Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold196
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: 7488280
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 125249 characters in sequence are not A, C, G, or T
File 40 of 47
Found at i:6452092 original size:32 final size:33
Alignment explanation
Indices: 6452029--6452100 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 33
6452019 TATTAGTTCA
* * * ** *
6452029 AATAAAATTGTATTTCATTCAATGTGGATAACT
1 AATAAAATTGTACTACATTCAACGTAAATAACC
6452062 AATAAAATTG-ACTACATTCAACGTAAATAACC
1 AATAAAATTGTACTACATTCAACGTAAATAACC
6452094 AATAAAA
1 AATAAAA
6452101 CCTGAAATTC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 23 0.70
33 10 0.30
ACGTcount: A:0.49, C:0.12, G:0.08, T:0.31
Consensus pattern (33 bp):
AATAAAATTGTACTACATTCAACGTAAATAACC
Found at i:6456696 original size:79 final size:79
Alignment explanation
Indices: 6456600--6456768 Score: 250
Period size: 79 Copynumber: 2.1 Consensus size: 79
6456590 ACAACGAGGC
* * * * * *
6456600 TGGAGGATCCCTGATTATGGAAAATTGGTGTTCTGGAAATAAAATCGGGGTTGGAGTGTCCCCTT
1 TGGAGTATCCCTAATTATAGAAAATTGGTGTTCTGAAAATAAAATCGAGGTTGGAGTAT-CCCTT
6456665 -GGAAATAACAGGGT
65 CGGAAATAACAGGGT
*
6456679 TGGAGTATCCCTAATTATAGAAAATTGGTGTTTTGAAAATAAAATCGAGGTTGGAGTATCCCTTC
1 TGGAGTATCCCTAATTATAGAAAATTGGTGTTCTGAAAATAAAATCGAGGTTGGAGTATCCCTTC
*
6456744 GGAAATAACGGGGT
66 GGAAATAACAGGGT
6456758 TGGAGTATCCC
1 TGGAGTATCCC
6456769 CGATTGTGAG
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
78 5 0.06
79 76 0.94
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.29
Consensus pattern (79 bp):
TGGAGTATCCCTAATTATAGAAAATTGGTGTTCTGAAAATAAAATCGAGGTTGGAGTATCCCTTC
GGAAATAACAGGGT
Found at i:6456799 original size:79 final size:79
Alignment explanation
Indices: 6456637--6457008 Score: 466
Period size: 79 Copynumber: 4.7 Consensus size: 79
6456627 GTGTTCTGGA
* * * ** *
6456637 AATAAAATCGGGGTTGGAGTGTCCCCTT-GGAAATAACAGGGTTGGAGTATCCCTAATTAT-AGA
1 AATAAAACCGGGGTTGGAGTAT-CCCTTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAG-
*** * *
6456700 AAATTGGTGTTTT-GAA
64 AAATCAATATTTTAG-G
* *
6456716 AATAAAATCGAGGTTGGAGTATCCCTTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAA
1 AATAAAACCGGGGTTGGAGTATCCCTTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAA
*
6456781 ATCGATATTTTAGG
66 ATCAATATTTTAGG
* **
6456795 AATAAAGCCGGGGTTGGAGTATCCC-TCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAA
1 AATAAAACCGGGGTTGGAGTATCCCTTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAA
6456859 ATCAATATTTTAGG
66 ATCAATATTTTAGG
* *
6456873 AATAAAGCCGGGGTTGGAGTAT-CCTCTCGGAAATAACGGGGTTAGAGTATCCCCGATTGTGAGA
1 AATAAAACCGGGGTTGGAGTATCCCT-TCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGA
6456937 AATCAATATTTTAGG
65 AATCAATATTTTAGG
* * * *
6456952 AATAAAACCGGAGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
1 AATAAAACCGGGGTTGGAGTATCCCTTCGGAAATAACGGGGTTGGAGTATCCCCGAT
6457009 AATTAACGGG
Statistics
Matches: 262, Mismatches: 25, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
77 2 0.01
78 77 0.29
79 178 0.68
80 5 0.02
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (79 bp):
AATAAAACCGGGGTTGGAGTATCCCTTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAA
ATCAATATTTTAGG
Found at i:6457016 original size:106 final size:108
Alignment explanation
Indices: 6456881--6457084 Score: 281
Period size: 106 Copynumber: 1.9 Consensus size: 108
6456871 GGAATAAAGC
*
6456881 CGGGGTTGGAGTATCCTCTCGGAAATAACGGGGTTAGAGTATCCCCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCTCTCGGAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCAATAT
6456946 TTTAGG-AATAAAACCGGAGTTAGAGTATCCCCTCGAAAATAA
66 TTTAGGAAATAAAACCGGAGTTAGAGTATCCCCTCGAAAATAA
* ***
6456988 CGGGGTTGGAGTATCC-C-C-GATAATTAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGT
1 CGGGGTTGGAGTATCCTCTCGGA-AA-TAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCAAT
* * * *
6457050 GTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
64 ATTTTAGGAAATAAAACCGGAGTTAGAGTATCCCC
6457085 GATTGTGGAA
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
104 2 0.02
105 3 0.04
106 40 0.47
107 40 0.47
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.27
Consensus pattern (108 bp):
CGGGGTTGGAGTATCCTCTCGGAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCAATAT
TTTAGGAAATAAAACCGGAGTTAGAGTATCCCCTCGAAAATAA
Found at i:6457021 original size:27 final size:27
Alignment explanation
Indices: 6456968--6457035 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
6456958 ACCGGAGTTA
6456968 GAGTATCCCCTCGA-AAATAACGGGGTTG
1 GAGTAT-CCC-CGATAAATAACGGGGTTG
*
6456996 GAGTATCCCCGATAATTAACGGGGTTG
1 GAGTATCCCCGATAAATAACGGGGTTG
6457023 GAGTATCCCCGAT
1 GAGTATCCCCGAT
6457036 TGTGAAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
26 3 0.08
27 29 0.76
28 6 0.16
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (27 bp):
GAGTATCCCCGATAAATAACGGGGTTG
Found at i:6457080 original size:52 final size:52
Alignment explanation
Indices: 6457019--6457151 Score: 205
Period size: 52 Copynumber: 2.6 Consensus size: 52
6457009 AATTAACGGG
*
6457019 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCGGA
* * *
6457071 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTTAGAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCGGA
*
6457123 GTTGGAGTA-CCCCAGATTATGAAAAATTG
1 GTTGGAGTATCCCC-GATTGTGAAAAATTG
6457152 AGAAACTTAA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
51 4 0.05
52 69 0.95
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCGGA
Found at i:6459545 original size:21 final size:21
Alignment explanation
Indices: 6459521--6459562 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6459511 GTATCTATAC
6459521 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
6459542 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
6459563 GGTAGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:6459609 original size:17 final size:18
Alignment explanation
Indices: 6459587--6459631 Score: 74
Period size: 19 Copynumber: 2.5 Consensus size: 18
6459577 ATCAATACAT
6459587 TGTATCGATAC-AACTTA
1 TGTATCGATACAAACTTA
6459604 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
6459623 TGTATCGAT
1 TGTATCGAT
6459632 GCATTGTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 11 0.42
19 15 0.58
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:6460549 original size:21 final size:20
Alignment explanation
Indices: 6460523--6460599 Score: 82
Period size: 21 Copynumber: 3.8 Consensus size: 20
6460513 TTCTATAATT
6460523 TGTATCGATACAAATAGTAAA
1 TGTATCGATACAAA-AGTAAA
* *
6460544 TGTATCGATACATAAGTGAA
1 TGTATCGATACAAAAGTAAA
****
6460564 TGTATCGATACATGCCTAAAA
1 TGTATCGATACAAAAGT-AAA
6460585 TGTATCGATACAAAA
1 TGTATCGATACAAAA
6460600 CCACCATGCA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
20 19 0.41
21 27 0.59
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.29
Consensus pattern (20 bp):
TGTATCGATACAAAAGTAAA
Found at i:6460567 original size:20 final size:21
Alignment explanation
Indices: 6460523--6460576 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
6460513 TTCTATAATT
*
6460523 TGTATCGATACAAATAGTAAA
1 TGTATCGATACATATAGTAAA
*
6460544 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATATAGTAAA
6460564 TGTATCGATACAT
1 TGTATCGATACAT
6460577 GCCTAAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (21 bp):
TGTATCGATACATATAGTAAA
Found at i:6460687 original size:20 final size:20
Alignment explanation
Indices: 6460644--6460700 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
6460634 CATAAGTAAA
6460644 TGTATCGATATATGCTTATAAT
1 TGTATCGATATAT--TTATAAT
* *
6460666 TGTATCGATATATTTCTCAT
1 TGTATCGATATATTTATAAT
6460686 TGTATCGATATATTT
1 TGTATCGATATATTT
6460701 TGGGTTTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 20 0.61
22 13 0.39
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (20 bp):
TGTATCGATATATTTATAAT
Found at i:6465145 original size:9 final size:8
Alignment explanation
Indices: 6465117--6465143 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
6465107 GATTTTAAAA
6465117 TTTATTTT
1 TTTATTTT
6465125 TTTATTTT
1 TTTATTTT
6465133 TTTATTTT
1 TTTATTTT
6465141 TTT
1 TTT
6465144 TAATATCGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTATTTT
Found at i:6465756 original size:22 final size:19
Alignment explanation
Indices: 6465729--6465770 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
6465719 TTAATTAATT
6465729 TTTATTTATTTATAATTTATAA
1 TTTA-TTATTT-TAATTT-TAA
6465751 TTTATTATTTTAATTTTAA
1 TTTATTATTTTAATTTTAA
6465770 T
1 T
6465771 GATTAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 6 0.30
21 6 0.30
22 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTATTATTTTAATTTTAA
Found at i:6466435 original size:18 final size:18
Alignment explanation
Indices: 6466404--6466448 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
6466394 TAAATTTTAA
* *
6466404 TATTTATAATTTATTATT
1 TATTTATAAATTATAATT
*
6466422 TATTTTTAAATTATAATT
1 TATTTATAAATTATAATT
6466440 T-TTTATAAA
1 TATTTATAAA
6466449 AAAAATAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTATAAATTATAATT
Found at i:6466686 original size:2 final size:2
Alignment explanation
Indices: 6466679--6466703 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6466669 GTATTAAACC
6466679 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6466704 CAATGATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6471256 original size:21 final size:21
Alignment explanation
Indices: 6471226--6471265 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6471216 ACTAATTTTA
*
6471226 TTATTTTCTT-CTTTCTTCTTC
1 TTATTGTCTTCCTTT-TTCTTC
6471247 TTATTGTCTTCCTTTTTCT
1 TTATTGTCTTCCTTTTTCT
6471266 ATTTTCTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.05, C:0.23, G:0.03, T:0.70
Consensus pattern (21 bp):
TTATTGTCTTCCTTTTTCTTC
Found at i:6471273 original size:17 final size:18
Alignment explanation
Indices: 6471234--6471284 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
6471224 TATTATTTTC
*
6471234 TTCTTTCTTCTTCTTATT
1 TTCTTCCTTCTTCTTATT
* *
6471252 GTCTTCCTTTTTC-TATT
1 TTCTTCCTTCTTCTTATT
*
6471269 TTCTTCGTTCCTTCTT
1 TTCTTCCTT-CTTCTT
6471285 TTCTTTTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
17 11 0.44
18 13 0.52
19 1 0.04
ACGTcount: A:0.04, C:0.25, G:0.04, T:0.67
Consensus pattern (18 bp):
TTCTTCCTTCTTCTTATT
Found at i:6472211 original size:28 final size:28
Alignment explanation
Indices: 6472179--6472256 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
6472169 TTCTACAAAA
* * *
6472179 TGCCAACTACTGTGGGCTTTGACTTAGG
1 TGCCAACTAGTGTGGGCTTTAACTCAGG
* * *
6472207 TGCCAGCTAGTGTGGGCTTAAACTCATG
1 TGCCAACTAGTGTGGGCTTTAACTCAGG
*
6472235 TGCCAACTAGTATGGGCTTTAA
1 TGCCAACTAGTGTGGGCTTTAA
6472257 TACGAATGTC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.31
Consensus pattern (28 bp):
TGCCAACTAGTGTGGGCTTTAACTCAGG
Found at i:6472352 original size:81 final size:81
Alignment explanation
Indices: 6472279--6472443 Score: 195
Period size: 81 Copynumber: 2.0 Consensus size: 81
6472269 CTAATATGGA
* * *
6472279 CTTCAACTCGTGTACCAACTAGTGTAGGCTTACTTAGGTGCCACTAGTGTGGGCTTAAACTTAGA
1 CTTCAACTCATGTACCAACTAATATAGGCTTACTTAGGTGCCACTAGTGTGGGCTTAAACTTAGA
*
6472344 TGCTAGCTAATTTAAG
66 TGCTAGCTAATTGAAG
** * * * * * *
6472360 CTTTGATTCATGTGCCAACTAATATGGGCTTACTTTGGTGCCACTAGTGTGGGTTTAGACTTAGA
1 CTTCAACTCATGTACCAACTAATATAGGCTTACTTAGGTGCCACTAGTGTGGGCTTAAACTTAGA
* * *
6472425 TGCCAACTAATTTAAG
66 TGCTAGCTAATTGAAG
6472441 CTT
1 CTT
6472444 TGATTCATGT
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 71 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.35
Consensus pattern (81 bp):
CTTCAACTCATGTACCAACTAATATAGGCTTACTTAGGTGCCACTAGTGTGGGCTTAAACTTAGA
TGCTAGCTAATTGAAG
Found at i:6472390 original size:28 final size:28
Alignment explanation
Indices: 6472359--6472469 Score: 67
Period size: 28 Copynumber: 4.1 Consensus size: 28
6472349 GCTAATTTAA
6472359 GCTTTGA-TTCATGTGCCAACTAATATGG
1 GCTTTGACTT-ATGTGCCAACTAATATGG
* *
6472387 GC-TT-ACTT-TGGTGCC-ACTAGTGTGG
1 GCTTTGACTTAT-GTGCCAACTAATATGG
* **
6472412 G-TTTAGACTTA-GATGCCAACTAATTTAA
1 GCTTT-GACTTATG-TGCCAACTAATATGG
*
6472440 GCTTTGA-TTCATGTGCCCACTAATATGG
1 GCTTTGACTT-ATGTGCCAACTAATATGG
6472468 GC
1 GC
6472470 ATGGGCTTTG
Statistics
Matches: 62, Mismatches: 10, Indels: 22
0.66 0.11 0.23
Matches are distributed among these distances:
25 12 0.19
26 7 0.11
27 14 0.23
28 25 0.40
29 4 0.06
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (28 bp):
GCTTTGACTTATGTGCCAACTAATATGG
Found at i:6472444 original size:81 final size:81
Alignment explanation
Indices: 6472305--6472469 Score: 276
Period size: 81 Copynumber: 2.0 Consensus size: 81
6472295 AACTAGTGTA
* *
6472305 GGCTTACTTAGGTGCCACTAGTGTGGGCTTAAACTTAGATGCTAGCTAATTTAAGCTTTGATTCA
1 GGCTTACTTAGGTGCCACTAGTGTGGGCTTAAACTTAGATGCCAACTAATTTAAGCTTTGATTCA
6472370 TGTGCCAACTAATATG
66 TGTGCCAACTAATATG
* * *
6472386 GGCTTACTTTGGTGCCACTAGTGTGGGTTTAGACTTAGATGCCAACTAATTTAAGCTTTGATTCA
1 GGCTTACTTAGGTGCCACTAGTGTGGGCTTAAACTTAGATGCCAACTAATTTAAGCTTTGATTCA
*
6472451 TGTGCCCACTAATATG
66 TGTGCCAACTAATATG
6472467 GGC
1 GGC
6472470 ATGGGCTTTG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (81 bp):
GGCTTACTTAGGTGCCACTAGTGTGGGCTTAAACTTAGATGCCAACTAATTTAAGCTTTGATTCA
TGTGCCAACTAATATG
Found at i:6472582 original size:28 final size:28
Alignment explanation
Indices: 6472551--6472626 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 28
6472541 TTGATTTATG
*
6472551 TGCCAACTAATATCGGCTTTAACGCGAA
1 TGCCAACTAATATAGGCTTTAACGCGAA
* * * * *
6472579 TGCCAGCCAATGTGGGCTTTAACGTGAA
1 TGCCAACTAATATAGGCTTTAACGCGAA
*
6472607 TGCCAACTAGTATAGGCTTT
1 TGCCAACTAATATAGGCTTT
6472627 TTTTATGAGT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (28 bp):
TGCCAACTAATATAGGCTTTAACGCGAA
Found at i:6472946 original size:18 final size:18
Alignment explanation
Indices: 6472923--6472962 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
6472913 TTTGAGTTGT
6472923 TATTATTGGTTCAAAAGA
1 TATTATTGGTTCAAAAGA
6472941 TATTATTGGTTCAAAAGA
1 TATTATTGGTTCAAAAGA
6472959 TATT
1 TATT
6472963 GGTGACCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (18 bp):
TATTATTGGTTCAAAAGA
Found at i:6483329 original size:17 final size:17
Alignment explanation
Indices: 6483300--6483341 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
6483290 AAAATAGAAT
* *
6483300 AAAAGATAT-AATAATA
1 AAAAGAAATGAATAACA
6483316 AAAAGAAATGAATAACA
1 AAAAGAAATGAATAACA
6483333 AAAA-AAATG
1 AAAAGAAATG
6483342 CCCCAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (17 bp):
AAAAGAAATGAATAACA
Found at i:6486876 original size:3 final size:3
Alignment explanation
Indices: 6486868--6486907 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
6486858 CAAGCATGAC
6486868 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6486908 CAAAAATCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6487215 original size:9 final size:9
Alignment explanation
Indices: 6487201--6487290 Score: 69
Period size: 9 Copynumber: 10.1 Consensus size: 9
6487191 CCCTAGGCCA
6487201 TCTTTTTTT
1 TCTTTTTTT
6487210 TCTTTTTCTT
1 TCTTTTT-TT
*
6487220 T-TTTTTCT
1 TCTTTTTTT
*
6487228 TCTTTTCTT
1 TCTTTTTTT
*
6487237 TCTTTTTAT
1 TCTTTTTTT
*
6487246 T-TTTTTCT
1 TCTTTTTTT
* **
6487254 TCCTTCCTT
1 TCTTTTTTT
*
6487263 TC-TTTCTT
1 TCTTTTTTT
6487271 TCTTTTTCTT
1 TCTTTTT-TT
6487281 TCTTTTTTT
1 TCTTTTTTT
6487290 T
1 T
6487291 TCTTCCTTTT
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
8 16 0.25
9 36 0.56
10 12 0.19
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.80
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:6487223 original size:14 final size:14
Alignment explanation
Indices: 6487204--6487301 Score: 69
Period size: 14 Copynumber: 6.9 Consensus size: 14
6487194 TAGGCCATCT
6487204 TTTTTTTCTTTTTC
1 TTTTTTTCTTTTTC
*
6487218 -TTTTTT-TTCTTC
1 TTTTTTTCTTTTTC
*
6487230 TTTTCTTTCTTTTTA
1 TTTT-TTTCTTTTTC
*
6487245 TTTTTTTCTTCCTTCC
1 TTTTTTTCTT--TTTC
*
6487261 TTTCTTTCTTTCTT-
1 TTTTTTTCTTT-TTC
*
6487275 TTTCTTTCTTTTT-
1 TTTTTTTCTTTTTC
*
6487288 TTTTCTTCCTTTTT
1 TTTT-TTTCTTTTT
6487302 ATCCCTTCCT
Statistics
Matches: 68, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
12 5 0.07
13 14 0.21
14 29 0.43
15 9 0.13
16 11 0.16
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTTTCTTTTTC
Found at i:6487230 original size:18 final size:17
Alignment explanation
Indices: 6487201--6487289 Score: 83
Period size: 18 Copynumber: 5.1 Consensus size: 17
6487191 CCCTAGGCCA
6487201 TCTTTTTTTTC--TTTT
1 TCTTTTTTTTCTTTTTT
*
6487216 TCTTTTTTTTCTTCTTT
1 TCTTTTTTTTCTTTTTT
*
6487233 TCTTTCTTTTTATTTTTT
1 TCTTT-TTTTTCTTTTTT
* *
6487251 TCTTCCTTCCTTTCTTTCTT
1 TCTT--TT-TTTTCTTTTTT
6487271 TCTTTTTCTTTCTTTTTT
1 TCTTTTT-TTTCTTTTTT
6487289 T
1 T
6487290 TTCTTCCTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
15 11 0.19
17 8 0.14
18 26 0.44
19 1 0.02
20 13 0.22
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.80
Consensus pattern (17 bp):
TCTTTTTTTTCTTTTTT
Found at i:6487242 original size:26 final size:26
Alignment explanation
Indices: 6487201--6487286 Score: 95
Period size: 26 Copynumber: 3.2 Consensus size: 26
6487191 CCCTAGGCCA
*
6487201 TCTTTTTTTTCTTTTTCTTTTTTTTCT
1 TCTTTTCTTTC-TTTTCTTTTTTTTCT
6487228 TCTTTTCTTTCTTTT-TATTTTTTTCT
1 TCTTTTCTTTCTTTTCT-TTTTTTTCT
* *
6487254 TCCTTCCTTTC-TTTCTTTCTTTTTCTT
1 TCTTTTCTTTCTTTTCTTT-TTTTTC-T
6487281 TCTTTT
1 TCTTTT
6487287 TTTTTCTTCC
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
25 6 0.12
26 29 0.58
27 15 0.30
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.79
Consensus pattern (26 bp):
TCTTTTCTTTCTTTTCTTTTTTTTCT
Found at i:6487267 original size:4 final size:4
Alignment explanation
Indices: 6487231--6487299 Score: 53
Period size: 4 Copynumber: 18.8 Consensus size: 4
6487221 TTTTTCTTCT
* *
6487231 TTTC TTTC TTT- TTAT- TTT- TTTC TTCC TTCC TTTC TTTC TTTC -TT-
1 TTTC TTTC TTTC TT-TC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
*
6487275 TTTC TTTC TTT- TTT- TTTC TTCC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
6487300 TTATCCCTTC
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
3 16 0.29
4 40 0.71
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:6487267 original size:30 final size:28
Alignment explanation
Indices: 6487208--6487301 Score: 93
Period size: 30 Copynumber: 3.3 Consensus size: 28
6487198 CCATCTTTTT
* *
6487208 TTTCTTTTTCTTTTTT-TTCTTCTTTTC
1 TTTCTTTTTTTTTTTTCTTCTTCCTTTC
6487235 TTTCTTTTTATTTTTTTCTTCCTTCCTTTC
1 TTTCTTTTT-TTTTTTTCTT-CTTCCTTTC
* **
6487265 TTTCTTTCTTTTTCTTTCTT-TTTTTTTC
1 TTTCTTT-TTTTTTTTTCTTCTTCCTTTC
*
6487293 TTCCTTTTT
1 TTTCTTTTT
6487302 ATCCCTTCCT
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
27 11 0.19
28 18 0.32
29 2 0.04
30 24 0.42
31 2 0.04
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.79
Consensus pattern (28 bp):
TTTCTTTTTTTTTTTTCTTCTTCCTTTC
Found at i:6487710 original size:96 final size:95
Alignment explanation
Indices: 6487544--6487726 Score: 303
Period size: 96 Copynumber: 1.9 Consensus size: 95
6487534 CCCAAAGTTG
* * * *
6487544 TCCCTTGCTCATGTAATGGTGTTTTTGTAACTTGTTCCCTTGTTACTAATTTGGCTATATTCACC
1 TCCCTTGCTCATGTAATGGTGTTTCTGTAACTTGTTCCCCTATTACTAATTTAGCTATATTCACC
6487609 CCCATGTTTTGAAGCTTCAATTTTCCAACTA
66 CCCATG-TTTGAAGCTTCAATTTTCCAACTA
*
6487640 TCCCTTGCTCATGTATTGGTGTTTCTGTAACTTGTTCCCCTATTACTAATTTAGCTATATTCACC
1 TCCCTTGCTCATGTAATGGTGTTTCTGTAACTTGTTCCCCTATTACTAATTTAGCTATATTCACC
*
6487705 TCCATGTTTGAAGCTTCAATTT
66 CCCATGTTTGAAGCTTCAATTT
6487727 GCTAGAGGAG
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
95 16 0.20
96 65 0.80
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (95 bp):
TCCCTTGCTCATGTAATGGTGTTTCTGTAACTTGTTCCCCTATTACTAATTTAGCTATATTCACC
CCCATGTTTGAAGCTTCAATTTTCCAACTA
Found at i:6492221 original size:20 final size:20
Alignment explanation
Indices: 6492193--6492269 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
6492183 ATAAAAAGAC
*
6492193 AGAACGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
6492213 AGAATGTATTGATACATTCA
1 AGAATGTATCGATACATTGA
* * *
6492233 TA-CATGTGTCGATATATTGA
1 -AGAATGTATCGATACATTGA
*
6492253 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
6492270 CTGGGTAAAA
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
19 1 0.02
20 42 0.95
21 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:6492288 original size:71 final size:71
Alignment explanation
Indices: 6492213--6492351 Score: 242
Period size: 71 Copynumber: 2.0 Consensus size: 71
6492203 GATACATTGA
* *
6492213 AGAATGTATTGATACATTCATACATGTGTCGATATATTGAAAAATGTATCGATACATCTGGGTAA
1 AGAATGTATTGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAA
6492278 AAAGAT
66 AAAGAT
* *
6492284 AGAATGTATTGATACATTCATACATGTATCGATGCATTGAGAAATGTATCGATACATCTGGGTAA
1 AGAATGTATTGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAA
6492349 AAA
66 AAA
6492352 TGTGACTTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 64 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.32
Consensus pattern (71 bp):
AGAATGTATTGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAA
AAAGAT
Found at i:6492312 original size:20 final size:20
Alignment explanation
Indices: 6492286--6492340 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
6492276 AAAAAGATAG
* *
6492286 AATGTATTGATACATTCATA
1 AATGTATCGATACATTCAGA
* * *
6492306 CATGTATCGATGCATTGAGA
1 AATGTATCGATACATTCAGA
6492326 AATGTATCGATACAT
1 AATGTATCGATACAT
6492341 CTGGGTAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCAGA
Found at i:6492336 original size:91 final size:91
Alignment explanation
Indices: 6492164--6492337 Score: 224
Period size: 91 Copynumber: 1.9 Consensus size: 91
6492154 TACATTATTC
* *
6492164 AATGTATCGATACATCTGGATAAAAAGACAGAACGTATCGATACATTGAAGAATGTATTGATACA
1 AATGTATCGATACATCTGGATAAAAAGACAGAACGTATCGATACATTCAAGAATGTATCGATACA
* * *
6492229 TTCATACATGTGTCGATATATTGAAA
66 TTCAGAAATGTATCGATATATTGAAA
* * * * * *
6492255 AATGTATCGATACATCTGGGTAAAAAGATAGAATGTATTGATACATTCATA-CATGTATCGATGC
1 AATGTATCGATACATCTGGATAAAAAGACAGAACGTATCGATACATTCA-AGAATGTATCGATAC
*
6492319 ATTGAGAAATGTATCGATA
65 ATTCAGAAATGTATCGATA
6492338 CATCTGGGTA
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
91 69 0.99
92 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.30
Consensus pattern (91 bp):
AATGTATCGATACATCTGGATAAAAAGACAGAACGTATCGATACATTCAAGAATGTATCGATACA
TTCAGAAATGTATCGATATATTGAAA
Found at i:6494084 original size:22 final size:22
Alignment explanation
Indices: 6494054--6494126 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 22
6494044 TCTCATTTCT
*
6494054 TAAACGAACTCTTTATCCCTAA
1 TAAAGGAACTCTTTATCCCTAA
* * * **
6494076 TAAAGGAA--CATTATTCATCT
1 TAAAGGAACTCTTTATCCCTAA
*
6494096 TTAAGGAACTCTTTATCCCTAA
1 TAAAGGAACTCTTTATCCCTAA
*
6494118 TAATGGAAC
1 TAAAGGAAC
6494127 GTTATTCACC
Statistics
Matches: 35, Mismatches: 14, Indels: 4
0.66 0.26 0.08
Matches are distributed among these distances:
20 14 0.40
22 21 0.60
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.33
Consensus pattern (22 bp):
TAAAGGAACTCTTTATCCCTAA
Found at i:6495190 original size:17 final size:17
Alignment explanation
Indices: 6495168--6495201 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
6495158 TTAAAATACG
6495168 ATATAAAA-ATAATATAA
1 ATATAAAATA-AATATAA
6495185 ATATAAAATAAATATAA
1 ATATAAAATAAATATAA
6495202 CTGTGACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.94
18 1 0.06
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATATAAAATAAATATAA
Found at i:6495195 original size:22 final size:21
Alignment explanation
Indices: 6495149--6495201 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
6495139 ACATAACATG
*
6495149 TAAAAATAATTAAAATACGATA
1 TAAAAATAATTAAAATAC-AAA
6495171 TAAAAATAATATAAATATA-AAA
1 TAAAAATAAT-TAAA-ATACAAA
*
6495193 TAAATATAA
1 TAAAAATAA
6495202 CTGTGACATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 20 0.74
23 4 0.15
24 3 0.11
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (21 bp):
TAAAAATAATTAAAATACAAA
Found at i:6495411 original size:19 final size:19
Alignment explanation
Indices: 6495387--6495444 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 19
6495377 TTAATATACA
6495387 AACATATTAAAATTTATAT
1 AACATATTAAAATTTATAT
6495406 AAC--A-TAAAA-TTAT-T
1 AACATATTAAAATTTATAT
* *
6495420 AATATATTAAATTTTATAT
1 AACATATTAAAATTTATAT
6495439 AA-ATAT
1 AACATAT
6495445 ATATAATATC
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
14 3 0.09
15 4 0.12
16 6 0.19
17 5 0.16
18 8 0.25
19 6 0.19
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
AACATATTAAAATTTATAT
Found at i:6495458 original size:29 final size:27
Alignment explanation
Indices: 6495412--6495465 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
6495402 ATATAACATA
*
6495412 AAATTATTAATATATTAAATTTTATAT
1 AAATTATTAATATATTAAATATTATAT
*
6495439 AAATATATATAATATCTTAAATATTAT
1 AAAT-TAT-TAATATATTAAATATTAT
6495466 TATTATACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 3 0.13
29 16 0.70
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
AAATTATTAATATATTAAATATTATAT
Found at i:6495984 original size:29 final size:30
Alignment explanation
Indices: 6495932--6496002 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
6495922 AAAAATTAAG
6495932 TTTATATTATTTTTTATATCATAT-AATAT
1 TTTATATTATTTTTTATATCATATCAATAT
* * *
6495961 TTTAAATTATTTTTTGTTAT-ATATCAATTT
1 TTTATATTATTTTTT-ATATCATATCAATAT
6495991 TTTATATT-TTTT
1 TTTATATTATTTT
6496003 ACATATAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 22 0.61
30 14 0.39
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (30 bp):
TTTATATTATTTTTTATATCATATCAATAT
Found at i:6497047 original size:18 final size:19
Alignment explanation
Indices: 6496998--6497066 Score: 104
Period size: 19 Copynumber: 3.7 Consensus size: 19
6496988 ATTAAAATTC
6496998 ATATTAGGATAATTTATGA
1 ATATTAGGATAATTTATGA
*
6497017 ATTTTAGGATAATTTATGA
1 ATATTAGGATAATTTATGA
*
6497036 ATATTA-GATAATTTATAA
1 ATATTAGGATAATTTATGA
*
6497054 ATATTAAGATAAT
1 ATATTAGGATAAT
6497067 AATAAGTATC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
18 17 0.37
19 29 0.63
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (19 bp):
ATATTAGGATAATTTATGA
Found at i:6497289 original size:13 final size:13
Alignment explanation
Indices: 6497271--6497297 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6497261 CTTTAATAAA
6497271 ATAAAAAATTAAT
1 ATAAAAAATTAAT
6497284 ATAAAAAATTAAT
1 ATAAAAAATTAAT
6497297 A
1 A
6497298 ATAATTAATA
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
ATAAAAAATTAAT
Found at i:6497430 original size:17 final size:18
Alignment explanation
Indices: 6497398--6497432 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
6497388 TTAAATACAT
6497398 AATTTATAAAAAAATTAA
1 AATTTATAAAAAAATTAA
*
6497416 AATTTA-AAAATAATTAA
1 AATTTATAAAAAAATTAA
6497433 TAAAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AATTTATAAAAAAATTAA
Found at i:6498621 original size:21 final size:23
Alignment explanation
Indices: 6498574--6498625 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
6498564 TTTTAAATAT
*
6498574 ATAAAAAATAACATAAATACAAC
1 ATAAAAATTAACATAAATACAAC
6498597 ATAAAAATTAACA-AAA-ACATA-
1 ATAAAAATTAACATAAATACA-AC
6498618 ATAAAAAT
1 ATAAAAAT
6498626 GAATATGACT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 11 0.41
22 4 0.15
23 12 0.44
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (23 bp):
ATAAAAATTAACATAAATACAAC
Found at i:6498753 original size:14 final size:14
Alignment explanation
Indices: 6498736--6498765 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6498726 CTTTCTTTCC
6498736 TTTCCTTCCTTTTT
1 TTTCCTTCCTTTTT
*
6498750 TTTCCTTTCTTTTT
1 TTTCCTTCCTTTTT
6498764 TT
1 TT
6498766 CTTTCTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTCCTTCCTTTTT
Found at i:6498780 original size:12 final size:12
Alignment explanation
Indices: 6498744--6498781 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
6498734 CCTTTCCTTC
6498744 CTTT-TTTTTC-
1 CTTTCTTTTTCT
*
6498754 CTTTCTTTTTTT
1 CTTTCTTTTTCT
6498766 CTTTCTTTTTCT
1 CTTTCTTTTTCT
6498778 CTTT
1 CTTT
6498782 TCTCTCTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 4 0.17
11 5 0.21
12 15 0.62
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
CTTTCTTTTTCT
Found at i:6501213 original size:14 final size:14
Alignment explanation
Indices: 6501194--6501223 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6501184 GCAAGGAAAG
6501194 CTTAGTTTCATTGC
1 CTTAGTTTCATTGC
*
6501208 CTTAGTTTCGTTGC
1 CTTAGTTTCATTGC
6501222 CT
1 CT
6501224 GGAGAAAGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.23, G:0.17, T:0.50
Consensus pattern (14 bp):
CTTAGTTTCATTGC
Found at i:6507755 original size:3 final size:3
Alignment explanation
Indices: 6507747--6507789 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
6507737 TTTGCCAAAA
6507747 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6507790 GTTGTTGTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6508227 original size:15 final size:15
Alignment explanation
Indices: 6508207--6508236 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6508197 TAATCGACAC
*
6508207 TAAAAAGTTTTAATT
1 TAAAAAGGTTTAATT
6508222 TAAAAAGGTTTAATT
1 TAAAAAGGTTTAATT
6508237 GTTACTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (15 bp):
TAAAAAGGTTTAATT
Found at i:6511133 original size:2 final size:2
Alignment explanation
Indices: 6511126--6511162 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6511116 GTTAAAAGTG
6511126 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6511163 TTCTAACAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6511745 original size:17 final size:17
Alignment explanation
Indices: 6511723--6511756 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6511713 ATATTTATTT
6511723 ATTAAATTAAATAAATA
1 ATTAAATTAAATAAATA
*
6511740 ATTAAATTAAATGAATA
1 ATTAAATTAAATAAATA
6511757 CATTTAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
ATTAAATTAAATAAATA
Found at i:6512847 original size:14 final size:15
Alignment explanation
Indices: 6512816--6512849 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6512806 ATTCATGAAC
6512816 ATAATTTTAATATAT
1 ATAATTTTAATATAT
*
6512831 ATAATTTTTAT-TAT
1 ATAATTTTAATATAT
6512845 ATAAT
1 ATAAT
6512850 ATAGATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATAATTTTAATATAT
Found at i:6519229 original size:21 final size:21
Alignment explanation
Indices: 6519182--6519246 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
6519172 CTCTATTAAT
*
6519182 TATATTATTAT-ATTAAA-ATA
1 TATATT-TTATAATTAAATTTA
*
6519202 T-TATTTT-TTATTAATATTTA
1 TATATTTTATAATTAA-ATTTA
6519222 TATATTTTATAATTAAATTTA
1 TATATTTTATAATTAAATTTA
6519243 TATA
1 TATA
6519247 AAAATATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 1 0.03
18 7 0.18
19 5 0.13
20 4 0.11
21 15 0.39
22 6 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TATATTTTATAATTAAATTTA
Found at i:6520595 original size:2 final size:2
Alignment explanation
Indices: 6520588--6520614 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6520578 AATTGTTATT
6520588 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
6520615 TAGAAATAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6524651 original size:34 final size:34
Alignment explanation
Indices: 6524595--6524812 Score: 287
Period size: 34 Copynumber: 6.4 Consensus size: 34
6524585 TTACTTGTTC
*
6524595 TTGTTGATTAAAT-GGTGATTTGGTAGTTTACCA
1 TTGTTGATTAAATGGGTGATTTGGTAGCTTACCA
* * *
6524628 TTGTTGATTAAATGGGTGATTTGGTGGTTTGCCA
1 TTGTTGATTAAATGGGTGATTTGGTAGCTTACCA
* *
6524662 TTGTTGACTAAATGGGAGATTTGGTAGCTTACCA
1 TTGTTGATTAAATGGGTGATTTGGTAGCTTACCA
* **
6524696 TTGTTGATTAAATGAGAAATTTGGTAGCTTACCA
1 TTGTTGATTAAATGGGTGATTTGGTAGCTTACCA
* *
6524730 TTATTGATTAAATGGGTGATTTGGTGGCTTACCA
1 TTGTTGATTAAATGGGTGATTTGGTAGCTTACCA
* * *
6524764 TTGTTGACTAAAT-GGTAGATTTGGTAGGTTGCCA
1 TTGTTGATTAAATGGGT-GATTTGGTAGCTTACCA
6524798 TTGTTGATTAAATGG
1 TTGTTGATTAAATGG
6524813 TGGTTTTTAC
Statistics
Matches: 161, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
33 16 0.10
34 144 0.89
35 1 0.01
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.41
Consensus pattern (34 bp):
TTGTTGATTAAATGGGTGATTTGGTAGCTTACCA
Found at i:6524770 original size:102 final size:101
Alignment explanation
Indices: 6524595--6524812 Score: 346
Period size: 102 Copynumber: 2.1 Consensus size: 101
6524585 TTACTTGTTC
** * * * *
6524595 TTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTGC
1 TTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTAC
6524660 CATTGTTGACTAAATGGGAGATTTGGTAGCTTACCA
66 CATTGTTGACTAAATGGGAGATTTGGTAGCTTACCA
6524696 TTGTTGATTAAATGAGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
1 TTGTTGATTAAATG-GAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
* * *
6524761 CCATTGTTGACTAAATGGTAGATTTGGTAGGTTGCCA
65 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACCA
6524798 TTGTTGATTAAATGG
1 TTGTTGATTAAATGG
6524813 TGGTTTTTAC
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
101 15 0.14
102 92 0.86
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.41
Consensus pattern (101 bp):
TTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTAC
CATTGTTGACTAAATGGGAGATTTGGTAGCTTACCA
Found at i:6529283 original size:34 final size:34
Alignment explanation
Indices: 6529226--6529444 Score: 298
Period size: 34 Copynumber: 6.5 Consensus size: 34
6529216 AAGTGGGAGA
*
6529226 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
6529259 ATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
6529293 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* **
6529327 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
6529361 ATTATTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
6529395 ATTGTTGACTAAAT-GGTAGATTTGGTAGGTTACC
1 ATTGTTGATTAAATGGGT-GATTTGGTAGCTTACC
6529429 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
6529445 TGGTTTTTAC
Statistics
Matches: 163, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
33 17 0.10
34 145 0.89
35 1 0.01
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
Found at i:6529369 original size:102 final size:101
Alignment explanation
Indices: 6529226--6529444 Score: 357
Period size: 102 Copynumber: 2.2 Consensus size: 101
6529216 AAGTGGGAGA
** * * * *
6529226 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
6529291 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
66 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
6529327 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
1 ATTGTTGATTAAATG-GAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
* *
6529392 ACCATTGTTGACTAAATGGTAGATTTGGTAGGTTACC
65 ACCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
6529429 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
6529445 TGGTTTTTAC
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
101 16 0.15
102 93 0.85
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (101 bp):
ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
Found at i:6532122 original size:2 final size:2
Alignment explanation
Indices: 6532110--6532157 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
6532100 TATCATAAAG
* * *
6532110 TA TA TA CA TA TA TA TA TA AA TA TA TA TA TA TA TA TA -A CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6532151 TA TA TA T
1 TA TA TA T
6532158 TTGATTGTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:6535851 original size:17 final size:18
Alignment explanation
Indices: 6535829--6535864 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
6535819 TGTATTAGTC
6535829 ATTAAAAAATT-AATTAA
1 ATTAAAAAATTAAATTAA
6535846 ATTAAAAAATTAAATTAA
1 ATTAAAAAATTAAATTAA
6535864 A
1 A
6535865 AATTTATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
ATTAAAAAATTAAATTAA
Found at i:6535868 original size:12 final size:13
Alignment explanation
Indices: 6535840--6535866 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6535830 TTAAAAAATT
6535840 AATTAAATTAAAA
1 AATTAAATTAAAA
6535853 AATTAAATTAAAA
1 AATTAAATTAAAA
6535866 A
1 A
6535867 TTTATGTTGA
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AATTAAATTAAAA
Found at i:6539812 original size:16 final size:16
Alignment explanation
Indices: 6539793--6539861 Score: 66
Period size: 16 Copynumber: 4.3 Consensus size: 16
6539783 AATTGTTCAG
*
6539793 AATAATTAATATTTAA
1 AATAATTATTATTTAA
* * * *
6539809 AATAACTATTGTTCAG
1 AATAATTATTATTTAA
* *
6539825 AGTCATTATTATTTAA
1 AATAATTATTATTTAA
*
6539841 AATAATTCTTATTTAA
1 AATAATTATTATTTAA
6539857 AATAA
1 AATAA
6539862 CTTGTATTTG
Statistics
Matches: 39, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.43
Consensus pattern (16 bp):
AATAATTATTATTTAA
Found at i:6539825 original size:32 final size:32
Alignment explanation
Indices: 6539784--6539845 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
6539774 AAGAATAGTA
6539784 ATTGTTCAGAATAATTAATATTTAAAATAACT
1 ATTGTTCAGAATAATTAATATTTAAAATAACT
* * *
6539816 ATTGTTCAGAGTCATTATTATTTAAAATAA
1 ATTGTTCAGAATAATTAATATTTAAAATAA
6539846 TTCTTATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (32 bp):
ATTGTTCAGAATAATTAATATTTAAAATAACT
Found at i:6540054 original size:41 final size:41
Alignment explanation
Indices: 6540004--6540090 Score: 165
Period size: 41 Copynumber: 2.1 Consensus size: 41
6539994 AGTTAAGAGG
*
6540004 TTTTCTTTTAATTTTTCCTTATAGTATGAATGTTATTTTTT
1 TTTTGTTTTAATTTTTCCTTATAGTATGAATGTTATTTTTT
6540045 TTTTGTTTTAATTTTTCCTTATAGTATGAATGTTATTTTTT
1 TTTTGTTTTAATTTTTCCTTATAGTATGAATGTTATTTTTT
6540086 TTTTG
1 TTTTG
6540091 AAAATAAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.18, C:0.06, G:0.09, T:0.67
Consensus pattern (41 bp):
TTTTGTTTTAATTTTTCCTTATAGTATGAATGTTATTTTTT
Found at i:6540741 original size:53 final size:51
Alignment explanation
Indices: 6540671--6540782 Score: 161
Period size: 51 Copynumber: 2.1 Consensus size: 51
6540661 CATTCACATA
* *
6540671 ATCAAATCTTATTTGTATACTCTTTTTAAATGATTTCATAAGTTCGAAACTTTG
1 ATCAAA-CTTATTTGTATACTC-TTTTAAATGATTTC-TAAATTCAAAACTTTG
*
6540725 ATCAAACTTATTTGTATACTCTTTTAAATTATTTCTAAATTCAAAACTTTG
1 ATCAAACTTATTTGTATACTCTTTTAAATGATTTCTAAATTCAAAACTTTG
*
6540776 AGCAAAC
1 ATCAAAC
6540783 AATGAGTTTG
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
51 20 0.37
52 13 0.24
53 15 0.28
54 6 0.11
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (51 bp):
ATCAAACTTATTTGTATACTCTTTTAAATGATTTCTAAATTCAAAACTTTG
Found at i:6541173 original size:19 final size:19
Alignment explanation
Indices: 6541151--6541189 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
6541141 AAATATTATT
*
6541151 TTAA-TTAATAAATAATAAA
1 TTAATTTAAAAAATAA-AAA
6541170 TTAATTTAAAAAATAAAAA
1 TTAATTTAAAAAATAAAAA
6541189 T
1 T
6541190 AAAAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TTAATTTAAAAAATAAAAA
Found at i:6541184 original size:24 final size:24
Alignment explanation
Indices: 6541135--6541192 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
6541125 TAATTAAATT
* **
6541135 TAAATAA-AATATTATTTTAATTAA
1 TAAATAATAA-ATTAATTTAAAAAA
6541159 TAAATAATAAATTAATTTAAAAAA
1 TAAATAATAAATTAATTTAAAAAA
6541183 TAAA-AATAAA
1 TAAATAATAAA
6541193 AATAAAATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.20
24 22 0.73
25 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
TAAATAATAAATTAATTTAAAAAA
Found at i:6542153 original size:9 final size:9
Alignment explanation
Indices: 6542138--6542186 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
6542128 CAAAACAAAA
6542138 AAAAATAAT
1 AAAAATAAT
*
6542147 AATAATAAT
1 AAAAATAAT
6542156 AAAAATAA-
1 AAAAATAAT
*
6542164 ATAAATAA-
1 AAAAATAAT
6542172 ATAAAATAA-
1 A-AAAATAAT
6542181 AAAAAT
1 AAAAAT
6542187 TTATTGATTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
8 13 0.37
9 22 0.63
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAAAATAAT
Found at i:6542170 original size:17 final size:17
Alignment explanation
Indices: 6542136--6542186 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
6542126 TGCAAAACAA
6542136 AAAAAAAT-AATAATAAT
1 AAAAAAATAAATAA-AAT
6542153 AATAAAAATAAAT-AAAT
1 AA-AAAAATAAATAAAAT
6542170 AAATAAAATAAA-AAAAT
1 AAA-AAAATAAATAAAAT
6542187 TTATTGATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
16 1 0.03
17 19 0.63
18 7 0.23
19 3 0.10
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAAAAATAAATAAAAT
Found at i:6543136 original size:3 final size:3
Alignment explanation
Indices: 6543109--6543157 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
6543099 GATGGTTAAG
* *
6543109 ATA A-A ATA AAA AT- ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6543155 ATA
1 ATA
6543158 TGTTGTTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:6543834 original size:12 final size:12
Alignment explanation
Indices: 6543817--6543841 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6543807 TTATATATTT
6543817 TTTATTTTATAA
1 TTTATTTTATAA
6543829 TTTATTTTATAA
1 TTTATTTTATAA
6543841 T
1 T
6543842 ATTTGTCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTATTTTATAA
Found at i:6544841 original size:3 final size:3
Alignment explanation
Indices: 6544833--6544877 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
6544823 ATTCATAAGG
6544833 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6544878 GACAATGTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6544970 original size:26 final size:26
Alignment explanation
Indices: 6544941--6544990 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
6544931 TTAGAACCCA
6544941 AGATAAAGTTAAACTTTATCAATCCC
1 AGATAAAGTTAAACTTTATCAATCCC
* *
6544967 AGATATAGTTGAACTTTATCAATC
1 AGATAAAGTTAAACTTTATCAATC
6544991 TTATCTCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (26 bp):
AGATAAAGTTAAACTTTATCAATCCC
Found at i:6549101 original size:51 final size:51
Alignment explanation
Indices: 6549032--6549199 Score: 219
Period size: 51 Copynumber: 3.3 Consensus size: 51
6549022 GAAAATAACA
* * * * * * *
6549032 GGGTTGGAGTATCTCCGATTGTGGAAAATCGATGCTTTAGAAATAAGACCG
1 GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCG
*
6549083 GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCG
1 GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCG
* * * * *
6549134 GAGTTGGAGTATCCCTGATTGTGAAAAATTGGTATTTTAAAAATAAAATCA
1 GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCG
6549185 GGGTTGGAGTATCCC
1 GGGTTGGAGTATCCC
6549200 TTCAGAAAAT
Statistics
Matches: 102, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 102 1.00
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.30
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCG
Found at i:6556525 original size:29 final size:29
Alignment explanation
Indices: 6556483--6556543 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
6556473 CTAATCCACA
6556483 TAGAATTTCAAAACTCATAAGAAGCCATT
1 TAGAATTTCAAAACTCATAAGAAGCCATT
6556512 TAGAATTTCAAAACTCATAAGAAGCCATT
1 TAGAATTTCAAAACTCATAAGAAGCCATT
6556541 TAG
1 TAG
6556544 CAATGGACAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.28
Consensus pattern (29 bp):
TAGAATTTCAAAACTCATAAGAAGCCATT
Found at i:6558211 original size:20 final size:18
Alignment explanation
Indices: 6558170--6558205 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6558160 GATGCATATA
6558170 TATACAAAAAATTAATTT
1 TATACAAAAAATTAATTT
*
6558188 TATATAAAAAATTAATTT
1 TATACAAAAAATTAATTT
6558206 ATTATAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
TATACAAAAAATTAATTT
Found at i:6558543 original size:20 final size:18
Alignment explanation
Indices: 6558502--6558537 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6558492 GATGCATATA
6558502 TATACAAAAAATCAATTT
1 TATACAAAAAATCAATTT
* *
6558520 TATATAAAAAATTAATTT
1 TATACAAAAAATCAATTT
6558538 ATTATAGAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (18 bp):
TATACAAAAAATCAATTT
Found at i:6558914 original size:334 final size:334
Alignment explanation
Indices: 6557869--6560376 Score: 4242
Period size: 334 Copynumber: 7.5 Consensus size: 334
6557859 ACCATTGATA
*
6557869 AATTTATTATAGAGACATTTATCAGATTTGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
1 AATTTATTATAGAGACATTTATCAGATTCGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
* *
6557934 AAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCAGATAGAGATTTAATTAATTTACACAC
66 AAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAATTTACACAC
* * * *
6557999 TTTTTCTTGT--CAGAATTACAAATCCTTTGGGTTGTTCCATATACACCATTTCATCTAATTCAC
131 TTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCATATACACCTTTTCATCCAATTCAC
6558062 CATTTTAAAATGTGATTTTTACATCCATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGCT
196 CATTTTAAAATGTGATTTTTACATCCATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGCT
* * * *
6558127 ATAAGCATTCTTATTGTAACAATTCTTGCTATCGATGCATATATATACAAAAAATTAATTTTATA
261 ATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATATAAAAAAAATCAATTTTGTA
*
6558192 TAAAAAATT
326 TAAAAAATC
* *
6558201 AATTTATTATAGAGACAATTATCAGATTCGTTAATAATGTATCCATTGGCTAGAATTACTTCATT
1 AATTTATTATAGAGACATTTATCAGATTCGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
* * *
6558266 AAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCAGATAGAAATTTAATTAATTTACACAC
66 AAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAATTTACACAC
* * *
6558331 TTTTTCTTGTCCTAGAATTACAAATCCTTTGGGTTGTTCCATATACACCTTTTCATCCAATTCAC
131 TTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCATATACACCTTTTCATCCAATTCAC
* *
6558396 CATTTTAAAATGT-A-ATTTACATCCATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGTT
196 CATTTTAAAATGTGATTTTTACATCCATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGCT
* *
6558459 ATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATATACAAAAAATCAATTTTATA
261 ATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATATAAAAAAAATCAATTTTGTA
*
6558524 TAAAAAATT
326 TAAAAAATC
6558533 AATTTATTATAGAGACATTTATCAGATTCGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
1 AATTTATTATAGAGACATTTATCAGATTCGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
*
6558598 AAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCAGATAGAGATTTAATCAATTTACACAC
66 AAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAATTTACACAC
* * *
6558663 TTTTTCTTGTCCTAGAATTACAAATCCTTTGGGTTGTTCCATATACACCTTTTCATCCAATTCAC
131 TTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCATATACACCTTTTCATCCAATTCAC
6558728 CATTTTAAAATGTGATTTTTACATCCATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGCT
196 CATTTTAAAATGTGATTTTTACATCCATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGCT
* * *
6558793 ATAAGCATTCTTATTGTGGCAATTCCTGCTATCGATGCATATATATAAAAAAAATCAATTTTATA
261 ATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATATAAAAAAAATCAATTTTGTA
*
6558858 TAAAAAATT
326 TAAAAAATC
*
6558867 ATTTTATTATAGAGACATTTATCAGATTCGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
1 AATTTATTATAGAGACATTTATCAGATTCGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
*
6558932 AAACTTTTGATGCCATTGCTTACGAGCTTATTAAGTCCATATAGAGATTTAATCAATTTACACAC
66 AAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAATTTACACAC
*
6558997 TTTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCATATACACCTCTTCATCCAATTCA
131 -TTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCATATACACCTTTTCATCCAATTCA
* * * * *
6559062 TCATTTTAAAATGTGATTTTTACATCTATTTTTTGAAATTTTAATTTATAAATTAAGGTCAATGC
195 CCATTTTAAAATGTGATTTTTACATCCATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGC
*
6559127 TATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATATATAAAAAAATCATTTTTG
260 TATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATATA-AAAAAAATCAATTTTG
6559192 TATAAAAAATC
324 TATAAAAAATC
*
6559203 AATTTATTATAGAGACATTTATCATATTCGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
1 AATTTATTATAGAGACATTTATCAGATTCGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
*
6559268 AAACTTTTGATGCCATTTCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAATTTACACAT
66 AAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAATTTACACA-
* * * * *
6559333 TTTTTTCTTATCCCAAAATTACAAACCCTTTGGGTTGTTTCATATACACCTCTTCATCCCATTCA
130 CTTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCATATACACCTTTTCATCCAATTCA
* * *
6559398 CCAGTTTAAAATGTGATTTTTACATCCATTTGTTGAAATTTCAATGTATAAATTAAAGCCAATGC
195 CCATTTTAAAATGTGATTTTTACATCCATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGC
6559463 TATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATAT-AAAAAAATCAATTTTGT
260 TATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATATAAAAAAAATCAATTTTGT
6559527 ATAAAAAATC
325 ATAAAAAATC
* * *
6559537 AATTTATTATAGAGACTTTTATCATATTTGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
1 AATTTATTATAGAGACATTTATCAGATTCGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
*
6559602 AAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAATTTACATAT
66 AAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAATTTACACA-
* *
6559667 TTTTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCATATACA-CTTCTTCTTCCAATT
130 -CTTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCATATACACCTT-TTCATCCAATT
*
6559731 CACCATTTTAAAATGTGATTTTTACATCTATTTGTTGAAATTTCAATTTATAAATTAAGGCCAAT
193 CACCATTTTAAAATGTGATTTTTACATCCATTTGTTGAAATTTCAATTTATAAATTAAGGCCAAT
*
6559796 GCTATAAGCATTCTTATTGTAGCAATTCTTGCTATTGATGCATATATATAAAAAAAATCAATTTT
258 GCTATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATATAAAAAAAATCAATTTT
6559861 GTATAAAAAAATC
323 GTAT-AAAAAATC
* * *
6559874 AATTTATTATAAAGACATTTATCATATTTGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
1 AATTTATTATAGAGACATTTATCAGATTCGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
*
6559939 AAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAATTT--ACAT
66 AAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAATTTACACAC
* *
6560002 TTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTTCATATACACCTCTTCATCCAATTCAC
131 TTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCATATACACCTTTTCATCCAATTCAC
*
6560067 CATTTTAAAATGTGTTTTTTACATCCATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGCT
196 CATTTTAAAATGTGATTTTTACATCCATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGCT
6560132 ATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATAT-AAAAAAATCAATTTTGTA
261 ATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATATAAAAAAAATCAATTTTGTA
6560196 TAAAAAATC
326 TAAAAAATC
* *
6560205 AATTTATTATAGAGACATTTATCATATTTGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
1 AATTTATTATAGAGACATTTATCAGATTCGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
*
6560270 AAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAATTTACATAT
66 AAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAATTTACACA-
*
6560335 TTTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCA
130 CTTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCA
6560377 AATTTCAATT
Statistics
Matches: 2081, Mismatches: 80, Indels: 28
0.95 0.04 0.01
Matches are distributed among these distances:
331 131 0.06
332 478 0.23
333 172 0.08
334 504 0.24
335 333 0.16
336 333 0.16
337 130 0.06
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (334 bp):
AATTTATTATAGAGACATTTATCAGATTCGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
AAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAATTTACACAC
TTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCATATACACCTTTTCATCCAATTCAC
CATTTTAAAATGTGATTTTTACATCCATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGCT
ATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATATAAAAAAAATCAATTTTGTA
TAAAAAATC
Found at i:6559505 original size:671 final size:668
Alignment explanation
Indices: 6557869--6560376 Score: 4285
Period size: 671 Copynumber: 3.8 Consensus size: 668
6557859 ACCATTGATA
*
6557869 AATTTATTATAGAGACATTTATCAGATTTGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
1 AATTTATTATAGAGACATTTATCAGATTCGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
*
6557934 AAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCAGATAGAGATTTAATTAATTTACACAC
66 AAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCAGATAGAGATTTAATCAATTTACACAC
* * *
6557999 TTTTTCTTGT--CAGAATTACAAATCCTTTGGGTTGTTCCATATACACCAT-TTCATCTAATTCA
131 TTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCATATACACC-TCTTCATCCAATTCA
6558061 CCATTTTAAAATGTGATTTTTACATCCATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGC
195 CCATTTTAAAATGTGATTTTTACATCCATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGC
* *
6558126 TATAAGCATTCTTATTGTAACAATTCTTGCTATCGATGCATATATATACAAAAAATTAATTTTAT
260 TATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATATA-AAAAAATCAATTTTAT
* * *
6558191 ATAAAAAATTAATTTATTATAGAGACAATTATCAGATTCGTTAATAATGTATCCATTGGCTAGAA
324 ATAAAAAATCAATTTATTATAGAGACATTTATCAGATTCGTTAATAATGTATCCATTAGCTAGAA
* * *
6558256 TTACTTCATTAAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCAGATAGAAATTTAATTA
389 TTACTTCATTAAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCA
* * * *
6558321 ATTTACACAC-TTTTTCTTGTCCTAGAATTACAAATCCTTTGGGTTGTTCCATATACACCTTTTC
454 ATTTACACACTTTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCATATACACCTCTTC
* *
6558385 ATCCAATTCACCATTTTAAAATGT-A-ATTTACATCCATTTGTTGAAATTTCAATTTATAAATTA
519 ATCCAATTCACCATTTTAAAATGTGATTTTTACATCTATTTGTTGAAATTTCAATTTATAAATTA
* *
6558448 AGGCCAATGTTATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATATACAAAAAA
584 AGGCCAATGCTATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATATAAAAAAAA
* *
6558513 TCAATTTTATATAAAAAATT
649 TCAATTTTGTATAAAAAATC
6558533 AATTTATTATAGAGACATTTATCAGATTCGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
1 AATTTATTATAGAGACATTTATCAGATTCGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
6558598 AAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCAGATAGAGATTTAATCAATTTACACAC
66 AAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCAGATAGAGATTTAATCAATTTACACAC
* * * *
6558663 TTTTTCTTGTCCTAGAATTACAAATCCTTTGGGTTGTTCCATATACACCTTTTCATCCAATTCAC
131 TTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCATATACACCTCTTCATCCAATTCAC
6558728 CATTTTAAAATGTGATTTTTACATCCATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGCT
196 CATTTTAAAATGTGATTTTTACATCCATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGCT
* *
6558793 ATAAGCATTCTTATTGTGGCAATTCCTGCTATCGATGCATATATATAAAAAAAATCAATTTTATA
261 ATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATAT-AAAAAAATCAATTTTATA
* *
6558858 TAAAAAATTATTTTATTATAGAGACATTTATCAGATTCGTTAATAATGTATCCATTAGCTAGAAT
325 TAAAAAATCAATTTATTATAGAGACATTTATCAGATTCGTTAATAATGTATCCATTAGCTAGAAT
*
6558923 TACTTCATTAAACTTTTGATGCCATTGCTTACGAGCTTATTAAGTCCATATAGAGATTTAATCAA
390 TACTTCATTAAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAA
6558988 TTTACACACTTTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCATATACACCTCTTCA
455 TTTACACACTTTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCATATACACCTCTTCA
* * *
6559053 TCCAATTCATCATTTTAAAATGTGATTTTTACATCTATTTTTTGAAATTTTAATTTATAAATTAA
520 TCCAATTCACCATTTTAAAATGTGATTTTTACATCTATTTGTTGAAATTTCAATTTATAAATTAA
*
6559118 GGTCAATGCTATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATATATAAAAAAA
585 GGCCAATGCTATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATATA-AAAAAAA
*
6559183 TCATTTTTGTATAAAAAATC
649 TCAATTTTGTATAAAAAATC
*
6559203 AATTTATTATAGAGACATTTATCATATTCGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
1 AATTTATTATAGAGACATTTATCAGATTCGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
* *
6559268 AAACTTTTGATGCCATTTCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAATTTACACAT
66 AAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCAGATAGAGATTTAATCAATTTACACA-
* * * *
6559333 TTTTTTCTTATCCCAAAATTACAAACCCTTTGGGTTGTTTCATATACACCTCTTCATCCCATTCA
130 CTTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCATATACACCTCTTCATCCAATTCA
* * *
6559398 CCAGTTTAAAATGTGATTTTTACATCCATTTGTTGAAATTTCAATGTATAAATTAAAGCCAATGC
195 CCATTTTAAAATGTGATTTTTACATCCATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGC
*
6559463 TATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATATAAAAAAATCAATTTTGTA
260 TATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATATAAAAAAATCAATTTTATA
* * *
6559528 TAAAAAATCAATTTATTATAGAGACTTTTATCATATTTGTTAATAATGTATCCATTAGCTAGAAT
325 TAAAAAATCAATTTATTATAGAGACATTTATCAGATTCGTTAATAATGTATCCATTAGCTAGAAT
6559593 TACTTCATTAAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAA
390 TACTTCATTAAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAA
* * *
6559658 TTTACATATTTTTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCATATACACTTCTTC
455 TTTACACA-CTTTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCATATACACCTCTTC
*
6559723 TTCCAATTCACCATTTTAAAATGTGATTTTTACATCTATTTGTTGAAATTTCAATTTATAAATTA
519 ATCCAATTCACCATTTTAAAATGTGATTTTTACATCTATTTGTTGAAATTTCAATTTATAAATTA
*
6559788 AGGCCAATGCTATAAGCATTCTTATTGTAGCAATTCTTGCTATTGATGCATATATATAAAAAAAA
584 AGGCCAATGCTATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATATAAAAAAAA
6559853 TCAATTTTGTATAAAAAAATC
649 TCAATTTTGTAT-AAAAAATC
* * *
6559874 AATTTATTATAAAGACATTTATCATATTTGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
1 AATTTATTATAGAGACATTTATCAGATTCGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
* *
6559939 AAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAATTT--ACAT
66 AAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCAGATAGAGATTTAATCAATTTACACAC
*
6560002 TTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTTCATATACACCTCTTCATCCAATTCAC
131 TTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCATATACACCTCTTCATCCAATTCAC
*
6560067 CATTTTAAAATGTGTTTTTTACATCCATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGCT
196 CATTTTAAAATGTGATTTTTACATCCATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGCT
*
6560132 ATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATATAAAAAAATCAATTTTGTAT
261 ATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATATAAAAAAATCAATTTTATAT
* *
6560197 AAAAAATCAATTTATTATAGAGACATTTATCATATTTGTTAATAATGTATCCATTAGCTAGAATT
326 AAAAAATCAATTTATTATAGAGACATTTATCAGATTCGTTAATAATGTATCCATTAGCTAGAATT
6560262 ACTTCATTAAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAAT
391 ACTTCATTAAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAAT
* *
6560327 TTACATATTTTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCA
456 TTACACACTTTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCA
6560377 AATTTCAATT
Statistics
Matches: 1760, Mismatches: 73, Indels: 19
0.95 0.04 0.01
Matches are distributed among these distances:
664 138 0.08
665 1 0.00
666 305 0.17
667 117 0.07
668 327 0.19
669 93 0.05
670 315 0.18
671 464 0.26
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (668 bp):
AATTTATTATAGAGACATTTATCAGATTCGTTAATAATGTATCCATTAGCTAGAATTACTTCATT
AAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCAGATAGAGATTTAATCAATTTACACAC
TTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCATATACACCTCTTCATCCAATTCAC
CATTTTAAAATGTGATTTTTACATCCATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGCT
ATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATATAAAAAAATCAATTTTATAT
AAAAAATCAATTTATTATAGAGACATTTATCAGATTCGTTAATAATGTATCCATTAGCTAGAATT
ACTTCATTAAACTTTTGATGCCATTGCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAAT
TTACACACTTTTTTCTTGTCCCAAAATTACAAACCCTTTGGGTTGTTCCATATACACCTCTTCAT
CCAATTCACCATTTTAAAATGTGATTTTTACATCTATTTGTTGAAATTTCAATTTATAAATTAAG
GCCAATGCTATAAGCATTCTTATTGTAGCAATTCTTGCTATCGATGCATATATATAAAAAAAATC
AATTTTGTATAAAAAATC
Found at i:6560492 original size:19 final size:20
Alignment explanation
Indices: 6560450--6560486 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
6560440 GATGCATATA
6560450 TATATAAAAAATCAATTTTG
1 TATATAAAAAATCAATTTTG
6560470 TATA-AAAAAATCAATTT
1 TATATAAAAAATCAATTT
6560487 ATTATAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (20 bp):
TATATAAAAAATCAATTTTG
Found at i:6560593 original size:277 final size:275
Alignment explanation
Indices: 6560101--6560653 Score: 1034
Period size: 277 Copynumber: 2.0 Consensus size: 275
6560091 CCATTTGTTG
6560101 AAATTTCAATTTATAAATTAAGGCCAATGCTATAAGCATTCTTATTGTAGCAATTCTTGCTATCG
1 AAATTTCAATTTATAAATTAAGGCCAATGCTATAAGCATTCTTATTGTAGCAATTCTTGCTATCG
6560166 ATGCATATATATAAAAAAATCAATTTTGTATAAAAAATCAATTTATTATAGAGACATTTATCATA
66 ATGCATATATATAAAAAAATCAATTTTGTATAAAAAATCAATTTATTATAGAGACATTTATCATA
6560231 TTTGTTAATAATGTATCCATTAGCTAGAATTACTTCATTAAACTTTTGATGCCATTGCTTAGGAG
131 TTTGTTAATAATGTATCCATTAGCTAGAATTACTTCATTAAACTTTTGATGCCATTGCTTAGGAG
* *
6560296 CTTATTAAGTCCATATAGAGATTTAATCAATTTACATATTTTTTTCTTGTCCCAAAATTACAAAC
196 CTTATTAAGTCCAGATAGAGATTTAATCAATTTACACATTTTTTTCTTGTCCCAAAATTACAAAC
6560361 CCTTTGGGTTGTTCC
261 CCTTTGGGTTGTTCC
*
6560376 AAATTTCAATTTATAAATTAAGGCCAATGCTATAAGCATTCTTATTGTAGCAATTCTTGCTATTG
1 AAATTTCAATTTATAAATTAAGGCCAATGCTATAAGCATTCTTATTGTAGCAATTCTTGCTATCG
6560441 ATGCATATATATATAAAAAATCAATTTTGTATAAAAAAATCAATTTATTATAGAGACATTTATCA
66 ATGCATATATATA-AAAAAATCAATTTTGTAT-AAAAAATCAATTTATTATAGAGACATTTATCA
* *
6560506 TATTTGTTGATAATGTATCCATTAGCTAGAATTACTTCATTTAACTTTTGATGCCATTGCTTAGG
129 TATTTGTTAATAATGTATCCATTAGCTAGAATTACTTCATTAAACTTTTGATGCCATTGCTTAGG
*
6560571 AGCTTATTAAGTCTAGATAGAGATTTAATCAATTTACACATTTTTTTCTTGTCCCAAAATTACAA
194 AGCTTATTAAGTCCAGATAGAGATTTAATCAATTTACACATTTTTTTCTTGTCCCAAAATTACAA
6560636 ACCCTTTGGGTTGTTCC
259 ACCCTTTGGGTTGTTCC
6560653 A
1 A
6560654 TATACACCTC
Statistics
Matches: 270, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
275 77 0.29
276 18 0.07
277 175 0.65
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (275 bp):
AAATTTCAATTTATAAATTAAGGCCAATGCTATAAGCATTCTTATTGTAGCAATTCTTGCTATCG
ATGCATATATATAAAAAAATCAATTTTGTATAAAAAATCAATTTATTATAGAGACATTTATCATA
TTTGTTAATAATGTATCCATTAGCTAGAATTACTTCATTAAACTTTTGATGCCATTGCTTAGGAG
CTTATTAAGTCCAGATAGAGATTTAATCAATTTACACATTTTTTTCTTGTCCCAAAATTACAAAC
CCTTTGGGTTGTTCC
Found at i:6560928 original size:611 final size:608
Alignment explanation
Indices: 6559768--6560987 Score: 2296
Period size: 611 Copynumber: 2.0 Consensus size: 608
6559758 CTATTTGTTG
6559768 AAATTTCAATTTATAAATTAAGGCCAATGCTATAAGCATTCTTATTGTAGCAATTCTTGCTATTG
1 AAATTTCAATTTATAAATTAAGGCCAATGCTATAAGCATTCTTATTGTAGCAATTCTTGCTATTG
6559833 ATGCATATATATAAAAAAAATCAATTTTGTATAAAAAAATCAATTTATTATAAAGACATTTATCA
66 ATGCATATATATAAAAAAAATCAATTTTGTATAAAAAAATCAATTTATTATAAAGACATTTATCA
6559898 TATTTGTTAATAATGTATCCATTAGCTAGAATTACTTCATTAAACTTTTGATGCCATTGCTTAGG
131 TATTTGTTAATAATGTATCCATTAGCTAGAATTACTTCATTAAACTTTTGATGCCATTGCTTAGG
*
6559963 AGCTTATTAAGTCCATATAGAGATTTAATCAATTTACATTTTTTCTTGTCCCAAAATTACAAACC
196 AGCTTATTAAGTCCAGATAGAGATTTAATCAATTTACATTTTTTCTTGTCCCAAAATTACAAACC
* *
6560028 CTTTGGGTTGTTTCATATACACCTCTTCATCCAATTCACCATTTTAAAATGTGTTTTTTACATCC
261 CTTTGGGTTGTTCCATATACACCTCTTCATCCAATTCACCATTTTAAAATGTGATTTTTACATCC
6560093 ATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGCTATAAGCATTCTTATTGTAGCAATTCT
326 ATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGCTATAAGCATTCTTATTGTAGCAATTCT
6560158 TGCTATCGATGCATATATATAAAAAAATCAATTTTGTATAAAAAATCAATTTATTATAGAGACAT
391 TGCTATCGATGCATATATATAAAAAAATCAATTTTGTATAAAAAATCAATTTATTATAGAGACAT
*
6560223 TTATCATATTTGTTAATAATGTATCCATTAGCTAGAATTACTTCATTAAACTTTTGATGCCATTG
456 TTATCAGATTTGTTAATAATGTATCCATTAGCTAGAATTACTTCATTAAACTTTTGATGCCATTG
*
6560288 CTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAATTTACATATTTTTTTCTTGTCCCAAAA
521 CTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAATTTACACATTTTTTTCTTGTCCCAAAA
*
6560353 TTACAAACCCTTTGGGTTGTTCC
586 TTACAAACCCTTTGGATTGTTCC
6560376 AAATTTCAATTTATAAATTAAGGCCAATGCTATAAGCATTCTTATTGTAGCAATTCTTGCTATTG
1 AAATTTCAATTTATAAATTAAGGCCAATGCTATAAGCATTCTTATTGTAGCAATTCTTGCTATTG
* *
6560441 ATGCATATATATATAAAAAATCAATTTTGTATAAAAAAATCAATTTATTATAGAGACATTTATCA
66 ATGCATATATATAAAAAAAATCAATTTTGTATAAAAAAATCAATTTATTATAAAGACATTTATCA
* *
6560506 TATTTGTTGATAATGTATCCATTAGCTAGAATTACTTCATTTAACTTTTGATGCCATTGCTTAGG
131 TATTTGTTAATAATGTATCCATTAGCTAGAATTACTTCATTAAACTTTTGATGCCATTGCTTAGG
*
6560571 AGCTTATTAAGTCTAGATAGAGATTTAATCAATTTACACATTTTTTTCTTGTCCCAAAATTACAA
196 AGCTTATTAAGTCCAGATAGAGATTTAATCAATTT--ACA-TTTTTTCTTGTCCCAAAATTACAA
6560636 ACCCTTTGGGTTGTTCCATATACACCTCTTCATCCAATTCACCATTTTAAAATGTGATTTTTACA
258 ACCCTTTGGGTTGTTCCATATACACCTCTTCATCCAATTCACCATTTTAAAATGTGATTTTTACA
6560701 TCCATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGCTATAAGCATTCTTATTGTAGCAAT
323 TCCATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGCTATAAGCATTCTTATTGTAGCAAT
*
6560766 TCTTGCTATCGATGCATATATATAAAAAAATTAATTTTGTATAAAAAATCAATTTATTATAGAGA
388 TCTTGCTATCGATGCATATATATAAAAAAATCAATTTTGTATAAAAAATCAATTTATTATAGAGA
*
6560831 CATTTATCAGATTTGTTAATAATGTATCCTTTAGCTAGAATTACTTCATTAAACTTTTGATGCCA
453 CATTTATCAGATTTGTTAATAATGTATCCATTAGCTAGAATTACTTCATTAAACTTTTGATGCCA
6560896 TTGCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAATTTACACATTTTTTTCTTGTCCCA
518 TTGCTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAATTTACACATTTTTTTCTTGTCCCA
6560961 AAATTACAAACCCTTTGGATTGTTCC
583 AAATTACAAACCCTTTGGATTGTTCC
6560987 A
1 A
6560988 TATACACCTT
Statistics
Matches: 596, Mismatches: 13, Indels: 3
0.97 0.02 0.00
Matches are distributed among these distances:
608 224 0.38
610 3 0.01
611 369 0.62
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (608 bp):
AAATTTCAATTTATAAATTAAGGCCAATGCTATAAGCATTCTTATTGTAGCAATTCTTGCTATTG
ATGCATATATATAAAAAAAATCAATTTTGTATAAAAAAATCAATTTATTATAAAGACATTTATCA
TATTTGTTAATAATGTATCCATTAGCTAGAATTACTTCATTAAACTTTTGATGCCATTGCTTAGG
AGCTTATTAAGTCCAGATAGAGATTTAATCAATTTACATTTTTTCTTGTCCCAAAATTACAAACC
CTTTGGGTTGTTCCATATACACCTCTTCATCCAATTCACCATTTTAAAATGTGATTTTTACATCC
ATTTGTTGAAATTTCAATTTATAAATTAAGGCCAATGCTATAAGCATTCTTATTGTAGCAATTCT
TGCTATCGATGCATATATATAAAAAAATCAATTTTGTATAAAAAATCAATTTATTATAGAGACAT
TTATCAGATTTGTTAATAATGTATCCATTAGCTAGAATTACTTCATTAAACTTTTGATGCCATTG
CTTAGGAGCTTATTAAGTCCATATAGAGATTTAATCAATTTACACATTTTTTTCTTGTCCCAAAA
TTACAAACCCTTTGGATTGTTCC
Found at i:6560987 original size:334 final size:335
Alignment explanation
Indices: 6560376--6561137 Score: 1391
Period size: 334 Copynumber: 2.3 Consensus size: 335
6560366 GGGTTGTTCC
6560376 AAATTTCAATTTATAAATTAAGGCCAATGCTATAAGCATTCTTATTGTAGCAATTCTTGCTATTG
1 AAATTTCAATTTATAAATTAAGGCCAATGCTATAAGCATTCTTATTGTAGCAATTCTTGCTATTG
6560441 ATGCATATATATATAAAAAATCAATTTTGTATAAAAAAATCAATTTATTATAGAGACATTTATCA
66 ATGCATATATATA-AAAAAATCAATTTTGTATAAAAAAATCAATTTATTATAGAGACATTTATCA
* * *
6560506 TATTTGTTGATAATGTATCCATTAGCTAGAATTACTTCATTTAACTTTTGATGCCATTGCTTAGG
130 GATTTGTTAATAATGTATCCATTAGCTAGAATTACTTCATTAAACTTTTGATGCCATTGCTTAGG
*
6560571 AGCTTATTAAGTCTAGATAGAGATTTAATCAATTTACACATTTTTTTCTTGTCCCAAAATTACAA
195 AGCTTATTAAGTCCAGATAGAGATTTAATCAATTTACACATTTTTTTCTTGTCCCAAAATTACAA
*
6560636 ACCCTTTGGGTTGTTCCATATACACCTCTTCATCCAATTCACCATTTTAAAATGTGATTTTTACA
260 ACCCTTTGGATTGTTCCATATACACCTCTTCATCCAATTCACCATTTTAAAATGTGATTTTTACA
6560701 TCCATTTGTTG
325 TCCATTTGTTG
*
6560712 AAATTTCAATTTATAAATTAAGGCCAATGCTATAAGCATTCTTATTGTAGCAATTCTTGCTATCG
1 AAATTTCAATTTATAAATTAAGGCCAATGCTATAAGCATTCTTATTGTAGCAATTCTTGCTATTG
*
6560777 ATGCATATATATAAAAAAATTAATTTTGTAT-AAAAAATCAATTTATTATAGAGACATTTATCAG
66 ATGCATATATATAAAAAAATCAATTTTGTATAAAAAAATCAATTTATTATAGAGACATTTATCAG
*
6560841 ATTTGTTAATAATGTATCCTTTAGCTAGAATTACTTCATTAAACTTTTGATGCCATTGCTTAGGA
131 ATTTGTTAATAATGTATCCATTAGCTAGAATTACTTCATTAAACTTTTGATGCCATTGCTTAGGA
*
6560906 GCTTATTAAGTCCATATAGAGATTTAATCAATTTACACATTTTTTTCTTGTCCCAAAATTACAAA
196 GCTTATTAAGTCCAGATAGAGATTTAATCAATTTACACATTTTTTTCTTGTCCCAAAATTACAAA
*
6560971 CCCTTTGGATTGTTCCATATACACCTTTTCATCCAATTCACCATTTTAAAATGTGATTTTTACAT
261 CCCTTTGGATTGTTCCATATACACCTCTTCATCCAATTCACCATTTTAAAATGTGATTTTTACAT
6561036 CCATTTGTTG
326 CCATTTGTTG
*
6561046 AAATTTCAATTTATAAATTAAGGCCAATGCTATAAGCGTTCTTATTGTAGCAATTCTTGCTATTG
1 AAATTTCAATTTATAAATTAAGGCCAATGCTATAAGCATTCTTATTGTAGCAATTCTTGCTATTG
* *
6561111 ATGTATATATATATAAAAATCAATTTT
66 ATGCATATATATAAAAAAATCAATTTT
6561138 AAGTTTTTGT
Statistics
Matches: 411, Mismatches: 15, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
334 317 0.77
335 17 0.04
336 77 0.19
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (335 bp):
AAATTTCAATTTATAAATTAAGGCCAATGCTATAAGCATTCTTATTGTAGCAATTCTTGCTATTG
ATGCATATATATAAAAAAATCAATTTTGTATAAAAAAATCAATTTATTATAGAGACATTTATCAG
ATTTGTTAATAATGTATCCATTAGCTAGAATTACTTCATTAAACTTTTGATGCCATTGCTTAGGA
GCTTATTAAGTCCAGATAGAGATTTAATCAATTTACACATTTTTTTCTTGTCCCAAAATTACAAA
CCCTTTGGATTGTTCCATATACACCTCTTCATCCAATTCACCATTTTAAAATGTGATTTTTACAT
CCATTTGTTG
Found at i:6565204 original size:78 final size:77
Alignment explanation
Indices: 6565027--6565205 Score: 214
Period size: 78 Copynumber: 2.3 Consensus size: 77
6565017 GCACTTTGAG
* * *
6565027 GGAGGTTAAGCCTGACATAGACATAAAAAGTCCAATATAGTTGGCTTAAAATAAGTTCAGTAAAG
1 GGAGGTTAAGCCCGACATAGATATAAAAAGTCCAATATAGTTGACTTAAAATAAGTTCAGTAAAG
* *
6565092 TTGGCATCTTAA
66 ATGGCACCTTAA
* ** * * * * *
6565104 GGAAGGTTAAACCCGAGGTAGATGTAAAAAGTCTAATGTAGTTGACTTAAGATAAGTTCAGTGAA
1 GG-AGGTTAAGCCCGACATAGATATAAAAAGTCCAATATAGTTGACTTAAAATAAGTTCAGTAAA
6565169 GATGGCACCTTAA
65 GATGGCACCTTAA
*
6565182 GAGAGGTTAAGCCCGACTTAGATA
1 G-GAGGTTAAGCCCGACATAGATA
6565206 ATTTAATTCT
Statistics
Matches: 83, Mismatches: 17, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
77 2 0.02
78 80 0.96
79 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (77 bp):
GGAGGTTAAGCCCGACATAGATATAAAAAGTCCAATATAGTTGACTTAAAATAAGTTCAGTAAAG
ATGGCACCTTAA
Found at i:6575110 original size:17 final size:17
Alignment explanation
Indices: 6575084--6575120 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
6575074 CATGAATGTT
*
6575084 ATTATGTATATTTATAA
1 ATTATATATATTTATAA
6575101 ATTATATATATTTATAA
1 ATTATATATATTTATAA
6575118 ATT
1 ATT
6575121 TGAATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
ATTATATATATTTATAA
Found at i:6578350 original size:34 final size:34
Alignment explanation
Indices: 6578307--6578377 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
6578297 AGAAACAGTG
*
6578307 AAAACGTAAAGATAAATAATATGTAGACTATCTA
1 AAAACGTAAAGATAAATAATATCTAGACTATCTA
*
6578341 AAAACGTAAAGATAAATAATATCTAGACTCTCTA
1 AAAACGTAAAGATAAATAATATCTAGACTATCTA
6578375 AAA
1 AAA
6578378 TGACAATCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.54, C:0.11, G:0.10, T:0.25
Consensus pattern (34 bp):
AAAACGTAAAGATAAATAATATCTAGACTATCTA
Found at i:6582040 original size:22 final size:22
Alignment explanation
Indices: 6581992--6582032 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6581982 AACTAGTGAA
*
6581992 ATTTTTAATTAAACCTTTTAGG
1 ATTTTCAATTAAACCTTTTAGG
6582014 ATTTTCAATTAAA-CTTTTA
1 ATTTTCAATTAAACCTTTTA
6582033 CTTATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (22 bp):
ATTTTCAATTAAACCTTTTAGG
Found at i:6584207 original size:76 final size:75
Alignment explanation
Indices: 6584024--6584236 Score: 210
Period size: 76 Copynumber: 2.8 Consensus size: 75
6584014 CCTCTAAGTC
** * * * * *
6584024 ATTTTAGTACTTTTATATCAAAGTTGAACCTTTACGATCATTTTAGTGTCTTTATGTCAAATTAA
1 ATTTTAGTACTTTTATATCAAAACTGAACCTTTAGGATTATTTTAGTGCCTTTGTGTCAAAATAA
6584089 GCCTTTGATA
66 GCCTTTGATA
* * * * ** * * * *
6584099 ATTTTAATATTTTTATGTTAAAACCAAACCTTTAGGGTTATTTTATTGCCATTGTGTCAAAATGA
1 ATTTTAGTACTTTTATATCAAAACTGAACCTTTAGGATTATTTTAGTGCCTTTGTGTCAAAATAA
* *
6584164 GCCTTTTGGTT
66 GCC-TTTGATA
* * * *
6584175 ATTTTTGTACTTTTATATCAAAACTGAACCTTTAGGCTTATTGTAGTGCTTTTGTGTCAAAA
1 ATTTTAGTACTTTTATATCAAAACTGAACCTTTAGGATTATTTTAGTGCCTTTGTGTCAAAA
6584237 CCAAGCTTTT
Statistics
Matches: 106, Mismatches: 31, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
75 51 0.48
76 55 0.52
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.46
Consensus pattern (75 bp):
ATTTTAGTACTTTTATATCAAAACTGAACCTTTAGGATTATTTTAGTGCCTTTGTGTCAAAATAA
GCCTTTGATA
Found at i:6584246 original size:76 final size:76
Alignment explanation
Indices: 6584125--6584272 Score: 174
Period size: 76 Copynumber: 1.9 Consensus size: 76
6584115 GTTAAAACCA
* * * ** * *
6584125 AACCTTTAGGGTTATTTTATTGCCATTGTGTCAAAATGAGCCTTTT-GGTTATTTTTGTACTTTT
1 AACCTTTAGGCTTATTGTAGTGCCATTGTGTCAAAACAAGCCTTTTAGGTTATCTTTGTA-ATTT
6584189 ATATCAAAACTG
65 ATATCAAAACTG
**
6584201 AACCTTTAGGCTTATTGTAGTGCTTTTGTGTCAAAACCAAG-CTTTTAGGGTTATCTTTGTAATT
1 AACCTTTAGGCTTATTGTAGTGCCATTGTGTCAAAA-CAAGCCTTTTA-GGTTATCTTTGTAATT
6584265 TATATCAA
64 TATATCAA
6584273 GACCAAGCTT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
76 36 0.60
77 12 0.20
78 12 0.20
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.45
Consensus pattern (76 bp):
AACCTTTAGGCTTATTGTAGTGCCATTGTGTCAAAACAAGCCTTTTAGGTTATCTTTGTAATTTA
TATCAAAACTG
Found at i:6584317 original size:39 final size:39
Alignment explanation
Indices: 6584224--6584356 Score: 187
Period size: 39 Copynumber: 3.4 Consensus size: 39
6584214 ATTGTAGTGC
*
6584224 TTTTGTGTCAAAACCAAGCTTTTAGGGTTATCTTTGTAA
1 TTTTATGTCAAAACCAAGCTTTTAGGGTTATCTTTGTAA
* * *
6584263 -TTTATATCAAGACCAAGCTTTTAGGGTTATCTTTATAA
1 TTTTATGTCAAAACCAAGCTTTTAGGGTTATCTTTGTAA
* * *
6584301 TTTTATGTCAAAACCAAGTTTTTAGGGTTATCTTTGCAC
1 TTTTATGTCAAAACCAAGCTTTTAGGGTTATCTTTGTAA
*
6584340 TTTTATGTGAAAACCAA
1 TTTTATGTCAAAACCAA
6584357 ACCTTTAAGG
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 34 0.41
39 48 0.59
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (39 bp):
TTTTATGTCAAAACCAAGCTTTTAGGGTTATCTTTGTAA
Found at i:6587044 original size:29 final size:29
Alignment explanation
Indices: 6587008--6587065 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
6586998 AATCAATTAA
6587008 AAGACCTAATGCTTCAAGGAATATAAATT
1 AAGACCTAATGCTTCAAGGAATATAAATT
6587037 AAGACCTAATGCTTCAAGGAATATAAATT
1 AAGACCTAATGCTTCAAGGAATATAAATT
6587066 TGATTTGAAT
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:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (29 bp):
AAGACCTAATGCTTCAAGGAATATAAATT
Found at i:6597200 original size:32 final size:34
Alignment explanation
Indices: 6597164--6597229 Score: 91
Period size: 32 Copynumber: 2.0 Consensus size: 34
6597154 AAAAGTTTTG
* * *
6597164 GAGACAATATC-ATTTTCAATATTA-TTAAATTA
1 GAGACAATATCTATCTCCAATATAATTTAAATTA
6597196 GAGACAATATCTATCTCCAATATAATTTAAATTA
1 GAGACAATATCTATCTCCAATATAATTTAAATTA
6597230 AAATAGAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 11 0.38
33 10 0.34
34 8 0.28
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (34 bp):
GAGACAATATCTATCTCCAATATAATTTAAATTA
Found at i:6597787 original size:32 final size:33
Alignment explanation
Indices: 6597713--6597791 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
6597703 TTAAGAAATT
*
6597713 TGATTAAAGTTAACCAAAAGTGTATAATATCTA
1 TGATCAAAGTTAACCAAAAGTGTATAATATCTA
* *
6597746 TGATCAAAGTTAACCAAAAGTGTATAA-ATTTG
1 TGATCAAAGTTAACCAAAAGTGTATAATATCTA
6597778 TGATCAAAGTTAAC
1 TGATCAAAGTTAAC
6597792 AGCTTTAGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
32 17 0.40
33 26 0.60
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (33 bp):
TGATCAAAGTTAACCAAAAGTGTATAATATCTA
Found at i:6598122 original size:22 final size:23
Alignment explanation
Indices: 6598097--6598140 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
6598087 AACTCAATGC
*
6598097 ATTTGAAATCA-GTTATATAAAA
1 ATTTGAAATCATGTTAAATAAAA
* *
6598119 ATTTTAACTCATGTTAAATAAA
1 ATTTGAAATCATGTTAAATAAA
6598141 CAAGCAAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.39
Consensus pattern (23 bp):
ATTTGAAATCATGTTAAATAAAA
Found at i:6608430 original size:12 final size:12
Alignment explanation
Indices: 6608420--6608463 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
6608410 TAAAAAATAT
*
6608420 AATATAAAATAA
1 AATATAATATAA
*
6608432 AGTATAATATAA
1 AATATAATATAA
*
6608444 AAAATAATATAAA
1 AATATAATAT-AA
6608457 AATATAA
1 AATATAA
6608464 ATATTTTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 18 0.69
13 8 0.31
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (12 bp):
AATATAATATAA
Found at i:6608454 original size:17 final size:16
Alignment explanation
Indices: 6608411--6608455 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
6608401 AACGTGACAT
6608411 AAAAAATATAATATAA
1 AAAAAATATAATATAA
*
6608427 AATAAAGTATAATATAA
1 AA-AAAATATAATATAA
6608444 AAAATAATATAA
1 AAAA-AATATAA
6608456 AAATATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (16 bp):
AAAAAATATAATATAA
Found at i:6608475 original size:58 final size:58
Alignment explanation
Indices: 6608413--6608538 Score: 141
Period size: 57 Copynumber: 2.2 Consensus size: 58
6608403 CGTGACATAA
6608413 AAAATATAATATAAAATAAAGTA-TAAT-ATAAAAAATAATATAAAAATATAAATATTTT
1 AAAATATAATATAAAATAAAGTATTAATAATAAAAAATAATATAAAAATA-AAAT-TTTT
* * * * * * *
6608471 AAAAT-TGATATAAAATATATTATTAATAATTAAAATTTATATAAATATAAAATTTTT
1 AAAATATAATATAAAATAAAGTATTAATAATAAAAAATAATATAAAAATAAAATTTTT
*
6608528 TAAATATAATA
1 AAAATATAATA
6608539 ATTATACGAT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
57 22 0.39
58 17 0.30
59 17 0.30
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (58 bp):
AAAATATAATATAAAATAAAGTATTAATAATAAAAAATAATATAAAAATAAAATTTTT
Found at i:6608482 original size:57 final size:58
Alignment explanation
Indices: 6608421--6608531 Score: 136
Period size: 59 Copynumber: 1.9 Consensus size: 58
6608411 AAAAAATATA
6608421 ATATAAAATAAAGTA-TAAT-ATAAAAAATAATATAAAAATATAAATATTTTAAAATTG
1 ATATAAAATAAAGTATTAATAATAAAAAATAATATAAAAATA-AAATATTTTAAAATTG
* * * * * * *
6608478 ATATAAAATATATTATTAATAATTAAAATTTATATAAATATAAAATTTTTTAAA
1 ATATAAAATAAAGTATTAATAATAAAAAATAATATAAAAATAAAATATTTTAAA
6608532 TATAATAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
57 13 0.29
58 15 0.33
59 17 0.38
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (58 bp):
ATATAAAATAAAGTATTAATAATAAAAAATAATATAAAAATAAAATATTTTAAAATTG
Found at i:6608533 original size:16 final size:17
Alignment explanation
Indices: 6608478--6608541 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
6608468 TTTAAAATTG
* *
6608478 ATATAAAATATATTATTA
1 ATATAAAATTTA-TATAA
6608496 ATAATTAAAATTTATATAA
1 AT-A-TAAAATTTATATAA
*
6608515 ATATAAAATTT-TTTAA
1 ATATAAAATTTATATAA
6608531 ATATAATAATT
1 ATATAA-AATT
6608542 ATACGATCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
16 10 0.25
17 12 0.30
18 3 0.08
19 7 0.17
20 8 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATAAAATTTATATAA
Found at i:6608894 original size:22 final size:22
Alignment explanation
Indices: 6608869--6608929 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 22
6608859 TTAAAATATA
* * *
6608869 TTTATATTTATATTTATATAAT
1 TTTATAATTAAATTTAAATAAT
6608891 TTTATAATTAAATTTAAATAAAATT
1 TTTATAATTAAATTTAAAT--AA-T
6608916 TTTATTAATTAAAT
1 TTTA-TAATTAAAT
6608930 AATAATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 16 0.50
24 2 0.06
25 5 0.16
26 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTATAATTAAATTTAAATAAT
Found at i:6608957 original size:17 final size:16
Alignment explanation
Indices: 6608920--6608965 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
6608910 AAAATTTTTA
*
6608920 TTAATTAAATAAT-AAT
1 TTAATTTAA-AATAAAT
6608936 TTAATTTAAAATAAAT
1 TTAATTTAAAATAAAT
6608952 TATAATTTAAAATA
1 T-TAATTTAAAATA
6608966 TCATATTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 3 0.11
16 12 0.44
17 12 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTAATTTAAAATAAAT
Found at i:6610270 original size:16 final size:16
Alignment explanation
Indices: 6610229--6610315 Score: 66
Period size: 16 Copynumber: 5.4 Consensus size: 16
6610219 TTTGTATCAG
* *
6610229 ATTATTTTATATTCAA
1 ATTATTTTAAATTTAA
* *
6610245 ATAAATTTTAAATTTTA
1 AT-TATTTTAAATTTAA
*
6610262 GTTATTTTAAATTTAA
1 ATTATTTTAAATTTAA
** *
6610278 ATTATTTTGTATTTAG
1 ATTATTTTAAATTTAA
* *
6610294 ATTAATTTAAATATAA
1 ATTATTTTAAATTTAA
*
6610310 GTTATT
1 ATTATT
6610316 CACATCCAAG
Statistics
Matches: 52, Mismatches: 18, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
16 41 0.79
17 11 0.21
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (16 bp):
ATTATTTTAAATTTAA
Found at i:6611177 original size:11 final size:11
Alignment explanation
Indices: 6611163--6611199 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
6611153 AATATGAAAA
*
6611163 AAATTAATGTT
1 AAATTAATATT
6611174 AAATTAATATT
1 AAATTAATATT
6611185 AAA-T-ATATT
1 AAATTAATATT
6611194 AAATTA
1 AAATTA
6611200 TTAATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
9 8 0.35
10 2 0.09
11 13 0.57
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (11 bp):
AAATTAATATT
Found at i:6611207 original size:20 final size:20
Alignment explanation
Indices: 6611172--6611212 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6611162 AAAATTAATG
* *
6611172 TTAAATTAATATTAAATATA
1 TTAAATTAATAATAAAAATA
*
6611192 TTAAATTATTAATAAAAATA
1 TTAAATTAATAATAAAAATA
6611212 T
1 T
6611213 ATATTTTACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAAATTAATAATAAAAATA
Found at i:6611688 original size:20 final size:20
Alignment explanation
Indices: 6611630--6611692 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
6611620 AATTTTATAT
* *
6611630 AATATTAATAATTAATATATA
1 AATATTTATAA-TAATATAAA
* * *
6611651 AATA--TAAAATATTTTAAA
1 AATATTTATAATAATATAAA
6611669 AATATTTATAATAATATAAA
1 AATATTTATAATAATATAAA
6611689 AATA
1 AATA
6611693 AAAATATAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
18 10 0.31
19 3 0.09
20 15 0.47
21 4 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AATATTTATAATAATATAAA
Found at i:6612209 original size:24 final size:24
Alignment explanation
Indices: 6612182--6612240 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
6612172 TCCCGCCGGC
**
6612182 CCACCTCCTCCTGGTCCACCAGGG
1 CCACCTCCTCCTCCTCCACCAGGG
* *
6612206 CCACCTCCACCTCCTGCACCAGGG
1 CCACCTCCTCCTCCTCCACCAGGG
* *
6612230 CCTCATCCTCC
1 CCACCTCCTCC
6612241 GCCACCCCCT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.14, C:0.54, G:0.15, T:0.17
Consensus pattern (24 bp):
CCACCTCCTCCTCCTCCACCAGGG
Found at i:6614892 original size:55 final size:55
Alignment explanation
Indices: 6614793--6614897 Score: 149
Period size: 55 Copynumber: 1.9 Consensus size: 55
6614783 TTTCCATGCT
**
6614793 TTTCGCATGTAATCCTCTATGTCATATATAGATATGGCGTAGTGATTTCCCAAAA
1 TTTCGCATGTAATCCTCTATGTCATATATAGATATGGCAAAGTGATTTCCCAAAA
* * *
6614848 TTTCGCGTGTAATCCGT-TATGTCATATCTAGATATGGTAAAGTGATTTCC
1 TTTCGCATGTAATCC-TCTATGTCATATATAGATATGGCAAAGTGATTTCC
6614898 TCTGTACACG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
55 43 0.98
56 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (55 bp):
TTTCGCATGTAATCCTCTATGTCATATATAGATATGGCAAAGTGATTTCCCAAAA
Found at i:6618514 original size:57 final size:57
Alignment explanation
Indices: 6618436--6619373 Score: 623
Period size: 57 Copynumber: 16.5 Consensus size: 57
6618426 GGTGAGATGG
** * ** * *
6618436 TAATTTTAAACCTTAGTAAATGATTGAGTTCTCAAGCCTTTGGTAATAGCAAGATAA
1 TAATTTTGGACCTTAGCAAATGATCAAGTTCTCAAGCCTTTGGCAATGGCAAGATAA
** * * ** * * * *
6618493 TAATTTTGGGTCTTAACAAATGGTTGAGTACTTAAGCCTTTAGCAAT-GCTGAGATAA
1 TAATTTTGGACCTTAGCAAATGATCAAGTTCTCAAGCCTTTGGCAATGGC-AAGATAA
* * * * * * ** *
6618550 TAATTTTGGGCTTTAGCAAAT-AGTCGAGTTCTTAAGCCTTTTAGCCATGGTGAGACAA
1 TAATTTTGGACCTTAGCAAATGA-TCAAGTTCTCAAGCC-TTTGGCAATGGCAAGATAA
* * * * **
6618608 TAATTTTAGATCTTAAG-AAATGGTCAAGTTCTTAAGCCTTTGATAATGGCGAA-ATAA
1 TAATTTTGGACCTT-AGCAAATGATCAAGTTCTCAAGCCTTTGGCAATGGC-AAGATAA
* * * * * ** *
6618665 TAATTTTGGATCTTTA-CAAGT-AGCCAAGTTCTCAAGCCCTTGGCGATGGTGAGACT-G
1 TAATTTTGGA-CCTTAGCAAATGA-TCAAGTTCTCAAGCCTTTGGCAATGGCAAGA-TAA
* * * * * * *
6618722 TAATTTTGGACCTTAGTAAATG-GCTAAGTTCTTAAGCCTTTGGCGA-GGAAAAAATTA
1 TAATTTTGGACCTTAGCAAATGATC-AAGTTCTCAAGCCTTTGGCAATGG-CAAGATAA
* * * * * *
6618779 TAATTTTGGATCTTAACAAATGATTAAGTTCTCAAGCTTTTGGCGATGGCGAGATAA
1 TAATTTTGGACCTTAGCAAATGATCAAGTTCTCAAGCCTTTGGCAATGGCAAGATAA
* * * ** * * *
6618836 TAGTTTTGAACCTTGGCAAATGATTGAGTTCTTAAGCCTTTGGCAATAGCAAGAGAA
1 TAATTTTGGACCTTAGCAAATGATCAAGTTCTCAAGCCTTTGGCAATGGCAAGATAA
* * * * * ** *
6618893 AAATTTTGGACCTTAGCAAATG-T-TAGTTTTTAAGCTTTTGGTGATGGCAACATAA
1 TAATTTTGGACCTTAGCAAATGATCAAGTTCTCAAGCCTTTGGCAATGGCAAGATAA
* * * * ** *
6618948 TAATTTTTGTA-CTTAGCAATTGGTCAAGTTCTTAAGCCTTTGGCAATGGTGAGATAC
1 TAA-TTTTGGACCTTAGCAAATGATCAAGTTCTCAAGCCTTTGGCAATGGCAAGATAA
* * ** * ** *
6619005 TAATTTTGGACCTTAGTAAATCATTGAGTT-TCAAGCATTTGGTGATAGCAAGATAA
1 TAATTTTGGACCTTAGCAAATGATCAAGTTCTCAAGCCTTTGGCAATGGCAAGATAA
* * * * * *
6619061 TAATTGTGGACTTTAACAAAT-AGTCGAGTTCTCAAGACTTTGGCAATGGCAAGATAT
1 TAATTTTGGACCTTAGCAAATGA-TCAAGTTCTCAAGCCTTTGGCAATGGCAAGATAA
* * * * * * * *
6619118 TAATTTTGGACTTTAGCAAAAGGTCAAGTTTTTAAGCCTTTGGCAATGGCGATATCA
1 TAATTTTGGACCTTAGCAAATGATCAAGTTCTCAAGCCTTTGGCAATGGCAAGATAA
* * * *
6619175 TAATTTTGAACCTTAGCAAATGTTCAAGTT-TCAAGACTTTGGCGATGGCAAGATAA
1 TAATTTTGGACCTTAGCAAATGATCAAGTTCTCAAGCCTTTGGCAATGGCAAGATAA
* * * * * * *
6619231 TAGTTTTGGACCTTAGCAAATGGTCGAGTTCTCAAGCCTTTAGCAATGACGAGATAG
1 TAATTTTGGACCTTAGCAAATGATCAAGTTCTCAAGCCTTTGGCAATGGCAAGATAA
*
6619288 TAATTTTGGACCTTAGCAAAT-AGTCAAATTCTCAAGCCTTTTGGCAATGGCAAGATAA
1 TAATTTTGGACCTTAGCAAATGA-TCAAGTTCTCAAGCC-TTTGGCAATGGCAAGATAA
*
6619346 TAATTTTTGG-CCTTAGCAAATGGTCAAG
1 TAA-TTTTGGACCTTAGCAAATGATCAAG
6619374 GTGTAATAAT
Statistics
Matches: 677, Mismatches: 173, Indels: 61
0.74 0.19 0.07
Matches are distributed among these distances:
55 37 0.05
56 112 0.17
57 438 0.65
58 81 0.12
59 9 0.01
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (57 bp):
TAATTTTGGACCTTAGCAAATGATCAAGTTCTCAAGCCTTTGGCAATGGCAAGATAA
Found at i:6618643 original size:115 final size:114
Alignment explanation
Indices: 6618491--6618763 Score: 286
Period size: 115 Copynumber: 2.4 Consensus size: 114
6618481 ATAGCAAGAT
* * ** * *
6618491 AATAATTTTGGGTCTTAACAAATGGTTGAGTACTTAAGCCTTT-AGCAAT-GCTGAGATAATAAT
1 AATAATTTTGGATCTTAAGAAATGGTCAAGTTCTTAAGCCTTTGA-CAATGGC-GAAATAATAAT
* * * *
6618554 TTTGG-GCTTTAGCAAATAGTCGAGTTCTTAAGCCTTTTAGCCATGGTGAGAC
64 TTTGGAGCTTTA-CAAATAGCCAAGTTCTCAAGCC-CTTAGCCATGGTGAGAC
* *
6618606 AATAATTTTAGATCTTAAGAAATGGTCAAGTTCTTAAGCCTTTGATAATGGCGAAATAATAATTT
1 AATAATTTTGGATCTTAAGAAATGGTCAAGTTCTTAAGCCTTTGACAATGGCGAAATAATAATTT
* * * *
6618671 TGGATCTTTACAAGTAGCCAAGTTCTCAAGCCCTTGGCGATGGTGAGAC
66 TGGAGCTTTACAAATAGCCAAGTTCTCAAGCCCTTAGCCATGGTGAGAC
** *
6618720 TGTAATTTTGGACCTT-AGTAAATGG-CTAAGTTCTTAAGCCTTTG
1 AATAATTTTGGATCTTAAG-AAATGGTC-AAGTTCTTAAGCCTTTG
6618764 GCGAGGAAAA
Statistics
Matches: 133, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
113 3 0.02
114 49 0.37
115 73 0.55
116 8 0.06
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (114 bp):
AATAATTTTGGATCTTAAGAAATGGTCAAGTTCTTAAGCCTTTGACAATGGCGAAATAATAATTT
TGGAGCTTTACAAATAGCCAAGTTCTCAAGCCCTTAGCCATGGTGAGAC
Found at i:6618782 original size:114 final size:114
Alignment explanation
Indices: 6618659--6619308 Score: 270
Period size: 113 Copynumber: 5.7 Consensus size: 114
6618649 GATAATGGCG
* * * *
6618659 AAATAATAATTTTGGATCTTTACAAGT-AGCCAAGTTCTCAAGCCCTTGGCGATGGTGAGACT-G
1 AAATAATAATTTTGGATCTTAACAAATGA-CCAAGTTCTCAAGCCCTTGGCGATGGCGAGA-TAA
* * *
6618722 TAATTTTGGACCTTAGTAAATGGCTAAGTTCTTAAGCCTTTGGCGAGGAAA
64 TAATTTTGAACCTTAGCAAATGACTAAGTTCTTAAGCCTTTGGCGAGGAAA
* ** **
6618773 AAATTATAATTTTGGATCTTAACAAATGATTAAGTTCTCAAGCTTTTGGCGATGGCGAGATAATA
1 AAATAATAATTTTGGATCTTAACAAATGACCAAGTTCTCAAGCCCTTGGCGATGGCGAGATAATA
* * * * * * *
6618838 GTTTTGAACCTTGGCAAATGATTGAGTTCTTAAGCCTTTGGCAATAGCAAG
66 ATTTTGAACCTTAGCAAATGACTAAGTTCTTAAGCCTTTGGC--GAGGAAA
* * * ** * * ** * * *
6618889 AGA-AA-AATTTTGGACCTTAGCAAATG--TTAGTTTTTAAGCTTTTGGTGATGGCAACATAATA
1 AAATAATAATTTTGGATCTTAACAAATGACCAAGTTCTCAAGCCCTTGGCGATGGCGAGATAATA
* * * * **
6618950 ATTTTTGTA-CTTAGCAATTG-GTCAAGTTCTTAAGCCTTTGGCAATGG-TG
66 A-TTTTGAACCTTAGCAAATGACT-AAGTTCTTAAGCCTTTGGCGA-GGAAA
* * * ** * *** ** * * *
6618999 AGATACTAATTTTGGACCTTAGTAAATCATTGAGTT-TCAAGCATTTGGTGATAGCAAGATAATA
1 AAATAATAATTTTGGATCTTAACAAATGACCAAGTTCTCAAGCCCTTGGCGATGGCGAGATAATA
* * * * * * * * * *
6619063 ATTGTGGACTTTAACAAAT-AGTCGAGTTCTCAAGACTTTGGCAATGG-CA
66 ATTTTGAACCTTAGCAAATGACT-AAGTTCTTAAGCCTTTGGCGA-GGAAA
* * * * ** * * * * * *
6619112 AGATATTAATTTTGGA-CTTTAGCAAAAGGTCAAGTTTTTAAGCCTTTGGCAATGGCGATATCAT
1 AAATAATAATTTTGGATC-TTAACAAATGACCAAGTTCTCAAGCCCTTGGCGATGGCGAGATAAT
* * * *
6619176 AATTTTGAACCTTAGCAAATG-TTCAAGTT-TCAAGACTTTGGCGATGG-CA
65 AATTTTGAACCTTAGCAAATGACT-AAGTTCTTAAGCCTTTGGCGA-GGAAA
* * * * ** * * * * * *
6619225 AGATAATAGTTTTGGACCTTAGCAAATGGTCGAGTTCTCAAGCCTTTAGCAATGACGAGATAGTA
1 AAATAATAATTTTGGATCTTAACAAATGACCAAGTTCTCAAGCCCTTGGCGATGGCGAGATAATA
*
6619290 ATTTTGGACCTTAGCAAAT
66 ATTTTGAACCTTAGCAAAT
6619309 AGTCAAATTC
Statistics
Matches: 429, Mismatches: 90, Indels: 35
0.77 0.16 0.06
Matches are distributed among these distances:
110 5 0.01
111 3 0.01
112 81 0.19
113 179 0.42
114 153 0.36
115 2 0.00
116 6 0.01
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (114 bp):
AAATAATAATTTTGGATCTTAACAAATGACCAAGTTCTCAAGCCCTTGGCGATGGCGAGATAATA
ATTTTGAACCTTAGCAAATGACTAAGTTCTTAAGCCTTTGGCGAGGAAA
Found at i:6619106 original size:113 final size:112
Alignment explanation
Indices: 6618862--6619366 Score: 353
Period size: 113 Copynumber: 4.5 Consensus size: 112
6618852 CAAATGATTG
* * * * ** * *
6618862 AGTTCTTAAGCCTTTGGCAATAGCAAGAGAAAAATTTTGGACCTTAGCAAATGTTAGTTTTTAAG
1 AGTTCTCAAGACTTTGGCAATGGCAAGATACTAATTTTGGACCTTAGCAAATATTAGTTTTCAAG
* * * * * * *
6618927 CTTTTGGTGATGGCAACATAATAATTTTTGTACTTAGCAATTGGTCA
66 CATTTGGTGATAGCAACATAATAATTTGTGGACTTAACAAATAGTCA
* * ** *
6618974 AGTTCTTAAGCCTTTGGCAATGGTGAGATACTAATTTTGGACCTTAGTAAATCATTGAG-TTTCA
1 AGTTCTCAAGACTTTGGCAATGGCAAGATACTAATTTTGGACCTTAGCAAAT-ATT-AGTTTTCA
* *
6619038 AGCATTTGGTGATAGCAAGATAATAA-TTGTGGACTTTAACAAATAGTCG
64 AGCATTTGGTGATAGCAACATAATAATTTGTGGAC-TTAACAAATAGTCA
* * * *
6619087 AGTTCTCAAGACTTTGGCAATGGCAAGATATTAATTTTGGACTTTAGCAAA-AGGTCAAGTTTTT
1 AGTTCTCAAGACTTTGGCAATGGCAAGATACTAATTTTGGACCTTAGCAAATA--T-TAGTTTTC
* ** * * * * * *
6619151 AAGCCTTTGGCAATGGCGATATCATAATTT-TGAACCTTAGCAAAT-GTTCA
63 AAGCATTTGGTGATAGCAACATAATAATTTGTGGA-CTTAACAAATAG-TCA
* * * * * *
6619201 AGTT-TCAAGACTTTGGCGATGGCAAGATAATAGTTTTGGACCTTAGCAAATGGTCGAGTTCTCA
1 AGTTCTCAAGACTTTGGCAATGGCAAGATACTAATTTTGGACCTTAGCAAAT-AT-TAGTTTTCA
* * ** * * * *
6619265 AGCCTTTAGCAAT-GACGAGATAGTAATTT-TGGACCTTAGCAAATAGTCA
64 AGCATTTGGTGATAG-CAACATAATAATTTGTGGA-CTTAACAAATAGTCA
* * *
6619314 AATTCTCAAGCCTTTTGGCAATGGCAAGATAATAATTTTTGG-CCTTAGCAAAT
1 AGTTCTCAAGAC-TTTGGCAATGGCAAGATACTAA-TTTTGGACCTTAGCAAAT
6619367 GGTCAAGGTG
Statistics
Matches: 322, Mismatches: 54, Indels: 31
0.79 0.13 0.08
Matches are distributed among these distances:
111 1 0.00
112 52 0.16
113 180 0.56
114 49 0.15
115 34 0.11
116 6 0.02
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (112 bp):
AGTTCTCAAGACTTTGGCAATGGCAAGATACTAATTTTGGACCTTAGCAAATATTAGTTTTCAAG
CATTTGGTGATAGCAACATAATAATTTGTGGACTTAACAAATAGTCA
Found at i:6619145 original size:170 final size:166
Alignment explanation
Indices: 6618462--6619366 Score: 606
Period size: 170 Copynumber: 5.3 Consensus size: 166
6618452 TAAATGATTG
* * * *** * *
6618462 AGTTCTCAAGCCTTTGGTAATAGCAAGATAATAATTTTGGGTCTTAACAAATGGTTGAGTACTT-
1 AGTTCTCAAGCCTTTGGCAATGGCGAGATAATAATTTTGAACCTTAGCAAAT-ATTGAGT--TTC
* * * * * * *
6618526 AAGCCTTTAGCAAT-GCTGAGATAATAATTTTGGGCTTTAGCAAATAGTCGAGTTCTTAAGCCTT
63 AAGCATTTGGCGATAGC-AAGATAATAATTTTGGACCTTAGCAAAT-GTCGAGTTCTCAAG-C-T
* * ** * * *
6618590 TTAGCCATGGTGAGACAATAATTTTAGATCTTAAG-AAATGGTCA
124 TTGGCAATGGCAAGATAATAATTTTGGA-CTT-AGCAAAAGGTCA
* ** * * * * ***
6618634 AGTTCTTAAGCCTTTGATAATGGCGAAATAATAATTTTGGATCTTTA-CAAGTAGCCAAGTTCTC
1 AGTTCTCAAGCCTTTGGCAATGGCGAGATAATAATTTT-GAACCTTAGCAAATA-TTGAGTT-TC
** * ** * * * * *
6618698 AAGCCCTTGGCGATGGTGAGACT-GTAATTTTGGACCTTAGTAAATGGCTAAGTTCTTAAGCCTT
63 AAGCATTTGGCGATAGCAAGA-TAATAATTTTGGACCTTAGCAAATGTC-GAGTTCTCAAG-CTT
* * * * * * * *
6618762 TGGCGA-GGAAAAAATTATAATTTTGGATCTTAACAAATGATTA
125 TGGCAATGG-CAAGATAATAATTTTGGA-CTTAGCAAAAGGTCA
* * * * *
6618805 AGTTCTCAAGCTTTTGGCGATGGCGAGATAATAGTTTTGAACCTTGGCAAATGATTGAGTTCTTA
1 AGTTCTCAAGCCTTTGGCAATGGCGAGATAATAATTTTGAACCTTAGCAAAT-ATTGAGTT-TCA
* * * * * * *
6618870 AGCCTTTGGCAATAGCAAGAGAAAAATTTTGGACCTTAGCAAATGT-TAGTTTTTAAGCTTTTGG
64 AGCATTTGGCGATAGCAAGATAATAATTTTGGACCTTAGCAAATGTCGAGTTCTCAAGC-TTTGG
** * * **
6618934 TGATGGCAACATAATAATTTTTGTACTTAGCAATTGGTCA
128 CAATGGCAAGATAATAA-TTTTGGACTTAGCAAAAGGTCA
* * * * *
6618974 AGTTCTTAAGCCTTTGGCAATGGTGAGATACTAATTTTGGACCTTAGTAAATCATTGAGTTTCAA
1 AGTTCTCAAGCCTTTGGCAATGGCGAGATAATAATTTTGAACCTTAGCAAAT-ATTGAGTTTCAA
* * * *
6619039 GCATTTGGTGATAGCAAGATAATAATTGTGGACTTTAACAAATAGTCGAGTTCTCAAGACTTTGG
65 GCATTTGGCGATAGCAAGATAATAATTTTGGACCTTAGCAAAT-GTCGAGTTCTCAAG-CTTTGG
*
6619104 CAATGGCAAGATATTAATTTTGGACTTTAGCAAAAGGTCA
128 CAATGGCAAGATAATAATTTTGGAC-TTAGCAAAAGGTCA
* * * * * *
6619144 AGTTTTTAAGCCTTTGGCAATGGCGATATCATAATTTTGAACCTTAGCAAATGTTCAAGTTTCAA
1 AGTTCTCAAGCCTTTGGCAATGGCGAGATAATAATTTTGAACCTTAGCAAATATT-GAGTTTCAA
* * *
6619209 G-ACTTTGGCGATGGCAAGATAATAGTTTTGGACCTTAGCAAATGGTCGAGTTCTCAAGCCTTTA
65 GCA-TTTGGCGATAGCAAGATAATAATTTTGGACCTTAGCAAAT-GTCGAGTTCTCAAG-CTTTG
* * *
6619273 GCAATGACGAGATAGTAATTTTGGACCTTAGCAAATA-GTCA
127 GCAATGGCAAGATAATAATTTTGGA-CTTAGCAAA-AGGTCA
* * *
6619314 AATTCTCAAGCCTTTTGGCAATGGCAAGATAATAATTTTTG-GCCTTAGCAAAT
1 AGTTCTCAAGCC-TTTGGCAATGGCGAGATAATAA-TTTTGAACCTTAGCAAAT
6619367 GGTCAAGGTG
Statistics
Matches: 580, Mismatches: 128, Indels: 51
0.76 0.17 0.07
Matches are distributed among these distances:
168 39 0.07
169 98 0.17
170 204 0.35
171 142 0.24
172 91 0.16
173 6 0.01
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (166 bp):
AGTTCTCAAGCCTTTGGCAATGGCGAGATAATAATTTTGAACCTTAGCAAATATTGAGTTTCAAG
CATTTGGCGATAGCAAGATAATAATTTTGGACCTTAGCAAATGTCGAGTTCTCAAGCTTTGGCAA
TGGCAAGATAATAATTTTGGACTTAGCAAAAGGTCA
Found at i:6626613 original size:19 final size:20
Alignment explanation
Indices: 6626589--6626635 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
6626579 AATACTAAAA
*
6626589 ATTAAAAATTATATT-TTAT
1 ATTAAAAATTAAATTATTAT
**
6626608 ATTAAATTTTAAATTATTAT
1 ATTAAAAATTAAATTATTAT
6626628 -TTAAAAAT
1 ATTAAAAAT
6626636 AGTTTATATT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTAAAAATTAAATTATTAT
Found at i:6626645 original size:35 final size:36
Alignment explanation
Indices: 6626603--6626672 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 36
6626593 AAAATTATAT
*
6626603 TTTATATTAAATTTTAAATT-ATTATTTAAAAATAG
1 TTTATATTAAATCTTAAATTGATTATTTAAAAATAG
* *
6626638 TTTATATTAAATCTTAAATTGCTTTTTTAAAAATA
1 TTTATATTAAATCTTAAATTGATTATTTAAAAATA
6626673 ATAAAATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 19 0.61
36 12 0.39
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (36 bp):
TTTATATTAAATCTTAAATTGATTATTTAAAAATAG
Found at i:6626682 original size:35 final size:35
Alignment explanation
Indices: 6626608--6626683 Score: 82
Period size: 35 Copynumber: 2.2 Consensus size: 35
6626598 TATATTTTAT
* * * *
6626608 ATTAAATTTTAAATTATTATTTAAAAATAGTTTAT
1 ATTAAATCTTAAATTATTATTTAAAAATAGATAAA
* *
6626643 ATTAAATCTTAAATTGCTTTTTTAAAAATA-ATAAA
1 ATTAAATCTTAAATT-ATTATTTAAAAATAGATAAA
6626678 ATTAAA
1 ATTAAA
6626684 AATATTTTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 22 0.65
36 12 0.35
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (35 bp):
ATTAAATCTTAAATTATTATTTAAAAATAGATAAA
Found at i:6626773 original size:53 final size:53
Alignment explanation
Indices: 6626630--6627188 Score: 520
Period size: 53 Copynumber: 11.1 Consensus size: 53
6626620 ATTATTATTT
* * * *
6626630 AAAAATAGTTTATATTAAATCTTAAATTGCTTTTTTAAAAATAAT-AAAATT-
1 AAAAATATTTTATATTAAATCTTAAATTACTATTTAAAAAATAATAAAAATTA
* *
6626681 AAAAATATTTTATATTAAATCTTAAATTA-TTTTTTAAAAATAATAAAAAATT-
1 AAAAATATTTTATATTAAATCTTAAATTACTATTTAAAAAATAAT-AAAAATTA
* * * * *
6626733 TAAAATATTTTATAATAAATTTTGAATCACTATTTAAAAAATAATAAAAATTA
1 AAAAATATTTTATATTAAATCTTAAATTACTATTTAAAAAATAATAAAAATTA
6626786 AAAAATAATTTTATATTAAATCTTAAATTACTATTT-AAAAATAATTAAAAATTA
1 AAAAAT-ATTTTATATTAAATCTTAAATTACTATTTAAAAAATAA-TAAAAATTA
*
6626840 AAAAATATTTTATATTAAATCATAAATTACTA--T-AAAAAT--TAAAAA-T-
1 AAAAATATTTTATATTAAATCTTAAATTACTATTTAAAAAATAATAAAAATTA
* *
6626886 ----ATATTTTATATTAAAT-TTCAAATTA-TAATTT-TAAAA-AATAAAAATAA
1 AAAAATATTTTATATTAAATCTT-AAATTACT-ATTTAAAAAATAATAAAAATTA
* ** * *
6626933 AAAAATA-CTTATATTAAATCTCGAATTATTATTTAAAAAGTAATAAAAATTA
1 AAAAATATTTTATATTAAATCTTAAATTACTATTTAAAAAATAATAAAAATTA
* * *
6626985 AAGAATATATTTTATATTAAATTTTAAATTATTATTTAAAAATTAATAAAAATTA
1 AA-AA-ATATTTTATATTAAATCTTAAATTACTATTTAAAAAATAATAAAAATTA
* * * *
6627040 AAAAATATTTTATATTAAATCATGAATTACTACTTAAAAAAGAAT---AA-T-
1 AAAAATATTTTATATTAAATCTTAAATTACTATTTAAAAAATAATAAAAATTA
*
6627088 ----ATATTTTATATTAAATCCTAAATTACTATTT-AAAAATAATAAAAA-T-
1 AAAAATATTTTATATTAAATCTTAAATTACTATTTAAAAAATAATAAAAATTA
* * * ** *
6627134 AAAAATATTTTATGTTAAATCTAAAATTA-TTTTTTTAAAATAATAAAATTTA
1 AAAAATATTTTATATTAAATCTTAAATTACTATTTAAAAAATAATAAAAATTA
6627186 AAA
1 AAA
6627189 TTCGACATAT
Statistics
Matches: 427, Mismatches: 46, Indels: 69
0.79 0.08 0.13
Matches are distributed among these distances:
41 2 0.00
42 23 0.05
43 8 0.02
44 33 0.08
45 6 0.01
46 3 0.01
47 1 0.00
48 6 0.01
49 5 0.01
50 71 0.17
51 43 0.10
52 52 0.12
53 87 0.20
54 45 0.11
55 42 0.10
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (53 bp):
AAAAATATTTTATATTAAATCTTAAATTACTATTTAAAAAATAATAAAAATTA
Found at i:6626803 original size:18 final size:18
Alignment explanation
Indices: 6626782--6626858 Score: 59
Period size: 18 Copynumber: 4.3 Consensus size: 18
6626772 AATAATAAAA
6626782 ATTAAAAAATAATTTTAT
1 ATTAAAAAATAATTTTAT
*** *
6626800 ATTAAATCTTAA-ATTACT
1 ATTAAAAAATAATTTTA-T
* ** *
6626818 ATTTAAAAATAATTAAAA
1 ATTAAAAAATAATTTTAT
6626836 ATTAAAAAAT-ATTTTAT
1 ATTAAAAAATAATTTTAT
6626853 ATTAAA
1 ATTAAA
6626859 TCATAAATTA
Statistics
Matches: 41, Mismatches: 16, Indels: 5
0.66 0.26 0.08
Matches are distributed among these distances:
17 13 0.32
18 27 0.66
19 1 0.02
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTAAAAAATAATTTTAT
Found at i:6626887 original size:147 final size:147
Alignment explanation
Indices: 6626726--6627030 Score: 370
Period size: 147 Copynumber: 2.1 Consensus size: 147
6626716 AAAAATAATA
* ** *
6626726 AAAAATTTAAA-ATATTTTATAATAAATTTTGAATCACT-ATTTAAAAAATAATAAAAATTAAAA
1 AAAAATTAAAATATATTTTATAATAAATTTCAAATCA-TAATTT-AAAAA-AATAAAAATAAAAA
* *
6626789 AATAATTTTATATTAAATCTTAAATTACTATTTAAAAA-TAATTAAAAATTAAA-AA-ATATTTT
63 AAT-A-CTTATATTAAATCTCAAATTACTATTTAAAAAGTAA-TAAAAATTAAAGAATATATTTT
6626851 ATATTAAATCATAAATTACTA-T
125 ATATTAAATCATAAATTACTATT
* * *
6626873 AAAAATTAAAAATATATTTTATATTAAATTTCAAATTATAATTTTAAAAAATAAAAATAAAAAAA
1 AAAAATT-AAAATATATTTTATAATAAATTTCAAATCATAATTTAAAAAAATAAAAATAAAAAAA
* *
6626938 TACTTATATTAAATCTCGAATTATTATTTAAAAAGTAATAAAAATTAAAGAATATATTTTATATT
65 TACTTATATTAAATCTCAAATTACTATTTAAAAAGTAATAAAAATTAAAGAATATATTTTATATT
** *
6627003 AAATTTTAAATTATTATTT
130 AAATCATAAATTACTA-TT
6627022 AAAAATTAA
1 AAAAATTAA
6627031 TAAAAATTAA
Statistics
Matches: 136, Mismatches: 14, Indels: 15
0.82 0.08 0.09
Matches are distributed among these distances:
145 39 0.29
146 6 0.04
147 48 0.35
148 10 0.07
149 33 0.24
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.40
Consensus pattern (147 bp):
AAAAATTAAAATATATTTTATAATAAATTTCAAATCATAATTTAAAAAAATAAAAATAAAAAAAT
ACTTATATTAAATCTCAAATTACTATTTAAAAAGTAATAAAAATTAAAGAATATATTTTATATTA
AATCATAAATTACTATT
Done.