Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 11 of 250
Found at i:3147558 original size:28 final size:26
Alignment explanation
Indices: 3147465--3147576 Score: 98
Period size: 27 Copynumber: 4.2 Consensus size: 26
3147455 AGGAAGCGTC
* * * *
3147465 CTGGTGTCTATGCCACAAATATCTGAT
1 CTGGTGACTCTGCCAC-ATTATCTGTT
* *
3147492 CTGGTGGCTCTGTCACATATATCTGTT
1 CTGGTGACTCTGCCACAT-TATCTGTT
* *
3147519 CTGGTGGCTCTGCCATGATTATCTGTAT
1 CTGGTGACTCTGCCA-CATTATCTGT-T
* *
3147547 CTGGTGATTCTGTCACATTATCTGTT
1 CTGGTGACTCTGCCACATTATCTGTT
3147573 CTGG
1 CTGG
3147577 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 6 0.08
27 50 0.70
28 15 0.21
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.39
Consensus pattern (26 bp):
CTGGTGACTCTGCCACATTATCTGTT
Found at i:3163176 original size:42 final size:42
Alignment explanation
Indices: 3163117--3163196 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
3163107 ACTTTACGTC
3163117 TAATAAACCTAAATTAAATTATAATTAA-ATTTAAATGTCAAT
1 TAATAAACCTAAATTAAATTATAA-TAATATTTAAATGTCAAT
* *
3163159 TAATAAATCTAAATTAAATTATAATAATATTTAGATGT
1 TAATAAACCTAAATTAAATTATAATAATATTTAAATGT
3163197 GAATACAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 3 0.09
42 32 0.91
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (42 bp):
TAATAAACCTAAATTAAATTATAATAATATTTAAATGTCAAT
Found at i:3167701 original size:30 final size:30
Alignment explanation
Indices: 3167653--3167710 Score: 73
Period size: 32 Copynumber: 1.9 Consensus size: 30
3167643 CTTCATAAAT
* *
3167653 ATATATACGTACTAAAAGTATACATAATAATA
1 ATATATACATAC-AAAAGTACAC-TAATAATA
3167685 ATATATACATAC-AAAGTACACTAATA
1 ATATATACATACAAAAGTACACTAATA
3167711 TTTAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.21
30 8 0.33
32 11 0.46
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.29
Consensus pattern (30 bp):
ATATATACATACAAAAGTACACTAATAATA
Found at i:3167757 original size:16 final size:16
Alignment explanation
Indices: 3167733--3167763 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3167723 AATAGTAAAC
*
3167733 ATAATATTAATATTAA
1 ATAAAATTAATATTAA
3167749 ATAAAATTAATATTA
1 ATAAAATTAATATTA
3167764 CAAATTTAAT
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAAATTAATATTAA
Found at i:3174663 original size:22 final size:22
Alignment explanation
Indices: 3174633--3174674 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
3174623 TTCGGCAGCA
3174633 AATAACAATCGGTTCTTGAATG
1 AATAACAATCGGTTCTTGAATG
*
3174655 AATAGCAATCGGTTCTTGAA
1 AATAACAATCGGTTCTTGAA
3174675 GGAGATCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (22 bp):
AATAACAATCGGTTCTTGAATG
Found at i:3176080 original size:15 final size:15
Alignment explanation
Indices: 3176060--3176104 Score: 90
Period size: 15 Copynumber: 3.0 Consensus size: 15
3176050 CATTTGATTA
3176060 AAGTTAATGTATAGT
1 AAGTTAATGTATAGT
3176075 AAGTTAATGTATAGT
1 AAGTTAATGTATAGT
3176090 AAGTTAATGTATAGT
1 AAGTTAATGTATAGT
3176105 TTTGAAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (15 bp):
AAGTTAATGTATAGT
Found at i:3179917 original size:48 final size:48
Alignment explanation
Indices: 3179838--3179934 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 48
3179828 TTATGCTATG
* * *
3179838 CATTTCTAAACTTGGTCTTCCACTGTATACACTCTTACCACTATTTAT
1 CATTGCTAAACTCGGTCTTCCACTGTATACACTCTTACCACTAATTAT
* * * *
3179886 CATTGCTAAACTCGGTGTTCCATTGTCTACACTCTTATCACTAATTAT
1 CATTGCTAAACTCGGTCTTCCACTGTATACACTCTTACCACTAATTAT
3179934 C
1 C
3179935 CCTTCTTGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.25, C:0.27, G:0.08, T:0.40
Consensus pattern (48 bp):
CATTGCTAAACTCGGTCTTCCACTGTATACACTCTTACCACTAATTAT
Found at i:3182514 original size:3 final size:3
Alignment explanation
Indices: 3182506--3182541 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
3182496 TTTCCCTTTC
3182506 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3182542 ATAACATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:3184704 original size:30 final size:30
Alignment explanation
Indices: 3184645--3184732 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
3184635 CCAGACAGAT
* * * *
3184645 AACCTTGATATAGTTTCAACTTGTTTGAGC
1 AACCTTGATATAATGTCAGCTTGTGTGAGC
** *
3184675 AATTTTGTTATAATGTCAGCTTGTGTGAGC
1 AACCTTGATATAATGTCAGCTTGTGTGAGC
*
3184705 AACCTTGATATACTGTCAGCTTGTGTGA
1 AACCTTGATATAATGTCAGCTTGTGTGA
3184733 ACATCATATT
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (30 bp):
AACCTTGATATAATGTCAGCTTGTGTGAGC
Found at i:3185306 original size:22 final size:20
Alignment explanation
Indices: 3185290--3185352 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
3185280 ATTTTCGTTA
3185290 ACATTTTTTTTCTTTTTCTT
1 ACATTTTTTTTCTTTTTCTT
3185310 -CATTTGTTCTTTCTTTCTTCTT
1 ACATTT-TT-TTTCTTT-TTCTT
* *
3185332 CACCTTTCTTTTCTTTTTCTT
1 -ACATTTTTTTTCTTTTTCTT
3185353 TTCGCGTGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
19 5 0.14
20 2 0.06
21 12 0.33
22 12 0.33
23 1 0.03
24 4 0.11
ACGTcount: A:0.06, C:0.22, G:0.02, T:0.70
Consensus pattern (20 bp):
ACATTTTTTTTCTTTTTCTT
Found at i:3191685 original size:23 final size:23
Alignment explanation
Indices: 3191657--3191702 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
3191647 GGTAAACTAT
3191657 AAAAATAATCACTTTTCTTTGCC
1 AAAAATAATCACTTTTCTTTGCC
3191680 AAAAATAATCACTTTTCTTTGCC
1 AAAAATAATCACTTTTCTTTGCC
3191703 TCAGATTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (23 bp):
AAAAATAATCACTTTTCTTTGCC
Found at i:3199611 original size:20 final size:20
Alignment explanation
Indices: 3199588--3199662 Score: 59
Period size: 20 Copynumber: 3.8 Consensus size: 20
3199578 GTATGTTTCC
3199588 ATTAACTTATGTTAATTAAG
1 ATTAACTTATGTTAATTAAG
3199608 ATTATGAC-TA-GTTAATTAAG
1 ATTA--ACTTATGTTAATTAAG
* * *
3199628 ATTTAGTT-TAATTAATTAAG
1 ATTAACTTAT-GTTAATTAAG
3199648 ATTAA-TTAATGTTAA
1 ATTAACTT-ATGTTAA
3199663 ACAAAGTATA
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
18 1 0.02
19 3 0.07
20 34 0.79
21 3 0.07
22 2 0.05
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.45
Consensus pattern (20 bp):
ATTAACTTATGTTAATTAAG
Found at i:3204003 original size:50 final size:50
Alignment explanation
Indices: 3203876--3204003 Score: 193
Period size: 50 Copynumber: 2.5 Consensus size: 50
3203866 ATGAACAAAT
* *
3203876 GAGTTACTTAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGG
1 GAGTTACATAATGCATGACTTAA-TTAATGATGCAAACTTAACTAACATGA
* * *
3203927 GAGTTACATAATGCATGTCATAATTAATGATGCAAACTTAACTTACATGA
1 GAGTTACATAATGCATGACTTAATTAATGATGCAAACTTAACTAACATGA
*
3203977 GAGTTACATAATGCATGACTTTATTAA
1 GAGTTACATAATGCATGACTTAATTAA
3204004 ATGCAGAACA
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
50 49 0.71
51 20 0.29
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (50 bp):
GAGTTACATAATGCATGACTTAATTAATGATGCAAACTTAACTAACATGA
Found at i:3205370 original size:20 final size:18
Alignment explanation
Indices: 3205332--3205382 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
3205322 TCGTTCGTTC
* *
3205332 TCTTTTCCTTTTT-GCTT
1 TCTTTTTCTTTTTCGATT
3205349 TCTTTTATTCTTTTTCGATT
1 TC-TTT-TTCTTTTTCGATT
3205369 TCTTTTTCTTTTTC
1 TCTTTTTCTTTTTC
3205383 ACATGCTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 2 0.07
18 12 0.41
19 10 0.34
20 5 0.17
ACGTcount: A:0.04, C:0.20, G:0.04, T:0.73
Consensus pattern (18 bp):
TCTTTTTCTTTTTCGATT
Found at i:3208010 original size:51 final size:51
Alignment explanation
Indices: 3207963--3208084 Score: 183
Period size: 50 Copynumber: 2.4 Consensus size: 51
3207953 CGAGTTATTG
*
3207963 AATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGGGAGTTACAT
1 AATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGAGAGTTACAT
* * * *
3208014 AACGCATGTCATAATTT-ATGATGCAAACTTAACTTACATGAGAGTTACAT
1 AATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGAGAGTTACAT
*
3208064 AATGCATGACTTTATTTAATG
1 AATGCATGACTTAATTTAATG
3208085 CAAAACACAT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 44 0.72
51 17 0.28
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.34
Consensus pattern (51 bp):
AATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGAGAGTTACAT
Found at i:3208151 original size:39 final size:39
Alignment explanation
Indices: 3208092--3208168 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
3208082 ATGCAAAACA
* *
3208092 CATATTAATGTTGTTCAAACTATGACATAATTAAAGACT
1 CATACTAATGATGTTCAAACTATGACATAATTAAAGACT
3208131 CATACTAATGATGTTCAAACTATGACATAATTAAAGAC
1 CATACTAATGATGTTCAAACTATGACATAATTAAAGAC
3208169 ACAAATTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.32
Consensus pattern (39 bp):
CATACTAATGATGTTCAAACTATGACATAATTAAAGACT
Found at i:3208516 original size:24 final size:24
Alignment explanation
Indices: 3208484--3208533 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
3208474 AACCACCTCA
3208484 TATATGTTGTTGAGAAGGAACACT
1 TATATGTTGTTGAGAAGGAACACT
3208508 TATATGTTGTTGAGAAGGAACACT
1 TATATGTTGTTGAGAAGGAACACT
3208532 TA
1 TA
3208534 CCTTACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (24 bp):
TATATGTTGTTGAGAAGGAACACT
Found at i:3208589 original size:60 final size:60
Alignment explanation
Indices: 3208520--3208648 Score: 249
Period size: 60 Copynumber: 2.1 Consensus size: 60
3208510 TATGTTGTTG
*
3208520 AGAAGGAACACTTACCTTACACAATTCATACAAGAGTAGAATTTACAACACATGGACTTA
1 AGAAGGAACACTTACCTTACACAATTCATACAAGAGTAGAATTTACAACACATAGACTTA
3208580 AGAAGGAACACTTACCTTACACAATTCATACAAGAGTAGAATTTACAACACATAGACTTA
1 AGAAGGAACACTTACCTTACACAATTCATACAAGAGTAGAATTTACAACACATAGACTTA
3208640 AGAAGGAAC
1 AGAAGGAAC
3208649 TCACGAGAAA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
60 68 1.00
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (60 bp):
AGAAGGAACACTTACCTTACACAATTCATACAAGAGTAGAATTTACAACACATAGACTTA
Found at i:3208631 original size:29 final size:29
Alignment explanation
Indices: 3208538--3208631 Score: 68
Period size: 29 Copynumber: 3.2 Consensus size: 29
3208528 CACTTACCTT
3208538 ACACAATTCATACAAGAGTAGAATTTACA
1 ACACAATTCATACAAGAGTAGAATTTACA
** * * * *
3208567 ACAC-ATGGACT-TAAGAAGGA-ACACTTACCTT
1 ACACAATTCA-TACAAG-AGTAGA-ATTTA-C-A
3208598 ACACAATTCATACAAGAGTAGAATTTACA
1 ACACAATTCATACAAGAGTAGAATTTACA
3208627 ACACA
1 ACACA
3208632 TAGACTTAAG
Statistics
Matches: 45, Mismatches: 12, Indels: 16
0.62 0.16 0.22
Matches are distributed among these distances:
28 7 0.16
29 17 0.38
30 2 0.04
31 12 0.27
32 7 0.16
ACGTcount: A:0.46, C:0.20, G:0.12, T:0.22
Consensus pattern (29 bp):
ACACAATTCATACAAGAGTAGAATTTACA
Found at i:3209393 original size:17 final size:17
Alignment explanation
Indices: 3209373--3209412 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
3209363 CTGGAGTTTG
3209373 CCAAATGGCAAATCCCA
1 CCAAATGGCAAATCCCA
*
3209390 CCAAATGGCGAATCCCA
1 CCAAATGGCAAATCCCA
3209407 CCAAAT
1 CCAAAT
3209413 ATGCCACACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.40, C:0.35, G:0.12, T:0.12
Consensus pattern (17 bp):
CCAAATGGCAAATCCCA
Found at i:3215594 original size:37 final size:38
Alignment explanation
Indices: 3215535--3215614 Score: 119
Period size: 37 Copynumber: 2.1 Consensus size: 38
3215525 GCAAATGATT
3215535 TTAAAATTATTAAAGTTATTTTTT-AAATATAAAATTA
1 TTAAAATTATTAAAGTTATTTTTTGAAATATAAAATTA
* *
3215572 TTAAAATTATTATA-TTATTTTTTTGAAATATAAACTTA
1 TTAAAATTATTAAAGTTA-TTTTTTGAAATATAAAATTA
3215610 TTAAA
1 TTAAA
3215615 TAGATCATTG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
36 3 0.08
37 19 0.49
38 17 0.44
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (38 bp):
TTAAAATTATTAAAGTTATTTTTTGAAATATAAAATTA
Found at i:3218453 original size:52 final size:53
Alignment explanation
Indices: 3218373--3218478 Score: 205
Period size: 52 Copynumber: 2.0 Consensus size: 53
3218363 GAAGAATTTA
3218373 GAAAAAAATAGAGTTGTTTTTTATGGTGGTGCACAATGATGGTGGCCACAGTG
1 GAAAAAAATAGAGTTGTTTTTTATGGTGGTGCACAATGATGGTGGCCACAGTG
3218426 GAAAAAAATAGAGTT-TTTTTTATGGTGGTGCACAATGATGGTGGCCACAGTG
1 GAAAAAAATAGAGTTGTTTTTTATGGTGGTGCACAATGATGGTGGCCACAGTG
3218478 G
1 G
3218479 CGCTAGGGCA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 38 0.72
53 15 0.28
ACGTcount: A:0.30, C:0.09, G:0.30, T:0.30
Consensus pattern (53 bp):
GAAAAAAATAGAGTTGTTTTTTATGGTGGTGCACAATGATGGTGGCCACAGTG
Found at i:3220527 original size:925 final size:917
Alignment explanation
Indices: 3218447--3220885 Score: 2555
Period size: 925 Copynumber: 2.6 Consensus size: 917
3218437 AGTTTTTTTT
* * * * ** * * * *
3218447 ATGGTGGTGCACAATGATGGTGGCCACAGTGGCGCTAGGGCAGTGGTGGAGGATCAA-AAAGGAG
1 ATGGGGGTGCACAATGATGGTGGCCATAATGGTGCTAGGGCAGCAGCGGAGGA-GAACAAAAGAA
* * * * * * * * * * *
3218511 AGGAGTGGT-GAAAAAGGGGAGATCCGATAGTGGTTTAATTGGTAGGGGAGTGGTGGATGAGAGG
65 AGAAAT-GTCGAAAAAGGGGAGATTCAATAATAGTTCAACTGGAAAGGGAGTGGTGGAGGAGAGG
* * **
3218575 TGGAAAAATAATGCAATAGTTGGTGGTAGATGGCTAAAGTAAATTGAAAATGGAGAGAAAA-AGG
129 -GGAAAAATAATGCAATAGGTGGTGGTTGATGGCTAAAGTAAATCAAAAATGGAGAGAAAACAGG
* * * * * * * *
3218639 GAGGAGCTAAGGA-AGGGACAACAATAGGG-GAAAAGGGTAAGTAATAGTGAAACTAAAGATGTT
193 AAGGAGCCAAGGAGGGGGACGACAATAGGGAGAAAAGAGTAAGGAAAAGTGAAACAAAAGATGTT
* * *
3218702 ACTCACTTGTCTAGGTGTAATGAATCAGCATACATGGTAAAGTTGA--AAAAAATGTATGTTGAA
258 ACTTACTTGTCTAGGTGTAATGAATCAGCACACATGGTAAAGATGATGAAAAAA-GTATGTTG-A
* * * * * *
3218765 GGGACAATGGAGCAGAAAGGGGATCATGTTTGTAAACATATAGTATGTTAACTTATTAAGATAGG
321 GGGACAATGGAGCAAAAAGGGGATCATGTTTGTAAACATATGGTATGTTGACTTGTTAAGAAATG
* **
3218830 AAAGAAATCCTCCCATGCAAGACAACAAATGGACAGA-AAAGGGGGATATTGACTGTTCAAATTT
386 AAAGAAATCCTCCCATGCAAGGCAACAAATGGAC-GACAAA-GGGGATATTGACCATTCAAATTT
* *
3218894 GGCAGAAAAATAAATAAAAATATGGATAGTG-TGAAGACTTGAACCTAAGACCTTAAGGAAACAA
449 GGCAGAAAAATAAATAAAAATATGGATAGTGTTG-AGACTTGAACCT-AGGCCTTAAGGAAACTA
* * *
3218958 ATTAAGCTCTTAAACATTAGACTGACT--C-ACTTGTTCACAGACTACAACATTTATTTTAAAAA
512 ATTAAGCTCTTAACCATTAGACTAACTCACTACTTGTTCACAAACTACAACA-TTATTTTAAAAA
* * * * *
3219020 CATGGTGTGACTTTTGCTAAGGTTTGACGGAAAATTGCACAACATAGAAAATAGTGTGAGGGAAG
576 CATGGTGTGACCTTTGCTAAGGTTTAACGCAAAATTGCACAACATAGAAAATAATGTGAGAGAAG
3219085 AGATACAAACACATGTCATCAAGGACATCCTCACCACTACTTGATCACTAAAAAAATTCAGGAGT
641 AGATACAAACACATGTCATCAAGGACATCCTCACCACTACTTGATCACTAAAAAAATTCAGGAGT
* * *
3219150 GGCCACACTCGGTTCATTAACCTAATTTCTACTAAGCTGGGTTTTGGGAAAAGAAAAAGATCACC
706 GACCACACTCGGTTCATTAACCTAATTTCTACTAAGCTGAGTTTTGGAAAAAGAAAAAGATCACC
* ** * * * * * * * *
3219215 AATGCCTTTGGACGCACGGTGGCGATCCTACGAGAAGTGGATGGGTGAGGAGTGTAGAAGGCACT
771 AAAGCCGGTGGACGCAC-G-GACAATACTACGAG-ACTGAACGGGTGAGGAGGGGAGAAGGCACT
* *
3219280 TGAGACACTTGAGGCACTAGAGGAAAGAAGGAGAAAATAGAAAGGGAAAAAGAAATGGAGAAGAA
833 T-AGACA--T-A-GCACTAGAGGAAAGAAGGAGAAAATAGAAAGAGAAAAAGAAAT-GACAAGAA
* *
3219345 GAAGATAAAAAAAAGAGTTATTTTCG
892 GAAGAGAAAAAAAAGAATTATTTTCG
* ** ** *
3219371 ATGGGGGTGCACAATGATGGTGGCCATGATGGTGCTAGGGCAGCAGTTGAGGATTATAAAAGAAA
1 ATGGGGGTGCACAATGATGGTGGCCATAATGGTGCTAGGGCAGCAGCGGAGGAGAACAAAAGAAA
* * * * * *
3219436 TAAATGTCGAAAAAGGGGATATTCAATGATGGTTCAATTGGAAAGGGAGTGGTAGAGGAGAAGGG
66 GAAATGTCGAAAAAGGGGAGATTCAATAATAGTTCAACTGGAAAGGGAGTGGTGGAGGAG-AGGG
* * *
3219501 GAAAAATAATGCAATAGGTGGTGGTAT-ATGGCTAAAGTAAATGAAAAATAGAGAGAAGAC-GGA
130 GAAAAATAATGCAATAGGTGGTGGT-TGATGGCTAAAGTAAATCAAAAATGGAGAGAAAACAGGA
* *
3219564 AGGAGCCAAGGCGGGGGACGACAATAGGGA-AAAAGAGTAAGGAAAAGTTAAACAAAAGATGTTA
194 AGGAGCCAAGGAGGGGGACGACAATAGGGAGAAAAGAGTAAGGAAAAGTGAAACAAAAGATGTTA
* *
3219628 CTTACTTGTCTAGGTGTAATGAATCAACACACATGGAAAAGATGATGAAAAAAGTATGTTGAGGG
259 CTTACTTGTCTAGGTGTAATGAATCAGCACACATGGTAAAGATGATGAAAAAAGTATGTTGAGGG
* * * *
3219693 TATAATGGAGCAAAAAAGGAATCATGTTTGTAAAAATATGGTATGTTGACTTGTTAAGAAATGAA
324 -ACAATGGAGCAAAAAGGGGATCATGTTTGTAAACATATGGTATGTTGACTTGTTAAGAAATGAA
* * * * *
3219758 AGAAATCCTCCTATACAAGGCAAAAAATGGACGACAAAAGGGTTATTGACCATTCAAATTTGGCA
388 AGAAATCCTCCCATGCAAGGCAACAAATGGACGACAAAGGGGATATTGACCATTCAAATTTGGCA
* * *
3219823 GAAAAATAAATAAAAATATGG-TGAGTGTTGAGACTTGAACCTAGGCTTTTAATGAAACTAACTA
453 GAAAAATAAATAAAAATATGGAT-AGTGTTGAGACTTGAACCTAGGC-CTTAAGGAAACTAATTA
* * *
3219887 AGCTTTTAACCATTAGACTAACTCACTTACTTGGTCACAAACTACAATATATATTTTAAAAACAT
516 AGCTCTTAACCATTAGACTAACTCAC-TACTTGTTCACAAACTACAACAT-TATTTTAAAAACAT
* * *
3219952 GGTGTGACCTTTGCTATGGTTTAATGCAAAATTGC-C-TCGTATAGAAAATAATGTGAGAGAAGA
579 GGTGTGACCTTTGCTAAGGTTTAACGCAAAATTGCACAAC--ATAGAAAATAATGTGAGAGAAGA
* * *
3220015 GATTCAAATACA-GATCATCAAGGACAT-CTCCACCACTACTTGATCACTAAAAAAAAATT-GGG
642 GATACAAACACATG-TCATCAAGGACATCCT-CACCACTACTTGATCACT--AAAAAAATTCAGG
* * * * *
3220077 TGTGACCACTCTTGGTTCATTAATCC-AATTTCTACTAAG-TTAGTTTCTGGAAAAAGAAAATGA
703 AGTGACCACACTCGGTTCATTAA-CCTAATTTCTACTAAGCTGAGTTT-TGGAAAAAGAAAAAGA
** * * * * *
3220140 TCATGAAAGCCGGTGGAGGCAC-GACAATAGTTC-AG-CTTAACGGAG-GAGGAGGGGAGAAGGG
766 TCACCAAAGCCGGTGGACGCACGGACAATACTACGAGACTGAACGG-GTGAGGAGGGGAGAAGGC
** * *
3220201 GGTT-G-CA-A-CACTAGAGGAAAGAATGAGAGAAT-GAAGAGAGAAAAAGAAAT-ACAA-AAGA
830 ACTTAGACATAGCACTAGAGGAAAGAAGGAGAAAATAGAA-AGAGAAAAAGAAATGACAAGAAGA
* * *
3220259 AGAGAGAAAAAGAGAATTCTTTTTG
894 AGAGA-AAAAAAAGAATTATTTTCG
** * * * *
3220284 ATGGTTGTGCACAATGGTGGTGGCCATAATGTTGAAC-AGTGGCA-CTAAGGCGGCGGCGAAGCA
1 ATGGGGGTGCACAATGATGGTGGCCATAATGGTG--CTAG-GGCAGC--A-GCGGAGGAGAA-CA
* * *** * * * *
3220347 ACACAGAGGAGAGGA-G-CGAAAAAAAAGGGGAGATTTGGTAATAGTTCAGCTGGCATGGGAATG
59 A-A-AGA-AAGA-AATGTCG---AAAAAGGGGAGATTCAATAATAGTTCAACTGGAAAGGGAGTG
* * * * *
3220410 GTGGAGGAGAGGACGAAAAATAGTGCAGTAGGTGATGGTTGATGGCTAAAGTAAAACAAAAATGG
117 GTGGAGGAGAGG-GGAAAAATAATGCAATAGGTGGTGGTTGATGGCTAAAGTAAATCAAAAATGG
*
3220475 AGCA-AAAACAGGAAGGAGCCAAGGAGGGGGACGACAATAGGGAGAGAAGAGTAAGGAAAAGTGA
181 AG-AGAAAACAGGAAGGAGCCAAGGAGGGGGACGACAATAGGGAGAAAAGAGTAAGGAAAAGTGA
* * * *
3220539 AACAAAATATGTTACTTACTTTTCTAGGTGTAATGAATTAGCACAAATGGTAAAGATGATGAAAA
245 AACAAAAGATGTTACTTACTTGTCTAGGTGTAATGAATCAGCACACATGGTAAAGATGATGAAAA
* *
3220604 AGGTATGCTGATGGGACAATGGAGCAAAAAGGGGATCATGTTTGTAAACATATGGTATGTTGACT
310 AAGTATGTTGA-GGGACAATGGAGCAAAAAGGGGATCATGTTTGTAAACATATGGTATGTTGACT
* * * * *
3220669 TGTTAATAAATGAAAGAACTGCTCCCATGCAAGGCAACAAGTGGACGACAAAGGGGCGTATTGAC
374 TGTTAAGAAATGAAAGAAATCCTCCCATGCAAGGCAACAAATGGACGACAAAGGGG-ATATTGAC
* *
3220734 CATTCAAATTT-GCAAGAAAAATAAATAAAAATATGGATAGTGTGGAGACTTGAACATAGGACCT
438 CATTCAAATTTGGC-AGAAAAATAAATAAAAATATGGATAGTGTTGAGACTTGAACCTAGG-CCT
*
3220798 TAAGGAAACTAATTAAGCTCTTAACCATTAGGCTAACTCACCTACTTGTTCACAAACTACAACAC
501 TAAGGAAACTAATTAAGCTCTTAACCATTAGACTAACTCA-CTACTTGTTCACAAACTACAACA-
*
3220863 TTATTTTAAAAACATGGTATGAC
564 TTATTTTAAAAACATGGTGTGAC
3220886 ATTTACTACT
Statistics
Matches: 1267, Mismatches: 192, Indels: 110
0.81 0.12 0.07
Matches are distributed among these distances:
912 8 0.01
913 47 0.04
914 6 0.00
915 40 0.03
916 1 0.00
917 6 0.00
918 2 0.00
919 1 0.00
920 5 0.00
921 5 0.00
922 6 0.00
923 91 0.07
924 216 0.17
925 368 0.29
926 238 0.19
927 18 0.01
928 5 0.00
929 129 0.10
930 64 0.05
931 11 0.01
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (917 bp):
ATGGGGGTGCACAATGATGGTGGCCATAATGGTGCTAGGGCAGCAGCGGAGGAGAACAAAAGAAA
GAAATGTCGAAAAAGGGGAGATTCAATAATAGTTCAACTGGAAAGGGAGTGGTGGAGGAGAGGGG
AAAAATAATGCAATAGGTGGTGGTTGATGGCTAAAGTAAATCAAAAATGGAGAGAAAACAGGAAG
GAGCCAAGGAGGGGGACGACAATAGGGAGAAAAGAGTAAGGAAAAGTGAAACAAAAGATGTTACT
TACTTGTCTAGGTGTAATGAATCAGCACACATGGTAAAGATGATGAAAAAAGTATGTTGAGGGAC
AATGGAGCAAAAAGGGGATCATGTTTGTAAACATATGGTATGTTGACTTGTTAAGAAATGAAAGA
AATCCTCCCATGCAAGGCAACAAATGGACGACAAAGGGGATATTGACCATTCAAATTTGGCAGAA
AAATAAATAAAAATATGGATAGTGTTGAGACTTGAACCTAGGCCTTAAGGAAACTAATTAAGCTC
TTAACCATTAGACTAACTCACTACTTGTTCACAAACTACAACATTATTTTAAAAACATGGTGTGA
CCTTTGCTAAGGTTTAACGCAAAATTGCACAACATAGAAAATAATGTGAGAGAAGAGATACAAAC
ACATGTCATCAAGGACATCCTCACCACTACTTGATCACTAAAAAAATTCAGGAGTGACCACACTC
GGTTCATTAACCTAATTTCTACTAAGCTGAGTTTTGGAAAAAGAAAAAGATCACCAAAGCCGGTG
GACGCACGGACAATACTACGAGACTGAACGGGTGAGGAGGGGAGAAGGCACTTAGACATAGCACT
AGAGGAAAGAAGGAGAAAATAGAAAGAGAAAAAGAAATGACAAGAAGAAGAGAAAAAAAAGAATT
ATTTTCG
Found at i:3221581 original size:14 final size:14
Alignment explanation
Indices: 3221564--3221590 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3221554 TCGTACTCTA
3221564 CTTTTAATGAAGGG
1 CTTTTAATGAAGGG
3221578 CTTTTAATGAAGG
1 CTTTTAATGAAGG
3221591 ACCGATTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (14 bp):
CTTTTAATGAAGGG
Found at i:3230443 original size:19 final size:19
Alignment explanation
Indices: 3230419--3230455 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3230409 TGCATGCATA
*
3230419 AATCGGTAACATGTAACCT
1 AATCGGTAACATATAACCT
*
3230438 AATCGGTAGCATATAACC
1 AATCGGTAACATATAACC
3230456 CTGAATCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (19 bp):
AATCGGTAACATATAACCT
Found at i:3230976 original size:17 final size:17
Alignment explanation
Indices: 3230950--3230988 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
3230940 TAATAGTCTG
* *
3230950 CCAAACCTTAGAGTTTT
1 CCAAAACTTAGAGTTTA
3230967 CCAAAACTTAGAGTTTA
1 CCAAAACTTAGAGTTTA
3230984 CCAAA
1 CCAAA
3230989 TGGCGAACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.28
Consensus pattern (17 bp):
CCAAAACTTAGAGTTTA
Found at i:3233875 original size:49 final size:47
Alignment explanation
Indices: 3233746--3234390 Score: 1060
Period size: 47 Copynumber: 13.6 Consensus size: 47
3233736 GATAATTGTG
* *
3233746 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCG-TGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
3233792 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3233839 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3233888 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3233935 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3233984 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3234033 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
3234080 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC-ATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3234126 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3234175 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
3234224 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
3234271 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
3234318 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
3234365 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
3234391 TCCCGAAGGG
Statistics
Matches: 571, Mismatches: 20, Indels: 15
0.94 0.03 0.02
Matches are distributed among these distances:
46 55 0.10
47 280 0.49
48 25 0.04
49 211 0.37
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:3233910 original size:96 final size:96
Alignment explanation
Indices: 3233746--3234390 Score: 1076
Period size: 96 Copynumber: 6.8 Consensus size: 96
3233736 GATAATTGTG
3233746 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCG-TGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
3233808 ATGTGATAAGGCCGAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
3233839 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
3233904 ATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
3233935 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
3234000 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
3234033 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
3234096 ATGTGATAAGGCCGAATGGCC-ATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
3234126 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
3234191 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
3234224 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
3234287 ATGTGATGAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
3234318 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
3234381 ATGTGATAAG
66 ATGTGATAAG
3234391 TCCCGAAGGG
Statistics
Matches: 527, Mismatches: 15, Indels: 19
0.94 0.03 0.03
Matches are distributed among these distances:
93 25 0.05
94 125 0.24
95 78 0.15
96 207 0.39
97 25 0.05
98 67 0.13
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:3236674 original size:40 final size:40
Alignment explanation
Indices: 3236613--3236972 Score: 537
Period size: 40 Copynumber: 9.1 Consensus size: 40
3236603 AGGTCTCGAC
3236613 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
3236652 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
3236692 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
3236732 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
3236772 GATGTATCC-GGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
3236811 GATGTATCCGGACTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
3236851 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * * *
3236891 AATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCATGCTAGT
* * * * *
3236931 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
3236971 GA
1 GA
3236973 CGTGTATTCG
Statistics
Matches: 295, Mismatches: 22, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
39 43 0.15
40 250 0.85
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:3236915 original size:159 final size:160
Alignment explanation
Indices: 3236613--3236972 Score: 573
Period size: 159 Copynumber: 2.3 Consensus size: 160
3236603 AGGTCTCGAC
*
3236613 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTACCCGGGCTAAGTCCCGAAG
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTACCCGGACTAAGTCCCGAAG
* *
3236677 AGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCG
66 AGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTAATATATCCG
*
3236742 GGCTAAGTCCCGAAGAGCATTCGTGCTAGT
131 GGCTAAGACCCGAAGAGCATTCGTGCTAGT
*
3236772 GATGTATCC-GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGACTAAGTCCCGAAG
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTACCCGGACTAAGTCCCGAAG
*
3236836 AGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATATATCCG
66 AGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTAATATATCCG
* *
3236901 TGCTAA-ACCTCGAAGAGCATTCGTGCTGGT
131 GGCTAAGACC-CGAAGAGCATTCGTGCTAGT
* * * * *
3236931 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
3236973 CGTGTATTCG
Statistics
Matches: 185, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
158 2 0.01
159 150 0.81
160 33 0.18
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (160 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTACCCGGACTAAGTCCCGAAG
AGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTAATATATCCG
GGCTAAGACCCGAAGAGCATTCGTGCTAGT
Found at i:3240000 original size:47 final size:47
Alignment explanation
Indices: 3239948--3240285 Score: 550
Period size: 49 Copynumber: 7.1 Consensus size: 47
3239938 GATAATTGTG
*
3239948 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGA
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
3239995 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3240042 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3240091 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
3240140 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3240187 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
3240236 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3240283 ATG
1 ATG
3240286 CCTAATGGCC
Statistics
Matches: 274, Mismatches: 13, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
47 132 0.48
48 8 0.03
49 134 0.49
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:3240008 original size:49 final size:49
Alignment explanation
Indices: 3239948--3240617 Score: 804
Period size: 47 Copynumber: 13.6 Consensus size: 49
3239938 GATAATTGTG
*
3239948 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
3239995 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3240042 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3240091 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3240140 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3240187 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3240236 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * *
3240283 ATGCCT-AATGGCCGATGTGATGAATGTGAAAGTGTATAAATGTG-ATAA-GGCCAAATG-GCCA
1 ATG--TGAA----AG-TGT-AT--ATAT--ATGTG-AT-AA-G-GCCTAATGGCC-GATGTG---
*
3240344 ATGTG
46 ATG-A
3240349 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ----ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3240402 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
3240451 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
3240498 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
3240545 ATGTGAAAGTG--TGTATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
3240592 ATGTGAAAGCGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
3240618 TCCCGAAGGG
Statistics
Matches: 553, Mismatches: 31, Indels: 78
0.84 0.05 0.12
Matches are distributed among these distances:
47 272 0.49
48 5 0.01
49 206 0.37
52 1 0.00
53 2 0.00
54 3 0.01
55 1 0.00
56 8 0.01
57 7 0.01
58 5 0.01
59 4 0.01
60 4 0.01
61 5 0.01
62 7 0.01
63 9 0.02
64 4 0.01
65 4 0.01
68 1 0.00
69 2 0.00
70 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:3240055 original size:96 final size:95
Alignment explanation
Indices: 3239948--3240285 Score: 597
Period size: 96 Copynumber: 3.5 Consensus size: 95
3239938 GATAATTGTG
* * *
3239948 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTG-TATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATA
*
3240012 TGTGATAAGGCCGAATGGCCGATGTGATGA
66 TGTGATAAGGCCTAATGGCCGATGTGATGA
3240042 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATAT
3240107 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
63 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
3240140 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATAT
3240205 ATGTGATAAGGCCTAATGGCCGATGTGATGA
65 ATGTGATAAGGCCTAATGGCCGATGTGATGA
3240236 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
3240286 CCTAATGGCC
Statistics
Matches: 236, Mismatches: 4, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
94 9 0.04
96 181 0.77
98 46 0.19
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (95 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATA
TGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:3240291 original size:23 final size:23
Alignment explanation
Indices: 3240252--3240308 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
3240242 AAGTGTATAT
*
3240252 ATGTGAT-AAGGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
3240274 ATGTGATGAATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
3240297 ATGTGATGAATG
1 ATGTGATGAATG
3240309 TGAAAGTGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 7 0.21
23 26 0.79
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.26
Consensus pattern (23 bp):
ATGTGATGAATGCCTAATGGCCG
Found at i:3240291 original size:70 final size:70
Alignment explanation
Indices: 3240205--3240355 Score: 259
Period size: 70 Copynumber: 2.2 Consensus size: 70
3240195 GTGTATATAT
* * *
3240205 ATGTGAT-AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
1 ATGTGATGAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCAAAT
*
3240269 GGCCG
66 GGCCA
3240274 ATGTGATGAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCAAAT
1 ATGTGATGAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCAAAT
3240339 GGCCA
66 GGCCA
3240344 ATGTGATGAATG
1 ATGTGATGAATG
3240356 TGAAAGTGTA
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
69 7 0.09
70 70 0.91
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (70 bp):
ATGTGATGAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCAAAT
GGCCA
Found at i:3240304 original size:119 final size:118
Alignment explanation
Indices: 3240156--3240404 Score: 430
Period size: 119 Copynumber: 2.1 Consensus size: 118
3240146 AAGTGTATAT
* *
3240156 ATGTGAT-AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
1 ATGTGATGAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA-A-ATGTGATAAGGCCAA
*
3240220 ATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCG
64 ATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCG
3240274 ATGTGATGAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCAAAT
1 ATGTGATGAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCAAAT
3240339 GGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
66 GGCCAATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCG
3240393 ATGTGATGAATG
1 ATGTGATGAATG
3240405 TGAAAGTGTA
Statistics
Matches: 125, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
117 40 0.32
118 8 0.06
119 77 0.62
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (118 bp):
ATGTGATGAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCAAAT
GGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCG
Found at i:3240304 original size:166 final size:167
Alignment explanation
Indices: 3240109--3240453 Score: 631
Period size: 166 Copynumber: 2.1 Consensus size: 167
3240099 GTGTATATAT
* * *
3240109 ATGTGAT-AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
1 ATGTGATGAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCAAAT
*
3240173 GGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
66 GGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
3240238 GTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCG
131 GTGAAAGTGATATATATGTGATAAGGCCTAATGGCCG
3240274 ATGTGATGAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCAAAT
1 ATGTGATGAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCAAAT
3240339 GGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
66 GGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
3240404 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
131 GTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCG
3240442 ATGTGATGAATG
1 ATGTGATGAATG
3240454 TGAAAGTGTA
Statistics
Matches: 173, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
165 7 0.04
166 127 0.73
168 39 0.23
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (167 bp):
ATGTGATGAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCAAAT
GGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
GTGAAAGTGATATATATGTGATAAGGCCTAATGGCCG
Found at i:3240305 original size:215 final size:214
Alignment explanation
Indices: 3240060--3240500 Score: 805
Period size: 215 Copynumber: 2.1 Consensus size: 214
3240050 GTGTATATAT
* *
3240060 ATGTGAT-AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
1 ATGTGATGAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA-A-ATGTGATAAGGCCAA
*
3240124 ATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
64 ATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
3240188 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
129 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
3240253 TGTGATAAGGCCTAATGGCCG
194 TGTGATAAGGCCTAATAGCCG
3240274 ATGTGATGAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCAAAT
1 ATGTGATGAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCAAAT
3240339 GGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
66 GGCCAATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
3240404 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
130 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
3240469 GTGATAAGGCCTAATAGCCG
195 GTGATAAGGCCTAATAGCCG
3240489 ATGTGATGAATG
1 ATGTGATGAATG
3240501 TGAAAGTGTA
Statistics
Matches: 220, Mismatches: 4, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
213 40 0.18
214 8 0.04
215 172 0.78
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (214 bp):
ATGTGATGAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCAAAT
GGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
TGATAAGGCCTAATAGCCG
Found at i:3249416 original size:29 final size:30
Alignment explanation
Indices: 3249375--3249433 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
3249365 GAATTGGATC
3249375 AAATCAAAATTTCATATATAAAATTGCACA
1 AAATCAAAATTTCATATATAAAATTGCACA
* *
3249405 AAATC-AAATTTCATGTATACAATTGCACA
1 AAATCAAAATTTCATATATAAAATTGCACA
3249434 TTAAACTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTTCATATATAAAATTGCACA
Found at i:3249773 original size:29 final size:30
Alignment explanation
Indices: 3249714--3249774 Score: 70
Period size: 31 Copynumber: 2.0 Consensus size: 30
3249704 TAAAAACTGC
* *
3249714 ACATGAACTTTGGTTTAATGTGCAATATTAT
1 ACATAAACTTTGATTT-ATGTGCAATATTAT
* *
3249745 ACATAAACTTTGATTT-TGTGTAATTTTAT
1 ACATAAACTTTGATTTATGTGCAATATTAT
3249774 A
1 A
3249775 TATGATATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 12 0.46
31 14 0.54
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46
Consensus pattern (30 bp):
ACATAAACTTTGATTTATGTGCAATATTAT
Found at i:3256644 original size:55 final size:57
Alignment explanation
Indices: 3256548--3256657 Score: 145
Period size: 55 Copynumber: 2.0 Consensus size: 57
3256538 AATCTGTTTG
* *
3256548 TATTTCAAATTTTTTTTACTTTGGTTTTCTGTTTTGATGTACTTCTAATATATAGGA
1 TATTTCAAATTTTCTTTACTTTGGTTTTCTGTTTTGATGTACTCCTAATATATAGGA
* * *
3256605 TATTTCAAA-TTTCTTTGCTCTT-GTTTT-TGTTTTGGTGTACTCCTGATATATAG
1 TATTTCAAATTTTCTTTACT-TTGGTTTTCTGTTTTGATGTACTCCTAATATATAG
3256658 AAGTTAGTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
55 23 0.49
56 13 0.28
57 11 0.23
ACGTcount: A:0.20, C:0.11, G:0.14, T:0.55
Consensus pattern (57 bp):
TATTTCAAATTTTCTTTACTTTGGTTTTCTGTTTTGATGTACTCCTAATATATAGGA
Found at i:3259445 original size:16 final size:17
Alignment explanation
Indices: 3259419--3259452 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
3259409 TGAGGAGGTA
3259419 TATATGGTTGTTTGAAT
1 TATATGGTTGTTTGAAT
3259436 TATA-GGTTGTTTGAAT
1 TATATGGTTGTTTGAAT
3259452 T
1 T
3259453 CTCTCACTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (17 bp):
TATATGGTTGTTTGAAT
Found at i:3268331 original size:23 final size:23
Alignment explanation
Indices: 3268303--3268349 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
3268293 TAGTGTTAGC
3268303 AGTTGTGGTCGAATTAGAGGCTT
1 AGTTGTGGTCGAATTAGAGGCTT
3268326 AGTTGTGGTCGAATTAGAGGCTT
1 AGTTGTGGTCGAATTAGAGGCTT
3268349 A
1 A
3268350 TATCTAGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.23, C:0.09, G:0.34, T:0.34
Consensus pattern (23 bp):
AGTTGTGGTCGAATTAGAGGCTT
Found at i:3269143 original size:24 final size:24
Alignment explanation
Indices: 3269116--3269170 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
3269106 TATAATTGAT
3269116 ATTGCATTTGACTT-TGTATATGAA
1 ATTGCATTTGA-TTCTGTATATGAA
3269140 ATTGCATTTGATTCTGTATATGAA
1 ATTGCATTTGATTCTGTATATGAA
3269164 ATTGCAT
1 ATTGCAT
3269171 CTATATTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 2 0.07
24 28 0.93
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.45
Consensus pattern (24 bp):
ATTGCATTTGATTCTGTATATGAA
Found at i:3270366 original size:21 final size:22
Alignment explanation
Indices: 3270328--3270369 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
3270318 TTGTTAGGAT
3270328 TTAAATAATATAATTTTATAAA
1 TTAAATAATATAATTTTATAAA
*
3270350 TTAAATAA-ATTATTTTATAA
1 TTAAATAATATAATTTTATAA
3270370 TATATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAAATAATATAATTTTATAAA
Found at i:3276442 original size:23 final size:25
Alignment explanation
Indices: 3276416--3276462 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
3276406 TATCATTCAT
*
3276416 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
3276439 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
3276463 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:3276784 original size:46 final size:46
Alignment explanation
Indices: 3276724--3276845 Score: 183
Period size: 46 Copynumber: 2.7 Consensus size: 46
3276714 TTTGACGTGA
* * * *
3276724 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTC-TTTTCATGTCACGT
*
3276770 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
3276816 TGCCATGGTATCTTTCAACCATGGTCTTAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC
3276846 ACACAGGTTG
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
45 5 0.07
46 64 0.93
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.43
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
Found at i:3276865 original size:38 final size:38
Alignment explanation
Indices: 3276814--3276886 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
3276804 TTCATGTCAC
3276814 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
3276852 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA
3276887 TTTCATATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (38 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
Found at i:3279076 original size:31 final size:32
Alignment explanation
Indices: 3279019--3279101 Score: 93
Period size: 31 Copynumber: 2.7 Consensus size: 32
3279009 CTTTATATAC
*
3279019 TAATAAAATAATAAAATATCTTATTAAAGT-AT
1 TAATAAAATAATAAAATATCTAATTAAA-TAAT
**
3279051 TAATAAAATAAT-ATTTATCTAATTAAATAAT
1 TAATAAAATAATAAAATATCTAATTAAATAAT
3279082 T-ATAAAAT-ATCAAAATATCT
1 TAATAAAATAAT-AAAATATCT
3279102 CTAGCATCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
29 2 0.05
30 8 0.19
31 21 0.49
32 12 0.28
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (32 bp):
TAATAAAATAATAAAATATCTAATTAAATAAT
Found at i:3285000 original size:27 final size:27
Alignment explanation
Indices: 3284940--3285000 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
3284930 GGGGATCCTT
*
3284940 GGTAGGTTGTGAACTAGTGGTTTGCCA
1 GGTAGGTTGTGAACTAGTGGTTTGCAA
* *
3284967 GGCAGGTTTTGAACT-G-GGTGTTCGCAA
1 GGTAGGTTGTGAACTAGTGGT-TT-GCAA
3284994 GGTAGGT
1 GGTAGGT
3285001 CATGAGCTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 3 0.11
26 3 0.11
27 22 0.79
ACGTcount: A:0.18, C:0.11, G:0.39, T:0.31
Consensus pattern (27 bp):
GGTAGGTTGTGAACTAGTGGTTTGCAA
Found at i:3291047 original size:22 final size:22
Alignment explanation
Indices: 3291001--3291047 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
3290991 CGGCCATGTT
* *
3291001 CCTAGGTCACACGGGCGTTTGC
1 CCTAGGTCACACGGGCATGTGC
3291023 CCTA-GTCACACGGGCATGTGTC
1 CCTAGGTCACACGGGCATGTG-C
3291045 CCT
1 CCT
3291048 TCATATGAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.15, C:0.34, G:0.28, T:0.23
Consensus pattern (22 bp):
CCTAGGTCACACGGGCATGTGC
Found at i:3292288 original size:27 final size:27
Alignment explanation
Indices: 3292250--3292303 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
3292240 ATTTTGTTAA
*
3292250 ACTAGAAATGTTTCAGATCACTTCGGT
1 ACTAGAAATGTTTCAGATCACATCGGT
*
3292277 ACTAGAAATGTTTCATATCACATCGGT
1 ACTAGAAATGTTTCAGATCACATCGGT
3292304 GATAAAAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (27 bp):
ACTAGAAATGTTTCAGATCACATCGGT
Found at i:3295256 original size:39 final size:39
Alignment explanation
Indices: 3295185--3295259 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
3295175 GATGTTTTTA
*
3295185 AGTATTGTGACATATGCTTAAATTTCATGTGATTATATG
1 AGTATTGTGACATATGCTTAAATTTCAGGTGATTATATG
* **
3295224 AGTATTGTGATATATGCTTGTATATT-AGGTGATTAT
1 AGTATTGTGACATATGCTTAAAT-TTCAGGTGATTAT
3295260 GTGTAATATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 29 0.94
40 2 0.06
ACGTcount: A:0.29, C:0.05, G:0.20, T:0.45
Consensus pattern (39 bp):
AGTATTGTGACATATGCTTAAATTTCAGGTGATTATATG
Found at i:3299451 original size:13 final size:13
Alignment explanation
Indices: 3299433--3299471 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
3299423 ATAATTTAAT
3299433 TTAATTAATTATG
1 TTAATTAATTATG
*
3299446 TTAATTAATTAAG
1 TTAATTAATTATG
3299459 TTAATTTAATTAT
1 TTAA-TTAATTAT
3299472 TTTTTCAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (13 bp):
TTAATTAATTATG
Found at i:3301087 original size:30 final size:30
Alignment explanation
Indices: 3301026--3301115 Score: 146
Period size: 30 Copynumber: 3.0 Consensus size: 30
3301016 CGAAAAAGAT
*
3301026 AGCAAAACAAAATCCAAGTCCAAAA-TTAA
1 AGCAAAACAAAGTCCAAGTCCAAAAGTTAA
3301055 AGCAAAACAAAGTCCAAGTCCAAAAGTTAA
1 AGCAAAACAAAGTCCAAGTCCAAAAGTTAA
**
3301085 AGCAAAACAAAGTCCAAGTAGAAAAGTTAA
1 AGCAAAACAAAGTCCAAGTCCAAAAGTTAA
3301115 A
1 A
3301116 ACCATACAGT
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 24 0.42
30 33 0.58
ACGTcount: A:0.57, C:0.18, G:0.12, T:0.13
Consensus pattern (30 bp):
AGCAAAACAAAGTCCAAGTCCAAAAGTTAA
Found at i:3301873 original size:18 final size:18
Alignment explanation
Indices: 3301850--3301884 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3301840 ATCCTAGGCC
3301850 CACATGCCCGTATGGGCT
1 CACATGCCCGTATGGGCT
*
3301868 CACATGCCCGTTTGGGC
1 CACATGCCCGTATGGGC
3301885 CTACACGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.34, G:0.29, T:0.23
Consensus pattern (18 bp):
CACATGCCCGTATGGGCT
Found at i:3302814 original size:19 final size:19
Alignment explanation
Indices: 3302790--3302826 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
3302780 ACAGGACCTC
3302790 CAGCCAATCCAAACTCTTT
1 CAGCCAATCCAAACTCTTT
3302809 CAGCCAATCCAAACTCTT
1 CAGCCAATCCAAACTCTT
3302827 ACCACTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.38, G:0.05, T:0.24
Consensus pattern (19 bp):
CAGCCAATCCAAACTCTTT
Found at i:3309564 original size:13 final size:13
Alignment explanation
Indices: 3309546--3309570 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3309536 CTCGGTAGGG
3309546 ACACGCCTGTGTA
1 ACACGCCTGTGTA
3309559 ACACGCCTGTGT
1 ACACGCCTGTGT
3309571 GCGATTACTT
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:0.20, C:0.32, G:0.24, T:0.24
Consensus pattern (13 bp):
ACACGCCTGTGTA
Found at i:3311185 original size:22 final size:24
Alignment explanation
Indices: 3311159--3311209 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 24
3311149 AGTTAAATTA
*
3311159 AAAAAATATACTAAA-AATA-AAAT
1 AAAAAAT-GACTAAATAATAGAAAT
3311182 AAAAAATGACTAAATTAATAGAAAT
1 AAAAAATGACTAAA-TAATAGAAAT
3311207 AAA
1 AAA
3311210 GTTTTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.25
23 7 0.29
24 4 0.17
25 7 0.29
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.22
Consensus pattern (24 bp):
AAAAAATGACTAAATAATAGAAAT
Found at i:3314240 original size:16 final size:16
Alignment explanation
Indices: 3314219--3314411 Score: 56
Period size: 20 Copynumber: 11.1 Consensus size: 16
3314209 TTAATCACTT
3314219 TAATATTAAATTAATA
1 TAATATTAAATTAATA
3314235 TAATATTTATTAAGTTAA-A
1 TAATA-TTA--AA-TTAATA
*
3314254 TATAGATTAAATTTAATA
1 TA-ATATTAAA-TTAATA
3314272 TTAAATATT--ATTAATA
1 -T-AATATTAAATTAATA
* * * *
3314288 GAATGTTTATATATAAGA
1 TAAT-ATTAAAT-TAATA
* *
3314306 TAAATGTTAAATTTAATT
1 T-AATATTAAA-TTAATA
3314324 TAATATTAAGA-TAATCA
1 TAATATTAA-ATTAAT-A
3314341 CTTTAATATTAAATTAATA
1 ---TAATATTAAATTAATA
* *
3314360 AAATATT--ATTAAGA
1 TAATATTAAATTAATA
3314374 TAAGTATTAAATTAAATA
1 TAA-TATTAAATT-AATA
*
3314392 TTAAACTATTAAAATAATA
1 -T-AA-TATTAAATTAATA
3314411 T
1 T
3314412 TATTTTTGGA
Statistics
Matches: 132, Mismatches: 19, Indels: 50
0.66 0.09 0.25
Matches are distributed among these distances:
14 11 0.08
15 6 0.05
16 21 0.16
17 22 0.17
18 18 0.14
19 24 0.18
20 30 0.23
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.43
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:3315166 original size:3 final size:3
Alignment explanation
Indices: 3315158--3315232 Score: 150
Period size: 3 Copynumber: 25.0 Consensus size: 3
3315148 TGAATGGCTT
3315158 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
3315206 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
3315233 AAGGTGCTTG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:3318084 original size:12 final size:12
Alignment explanation
Indices: 3318048--3318090 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
3318038 CAATAAAAAA
3318048 TATTATTTTTATT
1 TATTA-TTTTATT
* *
3318061 TAATA-CTTATT
1 TATTATTTTATT
3318072 TATTATTTTATT
1 TATTATTTTATT
3318084 TATTATT
1 TATTATT
3318091 CAATTTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
11 9 0.36
12 12 0.48
13 4 0.16
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (12 bp):
TATTATTTTATT
Found at i:3322459 original size:436 final size:424
Alignment explanation
Indices: 3321640--3322475 Score: 1118
Period size: 436 Copynumber: 1.9 Consensus size: 424
3321630 TAGTTGATAA
* * * * * *
3321640 AATCTTATATATACTTAAAATTTTGATTGATTTGATGTCATCTATAATCGAGTTTTAACTCAGTT
1 AATCTAATATATACTTAAAATTTTGATTGAGTTGATGACATCCATAATCAAGTTCTAACTCAGTT
* * *
3321705 ATAAAGTTACAAAAAATCTCTTATTTGTACAAAGCAATAGATATTATTTTAAGGGTAATTTTAGT
66 ATAAACTTACAAAAAATCTCTTATTTATACAAAGCAATAGATATTATTTTAAGGGTAATTTCAGT
* * *
3321770 TTTTCATATAAAATTTAGAACAAATAATTTTACCTAAACGGGAGTTGAACCCAAAACATTATGAT
131 TTTTCATATAAAATTTAGAACAAATAATTTTACATAAACGGGAATTAAACCCAAAACATTATGAT
* * **
3321835 TTCAACTAAAGTAATATAATAACCACCAACTCAATAATGTTAACTAATACTATTATAGTGCTTTT
196 TTCAACTAAAGCAATATAATAACCACCAACTCAACAATGTTAACTAATACTATTATAGCACTTTT
* ** * **
3321900 GTCTTTTTATACTTTTATATAATCTTTAAATAAAAAATCAAACACCGTGTATCTAAAAATTGAAA
261 ATCTTTTTATACTTTTATATAATCTTTAAATAAAAAATCAAACACCACGTATCCAAAAATCAAAA
3321965 ACATGTTTAATAAATTTTATATACAAGCTTTTTACCACTCCACCTATTGTTATTGTTGAATAAAT
326 ACATGTTTAATAAATTTTATATACAAGCTTTTTACCACTCCACCTATTGTTATTGTTGAATAAAT
3322030 TTTAAAAGAATTTTTTTTTTCTACCCAATGACAT
391 TTTAAAAGAATTTTTTTTTTCTACCCAATGACAT
* * *
3322064 AATCTAATATCTAGTTAAAATTTTGATTGAGTTGATGACATCCATAATCAAGTTCTAATTCAGTT
1 AATCTAATATATACTTAAAATTTTGATTGAGTTGATGACATCCATAATCAAGTTCTAACTCAGTT
* * * *
3322129 ATAAACTTACCAAAAGTCTCTTATTTATACAAAGCAATAGATATTATTTTGAGGGTAATTTCACT
66 ATAAACTTACAAAAAATCTCTTATTTATACAAAGCAATAGATATTATTTTAAGGGTAATTTCA-G
* * * *
3322194 TTTTTTATATAAAATTTAGAATAAATACTTTTA-ATTAACGGGAATTAAATCCAAAAAGTTACGA
130 TTTTTCATATAAAATTTAGAACAAATAATTTTACATAAACGGGAATTAAA-CC---------C-A
* * * *
3322258 TAAACTTTATGATTTCAACTAAAGCAATATAATAGCTACCAACTCAACAATGTTAACTAATATTA
184 -AAACATTATGATTTCAACTAAAGCAATATAATAACCACCAACTCAACAATGTTAACTAATACTA
* * * *
3322323 TTATAGCACTTTTATCTTTTTATACTTTTATATATTTTTTAAATAAAAAATTAAATACCACGTAT
248 TTATAGCACTTTTATCTTTTTATACTTTTATATAATCTTTAAATAAAAAATCAAACACCACGTAT
* * * *
3322388 CCAAAAATCAAAAACATGTTTAATAAATTTTATATACAAGTTTTTTATCAGTCCACTTA-TGATT
313 CCAAAAATCAAAAACATGTTTAATAAATTTTATATACAAGCTTTTTACCACTCCACCTATTG-TT
*
3322452 TTTGTTGAATAAATTTTAAAAGAA
377 ATTGTTGAATAAATTTTAAAAGAA
3322476 AATGTTTTAT
Statistics
Matches: 352, Mismatches: 46, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
424 125 0.36
425 32 0.09
434 1 0.00
435 3 0.01
436 191 0.54
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.39
Consensus pattern (424 bp):
AATCTAATATATACTTAAAATTTTGATTGAGTTGATGACATCCATAATCAAGTTCTAACTCAGTT
ATAAACTTACAAAAAATCTCTTATTTATACAAAGCAATAGATATTATTTTAAGGGTAATTTCAGT
TTTTCATATAAAATTTAGAACAAATAATTTTACATAAACGGGAATTAAACCCAAAACATTATGAT
TTCAACTAAAGCAATATAATAACCACCAACTCAACAATGTTAACTAATACTATTATAGCACTTTT
ATCTTTTTATACTTTTATATAATCTTTAAATAAAAAATCAAACACCACGTATCCAAAAATCAAAA
ACATGTTTAATAAATTTTATATACAAGCTTTTTACCACTCCACCTATTGTTATTGTTGAATAAAT
TTTAAAAGAATTTTTTTTTTCTACCCAATGACAT
Found at i:3324199 original size:77 final size:77
Alignment explanation
Indices: 3324072--3324225 Score: 254
Period size: 77 Copynumber: 2.0 Consensus size: 77
3324062 AAGATCACTT
* * * *
3324072 GTTGTAAGTGTTTGAAGATAGTGGATACTTTTCACTGAGCTAGACTCAGCAAACGTAGAAAAATT
1 GTTGTAAGTGTTTGAAGATAGTGGATACGTCTCACTAAGCTAGACTCAGCAAACGTAGAAAAACT
3324137 GAACAACATAAA
66 GAACAACATAAA
* *
3324149 GTTGTAAGTGTTTGAAGGTAGTGGATACGTCTCACTAAGCTAGCCTCAGCAAACGTAGAAAAACT
1 GTTGTAAGTGTTTGAAGATAGTGGATACGTCTCACTAAGCTAGACTCAGCAAACGTAGAAAAACT
3324214 GAACAACATAAA
66 GAACAACATAAA
3324226 CAAACTTTGT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 71 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.25
Consensus pattern (77 bp):
GTTGTAAGTGTTTGAAGATAGTGGATACGTCTCACTAAGCTAGACTCAGCAAACGTAGAAAAACT
GAACAACATAAA
Found at i:3326299 original size:13 final size:13
Alignment explanation
Indices: 3326265--3326306 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
3326255 CAACAAAAGT
*
3326265 ATATAAAACTAAA
1 ATATAAAAGTAAA
*
3326278 A-AGAAAAGTAAA
1 ATATAAAAGTAAA
3326290 ATATAAAAGTAAA
1 ATATAAAAGTAAA
3326303 ATAT
1 ATAT
3326307 TTTCTACCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.21
Consensus pattern (13 bp):
ATATAAAAGTAAA
Found at i:3329930 original size:33 final size:31
Alignment explanation
Indices: 3329845--3329933 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 31
3329835 TCCATAGAAT
* * * *
3329845 AGATACTCCGCTGGGATAGTAAACACAGAAT
1 AGATAGTCTGCTGGGATAGTAAACACAAAAC
* *
3329876 AGATAGTCTGTTAGGATAGTAAACACAAAAC
1 AGATAGTCTGCTGGGATAGTAAACACAAAAC
*
3329907 AGTAATAGTCTGCTGGGACAGTAAACA
1 AG--ATAGTCTGCTGGGATAGTAAACA
3329934 TAAATAGAGT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
31 27 0.57
33 20 0.43
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.21
Consensus pattern (31 bp):
AGATAGTCTGCTGGGATAGTAAACACAAAAC
Found at i:3331503 original size:27 final size:27
Alignment explanation
Indices: 3331473--3331805 Score: 299
Period size: 27 Copynumber: 12.3 Consensus size: 27
3331463 TTAGTTTACC
3331473 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
3331500 AAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
3331527 AAATCACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
3331554 AAATTACCAAAATACCCTTTGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
3331581 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** * *
3331608 AAATTACTAAAATACCTTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
3331635 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
3331662 AAATTACAAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** *
3331689 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** ***
3331716 AAATTACTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*** * **
3331743 AAATTATTGAAATACCCTTGACTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
3331770 AAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
3331797 GAATTACCA
1 AAATTACCA
3331806 TTTTACCCTC
Statistics
Matches: 258, Mismatches: 46, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
26 4 0.02
27 251 0.97
28 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:3331538 original size:54 final size:54
Alignment explanation
Indices: 3331473--3331805 Score: 362
Period size: 54 Copynumber: 6.2 Consensus size: 54
3331463 TTAGTTTACC
* *
3331473 AAATTACCAAAATACCCCTGGTTTGTAAAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * * * *
3331527 AAATCACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTTGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* *
3331581 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCTTTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * * *
3331635 AAATTACCAAAATACCCCTAGTTTGTAAAATTACAAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * * *** *
3331689 AAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
*** * * * * *
3331743 AAATTATTGAAATA-CCCTTGACTTGTAAAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATACCCTTGGTTTATA
*
3331797 GAATTACCA
1 AAATTACCA
3331806 TTTTACCCTC
Statistics
Matches: 232, Mismatches: 46, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
53 4 0.02
54 228 0.98
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:3331812 original size:27 final size:27
Alignment explanation
Indices: 3331473--3331843 Score: 189
Period size: 27 Copynumber: 13.7 Consensus size: 27
3331463 TTAGTTTACC
* * * *
3331473 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAGTACCCTTGATTTATA
* * * *
3331500 AAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAGTACCCTTGATTTATA
* * * *
3331527 AAATCACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAGTACCCTTGATTTATA
* *
3331554 AAATTACCAAAATACCCTTTG-TTTACA
1 AAATTACCAAAGTACCC-TTGATTTATA
* * *
3331581 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAGTACCCTTGA-TTTATA
* * *
3331608 AAATTACTAAAATACCTTTTG-TTTATA
1 AAATTACCAAAGTACC-CTTGATTTATA
* * *
3331635 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAGTACCCTTGA-TTTATA
* * * * *
3331662 AAATTACAAAAATACCCCTGATTTGTG
1 AAATTACCAAAGTACCCTTGATTTATA
* * * * *
3331689 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAGTACCCTTGATTTATA
* * ** *
3331716 AAATTACTGAAA-TACCCTCGACCTGTA
1 AAATTAC-CAAAGTACCCTTGATTTATA
** * *
3331743 AAATTATTGAAA-TACCCTTGACTTGTA
1 AAATTA-CCAAAGTACCCTTGATTTATA
3331770 AAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAGTACCCTTGATTTATA
* *** * *
3331797 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAGTACCCTTGATTTATA
*
3331824 AAATTACTGAAA-TACCCTTG
1 AAATTAC-CAAAGTACCCTTG
3331844 TAGGGTAGAA
Statistics
Matches: 283, Mismatches: 49, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
26 5 0.02
27 269 0.95
28 9 0.03
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAGTACCCTTGATTTATA
Found at i:3331862 original size:27 final size:27
Alignment explanation
Indices: 3331825--3331992 Score: 219
Period size: 27 Copynumber: 6.2 Consensus size: 27
3331815 CGATTTACAA
* *
3331825 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3331852 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
3331879 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
3331906 AATTACCGAAATACCTCTATAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3331933 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
3331960 AATTACTAAAATACCCCTGTAGGATGG
1 AATTACCGAAATACCCCTGTAGGGTAG
3331987 AATTAC
1 AATTAC
3331993 TAAGATACCT
Statistics
Matches: 121, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 121 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:3331883 original size:54 final size:54
Alignment explanation
Indices: 3331825--3332015 Score: 228
Period size: 54 Copynumber: 3.6 Consensus size: 54
3331815 CGATTTACAA
*
3331825 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTGG
* * * * *
3331879 AATTA-TCGCAATACCCCTGTAGGGTAGAATTACCGAAATACCTCTATAGGGTGG
1 AATTACT-GAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTGG
* * ** *
3331933 AATTACCGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCCTGTAGGATGG
1 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTGG
*
3331987 AATTACT-AAGATA-CCTTGTGGGGTA-AAAT
1 AATTACTGAA-ATACCCTTGTAGGGTAGAAAT
3332016 TACCATTTTG
Statistics
Matches: 117, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
52 3 0.03
53 14 0.12
54 100 0.85
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTGG
Found at i:3331993 original size:27 final size:27
Alignment explanation
Indices: 3331825--3332018 Score: 205
Period size: 27 Copynumber: 7.2 Consensus size: 27
3331815 CGATTTACAA
*
3331825 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
3331852 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
3331879 AATTA-TCGCAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * * *
3331906 AATTACCGAAATACCTCTATAGGGTGG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
3331933 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
3331960 AATTACTAAAATACCCCTGTAGGATGG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
3331987 AATTACT-AAGATA-CCTTGTGGGGTAA
1 AATTACTGAA-ATACCCCTGTAGGGTAG
3332013 AATTAC
1 AATTAC
3332019 CATTTTGCCC
Statistics
Matches: 139, Mismatches: 25, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
26 16 0.12
27 123 0.88
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:3332498 original size:22 final size:21
Alignment explanation
Indices: 3332446--3332510 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
3332436 TTAAAGCCTT
*
3332446 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTTT-TGCCAAC
*
3332468 CT-ACATATGGCTCTTTGCCAAC
1 CTGA-TTATGGCT-TTTGCCAAC
*
3332490 CTGATTATGGCTATGTGCCAA
1 CTGATTATGGCT-TTTGCCAA
3332511 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 1 0.03
22 31 0.89
23 3 0.09
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (21 bp):
CTGATTATGGCTTTTGCCAAC
Found at i:3332699 original size:27 final size:27
Alignment explanation
Indices: 3332669--3332767 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 27
3332659 ATTCTGTTAA
*
3332669 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTTTGCCACAATATCTGTTTCTG
*
3332696 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTTTGCCAC-AATATCTGTTTCTG
3332723 GTGGCTTTGCCACAATATCTGTATT-TG
1 GTGGCTTTGCCACAATATCTGT-TTCTG
* * *
3332750 GTGACTCTGTCACAATAT
1 GTGGCTTTGCCACAATAT
3332768 TTGATAACTG
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.13
27 46 0.73
28 9 0.14
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (27 bp):
GTGGCTTTGCCACAATATCTGTTTCTG
Found at i:3332939 original size:19 final size:19
Alignment explanation
Indices: 3332917--3332975 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
3332907 ATTCTGATTT
3332917 TTGATTCTGTTACCTGATA
1 TTGATTCTGTTACCTGATA
3332936 TTGATTCTG--A--T--T-
1 TTGATTCTGTTACCTGATA
3332948 TTGATTCTGTTACCTGATA
1 TTGATTCTGTTACCTGATA
*
3332967 CTGATTCTG
1 TTGATTCTG
3332976 ATTCTGATTC
Statistics
Matches: 32, Mismatches: 1, Indels: 14
0.68 0.02 0.30
Matches are distributed among these distances:
12 9 0.28
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 17 0.53
ACGTcount: A:0.19, C:0.15, G:0.17, T:0.49
Consensus pattern (19 bp):
TTGATTCTGTTACCTGATA
Found at i:3332946 original size:6 final size:6
Alignment explanation
Indices: 3332907--3333032 Score: 82
Period size: 6 Copynumber: 20.3 Consensus size: 6
3332897 TTGCATTCAC
* *
3332907 ATTCTG ATTTTTG ATTCTG -TTACCTG ATAT-TG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG AT-TCTG ATTCTG ATTCTG ATTCTG
* * *
3332957 -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
*
3333007 ATTCTG ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
3333033 AATGTTTCTT
Statistics
Matches: 94, Mismatches: 12, Indels: 28
0.70 0.09 0.21
Matches are distributed among these distances:
5 7 0.07
6 69 0.73
7 14 0.15
8 3 0.03
9 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:3332953 original size:31 final size:31
Alignment explanation
Indices: 3332907--3333015 Score: 148
Period size: 31 Copynumber: 3.5 Consensus size: 31
3332897 TTGCATTCAC
*
3332907 ATTCTGATTTTTGATTCTGTTACCTGATATTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATATTG
* *
3332939 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATATTG
* *
3332970 ATTCTGATTCTGATTCTGTCACCTAAT-TCTG
1 ATTCTGATTCTGATTCTGTTACCTGATAT-TG
3333001 ATTCTGATTCTGATT
1 ATTCTGATTCTGATT
3333016 TTGATTCTAG
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
31 64 0.90
32 7 0.10
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.50
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATATTG
Found at i:3334987 original size:13 final size:13
Alignment explanation
Indices: 3334969--3334995 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3334959 AATAAATTCT
3334969 AACTCCATGGTAG
1 AACTCCATGGTAG
3334982 AACTCCATGGTAG
1 AACTCCATGGTAG
3334995 A
1 A
3334996 TTTAGTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (13 bp):
AACTCCATGGTAG
Found at i:3337527 original size:29 final size:29
Alignment explanation
Indices: 3337461--3337518 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
3337451 ATGTTTAAGG
3337461 AAAGAAAATAGTTTAATAAAATGAAAGTA
1 AAAGAAAATAGTTTAATAAAATGAAAGTA
3337490 AAAGAAAATAGTTTAATAAAATGAAAGTA
1 AAAGAAAATAGTTTAATAAAATGAAAGTA
3337519 GAGATAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (29 bp):
AAAGAAAATAGTTTAATAAAATGAAAGTA
Found at i:3341344 original size:21 final size:20
Alignment explanation
Indices: 3341306--3341344 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3341296 ACAAACTAAA
*
3341306 ATATAAGAAAAATATCAAAT
1 ATATAAGAAAAAAATCAAAT
*
3341326 ATATGAGAAAAAAAGTCAA
1 ATATAAGAAAAAAA-TCAA
3341345 CAAATAAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.64, C:0.05, G:0.10, T:0.21
Consensus pattern (20 bp):
ATATAAGAAAAAAATCAAAT
Found at i:3342847 original size:18 final size:18
Alignment explanation
Indices: 3342824--3342861 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
3342814 TATATGAACT
*
3342824 ATTTTATAAA-TAATTTAA
1 ATTTTA-AAACTAAATTAA
3342842 ATTTTAAAACTAAATTAA
1 ATTTTAAAACTAAATTAA
3342860 AT
1 AT
3342862 CAGAACATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTTAAAACTAAATTAA
Found at i:3344950 original size:19 final size:19
Alignment explanation
Indices: 3344926--3344964 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
3344916 TTTATATACT
3344926 AATTAAAATGTTTTTATTA
1 AATTAAAATGTTTTTATTA
3344945 AATTAAAATGTTTTTATTA
1 AATTAAAATGTTTTTATTA
3344964 A
1 A
3344965 TTAGTTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
AATTAAAATGTTTTTATTA
Found at i:3346722 original size:13 final size:13
Alignment explanation
Indices: 3346704--3346746 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
3346694 TTAATTTTTT
3346704 CTAAATATTATCA
1 CTAAATATTATCA
3346717 CTAAATA--ATC-
1 CTAAATATTATCA
*
3346727 CTAGATATTATCA
1 CTAAATATTATCA
3346740 CTAAATA
1 CTAAATA
3346747 ATTCAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:3347302 original size:17 final size:18
Alignment explanation
Indices: 3347282--3347315 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3347272 GAGCAGAAGC
3347282 AAGAAACAAGCA-AAAAG
1 AAGAAACAAGCATAAAAG
*
3347299 AAGAAAGAAGCATAAAA
1 AAGAAACAAGCATAAAA
3347316 AAAAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.71, C:0.09, G:0.18, T:0.03
Consensus pattern (18 bp):
AAGAAACAAGCATAAAAG
Found at i:3358187 original size:17 final size:16
Alignment explanation
Indices: 3358165--3358207 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
3358155 ATATTTTTCC
3358165 ATAAAAATAATTAGAAA
1 ATAAAAA-AATTAGAAA
*
3358182 ATAAAAAAATTATAAA
1 ATAAAAAAATTAGAAA
3358198 ATATAAAAAA
1 ATA-AAAAAA
3358208 ATAAAATTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (16 bp):
ATAAAAAAATTAGAAA
Found at i:3358202 original size:7 final size:8
Alignment explanation
Indices: 3358173--3358479 Score: 71
Period size: 9 Copynumber: 34.2 Consensus size: 8
3358163 CCATAAAAAT
*
3358173 AATTAGAA
1 AATTATAA
* *
3358181 AATAAAAA
1 AATTATAA
3358189 AATTATAA
1 AATTATAA
3358197 AA-TATAA
1 AATTATAA
**
3358204 AAAAATAA
1 AATTATAA
3358212 AATTGATATA
1 AATT-ATA-A
3358222 AACTTATGAA
1 AA-TTAT-AA
*
3358232 AATAATTAA
1 AATTA-TAA
*
3358241 AAGTAATAA
1 AA-TTATAA
*
3358250 AATTGTAA
1 AATTATAA
*
3358258 ATATTAAAA
1 A-ATTATAA
*
3358267 AATATAAAA
1 AAT-TATAA
3358276 AATTATAA
1 AATTATAA
3358284 AATTAATAAA
1 AATT-AT-AA
*
3358294 ACATGTTTAAA
1 A-AT-TAT-AA
*
3358305 ATATTTTAA
1 A-ATTATAA
*
3358314 ATTTTATAAA
1 A-ATTAT-AA
3358324 AATGTATAAA
1 AAT-TAT-AA
*
3358334 AATTCTTAAA
1 AATT-AT-AA
*
3358344 AACCTATAAA
1 AA-TTAT-AA
*
3358354 AATCATAAA
1 AATTAT-AA
*
3358363 AAATATTAA
1 AATTA-TAA
*
3358372 AAATATAAA
1 AATTAT-AA
3358381 AATGTATTAA
1 AAT-TA-TAA
3358391 AATTGATATA
1 AATT-ATA-A
3358401 AACTTATAA
1 AA-TTATAA
3358410 AATTATAAA
1 AATTAT-AA
*
3358419 TAATCATAA
1 -AATTATAA
*
3358428 ATAATATAA
1 A-ATTATAA
* *
3358437 AAATAAAA
1 AATTATAA
3358445 TATATTATAAA
1 -A-ATTAT-AA
3358456 AATTAT-A
1 AATTATAA
3358463 AATTAT-A
1 AATTATAA
3358470 AATTATAA
1 AATTATAA
3358478 AA
1 AA
3358480 AAAAGTCATT
Statistics
Matches: 236, Mismatches: 32, Indels: 62
0.72 0.10 0.19
Matches are distributed among these distances:
7 21 0.09
8 50 0.21
9 80 0.34
10 66 0.28
11 18 0.08
12 1 0.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (8 bp):
AATTATAA
Found at i:3358203 original size:18 final size:16
Alignment explanation
Indices: 3358165--3358213 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
3358155 ATATTTTTCC
*
3358165 ATAAAAATAATTAGAAA
1 ATAAAAA-AATTAAAAA
3358182 ATAAAAAAATTATAAAA
1 ATAAAAAAATTA-AAAA
3358199 TATAAAAAAA-TAAAA
1 -ATAAAAAAATTAAAA
3358214 TTGATATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 8 0.28
17 12 0.41
18 9 0.31
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (16 bp):
ATAAAAAAATTAAAAA
Found at i:3358284 original size:19 final size:19
Alignment explanation
Indices: 3358262--3358464 Score: 64
Period size: 19 Copynumber: 10.7 Consensus size: 19
3358252 TTGTAAATAT
3358262 TAAAAAATATAAAAAATTA
1 TAAAAAATATAAAAAATTA
* * *
3358281 T-AAAATTAATAAAACATGTT
1 TAAAAAAT-ATAAAAAAT-TA
* * * **
3358301 TAAAATATTTTAAATTTTA
1 TAAAAAATATAAAAAATTA
* *
3358320 T-AAAAATGTATAAAAATTCT
1 TAAAAAATATA-AAAAATT-A
* *
3358340 TAAAAACCTAT-AAAAATCA
1 TAAAAA-ATATAAAAAATTA
*
3358359 TAAAAAATATTAAAAA-TA
1 TAAAAAATATAAAAAATTA
* *
3358377 T-AAAAATGTATTAAAATTGA
1 TAAAAAATATA-AAAAATT-A
* * *
3358397 TATAAACT-TATAAAATTA
1 TAAAAAATATAAAAAATTA
* *
3358415 TAAATAATCATAAATAA-TA
1 TAAAAAAT-ATAAAAAATTA
*
3358434 T-AAAAATA-AAATATATTA
1 TAAAAAATATAAA-AAATTA
*
3358452 TAAAAATTATAAA
1 TAAAAAATATAAA
3358465 TTATAAATTA
Statistics
Matches: 130, Mismatches: 36, Indels: 35
0.65 0.18 0.17
Matches are distributed among these distances:
16 3 0.02
17 9 0.07
18 34 0.26
19 44 0.34
20 26 0.20
21 12 0.09
22 2 0.02
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.33
Consensus pattern (19 bp):
TAAAAAATATAAAAAATTA
Found at i:3358316 original size:29 final size:29
Alignment explanation
Indices: 3358264--3358343 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 29
3358254 GTAAATATTA
* * *
3358264 AAAAATATA-AAAAATT-ATAAAATTAAT
1 AAAAATGTATAAAAATTCTTAAATTTAAT
* *
3358291 AAAACATGTTTAAAATATT-TTAAATTTTAT
1 AAAA-ATGTATAAAA-ATTCTTAAATTTAAT
3358321 AAAAATGTATAAAAATTCTTAAA
1 AAAAATGTATAAAAATTCTTAAA
3358344 AACCTATAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
27 4 0.09
28 6 0.14
29 18 0.42
30 15 0.35
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAAATGTATAAAAATTCTTAAATTTAAT
Found at i:3358409 original size:57 final size:57
Alignment explanation
Indices: 3358318--3358440 Score: 151
Period size: 57 Copynumber: 2.2 Consensus size: 57
3358308 TTTTAAATTT
*
3358318 TATAAAAATGTATAAAAATTCTTAAAAACCTATAAAAATCATAAAAAAT-ATTAAA-AA
1 TATAAAAATGTATAAAAATTCATAAAAACCTAT-AAAATCATAAAAAATCA-TAAATAA
* * * * * *
3358375 TATAAAAATGTATTAAAATTGATATAAACTTATAAAATTATAAATAATCATAAATAA
1 TATAAAAATGTATAAAAATTCATAAAAACCTATAAAATCATAAAAAATCATAAATAA
3358432 TATAAAAAT
1 TATAAAAAT
3358441 AAAATATATT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
56 17 0.30
57 40 0.70
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (57 bp):
TATAAAAATGTATAAAAATTCATAAAAACCTATAAAATCATAAAAAATCATAAATAA
Found at i:3358435 original size:27 final size:27
Alignment explanation
Indices: 3358405--3358472 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
3358395 GATATAAACT
3358405 TATAAAATTATAAATA-ATCATAAATAA
1 TATAAAATTATAAATATATCATAAA-AA
* *
3358432 TATAAAAATA-AAATATATTATAAAAA
1 TATAAAATTATAAATATATCATAAAAA
3358458 T-TATAAATTATAAAT
1 TATA-AAATTATAAAT
3358473 TATAAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
25 2 0.06
26 13 0.37
27 20 0.57
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (27 bp):
TATAAAATTATAAATATATCATAAAAA
Found at i:3358462 original size:9 final size:9
Alignment explanation
Indices: 3358186--3358480 Score: 129
Period size: 10 Copynumber: 32.6 Consensus size: 9
3358176 TAGAAAATAA
3358186 AAAAATTAT
1 AAAAATTAT
3358195 -AAAA-TAT
1 AAAAATTAT
*
3358202 AAAAA-AAT
1 AAAAATTAT
3358210 -AAAATTGAT
1 AAAAATT-AT
*
3358219 ATAAACTTAT
1 A-AAAATTAT
* *
3358229 GAAAATAAT
1 AAAAATTAT
* *
3358238 TAAAAGTA-
1 AAAAATTAT
*
3358246 ATAAAATTGT
1 A-AAAATTAT
*
3358256 AAATATTA-
1 AAAAATTAT
3358264 AAAAA-TAT
1 AAAAATTAT
3358272 AAAAAATTAT
1 -AAAAATTAT
3358282 -AAAATTAAT
1 AAAAATT-AT
*
3358291 AAAACATGTTT
1 AAAA-AT-TAT
*
3358302 AAAATATTTT
1 AAAA-ATTAT
**
3358312 AAATTTTAT
1 AAAAATTAT
3358321 AAAAATGTAT
1 AAAAAT-TAT
*
3358331 AAAAATTCTT
1 AAAAATT-AT
*
3358341 AAAAACCTAT
1 AAAAA-TTAT
*
3358351 AAAAATCAT
1 AAAAATTAT
*
3358360 AAAAAATATT
1 AAAAATTA-T
3358370 AAAAA-TAT
1 AAAAATTAT
3358378 AAAAATGTAT
1 AAAAAT-TAT
*
3358388 TAAAATTGAT
1 AAAAATT-AT
*
3358398 ATAAACTTAT
1 A-AAAATTAT
3358408 -AAAATTAT
1 AAAAATTAT
*
3358416 AAATAATCAT
1 AAA-AATTAT
3358426 AAATAA-TAT
1 AAA-AATTAT
3358435 AAAAA-TA-
1 AAAAATTAT
3358442 AAATATATTAT
1 AAA-A-ATTAT
3358453 AAAAATTAT
1 AAAAATTAT
3358462 --AAATTAT
1 AAAAATTAT
3358469 --AAATTAT
1 AAAAATTAT
3358476 AAAAA
1 AAAAA
3358481 AAAGTCATTT
Statistics
Matches: 221, Mismatches: 35, Indels: 60
0.70 0.11 0.19
Matches are distributed among these distances:
7 26 0.12
8 38 0.17
9 65 0.29
10 68 0.31
11 23 0.10
12 1 0.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:3359603 original size:19 final size:18
Alignment explanation
Indices: 3359579--3359618 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
3359569 ATAAAATCAA
* *
3359579 ATAATAAATATGTAATTAT
1 ATAATAAAAATAT-ATTAT
3359598 ATAATAAAAATATATTAT
1 ATAATAAAAATATATTAT
3359616 ATA
1 ATA
3359619 TATATCATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
ATAATAAAAATATATTAT
Found at i:3359620 original size:22 final size:22
Alignment explanation
Indices: 3359578--3359622 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
3359568 TATAAAATCA
*
3359578 AATAATAAATATGTAATTATAT
1 AATAATAAATATATAATTATAT
*
3359600 AATAA-AAATATATTATATATAT
1 AATAATAAATATATAAT-TATAT
3359622 A
1 A
3359623 TCATTATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AATAATAAATATATAATTATAT
Found at i:3364762 original size:97 final size:97
Alignment explanation
Indices: 3364554--3364902 Score: 283
Period size: 97 Copynumber: 3.5 Consensus size: 97
3364544 AAACAGATTC
* * *
3364554 CATTGATTCATAAAGGGGTGTGATTG-GACCAAAGGTAAGAATAGTGCCATTCGGTTCATTGCCA
1 CATTGATTCATAAAGGGGTGTGTTTGAG-CCAAAGGTAAGAATAGT---A-TCTGTTCATTG-AA
* * ** * * *
3364618 ATGCGAACTCCATTATGAATCCACCATTACAAGGATTT
60 ATGTGGACTCCATTACAAATCCACCATTACGAGCAATT
*
3364656 CATTGATTCATAAAGGGGTGTGTTTGAGCCAAAGGCAAGAATAGTA-CTGTTCATTGAATATGTG
1 CATTGATTCATAAAGGGGTGTGTTTGAGCCAAAGGTAAGAATAGTATCTGTTCATTGAA-ATGTG
*
3364720 GACTCCATTACAAATCCACCATAACGAGCAATT
65 GACTCCATTACAAATCCACCATTACGAGCAATT
* * * * * * *
3364753 CATTCATTCAGAAA-GGG-GTGTTTGGGCCAAAGGTAATAATATTACCGATTGGTTTCATTATCA
1 CATTGATTCATAAAGGGGTGTGTTTGAGCCAAAGGTAAGAATAGTATC---T-G-TTCA-T-TGA
* *
3364816 AATGGTGGACCCCATTACAAATCCACCATTACGAGCACTT
59 AAT-GTGGACTCCATTACAAATCCACCATTACGAGCAATT
* * ** * *
3364856 GATTTGATTCACAAAGTAGTGTGTTTGAGCCAAGGGTAAGAACAGTA
1 CA-TTGATTCATAAAGGGGTGTGTTTGAGCCAAAGGTAAGAATAGTA
3364903 CCATCACATG
Statistics
Matches: 201, Mismatches: 32, Indels: 24
0.78 0.12 0.09
Matches are distributed among these distances:
95 23 0.11
96 5 0.02
97 51 0.25
99 2 0.01
100 1 0.00
101 4 0.02
102 44 0.22
103 38 0.19
104 10 0.05
105 1 0.00
106 22 0.11
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (97 bp):
CATTGATTCATAAAGGGGTGTGTTTGAGCCAAAGGTAAGAATAGTATCTGTTCATTGAAATGTGG
ACTCCATTACAAATCCACCATTACGAGCAATT
Found at i:3369566 original size:3 final size:3
Alignment explanation
Indices: 3369558--3369588 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
3369548 GAATTATTTC
3369558 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
3369589 AGAAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3370979 original size:89 final size:84
Alignment explanation
Indices: 3370823--3371078 Score: 238
Period size: 89 Copynumber: 3.0 Consensus size: 84
3370813 TTTTGTTTTC
* * * ** *** * *
3370823 AAAATTAAAAGTAAATAAAATTCGTTTTGGGATTTATTCTCGTTGTTTAACGGGTTTTATTCCAT
1 AAAATTAAAGGTAAATAAAATCCGTTTCGAAATTTATTCTCGCCATTCAACGGATTTTATTCCAT
3370888 TATTTTAATTT-TATTTCCAAA
66 TATTTT-ATTTCTATTTCC--A
3370909 TAGGAAATTAAAGGTAAATAAAATCCGTTTCGAAATTTATTCTCGCCATTCAACGGATTTTATTC
1 -A--AAATTAAAGGTAAATAAAATCCGTTTCGAAATTTATTCTCGCCATTCAACGGATTTTATTC
* *
3370974 TATTATTTTGTTTCTATTTCCA
63 CATTATTTTATTTCTATTTCCA
* * * * *
3370996 AAAATTAAAGGTAAATAAAAACCATTAC-AAGATTGATTCCCGCCATTCAAC-GATTTTATTCCA
1 AAAATTAAAGGTAAATAAAATCCGTTTCGAA-ATTTATTCTCGCCATTCAACGGATTTTATTCCA
*
3371059 -AATTTT-TTT-TA-TTCCA
65 TTATTTTATTTCTATTTCCA
3371075 AAAA
1 AAAA
3371079 CGAGTAAAAT
Statistics
Matches: 146, Mismatches: 19, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
79 9 0.06
80 2 0.01
81 3 0.02
82 5 0.03
83 13 0.09
84 42 0.29
86 1 0.01
87 2 0.01
88 3 0.02
89 66 0.45
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (84 bp):
AAAATTAAAGGTAAATAAAATCCGTTTCGAAATTTATTCTCGCCATTCAACGGATTTTATTCCAT
TATTTTATTTCTATTTCCA
Found at i:3371108 original size:77 final size:79
Alignment explanation
Indices: 3370924--3371247 Score: 284
Period size: 77 Copynumber: 4.1 Consensus size: 79
3370914 AATTAAAGGT
* * * * * *
3370924 AAATAAAATCCGTTTCGAAATTTATTCTCGCCATTCAACGGATTTTATTCTATTATTTTGTTTCT
1 AAATAAAATCCGTTTCGGAATTGATTCCCGCCGTTCAAC-GATTTTATTCCA-AATTTTGTTT-T
**
3370989 ATTTCCAAAAATTAAAGGT-
63 ATTTCCAAAAA--CGA-GTA
* * * * *
3371008 AAATAAAAACCATTAC-AAGATTGATTCCCGCCATTCAACGATTTTATTCCAAATTTT-TTTTA-
1 AAATAAAATCCGTTTCGGA-ATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTTGTTTTAT
3371070 TTCCAAAAACGAGTA
65 TTCCAAAAACGAGTA
* * *
3371085 AAATAAAATCTGTTTCGGAATTGATTCCCTCCGTTCAATGATTTTATTCCAAATTTTGTTTTATT
1 AAATAAAATCCGTTTCGGAATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTTGTTTTATT
*
3371150 TTCAAAAACGAGTA
66 TCCAAAAACGAGTA
* * * * ** * *
3371164 AAATAAAATCCGTTTTGGGATTGAGTCTCGCCGTTCAACGGGTTTATT--ACATTTTGATTTTGT
1 AAATAAAATCCGTTTCGGAATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTTG-TTTTAT
*
3371227 TGCCAAAAACGAG-A
65 TTCCAAAAACGAGTA
*
3371241 AATTAAA
1 AAATAAA
3371248 TTAAATAAAA
Statistics
Matches: 202, Mismatches: 32, Indels: 19
0.80 0.13 0.08
Matches are distributed among these distances:
76 2 0.01
77 62 0.31
78 22 0.11
79 62 0.31
80 2 0.01
81 3 0.01
82 5 0.02
83 13 0.06
84 31 0.15
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (79 bp):
AAATAAAATCCGTTTCGGAATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTTGTTTTATT
TCCAAAAACGAGTA
Found at i:3371211 original size:79 final size:77
Alignment explanation
Indices: 3371026--3371203 Score: 257
Period size: 79 Copynumber: 2.3 Consensus size: 77
3371016 ACCATTACAA
*
3371026 GATTGATTCCCGCCATTCAACGATTTTATTCCAAATTTTTTTTATTCCAAAAACGAGTAAAATAA
1 GATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTTTTTTATTCCAAAAACGAGTAAAATAA
*
3371091 AATCTGTTTCGG
66 AATCCGTTTCGG
* * * *
3371103 AATTGATTCCCTCCGTTCAATGATTTTATTCCAAATTTTGTTTTATTTTCAAAAACGAGTAAAAT
1 GATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTT-TTTTA-TTCCAAAAACGAGTAAAAT
*
3371168 AAAATCCGTTTTGG
64 AAAATCCGTTTCGG
* *
3371182 GATTGAGTCTCGCCGTTCAACG
1 GATTGATTCCCGCCGTTCAACG
3371204 GGTTTATTAC
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
77 35 0.40
78 5 0.06
79 47 0.54
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.38
Consensus pattern (77 bp):
GATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTTTTTTATTCCAAAAACGAGTAAAATAA
AATCCGTTTCGG
Found at i:3371440 original size:74 final size:71
Alignment explanation
Indices: 3371299--3371452 Score: 175
Period size: 74 Copynumber: 2.1 Consensus size: 71
3371289 AGATTTATTT
* * * * *
3371299 GATTTTATTTTGTTTCCAAAATTGAGAAATTAAATTAAATCGGTTTCAGGATTTATTCTCGCCGT
1 GATTTTATTATGTTTCCAAAATTGAGAAATAAAATAAAATCGGTTTCAGGACTTATTCCCGCCGT
3371364 TTAACAA
66 TTAAC-A
* * **
3371371 GATTTTATTATGTTT-CAAAATTAGAATTAAATAAAATAAAATCTGTTTTGGGACTTATTCCCGC
1 GATTTTATTATGTTTCCAAAATT-G-A-GAAATAAAATAAAATCGGTTTCAGGACTTATTCCCGC
*
3371435 TGTTTAACA
63 CGTTTAACA
3371444 GATTTTATT
1 GATTTTATT
3371453 TTGATATAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
71 7 0.10
72 15 0.22
73 11 0.16
74 36 0.52
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (71 bp):
GATTTTATTATGTTTCCAAAATTGAGAAATAAAATAAAATCGGTTTCAGGACTTATTCCCGCCGT
TTAACA
Found at i:3373686 original size:49 final size:46
Alignment explanation
Indices: 3373579--3373829 Score: 188
Period size: 49 Copynumber: 5.3 Consensus size: 46
3373569 TGATGTGTGT
* * * *
3373579 GCTAGTGTAAGACCTGTCTAGGACATGGCATCGACACTGAT-AAATAAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCG--GCT--TCAGATATGA
* * *
3373628 GCCACTGTAAGACCTGTCTGAGACATGGCATCGGCTTCAAGATATGCAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCTTC-AGATATG--A
* * * *
3373677 GCTAGTGTAAGACCTGTCTGGGACATGGCATTGGCTTGAGGTGTG-
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCTTCAGATATGA
* * *
3373722 TC-AGTGTAAGACCTGTCTGGGACATGGCATCGAC-ACAGATGAGTGGGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCTTCAGAT-A-T--GA
* * *
3373770 GCTAGTGTAAGACCTATCTGGGACATGGCATCGACTT-AGATGTGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCTTCAGATAT--GA
*
3373817 GCCAGTGTAAGAC
1 GCTAGTGTAAGAC
3373830 TATGTTTGGA
Statistics
Matches: 164, Mismatches: 27, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
43 3 0.02
44 30 0.18
45 3 0.02
47 24 0.15
48 6 0.04
49 98 0.60
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCTTCAGATATGA
Found at i:3381105 original size:49 final size:49
Alignment explanation
Indices: 3380863--3381125 Score: 186
Period size: 49 Copynumber: 5.5 Consensus size: 49
3380853 TGTGTGTCCT
* * * ** * * *
3380863 AGTGTCAGACCTGTCTAGGACATGGCATTGGCACCAATAAATGAGA-TCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTTCGATATATGAAAGT-C
* * * * * *
3380912 AGTGTAAGACCTATCT-GGACATGACATCGGTTTCAAGATATGCAAG-C
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTTCGATATATGAAAGTC
* * ** *
3380959 TAGTGTAAAACCTGTTTGGGACATGGCATCGGCTT-G--AGGTG--TGTC
1 -AGTGTAAGACCTGTCTGGGACATGGCATCGGCTTCGATATATGAAAGTC
** * * * *
3381004 AGTGTAAGACCTGTCTGGGACATGGCATC-AATACAGATGA-GTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTTC-GAT-ATATGAAAGTC
3381053 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTTCGATATATGAAAGTC
*
3381102 AGTGTAAGACCTGTCTAGGACATG
1 AGTGTAAGACCTGTCTGGGACATG
3381126 ACTTTGACTT
Statistics
Matches: 167, Mismatches: 34, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 28 0.17
45 2 0.01
46 3 0.02
47 4 0.02
48 35 0.21
49 92 0.55
50 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCTTCGATATATGAAAGTC
Found at i:3387344 original size:17 final size:17
Alignment explanation
Indices: 3387324--3387356 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3387314 GAATTTTTCG
*
3387324 AAATAAAAAAATTTTAA
1 AAATAAAAAAAATTTAA
3387341 AAATAAAAAAAATTTA
1 AAATAAAAAAAATTTA
3387357 TAACAAATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATAAAAAAAATTTAA
Found at i:3392676 original size:5 final size:6
Alignment explanation
Indices: 3392661--3392700 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
3392651 AATACATTTC
* *
3392661 AAAAAT AAAAAT AAAAAT AAAAAG AAAAA- AAAAAG AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
3392701 GAAAGAAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.88, C:0.00, G:0.05, T:0.07
Consensus pattern (6 bp):
AAAAAT
Found at i:3392676 original size:12 final size:12
Alignment explanation
Indices: 3392661--3392700 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
3392651 AATACATTTC
*
3392661 AAAAATAAAAAT
1 AAAAATAAAAAG
3392673 AAAAATAAAAAG
1 AAAAATAAAAAG
3392685 AAAAA-AAAAAG
1 AAAAATAAAAAG
3392696 AAAAA
1 AAAAA
3392701 GAAAGAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 11 0.41
12 16 0.59
ACGTcount: A:0.88, C:0.00, G:0.05, T:0.07
Consensus pattern (12 bp):
AAAAATAAAAAG
Found at i:3392682 original size:11 final size:11
Alignment explanation
Indices: 3392662--3392709 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
3392652 ATACATTTCA
*
3392662 AAAATAAAAATA
1 AAAATAAAAA-G
3392674 AAAATAAAAAG
1 AAAATAAAAAG
*
3392685 AAAAAAAAAAG
1 AAAATAAAAAG
*
3392696 AAAA-AGAAAG
1 AAAATAAAAAG
3392706 AAAA
1 AAAA
3392710 CTCTTGTACT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
10 9 0.27
11 14 0.42
12 10 0.30
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.06
Consensus pattern (11 bp):
AAAATAAAAAG
Found at i:3392688 original size:17 final size:17
Alignment explanation
Indices: 3392661--3392709 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
3392651 AATACATTTC
* *
3392661 AAAAATAAAAATAAAAAT
1 AAAAAGAAAAA-AAAAAG
3392679 AAAAAGAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAG
3392696 AAAAAGAAAGAAAA
1 AAAAAGAAA-AAAA
3392710 CTCTTGTACT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.86, C:0.00, G:0.08, T:0.06
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAG
Found at i:3393479 original size:29 final size:29
Alignment explanation
Indices: 3393437--3393493 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
3393427 ATTTTATTGC
3393437 TAATTTTTTATTATTTTTA-AGGCATTTGT
1 TAATTTTTTATTA-TTTTAGAGGCATTTGT
*
3393466 TAATTTTTTTTTATTTTAGAGGCATTTG
1 TAATTTTTTATTATTTTAGAGGCATTTG
3393494 CTTGTTAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.23, C:0.04, G:0.12, T:0.61
Consensus pattern (29 bp):
TAATTTTTTATTATTTTAGAGGCATTTGT
Found at i:3393597 original size:18 final size:18
Alignment explanation
Indices: 3393576--3393615 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
3393566 GAAATATTTA
*
3393576 TTTTGATAT-TTTTAGTAT
1 TTTTGATATATTATA-TAT
3393594 TTTTGATATATTATATAT
1 TTTTGATATATTATATAT
3393612 TTTT
1 TTTT
3393616 AAAAAGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (18 bp):
TTTTGATATATTATATAT
Found at i:3396642 original size:34 final size:32
Alignment explanation
Indices: 3396604--3396710 Score: 115
Period size: 34 Copynumber: 3.2 Consensus size: 32
3396594 AGCACATTGT
* *
3396604 ATGCTCAAGTGAGCCATTCCAACCAGTACACCAA
1 ATGCTCAA--GAGCCAATCCAACCAGCACACCAA
*
3396638 ATGCTCTCAAGAGCCAATCCATCCAGCACACCAA
1 ATG--CTCAAGAGCCAATCCAACCAGCACACCAA
* *
3396672 ATGCTCGTAAGAGCAAATCCATCCAGCACACCAA
1 ATGCTC--AAGAGCCAATCCAACCAGCACACCAA
3396706 ATGCT
1 ATGCT
3396711 TTATATCGGT
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
32 3 0.05
34 57 0.88
36 5 0.08
ACGTcount: A:0.36, C:0.34, G:0.14, T:0.17
Consensus pattern (32 bp):
ATGCTCAAGAGCCAATCCAACCAGCACACCAA
Found at i:3400172 original size:28 final size:28
Alignment explanation
Indices: 3400132--3400187 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
3400122 TCATAGGTTC
*
3400132 TTTTGGAAAGCTATATGGAAGCTTGACA
1 TTTTGGAAAGCTATATGGAAGCTCGACA
3400160 TTTTGGAAAGCTATATGGAAGCTCGACA
1 TTTTGGAAAGCTATATGGAAGCTCGACA
3400188 CTATCCCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.30
Consensus pattern (28 bp):
TTTTGGAAAGCTATATGGAAGCTCGACA
Found at i:3414322 original size:5 final size:5
Alignment explanation
Indices: 3414307--3414354 Score: 57
Period size: 5 Copynumber: 10.2 Consensus size: 5
3414297 ACCCATCGCT
* *
3414307 TCATA TTATA TCATA TCATA TCGTA TCATA TCATA T-ATA T-ATA T-ATA
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
3414354 T
1 T
3414355 ATAATATAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
4 12 0.31
5 27 0.69
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.46
Consensus pattern (5 bp):
TCATA
Found at i:3414322 original size:10 final size:10
Alignment explanation
Indices: 3414307--3414366 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 10
3414297 ACCCATCGCT
3414307 TCATATTATA
1 TCATATTATA
*
3414317 TCATATCATA
1 TCATATTATA
* *
3414327 TCGTATCATA
1 TCATATTATA
3414337 TCATA-TATA
1 TCATATTATA
3414346 T-ATATATATA
1 TCATAT-TATA
* *
3414356 TAATATAATA
1 TCATATTATA
3414366 T
1 T
3414367 AACAAGATAC
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
8 3 0.07
9 4 0.10
10 31 0.74
11 4 0.10
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (10 bp):
TCATATTATA
Found at i:3414327 original size:15 final size:15
Alignment explanation
Indices: 3414307--3414366 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
3414297 ACCCATCGCT
3414307 TCATATTATATCATA
1 TCATATTATATCATA
**
3414322 TCATATCGTATCATA
1 TCATATTATATCATA
3414337 TCATATATATAT-ATA
1 TCATAT-TATATCATA
* *
3414352 T-ATATAATATAATA
1 TCATATTATATCATA
3414366 T
1 T
3414367 AACAAGATAC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
13 4 0.11
14 8 0.21
15 23 0.61
16 3 0.08
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (15 bp):
TCATATTATATCATA
Found at i:3414495 original size:17 final size:17
Alignment explanation
Indices: 3414447--3414504 Score: 55
Period size: 16 Copynumber: 3.3 Consensus size: 17
3414437 ATGTATCAAA
*
3414447 TAAAATTTAAATAATTT
1 TAAAAATTAAATAATTT
*
3414464 AAGTAAAATTAAATAAATTT
1 TA--AAAATTAAAT-AATTT
*
3414484 TAAAAATT-AATATTTT
1 TAAAAATTAAATAATTT
3414500 TAAAA
1 TAAAA
3414505 TATTCAGTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
16 9 0.26
17 4 0.12
18 6 0.18
19 9 0.26
20 6 0.18
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
TAAAAATTAAATAATTT
Found at i:3433448 original size:15 final size:15
Alignment explanation
Indices: 3433428--3433458 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3433418 TTATGATTAA
3433428 AGTTTATACGAGCTT
1 AGTTTATACGAGCTT
*
3433443 AGTTTATATGAGCTT
1 AGTTTATACGAGCTT
3433458 A
1 A
3433459 CTAAGTATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (15 bp):
AGTTTATACGAGCTT
Found at i:3434983 original size:6 final size:6
Alignment explanation
Indices: 3434967--3435025 Score: 73
Period size: 6 Copynumber: 9.7 Consensus size: 6
3434957 GAAAATATTT
* * **
3434967 TATTAA AATTAA TATTAT TATTTT TAATTAA TATTAA TATTAA TATTAA
1 TATTAA TATTAA TATTAA TATTAA T-ATTAA TATTAA TATTAA TATTAA
3435016 TATTAA TATT
1 TATTAA TATT
3435026 TTCTATTAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
6 42 0.91
7 4 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TATTAA
Found at i:3435002 original size:25 final size:24
Alignment explanation
Indices: 3434960--3435013 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
3434950 CCGAGAGGAA
3434960 AATA-TTTTATTAAAATTAATATT
1 AATATTTTTATTAAAATTAATATT
* *
3434983 ATTATTTTTAATTAATATTAATATT
1 AATATTTTT-ATTAAAATTAATATT
3435008 AATATT
1 AATATT
3435014 AATATTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 3 0.12
24 4 0.15
25 19 0.73
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
AATATTTTTATTAAAATTAATATT
Found at i:3435009 original size:37 final size:37
Alignment explanation
Indices: 3434967--3435044 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
3434957 GAAAATATTT
*
3434967 TATTAAAATTAATATTATTATTTT-TAATT-AATATTAA
1 TATTAAAATTAATATTAATATTTTCT-ATTAAAT-TTAA
*
3435004 TATTAATATTAATATTAATATTTTCTATTAAATTTAA
1 TATTAAAATTAATATTAATATTTTCTATTAAATTTAA
3435041 TATT
1 TATT
3435045 TTCCATTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
37 33 0.89
38 4 0.11
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (37 bp):
TATTAAAATTAATATTAATATTTTCTATTAAATTTAA
Found at i:3435034 original size:19 final size:19
Alignment explanation
Indices: 3434974--3435047 Score: 82
Period size: 19 Copynumber: 3.9 Consensus size: 19
3434964 TTTTATTAAA
*
3434974 ATTAATATTATTATTTT-T
1 ATTAATATTAATATTTTCT
**
3434992 AATTAATATTAATA-TTAAT
1 -ATTAATATTAATATTTTCT
3435011 ATTAATATTAATATTTTCT
1 ATTAATATTAATATTTTCT
3435030 ATTAA-ATTTAATATTTTC
1 ATTAATA-TTAATATTTTC
3435048 CATTTTTCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
18 16 0.33
19 32 0.67
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTAATATTAATATTTTCT
Done.