACAATAAAAAA
Found at i:45376240 original size:14 final size:15
Alignment explanation
Indices: 45376214--45376246 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
45376204 TGCCAAACAG
45376214 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
45376229 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
45376243 GGAA
1 GGAA
45376247 AAGCTTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:45376348 original size:6 final size:6
Alignment explanation
Indices: 45376325--45376411 Score: 83
Period size: 6 Copynumber: 14.7 Consensus size: 6
45376315 AATATTTCAT
* *
45376325 AAAAGA AAAA-A AGGAAGA AAAAGA AAAAGAA AAAAGA GAAAAGA AAAGGA
1 AAAAGA AAAAGA A-AAAGA AAAAGA AAAAG-A AAAAGA -AAAAGA AAAAGA
* *
45376375 AAAAG- AAAA-A AAATGG AAAAG- AAAAGA AAAAGA AAAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAA
45376412 AAGGAGAGGC
Statistics
Matches: 67, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
5 14 0.21
6 39 0.58
7 14 0.21
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (6 bp):
AAAAGA
Found at i:45376413 original size:26 final size:25
Alignment explanation
Indices: 45376325--45376416 Score: 125
Period size: 28 Copynumber: 3.6 Consensus size: 25
45376315 AATATTTCAT
*
45376325 AAAAGAAAAAAAGGAAGA-AAAAGA
1 AAAAGAAAAAAAGGAAAAGAAAAGA
45376349 AAAAG-AAAAAAGAGAAAAGAAAAGGA
1 AAAAGAAAAAAAG-GAAAAGAAAA-GA
45376375 AAAAGAAAAAAAATGGAAAAGAAAAGA
1 AAAAG-AAAAAAA-GGAAAAGAAAAGA
45376402 AAAAGAAAAAAAGGA
1 AAAAGAAAAAAAGGA
45376417 GAGGCCACGG
Statistics
Matches: 61, Mismatches: 1, Indels: 11
0.84 0.01 0.15
Matches are distributed among these distances:
23 7 0.11
24 9 0.15
25 7 0.11
26 14 0.23
27 7 0.11
28 16 0.26
29 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (25 bp):
AAAAGAAAAAAAGGAAAAGAAAAGA
Found at i:45377566 original size:44 final size:44
Alignment explanation
Indices: 45377490--45377653 Score: 150
Period size: 44 Copynumber: 3.7 Consensus size: 44
45377480 GTTATCTTGG
* *
45377490 CAAATCTTGTCTCCCTGAAGTTGTAGTAGAGTAGATT-AATGCCA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAA-GCCA
* * * **
45377534 CAAACCTTATCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCCA
* * * * ***
45377578 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATAA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTG-AAGCCA
* *
45377623 GCAAATCTTATTTCCCTGAAGTTGCAGTGGA
1 -CAAATCTTATCTCCCTGAAGTTGTAGTGGA
45377654 ACAGATTAAA
Statistics
Matches: 99, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
44 65 0.66
45 6 0.06
46 28 0.28
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCCA
Found at i:45377713 original size:235 final size:235
Alignment explanation
Indices: 45377300--45377798 Score: 773
Period size: 235 Copynumber: 2.1 Consensus size: 235
45377290 AGATCATAGG
* * *
45377300 AAACCTTATCTCCTTGAAGTTGCAGTGGAGCAAGTTGAAGTTACTAGTCTTATCTCCCTAAAGTT
1 AAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAGTTGAAGTTACAAGTCTTATCTCCCTAAAGTT
* * *
45377365 ACAGTGGAGCAGATTGAAAATAAGCGAATCTTATTTCTCTGAAGTTGCAGTGGAACAGATTAAAG
66 ACAGTGGAGCAGACTGAAAATAAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAG
* * * *
45377430 TTATAAGTCAAAAATCCTTTACCCCTGAAATTGTAGTGGGATGGATTAAAGTTATCTTGGCAAAT
131 TTATAAGTCAAAAATCATATACCCCTGAAATTGCAGTGGGACGGATTAAAGTTATCTTGGCAAAT
* * * **
45377495 CTTGTCTCCCTGAAGTTGTAGTAGAGTAGATTAATGCCAC
196 CTTATCTCCCTAAAGTTGTAGTAGAGCAGATTAAAACCAC
* * * *
45377535 AAACCTTATCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTT
1 AAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAGTTGAAGTTACAAGTCTTATCTCCCTAAAGTT
*
45377600 GCAGTGGAGCAGACTGAAAATAAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAG
66 ACAGTGGAGCAGACTGAAAATAAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAG
*
45377665 TTATAAGTCAAAAATCATATACCCCTGAAATTGCAGTGGGACGGATTAAAGTTATCTTGGTAAAT
131 TTATAAGTCAAAAATCATATACCCCTGAAATTGCAGTGGGACGGATTAAAGTTATCTTGGCAAAT
*
45377730 CTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAACCAC
196 CTTATCTCCCTAAAGTTGTAGTAGAGCAGATTAAAACCAC
* * *
45377770 AAATCTTATTTCCCTAAAGTTACAGTGGA
1 AAACCTTATCTCCCTAAAGTTGCAGTGGA
45377799 ACAGATTAAA
Statistics
Matches: 238, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
235 238 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (235 bp):
AAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAGTTGAAGTTACAAGTCTTATCTCCCTAAAGTT
ACAGTGGAGCAGACTGAAAATAAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAG
TTATAAGTCAAAAATCATATACCCCTGAAATTGCAGTGGGACGGATTAAAGTTATCTTGGCAAAT
CTTATCTCCCTAAAGTTGTAGTAGAGCAGATTAAAACCAC
Found at i:45377950 original size:145 final size:145
Alignment explanation
Indices: 45377578--45377939 Score: 458
Period size: 145 Copynumber: 2.5 Consensus size: 145
45377568 GTTGAAGTTA
* * ** *
45377578 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATAAGCAAATCTTATTTCCCTGAA
1 CAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGAAT-AAAACCA-CAAATCTTATTTCCCTAAA
* *
45377643 GTTGCAGTGGAACAGATTAAAGTTATAAGTCAAAAATCATATACCCCTGAAATTGCAGTGGGACG
64 GTTGCAGTGGAACAGATTAAAGCTATAAGTCAAAAATCATATACCCCTGAAATTGCAGTAGGACG
* * *
45377708 GATTAAAGTTATCTTGG
129 GATTAAAGTTACCATAG
* * * *
45377725 TAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAACCACAAATCTTATTTCCCTAAAGT
1 CAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGAATAAAACCACAAATCTTATTTCCCTAAAGT
* * ** * * *
45377790 TACAGTGGAACAGATTAAAGCTATAAGTTACTAATCCA-ATACCTCTGAAGTTGCAGTAGGTCGG
66 TGCAGTGGAACAGATTAAAGCTATAAGTCAAAAAT-CATATACCCCTGAAATTGCAGTAGGACGG
45377854 ATTAAA-TCTACCATAG
130 ATTAAAGT-TACCATAG
* * *
45377870 CAAGTCTTATCTCTCTGACGTTGTAGTGGAGCAGAATAAAACCACAAATCTCATTTCCCTAAAGT
1 CAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGAATAAAACCACAAATCTTATTTCCCTAAAGT
45377935 TGCAG
66 TGCAG
45377940 CGGAGTAGAT
Statistics
Matches: 185, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
144 1 0.01
145 145 0.78
146 7 0.04
147 32 0.17
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (145 bp):
CAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGAATAAAACCACAAATCTTATTTCCCTAAAGT
TGCAGTGGAACAGATTAAAGCTATAAGTCAAAAATCATATACCCCTGAAATTGCAGTAGGACGGA
TTAAAGTTACCATAG
Found at i:45377996 original size:46 final size:45
Alignment explanation
Indices: 45377870--45377999 Score: 113
Period size: 44 Copynumber: 2.9 Consensus size: 45
45377860 TCTACCATAG
* * * * * *
45377870 CAAGTCTTATCTCT-CTGACGTTGTAGTGGAGCAGAATAAAACCA
1 CAAGTCTTATTTCTCCTGAAGTTGTAGCGGATCAGATTGAAACCA
* * * * *
45377914 CAAATCTCATTTC-CCTAAAGTTGCAGCGGAGT-AGATTGAAACTA
1 CAAGTCTTATTTCTCCTGAAGTTGTAGCGGA-TCAGATTGAAACCA
*
45377958 CAAGTCTTATTTCTCCTTGAAGTTGTAGGGGATCAGATTGAA
1 CAAGTCTTATTTCTCC-TGAAGTTGTAGCGGATCAGATTGAA
45378000 GCAACACTTC
Statistics
Matches: 65, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
44 42 0.65
45 3 0.05
46 20 0.31
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (45 bp):
CAAGTCTTATTTCTCCTGAAGTTGTAGCGGATCAGATTGAAACCA
Found at i:45380764 original size:32 final size:32
Alignment explanation
Indices: 45380723--45380785 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
45380713 GTTGATTGAT
*
45380723 TAATTGTATAATTCATTTAATTCGACCAATGG
1 TAATTGTATAATTCATTAAATTCGACCAATGG
* * *
45380755 TAATTGTATAATTTATTAAATTGGATCAATG
1 TAATTGTATAATTCATTAAATTCGACCAATG
45380786 ATTGTACAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.43
Consensus pattern (32 bp):
TAATTGTATAATTCATTAAATTCGACCAATGG
Found at i:45384430 original size:20 final size:21
Alignment explanation
Indices: 45384405--45384445 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
45384395 TTAGAAAAAT
45384405 ATTATTAT-GTAT-AATTTATA
1 ATTATTATAGT-TGAATTTATA
45384425 ATTATTATAGTTGAATTTATA
1 ATTATTATAGTTGAATTTATA
45384446 GTTTCCAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (21 bp):
ATTATTATAGTTGAATTTATA
Found at i:45387199 original size:40 final size:42
Alignment explanation
Indices: 45387125--45387244 Score: 119
Period size: 40 Copynumber: 2.9 Consensus size: 42
45387115 ACACTGTTCA
45387125 TGCCACGTCAGCAAATCGCGTCCTAGA-G-GG-CGCGATTTCCT-
1 TGCCACGTCAGCAAATCGCG--CT-GACGTGGACGCGATTTCCTG
45387166 T-CCACGTCAGCAAATCGCGCTGACGTGGACGCGATTTCCTG
1 TGCCACGTCAGCAAATCGCGCTGACGTGGACGCGATTTCCTG
* * * *
45387207 TGCGTAC-CCTG-ACATCGCGCTGACGTGGACGCGATTTC
1 TGC-CACGTCAGCAAATCGCGCTGACGTGGACGCGATTTC
45387245 GCGGAAAATG
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
37 2 0.03
38 3 0.04
39 2 0.03
40 29 0.42
41 28 0.41
42 3 0.04
43 2 0.03
ACGTcount: A:0.18, C:0.32, G:0.28, T:0.23
Consensus pattern (42 bp):
TGCCACGTCAGCAAATCGCGCTGACGTGGACGCGATTTCCTG
Found at i:45387307 original size:28 final size:27
Alignment explanation
Indices: 45387249--45387307 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
45387239 GATTTCGCGG
45387249 AAAATGGCCCATTCCGGTAAATAATTAA
1 AAAATGGCCCATTCCGGTAAAT-ATTAA
* *
45387277 AAAAGTGGCCTATTTCGGTAAAT-TTAA
1 AAAA-TGGCCCATTCCGGTAAATATTAA
45387304 AAAA
1 AAAA
45387308 AAAAGGCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 8 0.29
28 4 0.14
29 16 0.57
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (27 bp):
AAAATGGCCCATTCCGGTAAATATTAA
Found at i:45387642 original size:10 final size:9
Alignment explanation
Indices: 45387622--45387662 Score: 73
Period size: 9 Copynumber: 4.4 Consensus size: 9
45387612 TTAATTTTTT
45387622 AAAATTTAA
1 AAAATTTAA
45387631 AAAATTTAA
1 AAAATTTAA
45387640 AAAATTTAA
1 AAAATTTAA
45387649 AAAATATTAA
1 AAAAT-TTAA
45387659 AAAA
1 AAAA
45387663 ATGAAAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 23 0.74
10 8 0.26
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAATTTAA
Found at i:45387669 original size:19 final size:19
Alignment explanation
Indices: 45387629--45387678 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
45387619 TTTAAAATTT
* *
45387629 AAAAAAT-TTAAAAAATTT
1 AAAAAATATTAAAAAAATG
45387647 AAAAAATATTAAAAAAATG
1 AAAAAATATTAAAAAAATG
*
45387666 AAAATATA-TAAAA
1 AAAAAATATTAAAA
45387679 TATTTTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAAAATATTAAAAAAATG
Found at i:45394547 original size:30 final size:32
Alignment explanation
Indices: 45394513--45394573 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
45394503 ATTAATTTAA
45394513 AATATCCCATAA-A-ATCCTAATCAATCCCTT
1 AATATCCCATAAGATATCCTAATCAATCCCTT
*
45394543 AATATCCCATAAGATATTCTAATCAATCCCT
1 AATATCCCATAAGATATCCTAATCAATCCCT
45394574 GAAAATAGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 12 0.43
31 1 0.04
32 15 0.54
ACGTcount: A:0.39, C:0.28, G:0.02, T:0.31
Consensus pattern (32 bp):
AATATCCCATAAGATATCCTAATCAATCCCTT
Found at i:45404627 original size:4 final size:4
Alignment explanation
Indices: 45404614--45404654 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
45404604 CCTTTGCATT
45404614 TTTA -TTA TTTA TTT- TATTA TTTA -TTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTT
45404655 GTTTGAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
3 7 0.21
4 25 0.76
5 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:45406014 original size:6 final size:6
Alignment explanation
Indices: 45405998--45406081 Score: 64
Period size: 6 Copynumber: 13.8 Consensus size: 6
45405988 TTTGTTTTCC
* * * * *
45405998 TTTTTA GTTTTC TTTTTC TTTTTC TATTTT- TGTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA TTTTTA
* *
45406046 TTTTTA ATTGT- TTTTTA TTTTTTA TTTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA -TTTTTA -TTTTTA TTTTT
45406082 TAGACTTATT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
5 6 0.09
6 42 0.65
7 17 0.26
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:45406050 original size:30 final size:29
Alignment explanation
Indices: 45405998--45406081 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 29
45405988 TTTGTTTTCC
* * * *
45405998 TTTTTAGTTTTCTTTTTCTTTTTCTATT-T
1 TTTTTATTTTTATTTTTATTTTT-AATTGT
45406027 TTGTTTATTTTTATTTTTATTTTTAATTGT
1 TT-TTTATTTTTATTTTTATTTTTAATTGT
45406057 TTTTTATTTTTTATTTTTTATTTTT
1 TTTTTA-TTTTTA-TTTTTATTTTT
45406082 TAGACTTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
29 9 0.19
30 27 0.57
31 11 0.23
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.81
Consensus pattern (29 bp):
TTTTTATTTTTATTTTTATTTTTAATTGT
Found at i:45406061 original size:24 final size:23
Alignment explanation
Indices: 45406010--45406082 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 23
45406000 TTTAGTTTTC
* *
45406010 TTTTTCTTTTTCTATTTTT-GTTT
1 TTTTTATTTTT-TATTTTTAATTT
45406033 ATTTTTA-TTTTTATTTTTAATTGT
1 -TTTTTATTTTTTATTTTTAATT-T
*
45406057 TTTTTATTTTTTATTTTTTATTT
1 TTTTTATTTTTTATTTTTAATTT
45406080 TTT
1 TTT
45406083 AGACTTATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
22 7 0.16
23 16 0.37
24 20 0.47
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (23 bp):
TTTTTATTTTTTATTTTTAATTT
Found at i:45406066 original size:7 final size:7
Alignment explanation
Indices: 45406010--45406083 Score: 60
Period size: 7 Copynumber: 9.9 Consensus size: 7
45406000 TTTAGTTTTC
*
45406010 TTTTTCT
1 TTTTTAT
45406017 TTTTCTAT
1 TTTT-TAT
*
45406025 TTTTGTTT
1 TTTT-TAT
45406033 ATTTTTA-
1 -TTTTTAT
45406040 TTTTTATT
1 TTTTTA-T
*
45406048 TTTAATTGT
1 TTT--TTAT
45406057 TTTTTAT
1 TTTTTAT
45406064 TTTTTAT
1 TTTTTAT
45406071 TTTTTAT
1 TTTTTAT
45406078 TTTTTA
1 TTTTTA
45406084 GACTTATTTC
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
6 6 0.11
7 27 0.49
8 12 0.22
9 8 0.15
10 2 0.04
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (7 bp):
TTTTTAT
Found at i:45409317 original size:15 final size:15
Alignment explanation
Indices: 45409286--45409315 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
45409276 AGCCTTGTCC
45409286 TCTTCCTCTTCTTTT
1 TCTTCCTCTTCTTTT
45409301 TCTTCC-CTTCTTTT
1 TCTTCCTCTTCTTTT
45409315 T
1 T
45409316 TCCCGAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
TCTTCCTCTTCTTTT
Found at i:45416082 original size:74 final size:74
Alignment explanation
Indices: 45415944--45416082 Score: 206
Period size: 74 Copynumber: 1.9 Consensus size: 74
45415934 TGTTCTGCAA
* **
45415944 TCTTGAATTTCTTCTATGAAAAATTGGGTTACTTCTTAATATTCCACAATAATATGGCGTGGGCA
1 TCTTGAATTTCTTCTATGAAAAATTGGGTTACTTCTTAATATTCCACAATAATAAGGCAAGGGCA
45416009 CTTCATTAT
66 CTTCATTAT
* * * **
45416018 TCTTGAATTTCTTCTGTGAAAAATTGTGTTACTTCTTGATATTCCGTAATAATAAGGCAAGGGCA
1 TCTTGAATTTCTTCTATGAAAAATTGGGTTACTTCTTAATATTCCACAATAATAAGGCAAGGGCA
45416083 TGCCTTATCC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 57 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.40
Consensus pattern (74 bp):
TCTTGAATTTCTTCTATGAAAAATTGGGTTACTTCTTAATATTCCACAATAATAAGGCAAGGGCA
CTTCATTAT
Found at i:45423779 original size:21 final size:22
Alignment explanation
Indices: 45423750--45423798 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
45423740 ATTTAGTCAT
* *
45423750 TATTATTTT-ATTTTATTTTTA
1 TATTTTTTTAATTTAATTTTTA
45423771 TATTTTTTTAATTTAATTTTTA
1 TATTTTTTTAATTTAATTTTTA
*
45423793 CATTTT
1 TATTTT
45423799 AAATTTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (22 bp):
TATTTTTTTAATTTAATTTTTA
Found at i:45426372 original size:15 final size:14
Alignment explanation
Indices: 45426345--45426410 Score: 55
Period size: 15 Copynumber: 4.6 Consensus size: 14
45426335 GCCCCTACTT
45426345 TTTTA-TTATTTTA
1 TTTTATTTATTTTA
45426358 TTTTATTTATATTTA
1 TTTTATTTAT-TTTA
* *
45426373 TTGTATTGTATTGTA
1 TTTTATT-TATTTTA
*
45426388 TTGTATTGTATTTT-
1 TTTTATT-TATTTTA
45426402 TATTTATTT
1 T-TTTATTT
45426411 TTATTCTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
13 5 0.11
14 6 0.13
15 31 0.69
16 3 0.07
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:45426415 original size:10 final size:10
Alignment explanation
Indices: 45426350--45426411 Score: 65
Period size: 10 Copynumber: 6.2 Consensus size: 10
45426340 TACTTTTTTA
*
45426350 TTATTTTATT
1 TTATTGTATT
45426360 TTATT-TATAT
1 TTATTGTAT-T
45426370 TTATTGTATT
1 TTATTGTATT
*
45426380 GTATTGTATT
1 TTATTGTATT
*
45426390 GTATTGTATTT
1 TTATTGTA-TT
45426401 TTATT-TATT
1 TTATTGTATT
45426410 TT
1 TT
45426412 TATTCTTTAC
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
9 7 0.15
10 31 0.66
11 9 0.19
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (10 bp):
TTATTGTATT
Found at i:45436701 original size:9 final size:9
Alignment explanation
Indices: 45436687--45436727 Score: 55
Period size: 9 Copynumber: 4.2 Consensus size: 9
45436677 TTAAATAAAT
45436687 GTTAATTAA
1 GTTAATTAA
45436696 GTTAATTAA
1 GTTAATTAA
45436705 GTTAATTAAAA
1 GTTAATT--AA
45436716 GTTAAATTAA
1 GTT-AATTAA
45436726 GT
1 GT
45436728 ATATAAGCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 16 0.55
10 4 0.14
11 5 0.17
12 4 0.14
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.41
Consensus pattern (9 bp):
GTTAATTAA
Found at i:45447316 original size:27 final size:28
Alignment explanation
Indices: 45447286--45447368 Score: 125
Period size: 27 Copynumber: 3.0 Consensus size: 28
45447276 CTATTCAGTA
*
45447286 ATAGT-ACAGTGTGGGCCTTAGCCCAAT
1 ATAGTAACAATGTGGGCCTTAGCCCAAT
*
45447313 ATAGTAATAATGTGGGCCTTAGCCCAA-
1 ATAGTAACAATGTGGGCCTTAGCCCAAT
*
45447340 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ATAGTAACAATGTGGGCCTTAGCCCAAT
45447368 A
1 A
45447369 CAATATCGGT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (28 bp):
ATAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:45447328 original size:28 final size:28
Alignment explanation
Indices: 45447295--45447370 Score: 127
Period size: 27 Copynumber: 2.8 Consensus size: 28
45447285 AATAGTACAG
* *
45447295 TGTGGGCCTTAGCCCAATATAGTAATAA
1 TGTGGGCCTTAGCCCAATACAGTAACAA
45447323 TGTGGGCCTTAGCCCAA-ACAGTAACAA
1 TGTGGGCCTTAGCCCAATACAGTAACAA
45447350 TGTGGGCCTTAGCCCAATACA
1 TGTGGGCCTTAGCCCAATACA
45447371 ATATCGGTAC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 25 0.56
28 20 0.44
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAGTAACAA
Found at i:45447752 original size:27 final size:27
Alignment explanation
Indices: 45447728--45447898 Score: 191
Period size: 27 Copynumber: 6.3 Consensus size: 27
45447718 AAGTGTATAA
*
45447728 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTAATT
* *
45447755 C-GATCTTTTTACCCTATGTGGGTAATT
1 CAG-TCATTTTACCCTATGGGGGTAATT
*
45447782 CAGTCATTTTACCCTATGAGGGTAATT
1 CAGTCATTTTACCCTATGGGGGTAATT
* * *
45447809 CAATCATTTTATCCTGTGGGGGTAATT
1 CAGTCATTTTACCCTATGGGGGTAATT
* * *
45447836 CTGTCATTTTATCCTATAGGGGTAATT
1 CAGTCATTTTACCCTATGGGGGTAATT
** * *
45447863 TGGTTATTTTACCCTGTGGGGGTAATT
1 CAGTCATTTTACCCTATGGGGGTAATT
*
45447890 CGGTCATTT
1 CAGTCATTT
45447899 ATTGACCTCT
Statistics
Matches: 121, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 119 0.98
28 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGGGGGTAATT
Found at i:45450704 original size:16 final size:16
Alignment explanation
Indices: 45450683--45450713 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45450673 TTATAATAAA
45450683 ATTTTTATGTTGAAAC
1 ATTTTTATGTTGAAAC
*
45450699 ATTTTTGTGTTGAAA
1 ATTTTTATGTTGAAA
45450714 AATCAGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.52
Consensus pattern (16 bp):
ATTTTTATGTTGAAAC
Found at i:45451898 original size:21 final size:19
Alignment explanation
Indices: 45451854--45451926 Score: 121
Period size: 21 Copynumber: 3.8 Consensus size: 19
45451844 ATCTTCAAGT
45451854 ATATGCAATCTTAGA-ATG
1 ATATGCAATCTTAGATATG
45451872 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
45451891 ATATATGCAATCTTAGATATG
1 --ATATGCAATCTTAGATATG
45451912 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
45451927 AGATATGATT
Statistics
Matches: 52, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
18 15 0.29
19 18 0.35
21 19 0.37
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:45451952 original size:22 final size:22
Alignment explanation
Indices: 45451869--45451949 Score: 55
Period size: 19 Copynumber: 3.8 Consensus size: 22
45451859 CAATCTTAGA
* *
45451869 ATGATATGCAATCTTAG-ATAT
1 ATGATATGCAATATTAGAAGAT
*
45451890 GAT-ATATGCAATCTT---AGAT
1 -ATGATATGCAATATTAGAAGAT
*
45451909 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATATTAGAAGAT
* *
45451931 ATGATTTTGTAATATTAGA
1 ATGA-TATGCAATATTAGA
45451950 GATTTAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
18 2 0.04
19 15 0.30
21 12 0.24
22 10 0.20
23 11 0.22
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATATTAGAAGAT
Found at i:45452195 original size:23 final size:23
Alignment explanation
Indices: 45452151--45452195 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
45452141 TCTTATTTTG
* *
45452151 TTGATTTGTATATAATTTATTTA
1 TTGATTTGTAGATAATTGATTTA
**
45452174 TTGATTTGTAGATTGTTGATTT
1 TTGATTTGTAGATAATTGATTT
45452196 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (23 bp):
TTGATTTGTAGATAATTGATTTA
Found at i:45452428 original size:3 final size:3
Alignment explanation
Indices: 45452420--45452460 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
45452410 ATCTTGTATC
*
45452420 ATT ATT ATT ATT ATT CTT ATT ATT ATTT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT A
45452461 CCACGTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:45452543 original size:33 final size:33
Alignment explanation
Indices: 45452506--45452568 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
45452496 CGCATAGATA
* *
45452506 CTTTATAATATATATGTA-TATATATATTTTTCT
1 CTTTA-AATACATATATATTATATATATTTTTCT
*
45452539 CTTTAAATACATATATATTTTATATATTTT
1 CTTTAAATACATATATATTATATATATTTT
45452569 ATTTTCATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 10 0.38
33 16 0.62
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (33 bp):
CTTTAAATACATATATATTATATATATTTTTCT
Found at i:45452748 original size:13 final size:13
Alignment explanation
Indices: 45452730--45452757 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
45452720 ATATACCTTC
45452730 TATTTTATTTATT
1 TATTTTATTTATT
45452743 TATTTTATTTATT
1 TATTTTATTTATT
45452756 TA
1 TA
45452758 CCTCATACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TATTTTATTTATT
Found at i:45457505 original size:12 final size:12
Alignment explanation
Indices: 45457490--45457552 Score: 53
Period size: 12 Copynumber: 5.3 Consensus size: 12
45457480 TGATGATGGA
45457490 AAAAATGAAAA-G
1 AAAAA-GAAAAGG
45457502 AAAAAGAAAAGG
1 AAAAAGAAAAGG
45457514 AAAAAG--AA-G
1 AAAAAGAAAAGG
*
45457523 AAAAAGAAAGAAG
1 AAAAAGAAA-AGG
*
45457536 AAAGAAGAAGAGG
1 AAA-AAGAAAAGG
45457549 AAAA
1 AAAA
45457553 GGAGAGGCCA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
9 7 0.16
10 2 0.05
11 6 0.14
12 14 0.33
13 9 0.21
14 5 0.12
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.02
Consensus pattern (12 bp):
AAAAAGAAAAGG
Found at i:45457532 original size:20 final size:21
Alignment explanation
Indices: 45457499--45457553 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
45457489 AAAAAATGAA
45457499 AAGAAAAAGAAAAGGAA-AAAG
1 AAGAAAAAGAAAA-GAAGAAAG
45457520 AAGAAAAAG-AAAGAAGAAAG
1 AAGAAAAAGAAAAGAAGAAAG
* *
45457540 AAGAAGAGGAAAAG
1 AAGAAAAAGAAAAG
45457554 GAGAGGCCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 3 0.10
20 14 0.47
21 13 0.43
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (21 bp):
AAGAAAAAGAAAAGAAGAAAG
Found at i:45457536 original size:7 final size:7
Alignment explanation
Indices: 45457498--45457544 Score: 57
Period size: 6 Copynumber: 7.3 Consensus size: 7
45457488 GAAAAAATGA
45457498 AAAGAA-
1 AAAGAAG
45457504 AAAGAA-
1 AAAGAAG
*
45457510 AAGGAA-
1 AAAGAAG
45457516 AAAGAAG
1 AAAGAAG
45457523 AAA-AAG
1 AAAGAAG
45457529 AAAGAAG
1 AAAGAAG
45457536 AAAGAAG
1 AAAGAAG
45457543 AA
1 AA
45457545 GAGGAAAAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
6 22 0.59
7 15 0.41
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (7 bp):
AAAGAAG
Found at i:45457536 original size:16 final size:16
Alignment explanation
Indices: 45457498--45457537 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
45457488 GAAAAAATGA
* *
45457498 AAAGAAAAAGAAAAGG
1 AAAGAAGAAGAAAAAG
45457514 AAA-AAGAAGAAAAAG
1 AAAGAAGAAGAAAAAG
45457529 AAAGAAGAA
1 AAAGAAGAA
45457538 AGAAGAAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
AAAGAAGAAGAAAAAG
Found at i:45457543 original size:10 final size:10
Alignment explanation
Indices: 45457498--45457546 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
45457488 GAAAAAATGA
*
45457498 AAAGAAAAAG
1 AAAGAAGAAG
*
45457508 AAA-AGGAA-
1 AAAGAAGAAG
45457516 AAAGAAGAA-
1 AAAGAAGAAG
45457525 AAAGAAAGAAG
1 AAAG-AAGAAG
45457536 AAAGAAGAAG
1 AAAGAAGAAG
45457546 A
1 A
45457547 GGAAAAGGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
8 3 0.09
9 11 0.33
10 15 0.45
11 4 0.12
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (10 bp):
AAAGAAGAAG
Found at i:45458880 original size:44 final size:44
Alignment explanation
Indices: 45458817--45459106 Score: 453
Period size: 44 Copynumber: 6.7 Consensus size: 44
45458807 CACAAAGCCT
* *
45458817 TATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATTGTGAATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
45458861 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
*
45458905 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
** *
45458949 TATCTCCCTGGTCAGTGGTGGAATAGGTTGAAGATTGTGAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
* *
45458993 TATCTCCCTAGTCAGCAGTGGAATAAGTTGAAGA-T-T-AATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
*
45459034 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCT
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
*
45459078 TATCTCCCTGAG-CAGCAGTGGAGTAGGTT
1 TATCTCCCTG-GTCAGCAGTGGAATAGGTT
45459107 AAAAATAGTA
Statistics
Matches: 228, Mismatches: 14, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
41 36 0.16
42 2 0.01
43 2 0.01
44 187 0.82
45 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (44 bp):
TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
Found at i:45459466 original size:99 final size:100
Alignment explanation
Indices: 45459310--45459510 Score: 287
Period size: 99 Copynumber: 2.0 Consensus size: 100
45459300 CAATGGAACG
* * *
45459310 GATTAAAGCCGCAACGGCGAATCTTACTCCCCTGGTGGTGTAGTGAAACAGACTGAAGCTACGAC
1 GATTAAAGCCGCAACGACGAATCTTACTCACCTGGCGGTGTAGTGAAACAGACTGAAGCTACGAC
*
45459375 GGTGAATCTCGTTTCCCC-ACATTACAATTAAAAA
66 GGTGAATCTCATTTCCCCAACATTACAATTAAAAA
* * * * *
45459409 GATTAAAGCCGTAACGATGAATCTTACTTACCTGGCGGTGTAGTGGAACAGATTGAAGCTACGAC
1 GATTAAAGCCGCAACGACGAATCTTACTCACCTGGCGGTGTAGTGAAACAGACTGAAGCTACGAC
* * *
45459474 GGTGAATCTTATTTCCCCAACATTGCAATTTAAAA
66 GGTGAATCTCATTTCCCCAACATTACAATTAAAAA
45459509 GA
1 GA
45459511 CTGAAGATGA
Statistics
Matches: 89, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
99 73 0.82
100 16 0.18
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (100 bp):
GATTAAAGCCGCAACGACGAATCTTACTCACCTGGCGGTGTAGTGAAACAGACTGAAGCTACGAC
GGTGAATCTCATTTCCCCAACATTACAATTAAAAA
Found at i:45459578 original size:44 final size:43
Alignment explanation
Indices: 45459523--45460078 Score: 317
Period size: 44 Copynumber: 12.8 Consensus size: 43
45459513 GAAGATGACA
45459523 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* * *
45459567 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCA-AT
* * * * ** *
45459611 GATCTTTTCTCTCTGAAGTTGCAG-AGAGCA-A--ATCGCATCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA-AT
* * * * * *
45459651 AGTCTTATCTCCCTAAAGTTGCAGGGGAGCAGACT-AAGTAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-T
* *
45459694 AAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGC--G
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A--GCAAT
*
45459740 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* * * *
45459784 AATCCTATCTCCCTAAAGTTGCAGTAGAGC-GAATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATT-AAAGCA-AT
* * * * * *
45459828 GATCTTATCTCTCGGAAGTTGCAG-AGAGCAGA-T--CGCATCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA-AT
* * * * * *
45459868 AGTCTTATCTCCCTGAAGTTACAGGGGAGCAGACT-AAGTAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-T
* *
45459911 AAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGC--G
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A--GCAAT
45459957 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* * * * *
45460001 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
* * *
45460044 AGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
45460079 CACATCGGGT
Statistics
Matches: 391, Mismatches: 77, Indels: 88
0.70 0.14 0.16
Matches are distributed among these distances:
39 5 0.01
40 38 0.10
41 14 0.04
42 6 0.02
43 29 0.07
44 223 0.57
45 60 0.15
46 12 0.03
47 2 0.01
49 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
Found at i:45459895 original size:217 final size:217
Alignment explanation
Indices: 45459508--45460167 Score: 1034
Period size: 217 Copynumber: 3.0 Consensus size: 217
45459498 GCAATTTAAA
* *
45459508 AGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
1 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
*
45459573 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTTTCTCTCTGAAGTTGCAGAGA
66 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
* *
45459638 GCAAATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGGGGAGCAGACTAAGTAAGCAAGTCTTAT
131 GCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGGGGAGCAGACTAAGTAAGCAAGTCTTAT
45459703 CCTCCTGAAGTTGCAGTGAGGC
196 CCTCCTGAAGTTGCAGTGAGGC
*
45459725 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAAGCCAATAATCCT
1 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
* * * *
45459790 ATCTCCCTAAAGTTGCAGTAGAGCGAATTAAAATCACAGATCTTATCTCTCGGAAGTTGCAGAGA
66 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
*
45459855 GCAGATCGCATCTAGTCTTATCTCCCTGAAGTTACAGGGGAGCAGACTAAGTAAGCAAGTCTTAT
131 GCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGGGGAGCAGACTAAGTAAGCAAGTCTTAT
45459920 CCTCCTGAAGTTGCAGTGAGGC
196 CCTCCTGAAGTTGCAGTGAGGC
45459942 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
1 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
* * *
45460007 ATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCATAGATCTTATCTCTCTGAAGTTGCAGTAG
66 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAG-AG
* * ** ** * ** * * * *
45460072 AGTAGATCACATCGGGTCTTATCTCATTGAATTTGCAATGGAGCTGACTCAAGAAAACAAGCCTT
130 AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGGGGAGCAGACT-AAGTAAGCAAGTCTT
*
45460137 ATCC-CCTTAAAGTTGCAGTGAGGC
194 ATCCTCC-TGAAGTTGCAGTGAGGC
45460161 AGACTGA
1 AGACTGA
45460168 GAATAGTAAA
Statistics
Matches: 406, Mismatches: 34, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
217 325 0.80
218 42 0.10
219 39 0.10
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (217 bp):
AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
GCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGGGGAGCAGACTAAGTAAGCAAGTCTTAT
CCTCCTGAAGTTGCAGTGAGGC
Found at i:45460649 original size:17 final size:17
Alignment explanation
Indices: 45460627--45460678 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
45460617 ATGGAAACAT
* *
45460627 AATCTTCAAGGATATGC
1 AATCTTAAAAGATATGC
*
45460644 AATCTTAGATATGATATGC
1 AATCTTA-A-AAGATATGC
45460663 AATCTTAAAAGATATG
1 AATCTTAAAAGATATG
45460679 ATTTTGTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (17 bp):
AATCTTAAAAGATATGC
Found at i:45461184 original size:13 final size:13
Alignment explanation
Indices: 45461166--45461190 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45461156 TCTTGTATCA
45461166 TTATTATTATTAT
1 TTATTATTATTAT
45461179 TTATTATTATTA
1 TTATTATTATTA
45461191 CCACGTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:45467993 original size:242 final size:243
Alignment explanation
Indices: 45467523--45468007 Score: 765
Period size: 242 Copynumber: 2.0 Consensus size: 243
45467513 AACAATAACA
*
45467523 TCCTTTCCTTGGAAACGATAGTATTGTGCATGGATGGCATAAGACGACTTTTCAAGAAATGATAC
1 TCCTTTCCTTGGAAACGATAGTATTGTGCATGGATGGCATAAGACGAATTTTCAAGAAATGATAC
* * **
45467588 CATACTTTTCCAATCAGTTTCAATGAAGCCCTTTCAACAGTGTAGCATTCTTGAGTAGAGACAAT
66 CAGACTTTTCCAATCACTTTCAATGAAGCCCTTTCAACAGTGTAGCATTCCGGAGTAGAGACAAT
* * *
45467653 CCATTGTGTGCCCTCGACACATAAATCCTTCAAAACATGTGTCAAACCCTCATCTGTGATGCTAT
131 CCATTGTGTGCCCTCGACACATAAATCCTTCAAAACATATGTCAAACCCACATCTGTGATGATAT
*
45467718 AACCAAACTCAGTGTGTTCATCTTATACCTCTCTAAGGCTAAACTGGG
196 AACCAAACTCAGTGTGTCCATCTTATACCTCTCTAAGGCTAAACTGGG
* * * * *
45467766 TCCTTTCCTTGGAAATGATGGT-TTGTGCGTGGATGGCATAAGATGAATTTTCAAGAAATGATTC
1 TCCTTTCCTTGGAAACGATAGTATTGTGCATGGATGGCATAAGACGAATTTTCAAGAAATGATAC
*
45467830 CAGACTTTTCCAATCACTTTCAATGAAGCCCTTTCAATAGTGTAGCATTCCGGAGTAGAGACAAT
66 CAGACTTTTCCAATCACTTTCAATGAAGCCCTTTCAACAGTGTAGCATTCCGGAGTAGAGACAAT
*
45467895 CCATTGTGTGCCCTCGACACATAAATCCTTCAAAACCTATGTCAAACCCACATCTGTGATGATAT
131 CCATTGTGTGCCCTCGACACATAAATCCTTCAAAACATATGTCAAACCCACATCTGTGATGATAT
** * * * *
45467960 ATGCAAACTCAGTGTGTCCATCTTGTGCCTCTCTTAGGGTAAACTGGG
196 AACCAAACTCAGTGTGTCCATCTTATACCTCTCTAAGGCTAAACTGGG
45468008 CATTTATATA
Statistics
Matches: 220, Mismatches: 22, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
242 200 0.91
243 20 0.09
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (243 bp):
TCCTTTCCTTGGAAACGATAGTATTGTGCATGGATGGCATAAGACGAATTTTCAAGAAATGATAC
CAGACTTTTCCAATCACTTTCAATGAAGCCCTTTCAACAGTGTAGCATTCCGGAGTAGAGACAAT
CCATTGTGTGCCCTCGACACATAAATCCTTCAAAACATATGTCAAACCCACATCTGTGATGATAT
AACCAAACTCAGTGTGTCCATCTTATACCTCTCTAAGGCTAAACTGGG
Found at i:45474320 original size:20 final size:20
Alignment explanation
Indices: 45474297--45474336 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
45474287 TTGCACAACT
45474297 ATGCCCCTAAATACACTCCG
1 ATGCCCCTAAATACACTCCG
* * *
45474317 ATGCCCTTGAATGCACTCCG
1 ATGCCCCTAAATACACTCCG
45474337 GTTCCCCTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.38, G:0.15, T:0.23
Consensus pattern (20 bp):
ATGCCCCTAAATACACTCCG
Found at i:45476327 original size:40 final size:40
Alignment explanation
Indices: 45476283--45476364 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
45476273 TTCCCATAAC
45476283 ATAGTGTCAAATGAAGAAGAAATATGTATTAGATTTGAAG
1 ATAGTGTCAAATGAAGAAGAAATATGTATTAGATTTGAAG
*
45476323 ATAGTGTCAAATGAAGAAGAAATGTGTATTAGATTTGAAG
1 ATAGTGTCAAATGAAGAAGAAATATGTATTAGATTTGAAG
45476363 AT
1 AT
45476365 GACTTGAATG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.44, C:0.02, G:0.23, T:0.30
Consensus pattern (40 bp):
ATAGTGTCAAATGAAGAAGAAATATGTATTAGATTTGAAG
Found at i:45492569 original size:47 final size:47
Alignment explanation
Indices: 45492508--45492996 Score: 861
Period size: 47 Copynumber: 10.4 Consensus size: 47
45492498 CAGCCAAGAC
45492508 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
45492555 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
45492602 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
45492649 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
45492696 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
45492743 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
45492790 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * *
45492837 AGTGCATATGTGTGATAAGGCCTAATAGCTGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
45492884 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
45492931 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
45492978 AGTGCATATGTGTGATAAG
1 AGTGTATATATGTGATAAG
45492997 TCCCGAAGGG
Statistics
Matches: 425, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 425 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:45495893 original size:12 final size:12
Alignment explanation
Indices: 45495876--45495931 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
45495866 TATTGAGACT
* *
45495876 GAAATGATAATG
1 GAAATGAGAATA
45495888 GAAATGAGAATA
1 GAAATGAGAATA
*
45495900 GAAATGA-AATT
1 GAAATGAGAATA
*
45495911 GATATGAGAA-A
1 GAAATGAGAATA
45495922 GAAAGTGAGA
1 GAAA-TGAGA
45495932 TTGATTATCA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
11 12 0.33
12 24 0.67
ACGTcount: A:0.54, C:0.00, G:0.27, T:0.20
Consensus pattern (12 bp):
GAAATGAGAATA
Found at i:45495934 original size:23 final size:23
Alignment explanation
Indices: 45495876--45495936 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
45495866 TATTGAGACT
* *
45495876 GAAATGATAATGGAAATGAGAATA
1 GAAATGA-AATTGATATGAGAATA
45495900 GAAATGAAATTGATATGAGAA-A
1 GAAATGAAATTGATATGAGAATA
*
45495922 GAAAGTGAGATTGAT
1 GAAA-TGAAATTGAT
45495937 TATCAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 5 0.15
23 21 0.64
24 7 0.21
ACGTcount: A:0.51, C:0.00, G:0.26, T:0.23
Consensus pattern (23 bp):
GAAATGAAATTGATATGAGAATA
Found at i:45496716 original size:14 final size:13
Alignment explanation
Indices: 45496699--45496728 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
45496689 GTGATTGCGC
45496699 ACTTCGGTGCGAGT
1 ACTTCGGTGCGA-T
45496713 ACTTCGGTGCGAT
1 ACTTCGGTGCGAT
45496726 ACT
1 ACT
45496729 GTGATTGTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.30
Consensus pattern (13 bp):
ACTTCGGTGCGAT
Found at i:45509540 original size:39 final size:41
Alignment explanation
Indices: 45509489--45509594 Score: 117
Period size: 44 Copynumber: 2.5 Consensus size: 41
45509479 TTTCCTTATG
* * *
45509489 CTATTACACCTCTATTCCATTCAATCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
*
45509529 C-ATTATGCCTCTATTCCATTCCATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTC---T--ATTCCATTCAACCAAACAAAAGAATTAC
45509574 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
45509595 ACGCATCTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
39 8 0.15
40 1 0.02
41 8 0.15
42 1 0.02
43 1 0.02
44 22 0.41
45 4 0.07
46 9 0.17
ACGTcount: A:0.35, C:0.30, G:0.04, T:0.31
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:45509551 original size:44 final size:46
Alignment explanation
Indices: 45509502--45509594 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 46
45509492 TTACACCTCT
* * *
45509502 ATTCCATTCAATCAAACACAAGAA-TACC-ATTATGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
45509546 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
45509592 ATT
1 ATT
45509595 ACGCATCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 22 0.50
45 4 0.09
46 18 0.41
ACGTcount: A:0.37, C:0.29, G:0.04, T:0.30
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
Found at i:45509597 original size:16 final size:16
Alignment explanation
Indices: 45509576--45509628 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
45509566 AGAATTACCT
45509576 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
45509592 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
**
45509608 ATTACATCTCTATTCC
1 ATTACGCCTCTATTCC
45509624 ATTAC
1 ATTAC
45509629 AGGGAACCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.25, C:0.32, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:45520522 original size:29 final size:29
Alignment explanation
Indices: 45520454--45520523 Score: 113
Period size: 29 Copynumber: 2.4 Consensus size: 29
45520444 TAAATGCCAG
* * *
45520454 CTTGTGTGAGAAACCTTGATCAGTGTCAA
1 CTTGTGTGAGCAACCCTGATCACTGTCAA
45520483 CTTGTGTGAGCAACCCTGATCACTGTCAA
1 CTTGTGTGAGCAACCCTGATCACTGTCAA
45520512 CTTGTGTGAGCA
1 CTTGTGTGAGCA
45520524 TTATAGTCTC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (29 bp):
CTTGTGTGAGCAACCCTGATCACTGTCAA
Found at i:45522294 original size:20 final size:20
Alignment explanation
Indices: 45522269--45522307 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
45522259 TTGTACGGGA
45522269 TTGCACTTCAGTCCCTCTGT
1 TTGCACTTCAGTCCCTCTGT
* *
45522289 TTGCACTTCGGTGCCTCTG
1 TTGCACTTCAGTCCCTCTG
45522308 ATTACACATT
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:0.08, C:0.33, G:0.21, T:0.38
Consensus pattern (20 bp):
TTGCACTTCAGTCCCTCTGT
Found at i:45529459 original size:16 final size:16
Alignment explanation
Indices: 45529426--45529459 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45529416 CGTTTATAGT
*
45529426 AAAATATAACATTAAA
1 AAAATATAAAATTAAA
45529442 AAAATATAAGAATTAAA
1 AAAATATAA-AATTAAA
45529459 A
1 A
45529460 CTGGAATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
AAAATATAAAATTAAA
Found at i:45539235 original size:64 final size:64
Alignment explanation
Indices: 45539149--45539270 Score: 199
Period size: 64 Copynumber: 1.9 Consensus size: 64
45539139 CGAGGTAAGG
** *
45539149 TTGTCGATAGTTTTGGGAATTGACTGTTGTAAGTATTTCAAATTAAGTGACTGAGATTAAGTGT
1 TTGTCGATAGTTTTACGAATTGACTGTTGTAAGTAATTCAAATTAAGTGACTGAGATTAAGTGT
* *
45539213 TTGTTGATAGTTTTACGAATTGACTGTTGTAAGTAATTCAGATTAAGTGACTGAGATT
1 TTGTCGATAGTTTTACGAATTGACTGTTGTAAGTAATTCAAATTAAGTGACTGAGATT
45539271 GAGTTTCCAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.41
Consensus pattern (64 bp):
TTGTCGATAGTTTTACGAATTGACTGTTGTAAGTAATTCAAATTAAGTGACTGAGATTAAGTGT
Found at i:45548920 original size:20 final size:20
Alignment explanation
Indices: 45548885--45548933 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
45548875 ATCATGGTCT
*
45548885 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
45548904 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
45548924 TTGCTTACTT
1 TTGCTTACTT
45548934 AAATAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:45549262 original size:50 final size:50
Alignment explanation
Indices: 45549137--45549326 Score: 165
Period size: 50 Copynumber: 3.9 Consensus size: 50
45549127 TAATAACATG
* * * *
45549137 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCCTGT-ACTA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATCAGTA
* * * * * * *
45549186 CAAATGTCATATCCCAGATATTGTCTTACATGAGAGTTCTCATATCAGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCAGTA
* ** ** *
45549236 CCTATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTC-GATA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCAG-TA
*
45549286 CCAACGCCATGTCCCAGACATGGTCTTACATGGG-G-TCTCAT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT
45549327 CCCCCTAATG
Statistics
Matches: 109, Mismatches: 29, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
48 9 0.08
49 33 0.30
50 67 0.61
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCAGTA
Found at i:45555491 original size:22 final size:22
Alignment explanation
Indices: 45555463--45555522 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
45555453 AGTGACAAGA
*
45555463 ACTTGTATCGGTACAAGTACCC
1 ACTTGTATCGATACAAGTACCC
45555485 ACTTGTATCGATACAAGTACCC
1 ACTTGTATCGATACAAGTACCC
45555507 ACTTGTATCGATACAA
1 ACTTGTATCGATACAA
45555523 ATGGGGGCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (22 bp):
ACTTGTATCGATACAAGTACCC
Found at i:45556333 original size:38 final size:38
Alignment explanation
Indices: 45556282--45556360 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
45556272 TAGGCTTCAG
45556282 CTAGTCTATTCTGTCCAAAAGAAATCACACATAGACAC
1 CTAGTCTATTCTGTCCAAAAGAAATCACACATAGACAC
45556320 CTAGTCTATTCTGTCCAAAAGAAATCACACATAGACAC
1 CTAGTCTATTCTGTCCAAAAGAAATCACACATAGACAC
45556358 CTA
1 CTA
45556361 TCAGAATACG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (38 bp):
CTAGTCTATTCTGTCCAAAAGAAATCACACATAGACAC
Found at i:45556714 original size:14 final size:14
Alignment explanation
Indices: 45556693--45556730 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
45556683 TTCATTTCCT
45556693 CTCTCTCCTCCTTTC
1 CTCTCTCCTCC-TTC
*
45556708 C-CTCTCCTTCTTC
1 CTCTCTCCTCCTTC
45556721 CTCTCTCCTC
1 CTCTCTCCTC
45556731 TCCTCTTCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 4 0.20
14 15 0.75
15 1 0.05
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (14 bp):
CTCTCTCCTCCTTC
Found at i:45556722 original size:18 final size:17
Alignment explanation
Indices: 45556690--45556749 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 17
45556680 CATTTCATTT
*
45556690 CCTCTCTCTCCTCCTTTC
1 CCTCTC-CTCTTCCTTTC
*
45556708 CCTCTCCTTCTTCCTCTC
1 CCTCTCC-TCTTCCTTTC
45556726 TCCTCTCCTCTTCCCTTTC
1 -CCTCTCCTCTT-CCTTTC
*
45556745 TCTCT
1 CCTCT
45556750 ATGACGTCGC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 1 0.03
18 22 0.63
19 12 0.34
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (17 bp):
CCTCTCCTCTTCCTTTC
Found at i:45559902 original size:192 final size:193
Alignment explanation
Indices: 45559573--45559959 Score: 659
Period size: 192 Copynumber: 2.0 Consensus size: 193
45559563 GTCTTTTCAT
45559573 TTCAAGACTTGCTCTTTATAGGCTTTGTTTATTGTAAAATTAGAATGAAAGAAGATTTTTCAGAA
1 TTCAAGACTTGCTCTTTATAGGCTTTGTTTATTGTAAAATTAGAATGAAAGAAGATTTTTCAGAA
* *
45559638 AGGTCTTAAAGTGAAAAGAGATTTGAAATAACATATTTTATAATGTAAACAATTTTCTTAGATGC
66 AGGTCTTAAAGTGAAAAGAGATTTGAAATAAAATATTTTATAATCTAAACAATTTTCTTAGATGC
45559703 CAAAGAATTGTTAAAATGCTA-TTCAAAATTTCCATGAACCAAACATAGTTTCAAAATTTCTG
131 CAAAGAATTGTTAAAATGCTATTTCAAAATTTCCATGAACCAAACATAGTTTCAAAATTTCTG
* *
45559765 TTCAAGACTTGCTCTTTATAGGCTTTGTTTATTGTAAAATTAGAATGCAAGAAGATTTTTCAGGA
1 TTCAAGACTTGCTCTTTATAGGCTTTGTTTATTGTAAAATTAGAATGAAAGAAGATTTTTCAGAA
45559830 AGGTCTTAAAGTGAAAAGAGATTTGAAATAAAATATTTTATAATCTAAACAATTTTCTTAGATGC
66 AGGTCTTAAAGTGAAAAGAGATTTGAAATAAAATATTTTATAATCTAAACAATTTTCTTAGATGC
* * * * * *
45559895 TAAAGAATTGTTAAAATGCTATTCTTCAAATTTTCCTTGAACCAAATATAGTTTCTATATTTCTG
131 CAAAGAATTGTTAAAATGCTA-T-TTCAAAATTTCCATGAACCAAACATAGTTTCAAAATTTCTG
45559960 GGTTCATCTA
Statistics
Matches: 182, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
192 146 0.80
195 36 0.20
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (193 bp):
TTCAAGACTTGCTCTTTATAGGCTTTGTTTATTGTAAAATTAGAATGAAAGAAGATTTTTCAGAA
AGGTCTTAAAGTGAAAAGAGATTTGAAATAAAATATTTTATAATCTAAACAATTTTCTTAGATGC
CAAAGAATTGTTAAAATGCTATTTCAAAATTTCCATGAACCAAACATAGTTTCAAAATTTCTG
Found at i:45561377 original size:52 final size:52
Alignment explanation
Indices: 45561320--45561422 Score: 179
Period size: 52 Copynumber: 2.0 Consensus size: 52
45561310 GCATCAAAAT
*
45561320 GAAAACTAGAACATTTCAAACTCCTTTGCAATCAAGCTTATAGGATGTGTAA
1 GAAAACTAGAAAATTTCAAACTCCTTTGCAATCAAGCTTATAGGATGTGTAA
* *
45561372 GAAAACTAGAAAATTTCAAACTCCTTTGCTATCAAGTTTATAGGATGTGTA
1 GAAAACTAGAAAATTTCAAACTCCTTTGCAATCAAGCTTATAGGATGTGTA
45561423 CCTCGAAAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (52 bp):
GAAAACTAGAAAATTTCAAACTCCTTTGCAATCAAGCTTATAGGATGTGTAA
Found at i:45569295 original size:29 final size:29
Alignment explanation
Indices: 45569172--45569372 Score: 217
Period size: 29 Copynumber: 6.8 Consensus size: 29
45569162 TCATCGACCA
*
45569172 ATGAAGAGGGATGGTGACGACCATCAACT
1 ATGAAAAGGGATGGTGACGACCATCAACT
* *
45569201 ATGAAAAGGGGATGGTGACGGCCATCGAATT
1 ATGAAAA-GGGATGGTGACGACCATC-AACT
* * * * * *
45569232 ATGAAAAAGGATAGCT-TCGGA-TATCGATT
1 ATGAAAAGGGAT-GGTGAC-GACCATCAACT
* *
45569261 AAGAAAAGGGATGGTGATGACCATCAACT
1 ATGAAAAGGGATGGTGACGACCATCAACT
*
45569290 ATGAAAAGGGATGGTGATGACCATCAACT
1 ATGAAAAGGGATGGTGACGACCATCAACT
* *
45569319 ATAAAAAGGGATGGTGACGACCATCGAATT
1 ATGAAAAGGGATGGTGACGACCATC-AACT
45569349 ATGAAAAGGGATGGTGACGACCAT
1 ATGAAAAGGGATGGTGACGACCAT
45569373 TGTGATTACA
Statistics
Matches: 143, Mismatches: 22, Indels: 13
0.80 0.12 0.07
Matches are distributed among these distances:
28 4 0.03
29 75 0.52
30 51 0.36
31 13 0.09
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.20
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCAACT
Found at i:45572181 original size:45 final size:45
Alignment explanation
Indices: 45572131--45572304 Score: 240
Period size: 45 Copynumber: 3.9 Consensus size: 45
45572121 CATTATATTC
* ** * **
45572131 GGTGGAATCAGCATATAGCAACCACCTTTATTTTCAATGATTTTT
1 GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTTCCT
* * *
45572176 GGTGGAGTCAGCACATAGAAACCACCTTTATAATCAATGGTACCT
1 GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTTCCT
* *
45572221 GGTGAAATCAGCACATAGCAACCACCTTTATAATCAATGGTTCCC
1 GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTTCCT
*
45572266 GGTGGAATCAGCACATAGCAACCACCTTTATAATTAATG
1 GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
45572305 ATACTCAGTA
Statistics
Matches: 113, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 113 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTTCCT
Found at i:45575271 original size:40 final size:40
Alignment explanation
Indices: 45575216--45575330 Score: 160
Period size: 40 Copynumber: 2.9 Consensus size: 40
45575206 AATTATTGAA
*
45575216 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTTCCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
45575256 TGATTGCACATACGTGCCCCCGTTTGTACTTTGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
45575296 TGATTGCACTTTCGTG-CCCTGGTTATACTTCGGTA
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTA
45575331 AACCTAGATC
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 15 0.23
40 51 0.77
ACGTcount: A:0.14, C:0.30, G:0.21, T:0.36
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:45575306 original size:20 final size:20
Alignment explanation
Indices: 45575232--45575307 Score: 53
Period size: 20 Copynumber: 3.8 Consensus size: 20
45575222 CACATACGTG
* * * *
45575232 CCCCTGTTTGTACTTCGGTT
1 CCCCTGATTGCACTTTGGTA
* ** *
45575252 CCCCTGATTGCACATACGTG
1 CCCCTGATTGCACTTTGGTA
* * *
45575272 CCCCCGTTTGTACTTTGGTA
1 CCCCTGATTGCACTTTGGTA
45575292 CCCCTGATTGCACTTT
1 CCCCTGATTGCACTTT
45575308 CGTGCCCTGG
Statistics
Matches: 40, Mismatches: 16, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.12, C:0.33, G:0.18, T:0.37
Consensus pattern (20 bp):
CCCCTGATTGCACTTTGGTA
Found at i:45576054 original size:19 final size:19
Alignment explanation
Indices: 45576030--45576066 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
45576020 CTCAGCCGTA
*
45576030 TGAGGCACACGGCCATGTT
1 TGAGGCACACGACCATGTT
45576049 TGAGGCACACGACCATGT
1 TGAGGCACACGACCATGT
45576067 GTCATCTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.30, T:0.19
Consensus pattern (19 bp):
TGAGGCACACGACCATGTT
Found at i:45577118 original size:42 final size:42
Alignment explanation
Indices: 45577059--45577181 Score: 165
Period size: 42 Copynumber: 2.9 Consensus size: 42
45577049 GTTTCACAGT
*
45577059 TTGTGTATTAGCGAAGCTCCCTACGTGAGCTTAAGTGATAAG
1 TTGTGTATCAGCGAAGCTCCCTACGTGAGCTTAAGTGATAAG
* *
45577101 TTGTGTATCAGCGAAGCTCCTTACGTGAGCTTAAGTGACAAG
1 TTGTGTATCAGCGAAGCTCCCTACGTGAGCTTAAGTGATAAG
* * * * **
45577143 CTATGTATCAGCGAAGCTCCCCATGCAAGCTTAAGTGAT
1 TTGTGTATCAGCGAAGCTCCCTACGTGAGCTTAAGTGAT
45577182 TGTGCTCCTT
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (42 bp):
TTGTGTATCAGCGAAGCTCCCTACGTGAGCTTAAGTGATAAG
Found at i:45583543 original size:39 final size:39
Alignment explanation
Indices: 45583489--45583693 Score: 329
Period size: 39 Copynumber: 5.2 Consensus size: 39
45583479 AATCTTATTT
*
45583489 AGTATAATCAGTGGATAATTCTCGTTTGAGCAAGCATTC
1 AGTATAATCAGTGGATAATGCTCGTTTGAGCAAGCATTC
* *
45583528 AGTATAACCAGTGGATAATGCTCATTTGAGCAAGCATTC
1 AGTATAATCAGTGGATAATGCTCGTTTGAGCAAGCATTC
*
45583567 GGTATAATCAGTGGATAATGCTCGTTTGAGCAAGCATTC
1 AGTATAATCAGTGGATAATGCTCGTTTGAGCAAGCATTC
*
45583606 AGTATAATCAGTGGATAATGCTCGTTTGAGCAAGCATTT
1 AGTATAATCAGTGGATAATGCTCGTTTGAGCAAGCATTC
* * *
45583645 AGTATAATCAGTGGATATTGCTCGTTTGAGCAAATCATTT
1 AGTATAATCAGTGGATAATGCTCGTTTGAGC-AAGCATTC
45583685 AGTATAATC
1 AGTATAATC
45583694 GATATTCCAT
Statistics
Matches: 155, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 139 0.90
40 16 0.10
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (39 bp):
AGTATAATCAGTGGATAATGCTCGTTTGAGCAAGCATTC
Found at i:45586234 original size:43 final size:43
Alignment explanation
Indices: 45586110--45586299 Score: 188
Period size: 43 Copynumber: 4.4 Consensus size: 43
45586100 TAACATTTGT
* *
45586110 GGCGCTTATTTCTATAAACGCCGCTAAAGGTCATGTTCTTTAGC
1 GGCGCTT-TTTCCACAAACGCCGCTAAAGGTCATGTTCTTTAGC
* * * * *
45586154 GGCAC--TTTCATAAAAATGCCGCTAAAGGTCATGTTCTTTGGC
1 GGCGCTTTTTC-CACAAACGCCGCTAAAGGTCATGTTCTTTAGC
* * * * *
45586196 GACGCTTTTTCCACAAACGCCGCTAAAGGGCATCTTCTTTTGT
1 GGCGCTTTTTCCACAAACGCCGCTAAAGGTCATGTTCTTTAGC
* * *
45586239 GGCGCTTTTCCCGA-AAATGCCGCTAAAGGTCATGTTCTTTACC
1 GGCGCTTTTTCC-ACAAACGCCGCTAAAGGTCATGTTCTTTAGC
*
45586282 GGCGCTTTCTCCACAAAC
1 GGCGCTTTTTCCACAAAC
45586300 TGCTGTTGTT
Statistics
Matches: 117, Mismatches: 24, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
41 4 0.03
42 33 0.28
43 71 0.61
44 9 0.08
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (43 bp):
GGCGCTTTTTCCACAAACGCCGCTAAAGGTCATGTTCTTTAGC
Found at i:45586267 original size:86 final size:85
Alignment explanation
Indices: 45586125--45586299 Score: 233
Period size: 86 Copynumber: 2.0 Consensus size: 85
45586115 TTATTTCTAT
* * *
45586125 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCACTTTCATAAAAATGCCGCTAAAGGTCATGTTC
1 AAACGCCGCTAAAGGGCATCTTCTTTAGCGGCACTTTCACAAAAATGCCGCTAAAGGTCATGTTC
** *
45586190 TTTGGCGACGCTTTTTCCAC
66 TTTACCGACGCTTTCTCCAC
* * * * *
45586210 AAACGCCGCTAAAGGGCATCTTCTTTTGTGGCGCTTTTCCCGAAAATGCCGCTAAAGGTCATGTT
1 AAACGCCGCTAAAGGGCATCTTCTTTAGCGGCAC-TTTCACAAAAATGCCGCTAAAGGTCATGTT
*
45586275 CTTTACCGGCGCTTTCTCCAC
65 CTTTACCGACGCTTTCTCCAC
45586296 AAAC
1 AAAC
45586300 TGCTGTTGTT
Statistics
Matches: 77, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
85 29 0.38
86 48 0.62
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (85 bp):
AAACGCCGCTAAAGGGCATCTTCTTTAGCGGCACTTTCACAAAAATGCCGCTAAAGGTCATGTTC
TTTACCGACGCTTTCTCCAC
Found at i:45586694 original size:20 final size:21
Alignment explanation
Indices: 45586658--45586697 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
45586648 TCTGCTCTAC
45586658 TTCCCTCGCTGCAGCCTCTGG
1 TTCCCTCGCTGCAGCCTCTGG
*
45586679 TTCCCTC-CTGCCGCCTCTG
1 TTCCCTCGCTGCAGCCTCTG
45586698 CTTTAATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.03, C:0.47, G:0.20, T:0.30
Consensus pattern (21 bp):
TTCCCTCGCTGCAGCCTCTGG
Found at i:45589548 original size:16 final size:16
Alignment explanation
Indices: 45589527--45589785 Score: 158
Period size: 16 Copynumber: 15.8 Consensus size: 16
45589517 AATTACAAGG
*
45589527 GTAAGTTGTGTATTAT
1 GTAAGTTATGTATTAT
*
45589543 GTAAGTTATGATATGAT
1 GTAAGTTATG-TATTAT
* *
45589560 ATATATTTATGTATTAT
1 GTA-AGTTATGTATTAT
* *
45589577 GTAAGTTATGTACTAA
1 GTAAGTTATGTATTAT
*
45589593 GTTATGTATTATGTAAGTTAT
1 G-TAAG--TTATGT-A-TTAT
* *
45589614 GTAAGTTGTGTATCAT
1 GTAAGTTATGTATTAT
*
45589630 GTGAGTTATGTATGTTAT
1 GTAAGTTATGTA--TTAT
45589648 GTAAGTTATGTATTAT
1 GTAAGTTATGTATTAT
* * ***
45589664 GTATGTAAACCCAAGTTAT
1 GTAAGT-TA-TGTA-TTAT
45589683 GTAAGTTATGTAAGTTAT
1 GTAAGTTATGT-A-TTAT
45589701 GTAAGTTATGTA-TAT
1 GTAAGTTATGTATTAT
45589716 -T--G-TATG--TTAT
1 GTAAGTTATGTATTAT
45589726 GTAAGTTATGTATTAT
1 GTAAGTTATGTATTAT
*
45589742 GT-A-TTATGTAAGTACT
1 GTAAGTTATGT-ATTA-T
*
45589758 GTAAGTAATGTATTAT
1 GTAAGTTATGTATTAT
45589774 GTAAGTTATGTA
1 GTAAGTTATGTA
45589786 AGTAATGTAT
Statistics
Matches: 186, Mismatches: 33, Indels: 48
0.70 0.12 0.18
Matches are distributed among these distances:
10 3 0.02
11 5 0.03
12 1 0.01
13 1 0.01
14 11 0.06
15 7 0.04
16 63 0.34
17 24 0.13
18 49 0.26
19 15 0.08
20 4 0.02
21 3 0.02
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.46
Consensus pattern (16 bp):
GTAAGTTATGTATTAT
Found at i:45589587 original size:9 final size:9
Alignment explanation
Indices: 45589527--45589794 Score: 173
Period size: 9 Copynumber: 31.3 Consensus size: 9
45589517 AATTACAAGG
*
45589527 GTAAGTTGT
1 GTAAGTTAT
45589536 GT-A-TTAT
1 GTAAGTTAT
45589543 GTAAGTTAT
1 GTAAGTTAT
* *
45589552 GATATGATAT
1 G-TAAGTTAT
* *
45589562 AT-ATTTAT
1 GTAAGTTAT
45589570 GT-A-TTAT
1 GTAAGTTAT
45589577 GTAAGTTAT
1 GTAAGTTAT
45589586 GTACTAAGTTAT
1 G---TAAGTTAT
45589598 GT-A-TTAT
1 GTAAGTTAT
45589605 GTAAGTTAT
1 GTAAGTTAT
*
45589614 GTAAGTTGT
1 GTAAGTTAT
*
45589623 GT-A-TCAT
1 GTAAGTTAT
*
45589630 GTGAGTTAT
1 GTAAGTTAT
*
45589639 GTATGTTAT
1 GTAAGTTAT
45589648 GTAAGTTAT
1 GTAAGTTAT
45589657 GT-A-TTAT
1 GTAAGTTAT
* * *
45589664 GTATGTAAAC
1 GTAAGT-TAT
**
45589674 CCAAGTTAT
1 GTAAGTTAT
45589683 GTAAGTTAT
1 GTAAGTTAT
45589692 GTAAGTTAT
1 GTAAGTTAT
45589701 GTAAGTTAT
1 GTAAGTTAT
45589710 GT-A--TATT
1 GTAAGTTA-T
*
45589717 GTATGTTAT
1 GTAAGTTAT
45589726 GTAAGTTAT
1 GTAAGTTAT
45589735 GT-A-TTAT
1 GTAAGTTAT
45589742 GT-A-TTAT
1 GTAAGTTAT
45589749 GTAAG-TACT
1 GTAAGTTA-T
*
45589758 GTAAGTAAT
1 GTAAGTTAT
45589767 GT-A-TTAT
1 GTAAGTTAT
45589774 GTAAGTTAT
1 GTAAGTTAT
*
45589783 GTAAGTAAT
1 GTAAGTTAT
45589792 GTA
1 GTA
45589795 TTATATAAGT
Statistics
Matches: 204, Mismatches: 30, Indels: 50
0.72 0.11 0.18
Matches are distributed among these distances:
6 2 0.01
7 48 0.24
8 20 0.10
9 112 0.55
10 13 0.06
12 9 0.04
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:45589625 original size:25 final size:25
Alignment explanation
Indices: 45589566--45589794 Score: 111
Period size: 25 Copynumber: 8.9 Consensus size: 25
45589556 TGATATATAT
45589566 TTATGTATTATGTAAGTTATGTACTAAG
1 TTATGTATTATGTAAGTTATG---TAAG
45589594 TTATGTATTATGTAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* * * *
45589619 TTGTGTATCATGTGAGTTATGTATG
1 TTATGTATTATGTAAGTTATGTAAG
*
45589644 TTATGTAAGTTATGT-A-TTATGTATG
1 TTATGT-A-TTATGTAAGTTATGTAAG
* ***
45589669 TAAACCCAAGTTATGTAAGTTATGTAAG
1 T-TA-TGTA-TTATGTAAGTTATGTAAG
*
45589697 TTATGTAAGTTATGT-A--TATTGTATG
1 TTATGT-A-TTATGTAAGTTA-TGTAAG
45589722 TTATGTAAGTTATGT-A-TTATGT-A-
1 TTATGT-A-TTATGTAAGTTATGTAAG
* *
45589745 TTATGTAAGTACTGTAAGTAATGT-A-
1 TTATGT-ATTA-TGTAAGTTATGTAAG
*
45589770 TTATGTAAGTTATGTAAGTAATGTA
1 TTATGT-A-TTATGTAAGTTATGTA
45589795 TTATATAAGT
Statistics
Matches: 167, Mismatches: 20, Indels: 30
0.77 0.09 0.14
Matches are distributed among these distances:
22 2 0.01
23 11 0.07
24 3 0.02
25 90 0.54
26 16 0.10
27 15 0.09
28 30 0.18
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:45589647 original size:34 final size:34
Alignment explanation
Indices: 45589601--45589794 Score: 130
Period size: 34 Copynumber: 5.5 Consensus size: 34
45589591 AAGTTATGTA
*
45589601 TTATGTAAGTTATGTAAGTTGTGTATCATGTGAG
1 TTATGTAAGTTATGTAAGTTATGTATCATGTGAG
* *
45589635 TTATGTATGTTATGTAAGTTATGTATTATGTATGTAAACCCAAG
1 TTATGTAAGTTATGTAAGTTATGTATCATG--TG--------AG
*
45589679 TTATGTAAGTTATGTAAGTTATGTA--A-GTTATG
1 TTATGTAAGTTATGTAAGTTATGTATCATGTGA-G
* *
45589711 TATATTGTATGTTATGTAAGTTATGTATTATGT-A-
1 T-TA-TGTAAGTTATGTAAGTTATGTATCATGTGAG
* * *
45589745 TTATGTAAG-TACTGTAAGTAATGTATTATGTAAG
1 TTATGTAAGTTA-TGTAAGTTATGTATCATGTGAG
*
45589779 TTATGTAAGTAATGTA
1 TTATGTAAGTTATGTA
45589795 TTATATAAGT
Statistics
Matches: 131, Mismatches: 9, Indels: 40
0.73 0.05 0.22
Matches are distributed among these distances:
31 3 0.02
32 25 0.19
33 5 0.04
34 62 0.47
35 1 0.01
36 4 0.03
37 2 0.02
39 1 0.01
41 1 0.01
42 1 0.01
44 26 0.20
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.45
Consensus pattern (34 bp):
TTATGTAAGTTATGTAAGTTATGTATCATGTGAG
Found at i:45589666 original size:78 final size:79
Alignment explanation
Indices: 45589601--45589785 Score: 205
Period size: 78 Copynumber: 2.4 Consensus size: 79
45589591 AAGTTATGTA
* *
45589601 TTATGTAAGTTATGTAAGTTGTGT-A-TCATGTGAGT-TATGTATGTTATGTAAGTTATGTATTA
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATGT-A-TAT-TGTATGTTATGTAAGTTATGTATTA
*
45589663 TGTATGTA--AACCCAAG
63 TGTAT-TATGTACCCAAG
45589679 TTATGTAAGTTATGTAAGTTATGTAAGTTATGTATATTGTATGTTATGTAAGTTATGTATTATGT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATGTATATTGTATGTTATGTAAGTTATGTATTATGT
45589744 ATTATGT----AAG
66 ATTATGTACCCAAG
*
45589754 -TACTGTAAGTAATGT-A-TTATGTAAGTTATGTA
1 TTA-TGTAAGTTATGTAAGTTATGTAAGTTATGTA
45589786 AGTAATGTAT
Statistics
Matches: 97, Mismatches: 4, Indels: 17
0.82 0.03 0.14
Matches are distributed among these distances:
73 16 0.16
74 3 0.03
75 14 0.14
77 2 0.02
78 54 0.56
79 3 0.03
80 5 0.05
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (79 bp):
TTATGTAAGTTATGTAAGTTATGTAAGTTATGTATATTGTATGTTATGTAAGTTATGTATTATGT
ATTATGTACCCAAG
Found at i:45589692 original size:87 final size:81
Alignment explanation
Indices: 45589527--45589788 Score: 278
Period size: 87 Copynumber: 3.1 Consensus size: 81
45589517 AATTACAAGG
* * *
45589527 GTAAGTTGTGTATTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTA-CT
1 GTAAGTTGTGTA-TATGTGAGTTATG-TATGTTATGTA-TTATGTATTATGTAAG-TA---ACCT
45589591 AAGTTATGTATTATGTAAGTTAT
59 AAGTTATGTATTATGTAAGTTAT
* *
45589614 GTAAGTTGTGTATCATGTGAGTTATGTATGTTATGTAAGTTATGTATTATGTATGTAAACCCAAG
1 GTAAGTTGTGTAT-ATGTGAGTTATGTATGTTATGT-A-TTATGTATTATGTAAGT-AACCTAAG
45589679 TTATGTAAGTTATGTAAGTTAT
62 TTATGT-A-TTATGTAAGTTAT
* * *
45589701 GTAAGTTATGTATAT-TGTATGTTATGTAAGTTATGTATTATGTATTATGTAAGT-ACTGTAAGT
1 GTAAGTTGTGTATATGTG-A-GTTATGTATGTTATGTATTATGTATTATGTAAGTAAC-CTAAGT
*
45589764 AATGTATTATGTAAGTTAT
63 TATGTATTATGTAAGTTAT
45589783 GTAAGT
1 GTAAGT
45589789 AATGTATTAT
Statistics
Matches: 154, Mismatches: 12, Indels: 23
0.81 0.06 0.12
Matches are distributed among these distances:
82 19 0.12
83 3 0.02
84 9 0.06
85 28 0.18
86 15 0.10
87 80 0.52
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.46
Consensus pattern (81 bp):
GTAAGTTGTGTATATGTGAGTTATGTATGTTATGTATTATGTATTATGTAAGTAACCTAAGTTAT
GTATTATGTAAGTTAT
Found at i:45589795 original size:25 final size:23
Alignment explanation
Indices: 45589590--45589805 Score: 114
Period size: 25 Copynumber: 9.3 Consensus size: 23
45589580 AGTTATGTAC
45589590 TAAGTTATGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGT-A-TTATG
* *
45589615 TAAGTTGTGTATCATGTGAGTTATG
1 TAAGTTATGTATTATGT-A-TTATG
*
45589640 TATGTTATGTAAGTTATGTATTATG
1 TAAGTTATGT-A-TTATGTATTATG
* * ** *
45589665 TATG-TA--AACCCAAG--TTATG
1 TAAGTTATGTA-TTATGTATTATG
45589684 TAAGTTATGTA--A-G--TTATG
1 TAAGTTATGTATTATGTATTATG
45589702 TAAGTTATGTA-TATTGTATGTTATG
1 TAAGTTATGTATTA-TGTA--TTATG
45589727 TAAGTTATGTATTATGTATTATG
1 TAAGTTATGTATTATGTATTATG
*
45589750 TAAG-TACTGTAAGTAATGTATTATG
1 TAAGTTA-TGT-A-TTATGTATTATG
* *
45589775 TAAGTTATGTAAGTAATGTATTATA
1 TAAGTTATGT-A-TTATGTATTATG
45589800 TAAGTT
1 TAAGTT
45589806 GTGTCTAATA
Statistics
Matches: 159, Mismatches: 15, Indels: 34
0.76 0.07 0.16
Matches are distributed among these distances:
18 17 0.11
19 10 0.06
20 2 0.01
21 4 0.03
22 3 0.02
23 12 0.08
24 3 0.02
25 97 0.61
26 6 0.04
27 5 0.03
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (23 bp):
TAAGTTATGTATTATGTATTATG
Found at i:45589866 original size:25 final size:25
Alignment explanation
Indices: 45589832--45589891 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
45589822 ATGTAGGGCA
*
45589832 AAGTTGTGTATAATGTAAGTTA-GG
1 AAGTTATGTATAATGTAAGTTATGG
* *
45589856 AAGGTTATGTATTATGTAAGTTATGT
1 AA-GTTATGTATAATGTAAGTTATGG
45589882 AAGTTATGTA
1 AAGTTATGTA
45589892 GGCTATGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.06
25 26 0.84
26 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.25, T:0.42
Consensus pattern (25 bp):
AAGTTATGTATAATGTAAGTTATGG
Done.