Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 35 of 132
Found at i:9454017 original size:244 final size:243
Alignment explanation
Indices: 9453462--9454063 Score: 760
Period size: 244 Copynumber: 2.5 Consensus size: 243
9453452 CCTCAGAAGC
** * * * * * *
9453462 ATGAAGGGAAAGATTTAATTCGTAACGGTGAATCC-AATACCACAAGGATATAGAGGGAAAGGTT
1 ATGAA-GGAAAGATTTAAGCCGCAACGGCGAA-CCTAGTACCACAAAGACATAAAGGGAAAGGTT
* *
9453526 TAAGTCGCAACGACGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTCAAGTCGCAACGGCGA
64 TAAGTCGCAACG-CGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTCAAGCCGCAACAGCGA
** * * *
9453591 ATCCAGTACCATGAGGATATGGAGGGAAAGGTTTATGTCGCAACGGCGAACCTTGTACCTCAGAA
128 ATCCAGTACCACAAAGATATGAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAA
* *
9453656 GCATGAAGGGAAAGATTTAAGCCGCAACGACGAATCTAGTACCACGAAGAT
193 ACATGAAGGGAAAAATTTAAGCCGCAACGACGAATCTAGTACCACGAAGAT
* * ** *
9453707 ATGAAGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACAAAGATATGGAGAGAAAGGTTTA
1 ATGAAGGAAAGATTTAAGCCGCAACGGCGAACCTAGTACCACAAAGACATAAAGGGAAAGGTTTA
* *
9453772 AGTCGCAACAGCGAACCTTGTACCTCAGAAACATGAAGGGAAAGATTTAAGCCGCAACAGCGAAT
66 AGTCGCAAC-GCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTCAAGCCGCAACAGCGAAT
* *
9453837 CTAGTACCACAAAGATTTGAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAAC
130 CCAGTACCACAAAGATATGAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAAC
*
9453902 ATGAAGGGAAAAATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGAT
195 ATGAAGGGAAAAATTTAAGCCGCAACGACGAATCTAGTACCACGAAGAT
* * * * *
9453951 TTGAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAA-ACATAAAGGGAAA-GTT
1 ATGAA-GGAAAGATTTAAGCCGCAACGGCGAACCTAGTACCACA-AAGACATAAAGGGAAAGGTT
* * * ** * *
9454014 TAAGGTAGCCACGGCAAACCCAGTACCTTAGAAGCATGACGGGAAAGATT
64 TAA-GTCGCAAC-GCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATT
9454064 GAATCCGTAA
Statistics
Matches: 310, Mismatches: 42, Indels: 10
0.86 0.12 0.03
Matches are distributed among these distances:
243 1 0.00
244 222 0.72
245 85 0.27
246 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.18
Consensus pattern (243 bp):
ATGAAGGAAAGATTTAAGCCGCAACGGCGAACCTAGTACCACAAAGACATAAAGGGAAAGGTTTA
AGTCGCAACGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTCAAGCCGCAACAGCGAATC
CAGTACCACAAAGATATGAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAACA
TGAAGGGAAAAATTTAAGCCGCAACGACGAATCTAGTACCACGAAGAT
Found at i:9458552 original size:268 final size:268
Alignment explanation
Indices: 9458075--9458612 Score: 1058
Period size: 268 Copynumber: 2.0 Consensus size: 268
9458065 TTTAGAAGAT
9458075 TCACCACCCTCTTTAACTAATAATCATGCACCACACAATATTTTTCACATAAATAAGGGTCTATA
1 TCACCACCCTCTTTAACTAATAATCATGCACCACACAATATTTTTCACATAAATAAGGGTCTATA
9458140 GGATGCAAAAATACATCCTTAAAATAAAAATATGAGAAGATGGATAGAGACTTTCTCAAACTCAA
66 GGATGCAAAAATACATCCTTAAAATAAAAATATGAGAAGATGGATAGAGACTTTCTCAAACTCAA
9458205 ACCCTCACAAACACCCAATAACCTCCACCTTCATCCTTGAAAATTATAGATTTTTTCATGAAACT
131 ACCCTCACAAACACCCAATAACCTCCACCTTCATCCTTGAAAATTATAGATTTTTTCATGAAACT
*
9458270 TTAAAAGGTTAGATCAAGACCCTTACCTTCTTTAAAATTTGAAGGATGAAAATGGTGAGAAAACT
196 TTAAAAGATTAGATCAAGACCCTTACCTTCTTTAAAATTTGAAGGATGAAAATGGTGAGAAAACT
9458335 CACTCAAA
261 CACTCAAA
9458343 TCACCACCCTCTTTAACTAATAATCATGCACCACACAATATTTTTCACATAAATAAGGGTCTATA
1 TCACCACCCTCTTTAACTAATAATCATGCACCACACAATATTTTTCACATAAATAAGGGTCTATA
*
9458408 GGATGCAAAAATACATCCTTAAAATTAAAATATGAGAAGATGGATAGAGACTTTCTCAAACTCAA
66 GGATGCAAAAATACATCCTTAAAATAAAAATATGAGAAGATGGATAGAGACTTTCTCAAACTCAA
9458473 ACCCTCACAAACACCCAATAACCTCCACCTTCATCCTTGAAAATTATAGATTTTTTCATGAAACT
131 ACCCTCACAAACACCCAATAACCTCCACCTTCATCCTTGAAAATTATAGATTTTTTCATGAAACT
9458538 TTAAAAGATTAGATCAAGACCCTTACCTTCTTTAAAATTTGAAGGATGAAAATGGTGAGAAAACT
196 TTAAAAGATTAGATCAAGACCCTTACCTTCTTTAAAATTTGAAGGATGAAAATGGTGAGAAAACT
9458603 CACTCAAA
261 CACTCAAA
9458611 TC
1 TC
9458613 TCTCTCCCTC
Statistics
Matches: 268, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
268 268 1.00
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (268 bp):
TCACCACCCTCTTTAACTAATAATCATGCACCACACAATATTTTTCACATAAATAAGGGTCTATA
GGATGCAAAAATACATCCTTAAAATAAAAATATGAGAAGATGGATAGAGACTTTCTCAAACTCAA
ACCCTCACAAACACCCAATAACCTCCACCTTCATCCTTGAAAATTATAGATTTTTTCATGAAACT
TTAAAAGATTAGATCAAGACCCTTACCTTCTTTAAAATTTGAAGGATGAAAATGGTGAGAAAACT
CACTCAAA
Found at i:9459414 original size:9 final size:9
Alignment explanation
Indices: 9459395--9459448 Score: 58
Period size: 9 Copynumber: 6.0 Consensus size: 9
9459385 ATCATATAAT
9459395 ATTTT-AAA
1 ATTTTCAAA
9459403 ATTTTCAAA
1 ATTTTCAAA
*
9459412 ATTAAT-AAA
1 ATT-TTCAAA
9459421 TATTTTCAAA
1 -ATTTTCAAA
9459431 ATTTTCAAA
1 ATTTTCAAA
*
9459440 ATTTACAAA
1 ATTTTCAAA
9459449 GTCTTTAGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
8 5 0.13
9 27 0.69
10 7 0.18
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (9 bp):
ATTTTCAAA
Found at i:9464592 original size:12 final size:12
Alignment explanation
Indices: 9464575--9464614 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
9464565 AAGGCAAATA
9464575 TTTAATTTATAT
1 TTTAATTTATAT
9464587 TTTAATTTATTAAT
1 TTTAATTTA-T-AT
9464601 TTTAA-TTATAT
1 TTTAATTTATAT
9464612 TTT
1 TTT
9464615 TGAAATTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 5 0.19
12 10 0.38
13 4 0.15
14 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTAATTTATAT
Found at i:9464639 original size:14 final size:13
Alignment explanation
Indices: 9464575--9464637 Score: 51
Period size: 14 Copynumber: 4.7 Consensus size: 13
9464565 AAGGCAAATA
9464575 TTTAA-TTTATAT
1 TTTAATTTTATAT
9464587 TTTAA-TTTATTAAT
1 TTTAATTTTA-T-AT
*
9464601 TTTAATTATAT-T
1 TTTAATTTTATAT
9464613 TTTGAAATTTTGATAT
1 TTT--AATTTT-ATAT
9464629 TTTAATTTT
1 TTTAATTTT
9464638 GACCTAAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
12 13 0.31
13 1 0.02
14 19 0.45
15 5 0.12
16 4 0.10
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (13 bp):
TTTAATTTTATAT
Found at i:9465384 original size:30 final size:31
Alignment explanation
Indices: 9465339--9465396 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
9465329 TATTTTTTAG
9465339 TGTTTGGATAAATTTG-TGTAAAATATTTTGT
1 TGTTTGGATAAATTTGTTG-AAAATATTTTGT
9465370 TGTTTGGA-AAATTTGTTGAAAATATTT
1 TGTTTGGATAAATTTGTTGAAAATATTT
9465397 CATAAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (31 bp):
TGTTTGGATAAATTTGTTGAAAATATTTTGT
Found at i:9469808 original size:21 final size:21
Alignment explanation
Indices: 9469782--9469834 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
9469772 AGTGCATAAA
9469782 AAAAAACTAAAGAAAGCCTAG
1 AAAAAACTAAAGAAAGCCTAG
9469803 AAAAAACTAAAGAAAGCCTAG
1 AAAAAACTAAAGAAAGCCTAG
9469824 AAAAAACTAAA
1 AAAAAACTAAA
9469835 CCTAAAACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.66, C:0.13, G:0.11, T:0.09
Consensus pattern (21 bp):
AAAAAACTAAAGAAAGCCTAG
Found at i:9471171 original size:23 final size:24
Alignment explanation
Indices: 9471144--9471200 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 24
9471134 ATTAGATATC
* *
9471144 AAATTTTAA-AATATTGATTAAAT
1 AAATTATAACAATATTCATTAAAT
*
9471167 AAATTATAACCATATTCATTAAAAT
1 AAATTATAACAATATTCATT-AAAT
*
9471192 AAGTTATAA
1 AAATTATAA
9471201 GTTCCATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 8 0.29
24 8 0.29
25 12 0.43
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.39
Consensus pattern (24 bp):
AAATTATAACAATATTCATTAAAT
Found at i:9471187 original size:24 final size:25
Alignment explanation
Indices: 9471154--9471200 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
9471144 AAATTTTAAA
*
9471154 ATATTGATT-AAATAAATTATAACC
1 ATATTCATTAAAATAAATTATAACC
*
9471178 ATATTCATTAAAATAAGTTATAA
1 ATATTCATTAAAATAAATTATAA
9471201 GTTCCATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.38
Consensus pattern (25 bp):
ATATTCATTAAAATAAATTATAACC
Found at i:9475342 original size:2 final size:2
Alignment explanation
Indices: 9475337--9475369 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9475327 CTATTATGAT
9475337 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 T
9475370 TACATCAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9476363 original size:26 final size:26
Alignment explanation
Indices: 9476326--9476543 Score: 164
Period size: 24 Copynumber: 8.7 Consensus size: 26
9476316 TAAACGTGTG
** *
9476326 TAAGCTGGTGAGCATAAATGCATAAA
1 TAAGCTGACGAGCGTAAATGCATAAA
* **
9476352 TAAGCTGATGAGCGTAAAT--ATATG
1 TAAGCTGACGAGCGTAAATGCATAAA
* * * *
9476376 CAAGTTGGCAAGCGTAAATGCATAAA
1 TAAGCTGACGAGCGTAAATGCATAAA
* * **
9476402 TAAGCTGATGAGCGTAAATGTATGCA
1 TAAGCTGACGAGCGTAAATGCATAAA
*
9476428 -AA-CTGGCGAGCGTAAATGCATAAA
1 TAAGCTGACGAGCGTAAATGCATAAA
* ***
9476452 TAAGCTGACGAGCGTAAA--CGTGTG
1 TAAGCTGACGAGCGTAAATGCATAAA
* *
9476476 CAAGCTGACGAGCGTAAATGCATGAA
1 TAAGCTGACGAGCGTAAATGCATAAA
* *
9476502 TAAGCTGACGAGC--AAACGCATGAA
1 TAAGCTGACGAGCGTAAATGCATAAA
*
9476526 TAAGTTGACGAGCGTAAA
1 TAAGCTGACGAGCGTAAA
9476544 AGTGTGCAAG
Statistics
Matches: 148, Mismatches: 36, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
24 75 0.51
25 4 0.03
26 69 0.47
ACGTcount: A:0.39, C:0.15, G:0.26, T:0.21
Consensus pattern (26 bp):
TAAGCTGACGAGCGTAAATGCATAAA
Found at i:9476394 original size:50 final size:50
Alignment explanation
Indices: 9476300--9476514 Score: 286
Period size: 50 Copynumber: 4.3 Consensus size: 50
9476290 ACAACACATG
* * * * * *
9476300 AATAAGTTGACGAGCGTAAACGTGTGTAAGCTGGTGAGCATAAATGCATA
1 AATAAGCTGACGAGCGTAAATGTATGCAAGCTGGCGAGCGTAAATGCATA
* * * *
9476350 AATAAGCTGATGAGCGTAAATATATGCAAGTTGGCAAGCGTAAATGCATA
1 AATAAGCTGACGAGCGTAAATGTATGCAAGCTGGCGAGCGTAAATGCATA
* *
9476400 AATAAGCTGATGAGCGTAAATGTATGCAAACTGGCGAGCGTAAATGCATA
1 AATAAGCTGACGAGCGTAAATGTATGCAAGCTGGCGAGCGTAAATGCATA
* * * *
9476450 AATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACGAGCGTAAATGCATG
1 AATAAGCTGACGAGCGTAAATGTATGCAAGCTGGCGAGCGTAAATGCATA
9476500 AATAAGCTGACGAGC
1 AATAAGCTGACGAGC
9476515 AAACGCATGA
Statistics
Matches: 145, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 145 1.00
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.21
Consensus pattern (50 bp):
AATAAGCTGACGAGCGTAAATGTATGCAAGCTGGCGAGCGTAAATGCATA
Found at i:9476489 original size:74 final size:74
Alignment explanation
Indices: 9476403--9476584 Score: 206
Period size: 74 Copynumber: 2.5 Consensus size: 74
9476393 ATGCATAAAT
* * * * *
9476403 AAGCTGATGAGCGTAAATGTATGCA-AA-CTGGCGAGCGTAAATGCATAAATAAGCTGACGAGCG
1 AAGCTGACGAGCGTAAATGCATGAATAAGCTGACGAGC--AAACGCATAAATAAGCTGACGAGCG
*
9476466 TAAACGTGTGC
64 TAAAAGTGTGC
* *
9476477 AAGCTGACGAGCGTAAATGCATGAATAAGCTGACGAGCAAACGCATGAATAAGTTGACGAGCGTA
1 AAGCTGACGAGCGTAAATGCATGAATAAGCTGACGAGCAAACGCATAAATAAGCTGACGAGCGTA
9476542 AAAGTGTGC
66 AAAGTGTGC
* * * ** *
9476551 AAGTTGGCAAGCGTAAACACATAAATAAGCTGAC
1 AAGCTGACGAGCGTAAATGCATGAATAAGCTGAC
9476585 AAGTATAAAC
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
74 82 0.89
75 2 0.02
76 8 0.09
ACGTcount: A:0.38, C:0.16, G:0.27, T:0.19
Consensus pattern (74 bp):
AAGCTGACGAGCGTAAATGCATGAATAAGCTGACGAGCAAACGCATAAATAAGCTGACGAGCGTA
AAAGTGTGC
Found at i:9476535 original size:50 final size:49
Alignment explanation
Indices: 9476300--9476543 Score: 174
Period size: 50 Copynumber: 4.9 Consensus size: 49
9476290 ACAACACATG
* ** ** *
9476300 AATAAGTTGACGAGCGTAAACG-TGTGTAAGCTGGTGAGCATAAATGCATA
1 AATAAGCTGACGAGCG-AAACGATG-AAAAGCTGACGAGCGTAAATGCATA
* ** * * * *
9476350 AATAAGCTGATGAGCGTAAATATATG-CAAGTTGGCAAGCGTAAATGCATA
1 AATAAGCTGACGAGCG-AAA-CGATGAAAAGCTGACGAGCGTAAATGCATA
* * * *
9476400 AATAAGCTGATGAGCGTAAATGTATGCAAA-CTGGCGAGCGTAAATGCATA
1 AATAAGCTGACGAGCG-AAACG-ATGAAAAGCTGACGAGCGTAAATGCATA
** *
9476450 AATAAGCTGACGAGCGTAAACG-TGTGCAAGCTGACGAGCGTAAATGCATG
1 AATAAGCTGACGAGCG-AAACGATG-AAAAGCTGACGAGCGTAAATGCATA
*
9476500 AATAAGCTGACGAGC-AAACGCATGAATAAGTTGACGAGCGTAAA
1 AATAAGCTGACGAGCGAAACG-ATGAA-AAGCTGACGAGCGTAAA
9476544 AGTGTGCAAG
Statistics
Matches: 162, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
48 7 0.04
49 2 0.01
50 149 0.92
51 2 0.01
52 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.21
Consensus pattern (49 bp):
AATAAGCTGACGAGCGAAACGATGAAAAGCTGACGAGCGTAAATGCATA
Found at i:9476538 original size:100 final size:99
Alignment explanation
Indices: 9476335--9476543 Score: 249
Period size: 100 Copynumber: 2.1 Consensus size: 99
9476325 GTAAGCTGGT
* * * * *
9476335 GAGCATAAATGCATAAATAAGCTGATGAGCGTAAATATATGCAAGTTGGCAAGCGTAAATGCATA
1 GAGCGTAAATGCATAAATAAGCTGACGAGCGTAAACATATGCAAGCTGACAAGCGTAAATGCATA
* * * * *
9476400 AATAAGCTGATGAGCGTAAATGTATGCAAACTGGC
66 AATAAGCTGACGAGCG-AAACGCATGAAAACTGAC
* * * *
9476435 GAGCGTAAATGCATAAATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACGAGCGTAAATGCATG
1 GAGCGTAAATGCATAAATAAGCTGACGAGCGTAAACATATGCAAGCTGACAAGCGTAAATGCATA
*
9476500 AATAAGCTGACGAGC-AAACGCATGAATAAGTTGAC
66 AATAAGCTGACGAGCGAAACGCATGAA-AA-CTGAC
9476535 GAGCGTAAA
1 GAGCGTAAA
9476544 AGTGTGCAAG
Statistics
Matches: 92, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
98 8 0.09
99 2 0.02
100 82 0.89
ACGTcount: A:0.39, C:0.15, G:0.26, T:0.20
Consensus pattern (99 bp):
GAGCGTAAATGCATAAATAAGCTGACGAGCGTAAACATATGCAAGCTGACAAGCGTAAATGCATA
AATAAGCTGACGAGCGAAACGCATGAAAACTGAC
Found at i:9478239 original size:73 final size:73
Alignment explanation
Indices: 9478114--9478256 Score: 250
Period size: 73 Copynumber: 2.0 Consensus size: 73
9478104 ATCAAATGTC
* *
9478114 CATTTTGTTTATATTAGATGATACAAAGATCCGAATAACTTAATAATAACATTGAATCCTTTTTA
1 CATTTTGTTTATATTAGATGATACAAAGATCCGAATAACTTAATAACAACATTGAATCCATTTTA
9478179 ATTAACTT
66 ATTAACTT
* *
9478187 CATTTTGTTTATATTAGATGATACAAAGATTCGAATAACTTAATAACGACATTGAATCCATTTTA
1 CATTTTGTTTATATTAGATGATACAAAGATCCGAATAACTTAATAACAACATTGAATCCATTTTA
9478252 ATTAA
66 ATTAA
9478257 TTTACTTAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 66 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (73 bp):
CATTTTGTTTATATTAGATGATACAAAGATCCGAATAACTTAATAACAACATTGAATCCATTTTA
ATTAACTT
Found at i:9478721 original size:70 final size:70
Alignment explanation
Indices: 9478639--9478784 Score: 247
Period size: 70 Copynumber: 2.1 Consensus size: 70
9478629 AGAGTACTAC
* * *
9478639 CGATACTCTAATGACTCTATCAAAACAATTCAAGTCAGTAGTCAAGGTCTCTAATACCCTGTACT
1 CGATACTCTAATGACTCAACCAAAACAATTCAAGTCAGTAGTCAAGGTCTCTAATACCCTATACT
9478704 TCTAT
66 TCTAT
* *
9478709 CGATACTCTAATGACTCAACCGAAATAATTCAAGTCAGTAGTCAAGGTCTCTAATACCCTATACT
1 CGATACTCTAATGACTCAACCAAAACAATTCAAGTCAGTAGTCAAGGTCTCTAATACCCTATACT
9478774 TCTAT
66 TCTAT
9478779 CGATAC
1 CGATAC
9478785 CTTATTGAGT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.30
Consensus pattern (70 bp):
CGATACTCTAATGACTCAACCAAAACAATTCAAGTCAGTAGTCAAGGTCTCTAATACCCTATACT
TCTAT
Found at i:9479719 original size:22 final size:22
Alignment explanation
Indices: 9479694--9479779 Score: 67
Period size: 22 Copynumber: 4.1 Consensus size: 22
9479684 CCCAAACCAT
*
9479694 TTTTACTTTGAAATTTAATTTA
1 TTTTAATTTGAAATTTAATTTA
*
9479716 TTTTAATTTTAAATTT-A--T-
1 TTTTAATTTGAAATTTAATTTA
*
9479734 TTTAAATTT-AAATTTAATTTGA
1 TTTTAATTTGAAATTTAATTT-A
* *
9479756 ATTTAACTT-AAATTTAATATTA
1 TTTTAATTTGAAATTTAAT-TTA
9479778 TT
1 TT
9479780 ATAAATTAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
17 6 0.12
18 9 0.18
19 1 0.02
20 1 0.02
21 1 0.02
22 31 0.61
23 2 0.04
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTTAATTTGAAATTTAATTTA
Found at i:9479730 original size:17 final size:17
Alignment explanation
Indices: 9479710--9479759 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
9479700 TTTGAAATTT
9479710 AATTTATTTTAATTTTA
1 AATTTATTTTAATTTTA
*
9479727 AATTTATTTTAAATTTA
1 AATTTATTTTAATTTTA
*
9479744 AATTTAATTTGAATTT
1 AATTT-ATTTTAATTT
9479760 AACTTAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 21 0.72
18 8 0.28
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
AATTTATTTTAATTTTA
Found at i:9479735 original size:4 final size:5
Alignment explanation
Indices: 9479705--9479773 Score: 57
Period size: 5 Copynumber: 12.6 Consensus size: 5
9479695 TTTACTTTGA
* *
9479705 AATTT AATTT ATTTT AATTTT AAATTT ATTTT AAATTT AAATTT AATTT
1 AATTT AATTT AATTT AA-TTT -AATTT AATTT -AATTT -AATTT AATTT
*
9479754 GAATTT AACTTA AATTT AAT
1 -AATTT AA-TTT AATTT AAT
9479774 ATTATTATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
5 26 0.49
6 25 0.47
7 2 0.04
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (5 bp):
AATTT
Found at i:9479752 original size:11 final size:11
Alignment explanation
Indices: 9479704--9479772 Score: 61
Period size: 11 Copynumber: 6.2 Consensus size: 11
9479694 TTTTACTTTG
9479704 AAATTTAATTT
1 AAATTTAATTT
*
9479715 -ATTTTAATTTT
1 AAATTTAA-TTT
*
9479726 AAATTTATTTT
1 AAATTTAATTT
9479737 AAATTTAAATTT
1 AAATTT-AATTT
9479749 -AATTTGAATTT
1 AAATTT-AATTT
* *
9479760 AACTTAAATTT
1 AAATTTAATTT
9479771 AA
1 AA
9479773 TATTATTATA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
10 6 0.13
11 29 0.62
12 12 0.26
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:9479760 original size:17 final size:17
Alignment explanation
Indices: 9479695--9479761 Score: 66
Period size: 17 Copynumber: 3.9 Consensus size: 17
9479685 CCAAACCATT
*
9479695 TTTACTTTGAAATTT-AA
1 TTTAATTTG-AATTTAAA
*
9479712 TTT-ATTTTAATTTTAAA
1 TTTAATTTGAA-TTTAAA
* *
9479729 TTTATTTTAAATTTAAA
1 TTTAATTTGAATTTAAA
9479746 TTTAATTTGAATTTAA
1 TTTAATTTGAATTTAA
9479762 CTTAAATTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
15 2 0.05
16 6 0.15
17 28 0.68
18 5 0.12
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.58
Consensus pattern (17 bp):
TTTAATTTGAATTTAAA
Found at i:9479769 original size:17 final size:17
Alignment explanation
Indices: 9479723--9479770 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
9479713 TTATTTTAAT
* * *
9479723 TTTAAATTTATTTTAAA
1 TTTAAATTAAATTTGAA
*
9479740 TTTAAATTTAATTTGAA
1 TTTAAATTAAATTTGAA
*
9479757 TTTAACTTAAATTT
1 TTTAAATTAAATTT
9479771 AATATTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
TTTAAATTAAATTTGAA
Found at i:9479772 original size:6 final size:6
Alignment explanation
Indices: 9479704--9479772 Score: 58
Period size: 6 Copynumber: 12.3 Consensus size: 6
9479694 TTTTACTTTG
* * *
9479704 AAATTT -AATTT -ATTTT AATTTT AAATTT -ATTTT AAATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
* *
9479749 -AATTT GAATTT -AACTT AAATTT AA
1 AAATTT AAATTT AAATTT AAATTT AA
9479773 TATTATTATA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
5 22 0.42
6 31 0.58
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (6 bp):
AAATTT
Found at i:9480611 original size:6 final size:6
Alignment explanation
Indices: 9480593--9480700 Score: 80
Period size: 6 Copynumber: 18.0 Consensus size: 6
9480583 TTAAATCGAT
* * *
9480593 TTTAAA TTT--A TTTAAA TTTAGA TCT-AT TTTAAA TTTAAATA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AA-A TTTAAA
* ** *
9480640 TTT-AA TTTGAA TTTAAA TTTAAA TAAAAA TTAAAA TATTAAA TTTAACA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA-A
*
9480689 TTAAAA TTTAAA
1 TTTAAA TTTAAA
9480701 AGTCCAAATA
Statistics
Matches: 81, Mismatches: 13, Indels: 16
0.74 0.12 0.15
Matches are distributed among these distances:
4 4 0.05
5 7 0.09
6 52 0.64
7 14 0.17
8 4 0.05
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:9480639 original size:31 final size:31
Alignment explanation
Indices: 9480601--9480664 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
9480591 ATTTTAAATT
*
9480601 TATTTAAATTTAGATCT-ATTTTAAATTTAAA
1 TATTTAAATTTA-ATCTGAATTTAAATTTAAA
*
9480632 TATTTAAATTTAATTTGAATTTAAATTTAAA
1 TATTTAAATTTAATCTGAATTTAAATTTAAA
9480663 TA
1 TA
9480665 AAAATTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.10
31 27 0.90
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (31 bp):
TATTTAAATTTAATCTGAATTTAAATTTAAA
Found at i:9480652 original size:11 final size:11
Alignment explanation
Indices: 9480593--9480663 Score: 53
Period size: 11 Copynumber: 6.6 Consensus size: 11
9480583 TTAAATCGAT
9480593 TTTAAATTT-A
1 TTTAAATTTAA
9480603 TTTAAATTTAGA
1 TTTAAATTTA-A
* *
9480615 TCT-ATTTTAAA
1 TTTAAATTT-AA
9480626 TTTAAA--T-A
1 TTTAAATTTAA
9480634 TTTAAATTTAA
1 TTTAAATTTAA
*
9480645 TTTGAATTTAAA
1 TTTAAATTT-AA
9480657 TTTAAAT
1 TTTAAAT
9480664 AAAAATTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
8 7 0.15
10 11 0.23
11 16 0.34
12 13 0.28
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:9480884 original size:15 final size:15
Alignment explanation
Indices: 9480864--9480894 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9480854 GCCTATGCTG
9480864 CTGCCACCACCAGCT
1 CTGCCACCACCAGCT
9480879 CTGCCACCACCAGCT
1 CTGCCACCACCAGCT
9480894 C
1 C
9480895 CATCCACCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.55, G:0.13, T:0.13
Consensus pattern (15 bp):
CTGCCACCACCAGCT
Found at i:9482361 original size:161 final size:162
Alignment explanation
Indices: 9481985--9482470 Score: 782
Period size: 163 Copynumber: 3.0 Consensus size: 162
9481975 CTTTTCAATT
* ** *
9481985 TAGTCCTTTGACTGTTTGACTGTACCATAGACTGCCACGTGTCACT-TTTTTGGATTATTTCTGC
1 TAGTCCTTTGACTGTTTGACTGCACCATAGGTTGCCACGTGTCA-TATTTTTGGATTATTTCTGT
* *
9482049 ATTTAGTCCTTTTTATTTTTTATTTGTTTTAATTTAATCCCAAATCAACTTTATTTTAATTACGA
65 ATTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCTAAATCAACTTTATTTTAATTACGA
9482114 AATTGGCCCAATAATTTTTCAAAGGTTTATAAAC
130 AATTGGCCCAATAATTTTTC-AAGGTTTATAAAC
*
9482148 TAGTCCTTTGACTGTTTGACTGCACCAGAGGTTGCCACGTGTCATATTTTTGGATTATTTCTGTA
1 TAGTCCTTTGACTGTTTGACTGCACCATAGGTTGCCACGTGTCATATTTTTGGATTATTTCTGTA
9482213 TTTAGTCCTTTTTA-TTTTAATTTGTTTTAATTTAATCCTAAATCAACTTTATTTTAATTACGAA
66 TTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCTAAATCAACTTTATTTTAATTACGAA
9482277 ATTGGCCCAATAATTTTTCAAGGTTTATAAAC
131 ATTGGCCCAATAATTTTTCAAGGTTTATAAAC
*
9482309 TAGTCCTTTGACTGTTTGACTGCACCATAGGTTGCCACGTGTCATATTTTTGGATTATTTCTATA
1 TAGTCCTTTGACTGTTTGACTGCACCATAGGTTGCCACGTGTCATATTTTTGGATTATTTCTGTA
* *
9482374 TTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCTTAAATCGACTTT-TATTTAATTACA
66 TTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCC-TAAATCAACTTTAT-TTTAATTACG
* * *
9482438 AAATTGGTCCAA-AATTTTTTCAAGATTTTTAAA
129 AAATTGGCCCAATAA-TTTTTCAAGGTTTATAAA
9482471 TTGGTCCCTT
Statistics
Matches: 304, Mismatches: 14, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
161 90 0.30
162 95 0.31
163 119 0.39
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.47
Consensus pattern (162 bp):
TAGTCCTTTGACTGTTTGACTGCACCATAGGTTGCCACGTGTCATATTTTTGGATTATTTCTGTA
TTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCTAAATCAACTTTATTTTAATTACGAA
ATTGGCCCAATAATTTTTCAAGGTTTATAAAC
Found at i:9482688 original size:59 final size:59
Alignment explanation
Indices: 9482555--9482869 Score: 485
Period size: 58 Copynumber: 5.4 Consensus size: 59
9482545 CCTAAATTGT
9482555 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCG-TTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCA
*
9482613 CCAAAAATTACCATTTTACCCTCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCA
* * **
9482672 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTTC-ATTTTAACCTTGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCA
* * *
9482730 CCGAAAATTACCATTTTA-CCTCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTACA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCA
* * * * *
9482788 CCGAAAATTGCCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAATCCCGATTACA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCA
9482847 CC-AAAATTACCATTTTACCCCCG
1 CCAAAAATTACCATTTTACCCCCG
9482870 GGTATCCATA
Statistics
Matches: 236, Mismatches: 18, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
57 19 0.08
58 123 0.52
59 94 0.40
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCA
Found at i:9482840 original size:29 final size:29
Alignment explanation
Indices: 9482558--9482841 Score: 136
Period size: 29 Copynumber: 9.8 Consensus size: 29
9482548 AAATTGTCCA
*
9482558 AAAATTACCA-TTTTACCCCCGAATCTTTT
1 AAAATT-CCATTTTTAACCCCGAATCTTTT
* * ****
9482587 AAAATTCC-GTTTTAACCCCGATTTCACCA
1 AAAATTCCATTTTTAACCCCGA-ATCTTTT
9482616 AAAATTACCA-TTTT-ACCCTCGAATCTTTT
1 AAAATT-CCATTTTTAACCC-CGAATCTTTT
* * ****
9482645 AAAATTCCGTTTTTAACCCCGATTTCACCA
1 AAAATTCCATTTTTAACCCCGA-ATCTTTT
*
9482675 AAAATTACCA-TTTTACCCCCGAATCTTTT
1 AAAATT-CCATTTTTAACCCCGAATCTTTT
* ** * ****
9482704 AAAATTTCA-TTTTAACCTTGATTTCACCG
1 AAAATTCCATTTTTAACCCCGA-ATCTTTT
*
9482733 AAAATTACCA-TTTT-ACCTCGAATCTTTT
1 AAAATT-CCATTTTTAACCCCGAATCTTTT
* * ****
9482761 AAAATTCCGTTTTTAACCCCGATTACACCG
1 AAAATTCCATTTTTAACCCCGAAT-CTTTT
*
9482791 AAAATTGCCA-TTTTACCCCCGAATCTTTT
1 AAAATT-CCATTTTTAACCCCGAATCTTTT
*
9482820 AAAATTCCATTTTTAATCCCGA
1 AAAATTCCATTTTTAACCCCGA
9482842 TTACACCAAA
Statistics
Matches: 183, Mismatches: 56, Indels: 32
0.68 0.21 0.12
Matches are distributed among these distances:
27 2 0.01
28 41 0.22
29 79 0.43
30 57 0.31
31 4 0.02
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (29 bp):
AAAATTCCATTTTTAACCCCGAATCTTTT
Found at i:9494935 original size:68 final size:68
Alignment explanation
Indices: 9494833--9495190 Score: 610
Period size: 68 Copynumber: 5.2 Consensus size: 68
9494823 TCGTCATCCC
*
9494833 CTCTCAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTT
1 CTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTT
9494898 CAT
66 CAT
*
9494901 CTCTGAAATTGAAGTAAGAGCAAAGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTT
1 CTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTT
9494966 CAT
66 CAT
*
9494969 CTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTT
1 CTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTT
9495034 CAT
66 CAT
*
9495037 CTCTGAAATTGAAGTAAGAGCAAAGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTT
1 CTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTT
9495102 CAT
66 CAT
* * *
9495105 CTCTGAAATTGAAGTAAGAGCGACGTCATCCCCTTTGAAATTGAAGAAGAGT-GAGTAACACGTC
1 CTCTGAAATTGAAGTAAGAGCAAAGTCATCCCC-TTGAAATTGAAGTAGAGTGGA-TAACACGTC
9495169 TTCAT
64 TTCAT
*
9495174 CCCTTGAAATTGAAGTA
1 CTC-TGAAATTGAAGTA
9495191 GAGTGGATAA
Statistics
Matches: 276, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
68 230 0.83
69 33 0.12
70 13 0.05
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.27
Consensus pattern (68 bp):
CTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTT
CAT
Found at i:9495199 original size:175 final size:174
Alignment explanation
Indices: 9494994--9495363 Score: 636
Period size: 175 Copynumber: 2.1 Consensus size: 174
9494984 AAGAGCAAAG
9494994 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCA
1 TCAT-CCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCA
*
9495059 AAGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGA
65 AAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGA
* *
9495124 GCGACGTCATCCCCTTTGAAATTGAAGAAGAGT-GAGTAACACGTCT
130 GCAAAGTCATCCCC-TTGAAATTGAAGAAGAGTGGA-TAACACGTCT
9495170 TCATCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
9495235 AGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
66 AGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
* *
9495300 CAAAGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
131 CAAAGTCATCCCCTTGAAATTGAAGAAGAGTGGATAACACGTCT
* *
9495344 TTATCTC-TGAAATTGAAGTA
1 TCATCCCTTGAAATTGAAGTA
9495364 AGAGCAAAGT
Statistics
Matches: 186, Mismatches: 7, Indels: 5
0.94 0.04 0.03
Matches are distributed among these distances:
173 13 0.07
174 32 0.17
175 137 0.74
176 4 0.02
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (174 bp):
TCATCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
AGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
CAAAGTCATCCCCTTGAAATTGAAGAAGAGTGGATAACACGTCT
Found at i:9495241 original size:136 final size:135
Alignment explanation
Indices: 9494838--9495530 Score: 471
Period size: 136 Copynumber: 5.1 Consensus size: 135
9494828 ATCCCCTCTC
* *
9494838 AAATTGAAGTAAGAGCAAAGTCATCCCC-TTGAAATTGAAGTAGAGTG-GATAACACGTCTTCAT
1 AAATTGAAGTAAGAGCGACGTCATCCCCTTTGAAATTGAAGTAGAGTGAG-TAACACGTCTTCAT
* * * * * *
9494901 CTC-TGAAATTGAAGTA-AGAGCA-AA--GTCATTC-CCTTGAAATTGAAGTAGAGTGGATAACA
65 CCCTTGAAATTGAAGTAGAGTGGATAACCGTC-TTCATCTTGAAATTGAAGTA-AG-AG-CAA-A
* *
9494960 CGTCTTCATCTCTG
125 -GTCATC-CCT-TG
* * *
9494974 AAATTGAAGTAAGAGCAAAGTCATCCCC-TTGAAATTGAAGTAGAGTG-GATAACGCGTCTTCAT
1 AAATTGAAGTAAGAGCGACGTCATCCCCTTTGAAATTGAAGTAGAGTGAG-TAACACGTCTTCAT
* * * * * *
9495037 CTC-TGAAATTGAAGTA-AGAGCA-AA--GTCATTC-CCTTGAAATTGAAGTAGAGTGGATAACA
65 CCCTTGAAATTGAAGTAGAGTGGATAACCGTC-TTCATCTTGAAATTGAAGTA-AG-AG-CAA-A
* *
9495096 CGTCTTCATCTCTG
125 -GTCATC-CCT-TG
*
9495110 AAATTGAAGTAAGAGCGACGTCATCCCCTTTGAAATTGAAGAAGAGTGAGTAACACGTCTTCATC
1 AAATTGAAGTAAGAGCGACGTCATCCCCTTTGAAATTGAAGTAGAGTGAGTAACACGTCTTCATC
9495175 CCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCA
66 CCTTGAAATTGAAGTAGAGTGGATAAC-CGTCTTCATCT-TGAAATTGAAGTAAGAGCAAAGTCA
9495240 TCCCCTTG
129 T-CCCTTG
* * ** * *
9495248 AAATTGAAGT-AGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTA-A--GAGCAA-A-GTC
1 AAATTGAAGTAAGAG-CG-----ACGTCATCCCCTTTGAAATTGAAGTAGAGTGAGTAACACGTC
* *
9495307 AT--TCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
60 TTCATCCCTTGAAATTGAAGTAGAGTGGATAAC-CGTCTTCATCT-TGAAATTGAAGTAAGAGCA
9495370 AAGTCATTCCCTTG
123 AAGTCA-TCCCTTG
* * ** *
9495384 AAATTGAAGT-AGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTA-A--GAG---CGACGT
1 AAATTGAAGTAAGAG-CG-----ACGTCATCCCCTTTGAAATTGAAGTAGAGTGAGTAAC-ACGT
*
9495442 CATC--CCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTTTGAAATTGAAGTAAGAGC
59 CTTCATCCCTTGAAATTGAAGTAGAGTGGATAAC-CGTCTTCATC-TTGAAATTGAAGTAAGAGC
9495505 AAAGTCATTCCCTTG
122 AAAGTCA-TCCCTTG
9495520 AAATTGAAGTA
1 AAATTGAAGTA
9495531 GAGTGGATAA
Statistics
Matches: 509, Mismatches: 24, Indels: 47
0.88 0.04 0.08
Matches are distributed among these distances:
135 1 0.00
136 370 0.73
137 39 0.08
138 31 0.06
139 11 0.02
140 9 0.02
141 2 0.00
142 5 0.01
143 28 0.06
144 13 0.03
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (135 bp):
AAATTGAAGTAAGAGCGACGTCATCCCCTTTGAAATTGAAGTAGAGTGAGTAACACGTCTTCATC
CCTTGAAATTGAAGTAGAGTGGATAACCGTCTTCATCTTGAAATTGAAGTAAGAGCAAAGTCATC
CCTTG
Found at i:9495254 original size:68 final size:68
Alignment explanation
Indices: 9495170--9495608 Score: 772
Period size: 68 Copynumber: 6.5 Consensus size: 68
9495160 TAACACGTCT
*
9495170 TCAT-CCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
9495234 AAG
66 AAG
9495237 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
9495302 AAG
66 AAG
* *
9495305 TCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
9495370 AAG
66 AAG
* *
9495373 TCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCG
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
*
9495438 ACG
66 AAG
*
9495441 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTTTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
9495506 AAG
66 AAG
*
9495509 TCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
*
9495574 ACG
66 AAG
*
9495577 TCATCCCCTTGAAATTGAAGTAAAGTTGGATA
1 TCATCCCCTTGAAATTGAAGTAGAG-TGGATA
9495609 GCAAAGTCTT
Statistics
Matches: 355, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
67 4 0.01
68 345 0.97
69 6 0.02
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (68 bp):
TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
AAG
Found at i:9495358 original size:243 final size:242
Alignment explanation
Indices: 9494930--9495431 Score: 900
Period size: 243 Copynumber: 2.1 Consensus size: 242
9494920 GCAAAGTCAT
9494930 TCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGT
1 TCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGT
*
9494995 CATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
66 CATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
9495060 AGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
131 AGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
* *
9495125 CGACGTCATCCCCTTTGAAATTGAAGAAGAGT-GAGTAACACGTCTTCA
196 CAAAGTCATCCCC-TTGAAATTGAAGAAGAGTGGA-TAACACGTCTTCA
*
9495173 TCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGT
1 TCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGT
9495238 CATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
66 CATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
*
9495303 AGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
131 AGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
* *
9495368 CAAAGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCA
196 CAAAGTCATCCCCTTGAAATTGAAGAAGAGTGGATAACACGTCTTCA
*
9495415 TCTC-TGAAATTGAAGTA
1 TCCCTTGAAATTGAAGTA
9495432 AGAGCGACGT
Statistics
Matches: 250, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
241 13 0.05
242 33 0.13
243 204 0.82
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (242 bp):
TCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGT
CATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
AGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
CAAAGTCATCCCCTTGAAATTGAAGAAGAGTGGATAACACGTCTTCA
Found at i:9495426 original size:311 final size:310
Alignment explanation
Indices: 9494858--9495499 Score: 1180
Period size: 311 Copynumber: 2.1 Consensus size: 310
9494848 AAGAGCAAAG
9494858 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
1 TCAT-CCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
*
9494923 AAGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGA
65 AAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGA
*
9494988 GCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTA
130 GCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTA
9495053 AGAGCAAAGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAA
195 AGAGCAAAGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAA
9495118 GTAAGAGCGACGTCATCCCCTTTGAAATTGAAGAAGAGT-GAGTAACACGTCT
260 GTAAGAGCGACGTCATCCCC-TTGAAATTGAAGAAGAGTGGA-TAACACGTCT
*
9495170 TCATCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
9495235 AGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
66 AGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
* *
9495300 CAAAGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
131 CAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
9495365 GAGCAAAGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
196 GAGCAAAGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
*
9495430 TAAGAGCGACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
261 TAAGAGCGACGTCATCCCCTTGAAATTGAAGAAGAGTGGATAACACGTCT
*
9495480 TCAT-CTTTGAAATTGAAGTA
1 TCATCCCTTGAAATTGAAGTA
9495500 AGAGCAAAGT
Statistics
Matches: 322, Mismatches: 7, Indels: 5
0.96 0.02 0.01
Matches are distributed among these distances:
309 15 0.05
310 31 0.10
311 272 0.84
312 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (310 bp):
TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
AGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
CAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
GAGCAAAGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
TAAGAGCGACGTCATCCCCTTGAAATTGAAGAAGAGTGGATAACACGTCT
Found at i:9495912 original size:6 final size:6
Alignment explanation
Indices: 9495894--9496001 Score: 89
Period size: 6 Copynumber: 18.0 Consensus size: 6
9495884 TTAAATCGAT
* *
9495894 TTTAAA TTT--A TTTAAA TTTAGA TTT-AT TTTAAA TTTAAATA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AA-A TTTAAA
* ** *
9495941 TTT-AA TTTGAA TTTAAA TTTAAA TAAAAA TTAAAA TATTAAA TTTAACA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA-A
*
9495990 TTAAAA TTTAAA
1 TTTAAA TTTAAA
9496002 GTCCAAATAC
Statistics
Matches: 83, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 53 0.64
7 14 0.17
8 4 0.05
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:9495924 original size:17 final size:15
Alignment explanation
Indices: 9495898--9495962 Score: 78
Period size: 17 Copynumber: 4.1 Consensus size: 15
9495888 ATCGATTTTA
9495898 AATTTATTTAAATTT
1 AATTTATTTAAATTT
9495913 AGATTTATTTTAAATTT
1 A-ATTTA-TTTAAATTT
*
9495930 AA-ATATTTAAATTT
1 AATTTATTTAAATTT
9495944 AATTTGAATTTAAATTT
1 AATTT--ATTTAAATTT
9495961 AA
1 AA
9495963 ATAAAAATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 11 0.26
15 4 0.09
16 6 0.14
17 22 0.51
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
AATTTATTTAAATTT
Found at i:9495940 original size:31 final size:31
Alignment explanation
Indices: 9495902--9495965 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
9495892 ATTTTAAATT
*
9495902 TATTTAAATTTAGATTT-ATTTTAAATTTAAA
1 TATTTAAATTTA-ATTTGAATTTAAATTTAAA
9495933 TATTTAAATTTAATTTGAATTTAAATTTAAA
1 TATTTAAATTTAATTTGAATTTAAATTTAAA
9495964 TA
1 TA
9495966 AAAATTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
TATTTAAATTTAATTTGAATTTAAATTTAAA
Found at i:9495956 original size:11 final size:11
Alignment explanation
Indices: 9495894--9495964 Score: 62
Period size: 11 Copynumber: 6.6 Consensus size: 11
9495884 TTAAATCGAT
9495894 TTTAAATTT-A
1 TTTAAATTTAA
9495904 TTTAAATTTAGA
1 TTTAAATTTA-A
*
9495916 TTT-ATTTTAAA
1 TTTAAATTT-AA
9495927 TTTAAA--T-A
1 TTTAAATTTAA
9495935 TTTAAATTTAA
1 TTTAAATTTAA
*
9495946 TTTGAATTTAAA
1 TTTAAATTT-AA
9495958 TTTAAAT
1 TTTAAAT
9495965 AAAAATTAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
8 7 0.14
10 11 0.22
11 17 0.35
12 14 0.29
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:9495961 original size:42 final size:41
Alignment explanation
Indices: 9495894--9496001 Score: 110
Period size: 42 Copynumber: 2.6 Consensus size: 41
9495884 TTAAATCGAT
* ** * *
9495894 TTTAAATTT-ATTTAAATTTAGATTTATTTTAAATTTAAATA
1 TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAA-A
*
9495935 TTTAAATTTAATTTGAATTTAAATTTAAATAAAAATTAAAA
1 TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAAA
*
9495976 TATTAAATTTAACATTAAAATTTAAA
1 T-TTAAATTT-A-ATTTAAATTTAAA
9496002 GTCCAAATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 11 0.20
42 32 0.58
43 1 0.02
44 11 0.20
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (41 bp):
TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAAA
Found at i:9497666 original size:162 final size:162
Alignment explanation
Indices: 9497270--9497756 Score: 791
Period size: 163 Copynumber: 3.0 Consensus size: 162
9497260 CTTTTCAATT
* * ** * *
9497270 TAGTCCTTTGACTGTTTGACTGTACCATAGACTGCCACGTGTCACT-TTTTTGGATTATTTTTGC
1 TAGTCCTTTGACTGTTTGACTGCACCAGAGGTTGCCACGTGTCA-TATTTTTGGATTATTTCTGT
* *
9497334 ATTTAGTCCTTTTTATTTTTTATTTGTTTTAATTTAATCCCAAATCAACTTTATTTTAATTACGA
65 ATTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCTAAATCAACTTTATTTTAATTACGA
9497399 AATTGGCCCAATAATTTTTCAAAGGTTTATAAAC
130 AATTGGCCCAATAATTTTTC-AAGGTTTATAAAC
9497433 TAGTCCTTTGACTGTTTGACTGCACCAGAGGTTGCCACGTGTCATATTTTTGGATTATTTCTGTA
1 TAGTCCTTTGACTGTTTGACTGCACCAGAGGTTGCCACGTGTCATATTTTTGGATTATTTCTGTA
9497498 TTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCTAAATCAACTTTATTTTAATTACGAA
66 TTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCTAAATCAACTTTATTTTAATTACGAA
9497563 ATTGGCCCAATAATTTTTCAAGGTTTATAAAC
131 ATTGGCCCAATAATTTTTCAAGGTTTATAAAC
9497595 TAGTCCTTTGACTGTTTGACTGCACCAGAGGTTGCCACGTGTCATATTTTTGGATTATTTCTGTA
1 TAGTCCTTTGACTGTTTGACTGCACCAGAGGTTGCCACGTGTCATATTTTTGGATTATTTCTGTA
* *
9497660 TTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCTTAAATCGACTTT-TCTTTAATTACA
66 TTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCC-TAAATCAACTTTAT-TTTAATTACG
* * *
9497724 AAATTGGTCCAA-AATTTTTTCAAGATTTTTAAA
129 AAATTGGCCCAATAA-TTTTTCAAGGTTTATAAA
9497757 TTGGTCCCTT
Statistics
Matches: 307, Mismatches: 13, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
162 121 0.39
163 186 0.61
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.47
Consensus pattern (162 bp):
TAGTCCTTTGACTGTTTGACTGCACCAGAGGTTGCCACGTGTCATATTTTTGGATTATTTCTGTA
TTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCTAAATCAACTTTATTTTAATTACGAA
ATTGGCCCAATAATTTTTCAAGGTTTATAAAC
Found at i:9497913 original size:59 final size:59
Alignment explanation
Indices: 9497841--9498274 Score: 696
Period size: 59 Copynumber: 7.4 Consensus size: 59
9497831 CCTAAATTGT
*
9497841 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATT-CAGTTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCA-TTTTTAACCCCGATTTCA
*
9497900 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCA
9497959 CCAAAAATTACCATTTTACCCCCGAATC-TTTAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCA
* * *
9498017 CCGAAAATTACCATTTTACCCCCGAATCTTTTGAAATTCCATTTTTAACCCCGATTTTA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCA
* *
9498076 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTTA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCA
* * * *
9498135 CCGAAAATTACCATTTTA-CCTCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTACA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCA
* * * *
9498193 CCAAAAATTGCCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAAGCTCGATTACA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCA
9498252 CC-AAAATTACCATTTTACCCCCG
1 CCAAAAATTACCATTTTACCCCCG
9498275 GGTATCCATA
Statistics
Matches: 350, Mismatches: 22, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
58 127 0.36
59 221 0.63
60 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCA
Found at i:9498048 original size:117 final size:118
Alignment explanation
Indices: 9497841--9498274 Score: 705
Period size: 117 Copynumber: 3.7 Consensus size: 118
9497831 CCTAAATTGT
* *
9497841 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATT-CAGTTTTTAACCTCGATTTCACCAAA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCA-TTTTTAACCCCGATTTCACCGAA
*
9497905 AATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCA
65 AATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCA
9497959 CCAAAAATTACCATTTTACCCCCGAATC-TTTAAAATTCCATTTTTAACCCCGATTTCACCGAAA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCGAAA
* *
9498023 ATTACCATTTTACCCCCGAATCTTTTGAAATTCCATTTTTAACCCCGATTTTA
66 ATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCA
* *
9498076 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTTACCGAAA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCGAAA
* * *
9498141 ATTACCATTTTA-CCTCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTACA
66 ATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCA
* * * *
9498193 CCAAAAATTGCCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAAGCTCGATTACACC-AAA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCGAAA
9498257 ATTACCATTTTACCCCCG
66 ATTACCATTTTACCCCCG
9498275 GGTATCCATA
Statistics
Matches: 294, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
116 15 0.05
117 203 0.69
118 76 0.26
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (118 bp):
CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCGAAA
ATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCA
Found at i:9498144 original size:176 final size:176
Alignment explanation
Indices: 9497841--9498274 Score: 721
Period size: 176 Copynumber: 2.5 Consensus size: 176
9497831 CCTAAATTGT
9497841 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATT-CAGTTTTTAACCTCGATTTCACCAAA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCA-TTTTTAACCTCGATTTCACCAAA
9497905 AATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCAAAAATTAC
65 AATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCAAAAATTAC
*
9497970 CATTTTACCCCCGAATC-TTTAAAATTCCATTTTTAACCCCGATTTCA
130 CATTTTA-CCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTACA
* * * *
9498017 CCGAAAATTACCATTTTACCCCCGAATCTTTTGAAATTCCATTTTTAACCCCGATTTTACCAAAA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCTCGATTTCACCAAAA
* *
9498082 ATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTTACCGAAAATTACC
66 ATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACC
* *
9498147 ATTTTACCTCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTACA
131 ATTTTACCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTACA
* * *
9498193 CCAAAAATTGCCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAAGCTCGATTACACC-AAA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCTCGATTTCACCAAAA
9498257 ATTACCATTTTACCCCCG
66 ATTACCATTTTACCCCCG
9498275 GGTATCCATA
Statistics
Matches: 240, Mismatches: 16, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
175 29 0.12
176 209 0.87
177 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (176 bp):
CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCTCGATTTCACCAAAA
ATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACC
ATTTTACCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTACA
Found at i:9499563 original size:15 final size:16
Alignment explanation
Indices: 9499545--9499586 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
9499535 TAAATATGGC
9499545 ATTAATAATAACAAT-
1 ATTAATAATAACAATA
* *
9499560 ATTAATATTAATAATA
1 ATTAATAATAACAATA
*
9499576 ATAAATAATAA
1 ATTAATAATAA
9499587 TCCTTAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTAATAATAACAATA
Found at i:9500749 original size:59 final size:58
Alignment explanation
Indices: 9500679--9501021 Score: 397
Period size: 59 Copynumber: 5.8 Consensus size: 58
9500669 ACCGAAACTC
*
9500679 CCAAAAATTACCGTTTTATCCCCGAACTTTCCAAAATTCCATTTTTAACC-CTGTTTTCA
1 CCAAAAATTACCGTTTTA-CCCCGAACTTTCCAAAATTCCATTTTTAACCTC-GGTTTCA
* *
9500738 CCAAAAATTACCATTTTACCCCCGAACTTTCCCAAATTCCATTTTTAACCT-GGTTTCA
1 CCAAAAATTACCGTTTTA-CCCCGAACTTTCCAAAATTCCATTTTTAACCTCGGTTTCA
* * * *
9500796 CCGAAAATTACCGTTTTACCCTCGAACTTTCTAAAATCCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCGTTTTACCC-CGAACTTTCCAAAATTCCATTTTTAACCTCGGTTTCA
* *
9500855 CCAAAAATTACCGTTTTATCCCTGAACTTTCCAAAATCCCATTTTTAACCTCGGTTTCA
1 CCAAAAATTACCGTTTTA-CCCCGAACTTTCCAAAATTCCATTTTTAACCTCGGTTTCA
* * * * ** *
9500914 CCAAAAACTCCCGTTTTACCCCCGAAATTTCCAAAATTCCATTTTAAACC-CTAATTTTA
1 CCAAAAATTACCGTTTTA-CCCCGAACTTTCCAAAATTCCATTTTTAACCTC-GGTTTCA
** * * *
9500973 ATAAAAATTACCGCTTTACCTCGAACCTTCCAAAA-TCTCATTTTTAACC
1 CCAAAAATTACCGTTTTACCCCGAACTTTCCAAAATTC-CATTTTTAACC
9501022 CGAATTTTCC
Statistics
Matches: 245, Mismatches: 33, Indels: 13
0.84 0.11 0.04
Matches are distributed among these distances:
57 5 0.02
58 73 0.30
59 164 0.67
60 3 0.01
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (58 bp):
CCAAAAATTACCGTTTTACCCCGAACTTTCCAAAATTCCATTTTTAACCTCGGTTTCA
Found at i:9500832 original size:117 final size:117
Alignment explanation
Indices: 9500679--9501021 Score: 417
Period size: 117 Copynumber: 2.9 Consensus size: 117
9500669 ACCGAAACTC
9500679 CCAAAAATTACCGTTTTATCCCCGAACTTTCCAAAATTCCATTTTTAACCCT-GTTTTCACCAAA
1 CCAAAAATTACCGTTTTA-CCCCGAACTTTCCAAAATTCCATTTTTAACCCTAGTTTTCACCAAA
*
9500743 AATTACCATTTTACCCCCGAACTTTCCCAAATTCCATTTTTAACCT-GGTTTCA
65 AATTACCGTTTTA-CCCCGAACTTTCCCAAATTCCATTTTTAACCTCGGTTTCA
* * * * *
9500796 CCGAAAATTACCGTTTTACCCTCGAACTTTCTAAAATCCCATTTTTAA-CCTCGATTTCACCAAA
1 CCAAAAATTACCGTTTTACCC-CGAACTTTCCAAAATTCCATTTTTAACCCTAGTTTTCACCAAA
* * *
9500860 AATTACCGTTTTATCCCTGAACTTTCCAAAATCCCATTTTTAACCTCGGTTTCA
65 AATTACCGTTTTA-CCCCGAACTTTCCCAAATTCCATTTTTAACCTCGGTTTCA
* * * * * **
9500914 CCAAAAACTCCCGTTTTACCCCCGAAATTTCCAAAATTCCATTTTAAACCCTAATTTT-AATAAA
1 CCAAAAATTACCGTTTTA-CCCCGAACTTTCCAAAATTCCATTTTTAACCCTAGTTTTCACCAAA
* * * *
9500978 AATTACCGCTTTACCTCGAACCTT-CCAAAATCTCATTTTTAACC
65 AATTACCGTTTTACCCCGAACTTTCCCAAATTC-CATTTTTAACC
9501022 CGAATTTTCC
Statistics
Matches: 192, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
116 11 0.06
117 112 0.58
118 60 0.31
119 9 0.05
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (117 bp):
CCAAAAATTACCGTTTTACCCCGAACTTTCCAAAATTCCATTTTTAACCCTAGTTTTCACCAAAA
ATTACCGTTTTACCCCGAACTTTCCCAAATTCCATTTTTAACCTCGGTTTCA
Found at i:9500997 original size:176 final size:176
Alignment explanation
Indices: 9500679--9501021 Score: 483
Period size: 176 Copynumber: 1.9 Consensus size: 176
9500669 ACCGAAACTC
* *
9500679 CCAAAAATTACCGTTTTATCCCCGAACTTTCCAAAATTCCATTTTTAACCCTGTTTTCACCAAAA
1 CCAAAAATTACCGTTTTATCCCCGAACTTTCCAAAATCCCATTTTTAACCCTGGTTTCACCAAAA
* * * * ** * *
9500744 ATTACCATTTTACCCCCGAACTTTCCCAAATTCCATTTTTAACCTGGTTTCACCGAAAATTACCG
66 ACTACCATTTTACCCCCGAAATTTCCAAAATTCCATTTTAAACCTAATTTCAACAAAAATTACCG
* * *
9500809 TTTTACCCTCGAACTTTCTAAAATCCCATTTTTAACCTCGATTTCA
131 CTTTACCCTCGAACCTTCCAAAATCCCATTTTTAACCTCGATTTCA
*
9500855 CCAAAAATTACCGTTTTATCCCTGAACTTTCCAAAATCCCATTTTTAA-CCTCGGTTTCACCAAA
1 CCAAAAATTACCGTTTTATCCCCGAACTTTCCAAAATCCCATTTTTAACCCT-GGTTTCACCAAA
* * * *
9500919 AACTCCCGTTTTACCCCCGAAATTTCCAAAATTCCATTTTAAACCCTAATTTTAATAAAAATTAC
65 AACTACCATTTTACCCCCGAAATTTCCAAAATTCCATTTTAAA-CCTAATTTCAACAAAAATTAC
*
9500984 CGCTTTA-CCTCGAACCTTCCAAAATCTCATTTTTAACC
129 CGCTTTACCCTCGAACCTTCCAAAATCCCATTTTTAACC
9501022 CGAATTTTCC
Statistics
Matches: 146, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
175 3 0.02
176 122 0.84
177 21 0.14
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (176 bp):
CCAAAAATTACCGTTTTATCCCCGAACTTTCCAAAATCCCATTTTTAACCCTGGTTTCACCAAAA
ACTACCATTTTACCCCCGAAATTTCCAAAATTCCATTTTAAACCTAATTTCAACAAAAATTACCG
CTTTACCCTCGAACCTTCCAAAATCCCATTTTTAACCTCGATTTCA
Found at i:9501089 original size:28 final size:27
Alignment explanation
Indices: 9501032--9501091 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
9501022 CGAATTTTCC
* * *
9501032 CAAAATTATATTTTTCCCCCTGAGAGT
1 CAAAATTACATTTTACCCCCGGAGAGT
* *
9501059 CAAAATTACCATTTTACCCCCGGATATT
1 CAAAATTA-CATTTTACCCCCGGAGAGT
9501087 CAAAA
1 CAAAA
9501092 GTCCCGTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.32
Consensus pattern (27 bp):
CAAAATTACATTTTACCCCCGGAGAGT
Found at i:9502518 original size:35 final size:35
Alignment explanation
Indices: 9502479--9502547 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 35
9502469 CGCTAGCTAA
*
9502479 TGTACGCTTACGCTCGTCAGCCACTATACGTTTAC
1 TGTACGCTTACGCTCATCAGCCACTATACGTTTAC
* * * * *
9502514 TGTACGTTTATGCTCATCAGTCGCTGTACGTTTA
1 TGTACGCTTACGCTCATCAGCCACTATACGTTTA
9502548 TGCTTGTCAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (35 bp):
TGTACGCTTACGCTCATCAGCCACTATACGTTTAC
Found at i:9502545 original size:24 final size:24
Alignment explanation
Indices: 9502512--9502730 Score: 231
Period size: 24 Copynumber: 9.1 Consensus size: 24
9502502 CTATACGTTT
* *
9502512 ACTGTACGTTTATGCTCATCAGTC
1 ACTGTACGTTTATGCTCGTCAGCC
* *
9502536 GCTGTACGTTTATGCTTGTCAGCC
1 ACTGTACGTTTATGCTCGTCAGCC
**
9502560 ACTGTACGTTTATGCTCGTCAGTT
1 ACTGTACGTTTATGCTCGTCAGCC
* ** * *
9502584 ACTATACACTTATACTCGTCAACC
1 ACTGTACGTTTATGCTCGTCAGCC
* * * *
9502608 ATTGTATGTTTATGCTCATCAACC
1 ACTGTACGTTTATGCTCGTCAGCC
9502632 ACTGTACGTTTATGCTCGTCAGCC
1 ACTGTACGTTTATGCTCGTCAGCC
* *
9502656 ACTATACGTTTATGCTCGTCAGTC
1 ACTGTACGTTTATGCTCGTCAGCC
* * * * *
9502680 ACTATATGTTTATGCTCATCAACT
1 ACTGTACGTTTATGCTCGTCAGCC
*
9502704 ACTATACGTTTATGCTCGTCAGCC
1 ACTGTACGTTTATGCTCGTCAGCC
9502728 ACT
1 ACT
9502731 CAGATAAAAA
Statistics
Matches: 158, Mismatches: 37, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 158 1.00
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.37
Consensus pattern (24 bp):
ACTGTACGTTTATGCTCGTCAGCC
Found at i:9508847 original size:20 final size:20
Alignment explanation
Indices: 9508817--9508870 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
9508807 AAAAATTACA
* *
9508817 AAAAAATTCAAAATAATTTT
1 AAAATATTCAAAATAAATTT
* *
9508837 CAAATATTCAAAAAAAATTT
1 AAAATATTCAAAATAAATTT
9508857 AAAAT-TTCAAAATA
1 AAAATATTCAAAATA
9508871 TTTATAAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATATTCAAAATAAATTT
Found at i:9508884 original size:14 final size:14
Alignment explanation
Indices: 9508865--9508891 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9508855 TTAAAATTTC
9508865 AAAATATTTATAAA
1 AAAATATTTATAAA
9508879 AAAATATTTATAA
1 AAAATATTTATAA
9508892 GTTTTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAATATTTATAAA
Found at i:9511664 original size:3 final size:3
Alignment explanation
Indices: 9511656--9511705 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
9511646 TATAATTCAA
9511656 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9511704 AA
1 AA
9511706 GCTTATACAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9511873 original size:16 final size:16
Alignment explanation
Indices: 9511852--9511885 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
9511842 TCACTAGCAT
9511852 ATGCTTAATTACTTAC
1 ATGCTTAATTACTTAC
9511868 ATGCTTAATTACTTAC
1 ATGCTTAATTACTTAC
9511884 AT
1 AT
9511886 ACATTAGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (16 bp):
ATGCTTAATTACTTAC
Found at i:9512040 original size:43 final size:42
Alignment explanation
Indices: 9511993--9512159 Score: 99
Period size: 43 Copynumber: 4.0 Consensus size: 42
9511983 TTAGATAAAT
9511993 CGAAGAAAATATATTAGCACACATAGTGCATCATCGGACAAGC
1 CGAAGAAAATATATTAGCACACATAGTGCATCATCGGACAA-C
* * * * ** *** * **
9512036 CGAAGTAATTATAATGGTTCGTGTAGTGCATCACCGGATGTAC
1 CGAAGAAAATATATTAGCACACATAGTGCATCATCGGA-CAAC
* **
9512079 C-AA-AAAATATACTAGCACGTA-AGTGCATCATC-GACTATAC
1 CGAAGAAAATATATTAGCACACATAGTGCATCATCGGAC-A-AC
* * * *
9512119 CGGAGCAATTATATTGGCACACATAGTGCATCATCGGACAA
1 CGAAGAAAATATATTAGCACACATAGTGCATCATCGGACAA
9512160 GTCGAAGTAA
Statistics
Matches: 88, Mismatches: 29, Indels: 15
0.67 0.22 0.11
Matches are distributed among these distances:
39 2 0.02
40 13 0.15
41 12 0.14
42 15 0.17
43 42 0.48
44 4 0.05
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (42 bp):
CGAAGAAAATATATTAGCACACATAGTGCATCATCGGACAAC
Found at i:9514777 original size:26 final size:25
Alignment explanation
Indices: 9514724--9514773 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
9514714 TTGGACGTGT
*
9514724 TTTTTTATTAAATTATAATTTTTTA
1 TTTTTTAATAAATTATAATTTTTTA
*
9514749 TTTTTTAATATAATTA-ATTTTTTTA
1 TTTTTTAATA-AATTATAATTTTTTA
9514774 ATTTGATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (25 bp):
TTTTTTAATAAATTATAATTTTTTA
Found at i:9523730 original size:846 final size:838
Alignment explanation
Indices: 9522031--9523669 Score: 2408
Period size: 845 Copynumber: 1.9 Consensus size: 838
9522021 TTTTTTTTAA
* *
9522031 AAAAAAAACTAAATTACATTAAGTTTATTTAAAAGATGGGTTAAGTGGGAAATTCTCATTTTATT
1 AAAAAAAACTAAATTACATTAAGTTTATTTAAAAGATGGGTTAAATGGGAAAATCTCATTTTATT
* *
9522096 TTTAAAGAAAATGGCCTGTGAACCAATTTTTTAAAAAAAATAAAAATCAAGTTGCTAATTTTTAA
66 TTGAAAGAAAATGGCCTGTGAACCAATTTTTTAAAAAAAATAAAAATCAAATTGCTAATTTTTAA
9522161 CAAAAATTTAAGGAACAAAATGAACTTTAAATAAAATGAAATTTGGAGGGATTAAAAGAGTGATT
131 CAAAAATTTAAGGAACAAAATGAACTTTAAATAAAATGAAATTTGGAGGGATTAAAAGAGTGATT
* * *
9522226 TTTCCTTTTCGTTTTTTCAAAGAAATCTGCTTTCAAAAAGGGCAGTGTAAAGGGGTGATATTTAA
196 TTTCCTTTTCGTTTTTTCAAAGAAATCTGCTTTCAAAAACGCCAGTATAAAGGGGTGATATTTAA
* *
9522291 GTAAAAAAAAACCTAAAAATTTCACTTTTCATCTCACTTAAAAAAATTTGTTTGCTTTCTATATT
261 GTAAAAAAAAACCTAAAAATTTCACTTTCCATCTCACTTAAAAAAATCTGTTTGCTTTCTATATT
* *** * *
9522356 TTCTCTAAAAATCCTCCCTTCATCTGGCCGTTCATGTCAACCTTCGGTCTACTTAGGCTTTCGTC
326 TTCTCTAAAAATCCTCCATTCATCCAACCGTTCATGTCAACCTTCGATCTACTTAAGCTTTCGTC
* * * ** * **
9522421 GGGGCTCGTCATCTCCGGTCGTACTCTGACGCTCGTCCATCATCTCTGATCGTTGGCGAACACCG
391 AGGGCTCGTCATCTCCGGCCGTACTCCGACGCTCGTCCATCATCTCCAATCATCAGCGAACACCG
* * * *
9522486 TGTGTGGTGCTCAGGTAAATCAAAAAAATCCTGTTTTTCTTTTATAAATTCCTTTTTAAAAGAAA
456 TGTGTGGTGCTCAGGTAAATAAAAAAAATCCTCTTTTTCTTTTATAAATCCCTTTTTAAAAAAAA
*
9522551 TCGATCCAGGCTTAGATATCTAAGCCTGGGTTTTCAAAAACGAAGTGATTTAAAGTCCATTTTTT
521 TCGATCCAAGCTTAGATATCTAAGCCTGGGTTTTCAAAAACGAAGTGATTTAAAGTCCATTTTTT
*
9522616 AAAACAAAGTTTGATTTTCGCTTTTTAATTCCTTTTTCAGATCTGTTTTTAACCAAGTTTTAATT
586 AAAACAAAGTTTGATTTTCACTTTTTAATTCCTTTTTCAGATCTGTTTTTAACCAAGTTTTAATT
*
9522681 TTATGTTTATTTTTCTTTTTTAAAAAAAAAACTTAGATCTAAGTTAGATCTTTTCTTAATCTAAA
651 TTATGTTTATTTTTCTTTTTTAAAAAAAAAACTTAGATCTAAGTTAGATCTTTTCCTAATCTAAA
* * *
9522746 AAAAAATAGATTTGTAAAATTTTAATATTTCTTTTTTTTAGGACTTGCTATTTCCTCGTTTTTTT
716 AAAAAACAGATTTGTAAAATTTCAATATTTCTTTTTTTTAGAACTTGCTATTTCCTCGTTTTTTT
* ** *
9522811 AAAAAAGCAAGTAAAAAAGGATTGGATTAAAAATGGTACAAAATAGTAACATAATTTGAAATTTT
781 ---AAAG--AGTAAAAAAGGATTAGATT-AAAATGGTACAAAATAGTAACATAAAATGAAA-TGT
*
9522876 AAAAAAAAACTAAATTACATTAAGTTTGTTTAAAAGATGGGTTAAATGGGAAAATCTCATTTTAT
1 -AAAAAAAACTAAATTACATTAAGTTTATTTAAAAGATGGGTTAAATGGGAAAATCTCATTTTAT
* *
9522941 TTTGAAAGAAAATGGTCTGTGAACCAATTTTTTAAAAAAAGGT-AAAATCAAATTGCTAATTTTT
65 TTTGAAAGAAAATGGCCTGTGAACCAATTTTTTAAAAAAA-ATAAAAATCAAATTGCTAATTTTT
*
9523005 AACAAAAATTTAAGGAATAAAATGAACTTTAAATAAAATGAAATTTGGAGGGATTAAAAGAGTGA
129 AACAAAAATTTAAGGAACAAAATGAACTTTAAATAAAATGAAATTTGGAGGGATTAAAAGAGTGA
*
9523070 TTTTTCCTTTTCG-TTTTTCAAAGAAATCTGCTTTCAAAAACGCCA-TATAAAAGGGGTTATATT
194 TTTTTCCTTTTCGTTTTTTCAAAGAAATCTGCTTTCAAAAACGCCAGTAT-AAAGGGGTGATATT
9523133 TAAGT-AAAAAAAACCTAAAAATTTCACTTTCCATCTCACTTAAAAAAAATCTGTTTGCTTTCTA
258 TAAGTAAAAAAAAACCTAAAAATTTCACTTTCCATCTCACTT-AAAAAAATCTGTTTGCTTTCTA
* *
9523197 TATTTTCTCTGAAAATCCTCCATTCATCCAACCGTTCATGTCAACCTTCGATCTGCTTAAGCTTT
322 TATTTTCTCTAAAAATCCTCCATTCATCCAACCGTTCATGTCAACCTTCGATCTACTTAAGCTTT
* * *
9523262 CGTCAGGGCTCGTCATCTTCGGCCGTACTCCGACGCTCGTCCGTCATCTCCAATCATCAGCGGAC
387 CGTCAGGGCTCGTCATCTCCGGCCGTACTCCGACGCTCGTCCATCATCTCCAATCATCAGCGAAC
*
9523327 ATCGTGTGTGGTGCTCAGGTAAATAAAAAAAATCCTCTTTTTCTTTTTATAAATCCCTTTCTTTA
452 ACCGTGTGTGGTGCTCAGGTAAATAAAAAAAATCCTCTTTTTC-TTTTATAAATCCC-TT-TTTA
* * *
9523392 AAAAAAATCGATCCAAGCTTAGATCCAAACGAATCT-AGCTTGGGTTTTCAGAAACGGAGTGATT
514 AAAAAAATCGATCCAAGCTTAGAT--------ATCTAAGCCTGGGTTTTCAAAAACGAAGTGATT
* * * *
9523456 TAAAGTCCATTTTTTAAAGCAAAGTTTGATTTTCATTTTTTAGTTCTTTTTTCAGATCTGTTTTT
571 TAAAGTCCATTTTTTAAAACAAAGTTTGATTTTCACTTTTTAATTCCTTTTTCAGATCTGTTTTT
*** * *
9523521 AACCAAGTTTTAATTTTATGTTTATTTTTCCTTTTATTTTTTTTAAAAAAACTTAGATTTAGGTT
636 AACCAAGTTTTAATTTTATGTTTATTTTT-C---T-TTTTTAAAAAAAAAACTTAGATCTAAGTT
* *
9523586 AGATCTTTTCCTAATCTTAAAAAAAACAGATTTGTAAAATTTCAGTATTTCTTTTCTTTTAGAAC
696 AGATCTTTTCCTAATCTAAAAAAAAACAGATTTGTAAAATTTCAATATTTCTTTT-TTTTAGAAC
* *
9523651 TTGTTGTTTCCTC-TTTTTT
760 TTGCTATTTCCTCGTTTTTT
9523670 CTTTGTTTTT
Statistics
Matches: 713, Mismatches: 60, Indels: 26
0.89 0.08 0.03
Matches are distributed among these distances:
844 37 0.05
845 220 0.31
846 208 0.29
847 3 0.00
848 26 0.04
855 114 0.16
856 5 0.01
859 1 0.00
860 80 0.11
861 19 0.03
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (838 bp):
AAAAAAAACTAAATTACATTAAGTTTATTTAAAAGATGGGTTAAATGGGAAAATCTCATTTTATT
TTGAAAGAAAATGGCCTGTGAACCAATTTTTTAAAAAAAATAAAAATCAAATTGCTAATTTTTAA
CAAAAATTTAAGGAACAAAATGAACTTTAAATAAAATGAAATTTGGAGGGATTAAAAGAGTGATT
TTTCCTTTTCGTTTTTTCAAAGAAATCTGCTTTCAAAAACGCCAGTATAAAGGGGTGATATTTAA
GTAAAAAAAAACCTAAAAATTTCACTTTCCATCTCACTTAAAAAAATCTGTTTGCTTTCTATATT
TTCTCTAAAAATCCTCCATTCATCCAACCGTTCATGTCAACCTTCGATCTACTTAAGCTTTCGTC
AGGGCTCGTCATCTCCGGCCGTACTCCGACGCTCGTCCATCATCTCCAATCATCAGCGAACACCG
TGTGTGGTGCTCAGGTAAATAAAAAAAATCCTCTTTTTCTTTTATAAATCCCTTTTTAAAAAAAA
TCGATCCAAGCTTAGATATCTAAGCCTGGGTTTTCAAAAACGAAGTGATTTAAAGTCCATTTTTT
AAAACAAAGTTTGATTTTCACTTTTTAATTCCTTTTTCAGATCTGTTTTTAACCAAGTTTTAATT
TTATGTTTATTTTTCTTTTTTAAAAAAAAAACTTAGATCTAAGTTAGATCTTTTCCTAATCTAAA
AAAAAACAGATTTGTAAAATTTCAATATTTCTTTTTTTTAGAACTTGCTATTTCCTCGTTTTTTT
AAAGAGTAAAAAAGGATTAGATTAAAATGGTACAAAATAGTAACATAAAATGAAATGT
Found at i:9524811 original size:85 final size:85
Alignment explanation
Indices: 9524667--9524824 Score: 237
Period size: 85 Copynumber: 1.9 Consensus size: 85
9524657 TGCTTTATTT
* * *
9524667 ATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGATCGCCTCATTGTTTTAATCCACTTCTCT
1 ATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGCTTTAACCCACTTCTCT
9524732 GTATCTCAACAGAAAGACTG
66 GTATCTCAACAGAAAGACTG
* * * *
9524752 ATTTGGT-TCACTTCTCTGTATCTCATCAGGAAGGTGACCGCTTTATTGCTTTGACCCACTTCTC
1 ATTTGGTCT-ACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGCTTTAACCCACTTCTC
9524816 TGTATCTCA
65 TGTATCTCA
9524825 TTAGGAAGAT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
84 1 0.02
85 64 0.98
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (85 bp):
ATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGCTTTAACCCACTTCTCT
GTATCTCAACAGAAAGACTG
Found at i:9524906 original size:209 final size:209
Alignment explanation
Indices: 9524541--9525677 Score: 1552
Period size: 209 Copynumber: 5.4 Consensus size: 209
9524531 CTGTTTCATT
* * * * * ** *
9524541 GATTTGG-TCAACTTTTTTGTATCTCA-CTAGGAAGATGATCGCTTCATTG-TCTGATTCATTTC
1 GATTTGGTTC-ACTTCTTTGTATCTCATC-AGGAAGGTGACCGCTTTATTGCTTTGACCCACTTC
* * * * * * * * *
9524603 TCTATATCTCATCAGGAAAATG-GGATTTTAAAGTTTCGCTCACACATTGGGCTTTGCTTTATTT
64 TCTGTATCTCATCAGGAAGATGAGG-GTTTGAAGTTTCACT--CACATTGAGCTTCGCTTCATTG
* *
9524667 ATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGATCGCCTCATTGTTTTAATCCACTTCTCT
126 ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCT
* * *
9524732 GTATCTCAACAGAAAGACT
191 GTATCTCATCAGGAAGACG
*
9524751 GATTTGGTTCACTTCTCTGTATCTCATCAGGAAGGTGACCGCTTTATTGCTTTGACCCACTTCTC
1 GATTTGGTTCACTTCTTTGTATCTCATCAGGAAGGTGACCGCTTTATTGCTTTGACCCACTTCTC
* *
9524816 TGTATCTCATTAGGAAGATGAGGGTTTGAAGTTTCACTCACATTGAGCTTCACTTCATTGATTTG
66 TGTATCTCATCAGGAAGATGAGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTGATTTG
* *
9524881 GTCTACTTCTCAGTATCTAATCAGGAAGATGACCGCCTCATTTTTTTAATCCACTTCTCTGTATC
131 GTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTGTATC
9524946 TCATCAGGAAGACG
196 TCATCAGGAAGACG
* * * *
9524960 GATTTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTACTTTGACTCACTTCTC
1 GATTTGGTTCACTTCTTTGTATCTCATCAGGAAGGTGACCGCTTTATTGCTTTGACCCACTTCTC
* * *
9525025 TGTATCTCATCAAGAAGATGAGGGTTTGAAGCTTCACTCACATTGAGCTTCGTTTCATTGATTTG
66 TGTATCTCATCAGGAAGATGAGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTGATTTG
* * * * *
9525090 GTATACTTCTCAGTATCTAATCAGGAAGATGATCGTCTCATTGTTTTAATTCACTTCTCTGTATC
131 GTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTGTATC
9525155 TCATCAGGAAGACG
196 TCATCAGGAAGACG
* * *
9525169 GATTTGGTTTACTTCTTTGTATCTCATCAAGAAGGTGATCGCTTTATTGCTTTGA-CC-CTTCTC
1 GATTTGGTTCACTTCTTTGTATCTCATCAGGAAGGTGACCGCTTTATTGCTTTGACCCACTTCTC
* * * **
9525232 TGTATCTCATCAAGAAGATGGGGGTTTGAAGTTTTACTCACATTGAGCTTTACTTCATTGATTTG
66 TGTATCTCATCAGGAAGATGAGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTGATTTG
* *
9525297 GTCTACTTCTCAGTATCTCATCAGAAAGATGACCGCCTCATTATTTTAATCCACTTCTCTGTATC
131 GTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTGTATC
*
9525362 TCATCAAGAAGACG
196 TCATCAGGAAGACG
* * * * *
9525376 GATTTGGTTCACTTCTTTGTTTCTTATCAGGAAGGTAACCACTTTATTGCTTGGACCCACTTCTC
1 GATTTGGTTCACTTCTTTGTATCTCATCAGGAAGGTGACCGCTTTATTGCTTTGACCCACTTCTC
*
9525441 TGTATCTCATCAGGAAGAT-AGGGGTTTGAAGTTTCACTTACATTGAGCTTCGCTTCATTGATTT
66 TGTATCTCATCAGGAAGATGA-GGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTGATTT
* * * *
9525505 GGTCTACTTCTCATTATCTCATCAGAAATATGACTGCCTCATTGTTTT-ATCCACTTCTCTGTAT
130 GGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTGTAT
*
9525569 CTCATCAGGAATACG
195 CTCATCAGGAAGACG
* * **
9525584 GATTTGCTTCACTTCTTTGTATCTCATCAAGAAGGTGACCGCTTTATTGCTCCGACCCACTTCTC
1 GATTTGGTTCACTTCTTTGTATCTCATCAGGAAGGTGACCGCTTTATTGCTTTGACCCACTTCTC
* * *
9525649 TGTATCTCATTAGGAAGCTGGGGGTTTGA
66 TGTATCTCATCAGGAAGATGAGGGTTTGA
9525678 TGTCAAAGTT
Statistics
Matches: 827, Mismatches: 92, Indels: 18
0.88 0.10 0.02
Matches are distributed among these distances:
207 183 0.22
208 114 0.14
209 446 0.54
210 39 0.05
211 43 0.05
212 2 0.00
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (209 bp):
GATTTGGTTCACTTCTTTGTATCTCATCAGGAAGGTGACCGCTTTATTGCTTTGACCCACTTCTC
TGTATCTCATCAGGAAGATGAGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTGATTTG
GTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTGTATC
TCATCAGGAAGACG
Found at i:9525021 original size:85 final size:85
Alignment explanation
Indices: 9524875--9525042 Score: 214
Period size: 85 Copynumber: 2.0 Consensus size: 85
9524865 TCACTTCATT
* * *
9524875 GATTTGGTCTACTTCTCAGTATCTAATCAGGAAGATGACCGCCTCATTTTTTTAATCCACTTCTC
1 GATTTGGTCTACTTCTCAGTATCTAATCAGGAAGATAACCGCCTCATTCTTTGAATCCACTTCTC
*
9524940 TGTATCTCATCAGGAAGACG
66 TGTATCTCATCAAGAAGACG
* * * * * *
9524960 GATTTGGT-TCACTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTACTTTGACT-CACTTC
1 GATTTGGTCT-ACTTCTCAGTATCTAATCAGGAAGATAACCGCCTCATT-CTTTGAATCCACTTC
9525023 TCTGTATCTCATCAAGAAGA
64 TCTGTATCTCATCAAGAAGA
9525043 TGAGGGTTTG
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
84 1 0.01
85 65 0.92
86 5 0.07
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.36
Consensus pattern (85 bp):
GATTTGGTCTACTTCTCAGTATCTAATCAGGAAGATAACCGCCTCATTCTTTGAATCCACTTCTC
TGTATCTCATCAAGAAGACG
Found at i:9525423 original size:416 final size:418
Alignment explanation
Indices: 9524645--9525677 Score: 1610
Period size: 416 Copynumber: 2.5 Consensus size: 418
9524635 GTTTCGCTCA
* * * *
9524645 CACATTGGGCTTTGCTTT-ATTTATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGATCGCC
1 CACATTGAGCTTCG-TTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGATCGCC
* * * *
9524709 TCATTGTTTTAATCCACTTCTCTGTATCTCAACAGAAAGACTGATTTGGTTCACTTCTCTGTATC
65 TCATTGTTTTAATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTTCACTTCTTTGTATC
* *
9524774 TCATCAGGAAGGTGACCGCTTTATTGCTTTGACCCACTTCTCTGTATCTCATTAGGAAGATGAGG
130 TCATCAAGAAGGTGACCGCTTTATTGCTTTGACCCACTTCTCTGTATCTCATTAGGAAGATGGGG
9524839 GTTTGAAGTTTCACTCACATTGAGCTTCACTTCATTGATTTGGTCTACTTCTCAGTATCTAATCA
195 GTTTGAAGTTTCACTCACATTGAGCTTCACTTCATTGATTTGGTCTACTTCTCAGTATCTAATCA
* * *
9524904 GGAAGATGACCGCCTCATTTTTTTAATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTT
260 GAAAGATGACCGCCTCATTATTTTAATCCACTTCTCTGTATCTCATCAAGAAGACGGATTTGGTT
* * *
9524969 CACTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTACTTTGACTCACTTCTCTGTATCTCA
325 CACTTCTCTGTATCTCATCAGGAAGGTAACCACTTTATTACTTGGACCCACTTCTCTGTATCTCA
9525034 TCAAGAAGAT-GAGGGTTTGAAGCTTCACT
390 TCAAGAAGATAG-GGGTTTGAAGCTTCACT
* * *
9525063 CACATTGAGCTTCGTTTCATTGATTTGGTATACTTCTCAGTATCTAATCAGGAAGATGATCGTCT
1 CACATTGAGCTTCGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGATCGCCT
* *
9525128 CATTGTTTTAATTCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTTTACTTCTTTGTATCT
66 CATTGTTTTAATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTTCACTTCTTTGTATCT
* * *
9525193 CATCAAGAAGGTGATCGCTTTATTGCTTTGA-CC-CTTCTCTGTATCTCATCAAGAAGATGGGGG
131 CATCAAGAAGGTGACCGCTTTATTGCTTTGACCCACTTCTCTGTATCTCATTAGGAAGATGGGGG
* * *
9525256 TTTGAAGTTTTACTCACATTGAGCTTTACTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAG
196 TTTGAAGTTTCACTCACATTGAGCTTCACTTCATTGATTTGGTCTACTTCTCAGTATCTAATCAG
9525321 AAAGATGACCGCCTCATTATTTTAATCCACTTCTCTGTATCTCATCAAGAAGACGGATTTGGTTC
261 AAAGATGACCGCCTCATTATTTTAATCCACTTCTCTGTATCTCATCAAGAAGACGGATTTGGTTC
* * * *
9525386 ACTTCTTTGTTTCTTATCAGGAAGGTAACCACTTTATTGCTTGGACCCACTTCTCTGTATCTCAT
326 ACTTCTCTGTATCTCATCAGGAAGGTAACCACTTTATTACTTGGACCCACTTCTCTGTATCTCAT
* *
9525451 CAGGAAGATAGGGGTTTGAAGTTTCACT
391 CAAGAAGATAGGGGTTTGAAGCTTCACT
* * * * *
9525479 TACATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCATTATCTCATCAGAAATATGA-CTGCC
1 CACATTGAGCTTCGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGATC-GCC
* *
9525543 TCATTGTTTT-ATCCACTTCTCTGTATCTCATCAGGAATACGGATTTGCTTCACTTCTTTGTATC
65 TCATTGTTTTAATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTTCACTTCTTTGTATC
** *
9525607 TCATCAAGAAGGTGACCGCTTTATTGCTCCGACCCACTTCTCTGTATCTCATTAGGAAGCTGGGG
130 TCATCAAGAAGGTGACCGCTTTATTGCTTTGACCCACTTCTCTGTATCTCATTAGGAAGATGGGG
9525672 GTTTGA
195 GTTTGA
9525678 TGTCAAAGTT
Statistics
Matches: 559, Mismatches: 51, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
415 80 0.14
416 299 0.53
417 38 0.07
418 142 0.25
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.38
Consensus pattern (418 bp):
CACATTGAGCTTCGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGATCGCCT
CATTGTTTTAATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTTCACTTCTTTGTATCT
CATCAAGAAGGTGACCGCTTTATTGCTTTGACCCACTTCTCTGTATCTCATTAGGAAGATGGGGG
TTTGAAGTTTCACTCACATTGAGCTTCACTTCATTGATTTGGTCTACTTCTCAGTATCTAATCAG
AAAGATGACCGCCTCATTATTTTAATCCACTTCTCTGTATCTCATCAAGAAGACGGATTTGGTTC
ACTTCTCTGTATCTCATCAGGAAGGTAACCACTTTATTACTTGGACCCACTTCTCTGTATCTCAT
CAAGAAGATAGGGGTTTGAAGCTTCACT
Found at i:9525938 original size:49 final size:49
Alignment explanation
Indices: 9525866--9526248 Score: 211
Period size: 49 Copynumber: 7.9 Consensus size: 49
9525856 TTTCCTAATA
* * * *
9525866 TATCGGGTTTACCGTTGCGGCCTCAACCTTTCCCTTCATCTCTTTATGG
1 TATCGGGTTCACCATTGCGGCCTCAACCTTTCCCTTCATATCTTCATGG
* *
9525915 TATCGGGTTCACTATTGTGGCCTCAACCTTTCCCTTCATATCTTCATGG
1 TATCGGGTTCACCATTGCGGCCTCAACCTTTCCCTTCATATCTTCATGG
* ** * * * *
9525964 TA-C-TGTT----ATTGAAGCCTCAATCTTTCCCATCACATCTGCATGG
1 TATCGGGTTCACCATTGCGGCCTCAACCTTTCCCTTCATATCTTCATGG
* * ** * * *
9526007 TACCGGGTTCGCTGTTGCGACCTCAGCCTTTCCCTTCATATCTTCATAG
1 TATCGGGTTCACCATTGCGGCCTCAACCTTTCCCTTCATATCTTCATGG
* * ** * * * * * * * *
9526056 TACCGGATTCGTCGTTGCGACCGCAATCTTTCCCATCACATCTACTAAGG
1 TATCGGGTTCACCATTGCGGCCTCAACCTTTCCCTTCATATCTTC-ATGG
** * * * *
9526106 TATCGGGTTCGTCGTTACAGCCTCAACCTTTCCCTTCATATCTTCATGA
1 TATCGGGTTCACCATTGCGGCCTCAACCTTTCCCTTCATATCTTCATGG
* * * * * * * * *
9526155 TACCGGGTTCACCGTTACAGTCTCAACCTTTCCCATCACATCTGCTAAGG
1 TATCGGGTTCACCATTGCGGCCTCAACCTTTCCCTTCATATCTTC-ATGG
* ** ** * * *
9526205 TACCGGGTTCGTCGCTGTGACCTCAACCTTTTCCTTCATATCTT
1 TATCGGGTTCACCATTGCGGCCTCAACCTTTCCCTTCATATCTT
9526249 TATCTTTCCT
Statistics
Matches: 258, Mismatches: 68, Indels: 15
0.76 0.20 0.04
Matches are distributed among these distances:
43 32 0.12
44 1 0.00
45 3 0.01
47 3 0.01
48 1 0.00
49 147 0.57
50 71 0.28
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.35
Consensus pattern (49 bp):
TATCGGGTTCACCATTGCGGCCTCAACCTTTCCCTTCATATCTTCATGG
Found at i:9526014 original size:92 final size:92
Alignment explanation
Indices: 9525885--9526058 Score: 233
Period size: 92 Copynumber: 1.9 Consensus size: 92
9525875 TACCGTTGCG
* ** * * *
9525885 GCCTCAACCTTTCCCTTCATCTCTTTATGGTATCGGGTTCACTATTGTGGCCTCAACCTTTCCCT
1 GCCTCAACCTTTCCCATCATCTCTGCATGGTACCGGGTTCACTATTGCGACCTCAACCTTTCCCT
*
9525950 TCATATCTTCATGGTACTGTTATTGAA
66 TCATATCTTCATAGTACTGTTATTGAA
* * * *
9525977 GCCTCAATCTTTCCCATCA-CATCTGCATGGTACCGGGTTCGCTGTTGCGACCTCAGCCTTTCCC
1 GCCTCAACCTTTCCCATCATC-TCTGCATGGTACCGGGTTCACTATTGCGACCTCAACCTTTCCC
9526041 TTCATATCTTCATAGTAC
65 TTCATATCTTCATAGTAC
9526059 CGGATTCGTC
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
91 1 0.01
92 69 0.99
ACGTcount: A:0.17, C:0.31, G:0.15, T:0.37
Consensus pattern (92 bp):
GCCTCAACCTTTCCCATCATCTCTGCATGGTACCGGGTTCACTATTGCGACCTCAACCTTTCCCT
TCATATCTTCATAGTACTGTTATTGAA
Found at i:9526139 original size:99 final size:98
Alignment explanation
Indices: 9525934--9526248 Score: 314
Period size: 99 Copynumber: 3.3 Consensus size: 98
9525924 CACTATTGTG
* * *
9525934 GCCTCAACCTTTCCCTTCATATCTTCATGGTA-CTG-TT-A---TTGA-AGCCTCAATCTTTCCC
1 GCCTCAACCTTTCCCTTCATATCTTCATGATACCGGATTCACCGTT-ACAGCCGCAATCTTTCCC
*
9525992 ATCACATCTGC-ATGGTACCGGGTTCG-CTGTTGC-
65 ATCACATCTGCTAAGGTACCGGGTTCGTC-GTT-CA
* ** *
9526025 GACCTCAGCCTTTCCCTTCATATCTTCAT-AGTACCGGATTCGTCGTTGC-GACCGCAATCTTTC
1 G-CCTCAACCTTTCCCTTCATATCTTCATGA-TACCGGATTCACCGTTACAG-CCGCAATCTTTC
* *
9526088 CCATCACATCTACTAAGGTATCGGGTTCGTCGTTACA
63 CCATCACATCTGCTAAGGTACCGGGTTCGTCGTT-CA
* * * *
9526125 GCCTCAACCTTTCCCTTCATATCTTCATGATACCGGGTTCACCGTTACAGTCTCAACCTTTCCCA
1 GCCTCAACCTTTCCCTTCATATCTTCATGATACCGGATTCACCGTTACAGCCGCAATCTTTCCCA
*
9526190 TCACATCTGCTAAGGTACCGGGTTCGTCGCTGTGA
66 TCACATCTGCTAAGGTACCGGGTTCGTCG-T-TCA
*
9526225 -CCTCAACCTTTTCCTTCATATCTT
1 GCCTCAACCTTTCCCTTCATATCTT
9526249 TATCTTTCCT
Statistics
Matches: 185, Mismatches: 22, Indels: 26
0.79 0.09 0.11
Matches are distributed among these distances:
91 1 0.01
92 28 0.15
93 2 0.01
94 2 0.01
97 1 0.01
98 25 0.14
99 119 0.64
100 6 0.03
101 1 0.01
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.34
Consensus pattern (98 bp):
GCCTCAACCTTTCCCTTCATATCTTCATGATACCGGATTCACCGTTACAGCCGCAATCTTTCCCA
TCACATCTGCTAAGGTACCGGGTTCGTCGTTCA
Found at i:9526866 original size:103 final size:100
Alignment explanation
Indices: 9526745--9526971 Score: 285
Period size: 100 Copynumber: 2.2 Consensus size: 100
9526735 GATTGAAGAT
* * * *
9526745 AAAGCTTGCATAAATGAAAGAGATCATTAGTTCATAAACCGTT-ATCGATATAGAAATGCTTGAA
1 AAAGCTTGCATGAATGAAAAAGATCATTAGTTCATAAACCGTTGAT-G-CA-A-AAATGCTGGAA
*
9526809 CATGATAGCAAGGTGAATAAAATTGAATTTCTTGGAGGC
62 CATGATAGCAAGGCGAATAAAATTGAATTTCTTGGAGGC
* * * ** *
9526848 AAAGCTTGCATGGATGAAAAAGATCATTGGTTCATGAATTGTTGGTGCAAAAATGCTGGAACATG
1 AAAGCTTGCATGAATGAAAAAGATCATTAGTTCATAAACCGTTGATGCAAAAATGCTGGAACATG
* *
9526913 GTCGCAAGGCGAATAAAATTGAATTTCTTGGAGGC
66 ATAGCAAGGCGAATAAAATTGAATTTCTTGGAGGC
*
9526948 AAAGCTCGCATGAATGAAAAAGAT
1 AAAGCTTGCATGAATGAAAAAGAT
9526972 TAAAAATGAC
Statistics
Matches: 108, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
100 68 0.63
101 1 0.01
102 1 0.01
103 37 0.34
104 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.26
Consensus pattern (100 bp):
AAAGCTTGCATGAATGAAAAAGATCATTAGTTCATAAACCGTTGATGCAAAAATGCTGGAACATG
ATAGCAAGGCGAATAAAATTGAATTTCTTGGAGGC
Found at i:9527311 original size:11 final size:10
Alignment explanation
Indices: 9527286--9527319 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
9527276 CGATCTCTCC
*
9527286 TTTTCATTTT
1 TTTTCTTTTT
9527296 TTTTCTTTTT
1 TTTTCTTTTT
9527306 TCTTTCTTTTT
1 T-TTTCTTTTT
9527317 TTT
1 TTT
9527320 CATCGAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:9531155 original size:32 final size:32
Alignment explanation
Indices: 9531112--9531177 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
9531102 CAATAATATT
*
9531112 ATCATAGTATTTCATAGAAAATGCAAAAGATC
1 ATCATAATATTTCATAGAAAATGCAAAAGATC
*
9531144 ATCATAATATTTCATAGAAAATGCAAAGGATC
1 ATCATAATATTTCATAGAAAATGCAAAAGATC
9531176 AT
1 AT
9531178 ATATCAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (32 bp):
ATCATAATATTTCATAGAAAATGCAAAAGATC
Found at i:9532049 original size:58 final size:58
Alignment explanation
Indices: 9531981--9532096 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
9531971 GATAAAGTAA
9531981 AACAATTCATATTAAAACAAATTAAAAAAACAACAACACCAACTAAATAAAGAAATAT
1 AACAATTCATATTAAAACAAATTAAAAAAACAACAACACCAACTAAATAAAGAAATAT
9532039 AACAATTCATATTAAAACAAATTAAAAAAACAACAACACCAACTAAATAAAGAAATAT
1 AACAATTCATATTAAAACAAATTAAAAAAACAACAACACCAACTAAATAAAGAAATAT
9532097 CAAAGCATAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.64, C:0.16, G:0.02, T:0.19
Consensus pattern (58 bp):
AACAATTCATATTAAAACAAATTAAAAAAACAACAACACCAACTAAATAAAGAAATAT
Found at i:9534105 original size:6 final size:7
Alignment explanation
Indices: 9534090--9534114 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9534080 TTCCTCCATC
9534090 TTTTCTT
1 TTTTCTT
9534097 TTTTCTT
1 TTTTCTT
9534104 TTTTCTT
1 TTTTCTT
9534111 TTTT
1 TTTT
9534115 ATTCAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTCTT
Found at i:9535999 original size:49 final size:49
Alignment explanation
Indices: 9535898--9535999 Score: 125
Period size: 49 Copynumber: 2.1 Consensus size: 49
9535888 GTAAACAGCC
** ** *
9535898 ATAAAATATAAAATCAAATTATTACAATATTGATAAATTAAAAATTAAA
1 ATAAAATATAAAATCAAACAATTACAATATAAATAAATTAAAAACTAAA
* *
9535947 ATAAAATATAAAATCAAACAATTACAATATAAATAGACTT-AAAACTAGA
1 ATAAAATATAAAATCAAACAATTACAATATAAATA-AATTAAAAACTAAA
9535996 ATAA
1 ATAA
9536000 TCGAAACTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
49 42 0.93
50 3 0.07
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (49 bp):
ATAAAATATAAAATCAAACAATTACAATATAAATAAATTAAAAACTAAA
Found at i:9540377 original size:21 final size:21
Alignment explanation
Indices: 9540351--9540397 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
9540341 ATCTGTGACA
*
9540351 AGTTCGGATGATGACAATTCT
1 AGTTCGGATGACGACAATTCT
*
9540372 AGTTCGGATGACGATAATTCT
1 AGTTCGGATGACGACAATTCT
9540393 AGTTC
1 AGTTC
9540398 AGACAGGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (21 bp):
AGTTCGGATGACGACAATTCT
Found at i:9541906 original size:24 final size:24
Alignment explanation
Indices: 9541855--9541909 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
9541845 TCTTTTATTT
* *
9541855 AAACTCTGTTTATTTGTTTCAATT
1 AAACTCTGTTTATTTGCTTCAATC
* *
9541879 AAACTCTGTTTATTTGCTTGAGTC
1 AAACTCTGTTTATTTGCTTCAATC
9541903 AAACTCT
1 AAACTCT
9541910 TATTAGTCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.47
Consensus pattern (24 bp):
AAACTCTGTTTATTTGCTTCAATC
Found at i:9542801 original size:60 final size:61
Alignment explanation
Indices: 9542697--9542816 Score: 161
Period size: 60 Copynumber: 2.0 Consensus size: 61
9542687 TACATTCTCC
* * * * *
9542697 TTGAAAGTTATCAATTCTCATACGAGAATTGGGAAACCCTTAGTGGTGGAAAGTTAAGGTT
1 TTGAAAGATATAAATTCTAATACGAGAATTGAGAAACCCTTAGTGGTGGAAAATTAAGGTT
* **
9542758 TTGAAAGATATAAATTCTAATA-GTGAATTGAGAAATTCTTAGTGGTGGAAAATTAAGGT
1 TTGAAAGATATAAATTCTAATACGAGAATTGAGAAACCCTTAGTGGTGGAAAATTAAGGT
9542817 AGTGAAAGTA
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
60 32 0.63
61 19 0.37
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (61 bp):
TTGAAAGATATAAATTCTAATACGAGAATTGAGAAACCCTTAGTGGTGGAAAATTAAGGTT
Found at i:9550800 original size:2 final size:2
Alignment explanation
Indices: 9550793--9550849 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
9550783 TCTTTTTCTA
9550793 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9550835 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
9550850 GTTTTTTGAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9558892 original size:31 final size:32
Alignment explanation
Indices: 9558853--9558938 Score: 84
Period size: 35 Copynumber: 2.6 Consensus size: 32
9558843 AAAATTTCAA
9558853 ATTTCGAATTATTCGAATCGAGTTGAATTTTT
1 ATTTCGAATTATTCGAATCGAGTTGAATTTTT
* *
9558885 -TTTCGAATTTCGAGTTTGAATCGAGTTTAATTTTT
1 ATTTCGAA-TT--A-TTCGAATCGAGTTGAATTTTT
* *
9558920 GAATTCGAATTATTGGAAT
1 -ATTTCGAATTATTCGAAT
9558939 AATTCGAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
31 7 0.16
32 2 0.05
33 6 0.14
34 2 0.05
35 19 0.43
36 2 0.05
37 6 0.14
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.47
Consensus pattern (32 bp):
ATTTCGAATTATTCGAATCGAGTTGAATTTTT
Found at i:9564165 original size:17 final size:18
Alignment explanation
Indices: 9564125--9564166 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
9564115 ATTTTTAGTA
*
9564125 GTTTTATAAAATTTATTTT
1 GTTTTATAAAA-TTATTTG
*
9564144 ATTTTATAAAA-TATTTG
1 GTTTTATAAAATTATTTG
9564161 GTTTTA
1 GTTTTA
9564167 GGTTGTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 10 0.50
19 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (18 bp):
GTTTTATAAAATTATTTG
Found at i:9564231 original size:25 final size:26
Alignment explanation
Indices: 9564193--9564264 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 26
9564183 TTGAAAAATT
9564193 TATAAAAATATATACA-A-TTAAAAAA
1 TATAAAAATATATA-ATATTTAAAAAA
* *
9564218 TATAAAATTCTATAATATTTTAAAAAA
1 TATAAAAATATATAATA-TTTAAAAAA
*
9564245 TATATAAAAGTTTATAATAT
1 TATA-AAAA-TATATAATAT
9564265 ATAATTCATA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 1 0.03
25 13 0.34
27 12 0.32
28 4 0.11
29 8 0.21
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (26 bp):
TATAAAAATATATAATATTTAAAAAA
Found at i:9564297 original size:22 final size:22
Alignment explanation
Indices: 9564239--9564309 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
9564229 ATAATATTTT
9564239 AAAAAATATATA-AAAGTTTATA
1 AAAAAATATATATAAA-TTTATA
* *
9564261 ATATATAAT-T-CATAAATTTATA
1 A-A-AAAATATATATAAATTTATA
*
9564283 AAAAAATATATATAAATATATA
1 AAAAAATATATATAAATTTATA
9564305 AAAAA
1 AAAAA
9564310 TTAAAATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
20 4 0.10
21 2 0.05
22 24 0.62
23 5 0.13
24 4 0.10
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (22 bp):
AAAAAATATATATAAATTTATA
Found at i:9564305 original size:44 final size:43
Alignment explanation
Indices: 9564188--9564305 Score: 125
Period size: 44 Copynumber: 2.7 Consensus size: 43
9564178 TTATTTTGAA
* * *
9564188 AAATTTAT-AAAAATATATACAATTAAAAAATATAAAATTCTAT
1 AAATTTATAAAAAATATATA-AAATATATAATATAAAATTCTAT
* *
9564231 AATATTT-TAAAAAATATATAAAAGTTTATAATATATAATTC-AT
1 AA-ATTTATAAAAAATATATAAAA-TATATAATATAAAATTCTAT
9564274 AAATTTATAAAAAAATATATATAAATATATAA
1 AAATTTAT-AAAAAATATATA-AAATATATAA
9564306 AAAATTAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
42 4 0.06
43 10 0.16
44 46 0.73
45 3 0.05
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (43 bp):
AAATTTATAAAAAATATATAAAATATATAATATAAAATTCTAT
Found at i:9564320 original size:22 final size:22
Alignment explanation
Indices: 9564272--9564314 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9564262 TATATAATTC
* *
9564272 ATAAATTTATAAAAAAATATAT
1 ATAAATATATAAAAAAATAAAT
*
9564294 ATAAATATATAAAAAATTAAA
1 ATAAATATATAAAAAAATAAA
9564315 ATTAAAAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
ATAAATATATAAAAAAATAAAT
Found at i:9566736 original size:40 final size:39
Alignment explanation
Indices: 9566692--9566870 Score: 137
Period size: 39 Copynumber: 4.5 Consensus size: 39
9566682 ACTGTACTAG
* * *
9566692 CAGTGACACTGTAAACACTACGATATTACAATTGAACTGA
1 CAGTGACACTGTAAACACTACAATACTAC-ACTGAACTGA
* * * * *
9566732 CAGTGACACTGTAAACATTGCAATACTACACTAAATTGG
1 CAGTGACACTGTAAACACTACAATACTACACTGAACTGA
* *** *
9566771 CAGTTACACTGTAAACACTGTGATATCATA-ACTGAACTGC
1 CAGTGACACTGTAAACACTACAATA-C-TACACTGAACTGA
* * * * *
9566811 CAGTGACACTATAAATACTACAATGCTACATTGAGCT-A
1 CAGTGACACTGTAAACACTACAATACTACACTGAACTGA
*
9566849 GTAGTGACACTGTAAACACTAC
1 -CAGTGACACTGTAAACACTAC
9566871 TAGGCTACCA
Statistics
Matches: 107, Mismatches: 28, Indels: 9
0.74 0.19 0.06
Matches are distributed among these distances:
38 2 0.02
39 52 0.49
40 51 0.48
41 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (39 bp):
CAGTGACACTGTAAACACTACAATACTACACTGAACTGA
Found at i:9566840 original size:79 final size:79
Alignment explanation
Indices: 9566691--9566870 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 79
9566681 TACTGTACTA
* * * * *
9566691 GCAGTGACACTGTAAACACTACGATATTACAATTGAACTGACAGTGACACTGTAAACATTGCAAT
1 GCAGTGACACTGTAAACACTACGATATCACAACTGAACTGACAGTGACACTATAAACACTACAAT
9566756 ACTACACTAAATTG
66 ACTACACTAAATTG
* ** * * *
9566770 GCAGTTACACTGTAAACACTGTGATATCATAACTGAACTGCCAGTGACACTATAAATACTACAAT
1 GCAGTGACACTGTAAACACTACGATATCACAACTGAACTGACAGTGACACTATAAACACTACAAT
* * * ** *
9566835 GCTACATTGAGCTA
66 ACTACACTAAATTG
*
9566849 GTAGTGACACTGTAAACACTAC
1 GCAGTGACACTGTAAACACTAC
9566871 TAGGCTACCA
Statistics
Matches: 80, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.26
Consensus pattern (79 bp):
GCAGTGACACTGTAAACACTACGATATCACAACTGAACTGACAGTGACACTATAAACACTACAAT
ACTACACTAAATTG
Found at i:9567735 original size:29 final size:31
Alignment explanation
Indices: 9567690--9567754 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 31
9567680 TTTAATATAC
*
9567690 ATATAAATATATATAAT-TATTGTTTAACAT-
1 ATATAAATATATATAATAT-TTGTATAACATA
*
9567720 ATATAATTA-ATATAATATTTGTATAACATA
1 ATATAAATATATATAATATTTGTATAACATA
9567750 ATATA
1 ATATA
9567755 TTCAAGCTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (31 bp):
ATATAAATATATATAATATTTGTATAACATA
Found at i:9571746 original size:18 final size:18
Alignment explanation
Indices: 9571723--9571826 Score: 74
Period size: 17 Copynumber: 6.1 Consensus size: 18
9571713 TTTTGGACTT
* *
9571723 TAAATTTTTATTTTAAAA
1 TAAATTTTAAATTTAAAA
9571741 TAAA-TTTAAATTTAAAA
1 TAAATTTTAAATTTAAAA
* *
9571758 TAAA-TTTAAACTCAAAA
1 TAAATTTTAAATTTAAAA
* ** *
9571775 T-TAGCTTAAATTTACAA
1 TAAATTTTAAATTTAAAA
*
9571792 TAAA-TTTAAACTTAAAA
1 TAAATTTTAAATTTAAAA
* *
9571809 TGAA-TTAAAATTTAAAA
1 TAAATTTTAAATTTAAAA
9571826 T
1 T
9571827 CTAAAATCGG
Statistics
Matches: 68, Mismatches: 16, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
16 1 0.01
17 62 0.91
18 5 0.07
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (18 bp):
TAAATTTTAAATTTAAAA
Found at i:9571756 original size:17 final size:17
Alignment explanation
Indices: 9571734--9571826 Score: 105
Period size: 17 Copynumber: 5.5 Consensus size: 17
9571724 AAATTTTTAT
9571734 TTTAAAATAAATTTAAA
1 TTTAAAATAAATTTAAA
9571751 TTTAAAATAAATTTAAA
1 TTTAAAATAAATTTAAA
* * * **
9571768 CTCAAAATTAGCTTAAA
1 TTTAAAATAAATTTAAA
*
9571785 TTTACAATAAATTTAAA
1 TTTAAAATAAATTTAAA
* * *
9571802 CTTAAAATGAATTAAAA
1 TTTAAAATAAATTTAAA
9571819 TTTAAAAT
1 TTTAAAAT
9571827 CTAAAATCGG
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 60 1.00
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (17 bp):
TTTAAAATAAATTTAAA
Found at i:9572599 original size:78 final size:78
Alignment explanation
Indices: 9572459--9572622 Score: 195
Period size: 78 Copynumber: 2.1 Consensus size: 78
9572449 CCTCATGATC
* * * * * **
9572459 GGGTAAGAGATTAATTGATAGTGAACTGCCTCAGGCTTGAGGTAAGAGACCGAATGGTTGCAATT
1 GGGTAAGAGATTAACTGATAGTGAACTGCCCCAGGCTCGAGGTAAAAGACCAAATGACTGCAATT
*
9572524 TGCCCTAGGCTCA
66 TGCCCCAGGCTCA
* * * *
9572537 GGGTAAGAGATTTACTGAT-GATGATCTGCCCCAGGCTCGGGGTAAAAGATCAAATGACTGCAAT
1 GGGTAAGAGATTAACTGATAG-TGAACTGCCCCAGGCTCGAGGTAAAAGACCAAATGACTGCAAT
*
9572601 TTGCCCCAGGCTCG
65 TTGCCCCAGGCTCA
9572615 GGGTAAGA
1 GGGTAAGA
9572623 CATTGGTTAA
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
77 1 0.01
78 71 0.99
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (78 bp):
GGGTAAGAGATTAACTGATAGTGAACTGCCCCAGGCTCGAGGTAAAAGACCAAATGACTGCAATT
TGCCCCAGGCTCA
Found at i:9572956 original size:92 final size:92
Alignment explanation
Indices: 9572799--9573168 Score: 632
Period size: 92 Copynumber: 4.0 Consensus size: 92
9572789 TTATTTTTTA
* * * *
9572799 ATCCAATTTTACTACAACTTCAAGATGATAGGAATTGATGTTTGAAGCCTCATCTTGCTCTTACT
1 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
*
9572864 ACATCTTCAGAGAGATAAAGACTTGCT
66 ACAACTTCAGAGAGATAAAGACTTGCT
* * *
9572891 ATCCAATTTTACTGTAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTACTCTTACT
1 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
9572956 ACAACTTCAGAGAGATAAAGACTTGCT
66 ACAACTTCAGAGAGATAAAGACTTGCT
*
9572983 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCAACTTGCTCTTACT
1 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
*
9573048 ACAACTTCAGAGATATAAAGACTTGCT
66 ACAACTTCAGAGAGATAAAGACTTGCT
* *
9573075 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAACTGATGTTTGAAGCTTCATCTTGCTCTTATT
1 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
9573140 ACAACTTCAGAGAGATAAAGACTTGCT
66 ACAACTTCAGAGAGATAAAGACTTGCT
9573167 AT
1 AT
9573169 TGTTTTTGAT
Statistics
Matches: 263, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 263 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (92 bp):
ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
ACAACTTCAGAGAGATAAAGACTTGCT
Found at i:9573398 original size:50 final size:49
Alignment explanation
Indices: 9573311--9573621 Score: 277
Period size: 50 Copynumber: 6.3 Consensus size: 49
9573301 ATCTGCAGTC
* * * * * *
9573311 GCGGCTTAGATCTTTCCCTTCATGTCTTCGCGATACTGGATCCAGCGTT
1 GCGGCTTAGATCTTTCCCATCGTGTTTTCGTGGTACTGGATCCACCGTT
* *
9573360 GCGGTCTTAGAT-TTTCCTCATCGTGTTTTTGTGGTACTGGATCCACCGTC
1 GCGG-CTTAGATCTTTCC-CATCGTGTTTTCGTGGTACTGGATCCACCGTT
* * * * * * * ** *
9573410 GTGGCTTAGATCTTTTCC-TGGTGTCTTCATGGTATTAGATCCGTCGTC
1 GCGGCTTAGATCTTTCCCATCGTGTTTTCGTGGTACTGGATCCACCGTT
* * * * *
9573458 GCGGCTTAGATCTTTCCC-TTGTATCTTCGCGGTATTGGATCCACCGTT
1 GCGGCTTAGATCTTTCCCATCGTGTTTTCGTGGTACTGGATCCACCGTT
* * *
9573506 GCGGTCTTAGATCTTTTCCATCATGTTTTCGTGGTACTGGATTCACCGTT
1 GCGG-CTTAGATCTTTCCCATCGTGTTTTCGTGGTACTGGATCCACCGTT
* ** * *
9573556 ACTACCTTAGATCTTTCCCGTCGTGTTTTCGTGGTACTGGATCCGCCGTT
1 GC-GGCTTAGATCTTTCCCATCGTGTTTTCGTGGTACTGGATCCACCGTT
9573606 GCGGCTTTAGATCTTT
1 GCGGC-TTAGATCTTT
9573622 TTCGTCGTGT
Statistics
Matches: 208, Mismatches: 47, Indels: 13
0.78 0.18 0.05
Matches are distributed among these distances:
48 64 0.31
49 31 0.15
50 113 0.54
ACGTcount: A:0.13, C:0.25, G:0.23, T:0.39
Consensus pattern (49 bp):
GCGGCTTAGATCTTTCCCATCGTGTTTTCGTGGTACTGGATCCACCGTT
Found at i:9573458 original size:48 final size:48
Alignment explanation
Indices: 9573399--9573524 Score: 153
Period size: 48 Copynumber: 2.6 Consensus size: 48
9573389 TGTGGTACTG
* * *
9573399 GATCCACCGTCGTGGCTTAGATCTTTTCCTGGTGTCTTCATGGTATTA
1 GATCCACCGTCGCGGCTTAGATCTTTTCCTGGTATCTTCACGGTATTA
** * * * *
9573447 GATCCGTCGTCGCGGCTTAGATCTTTCCCTTGTATCTTCGCGGTATTG
1 GATCCACCGTCGCGGCTTAGATCTTTTCCTGGTATCTTCACGGTATTA
*
9573495 GATCCACCGTTGCGGTCTTAGATCTTTTCC
1 GATCCACCGTCGCGG-CTTAGATCTTTTCC
9573525 ATCATGTTTT
Statistics
Matches: 64, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
48 51 0.80
49 13 0.20
ACGTcount: A:0.13, C:0.26, G:0.23, T:0.38
Consensus pattern (48 bp):
GATCCACCGTCGCGGCTTAGATCTTTTCCTGGTATCTTCACGGTATTA
Found at i:9573533 original size:146 final size:149
Alignment explanation
Indices: 9573308--9573621 Score: 395
Period size: 146 Copynumber: 2.1 Consensus size: 149
9573298 TGGATCTGCA
* *
9573308 GTCGCGGCTTAGATCTTTCCCTTCATGTCTTCGCGATACTGGATCCAGCGTTGCGGTCTTAGATT
1 GTCGCGGCTTAGATCTTTCCCTTCATATCTTCGCGATACTGGATCCACCGTTGCGGTCTTAGATT
* * ** * *
9573373 TTCCTCATCGTGTTTTTGTGGTACTGGATCCACCG-T-CGTGGCTTAGATCTTTTCC-TGGTGTC
66 TTCCTCATCATGTTTTCGTGGTACTGGATCCACCGTTAC-TACCTTAGATCTTTCCCGTCGTGTC
* *
9573435 TTCATGGTATTAGATCCGTC
130 TTCATGGTACTAGATCCGCC
* * *
9573455 GTCGCGGCTTAGATCTTTCCCTT-GTATCTTCGCGGTATTGGATCCACCGTTGCGGTCTTAGATC
1 GTCGCGGCTTAGATCTTTCCCTTCATATCTTCGCGATACTGGATCCACCGTTGCGGTCTTAGAT-
* * *
9573519 TTTTC-CATCATGTTTTCGTGGTACTGGATTCACCGTTACTACCTTAGATCTTTCCCGTCGTGTT
65 TTTCCTCATCATGTTTTCGTGGTACTGGATCCACCGTTACTACCTTAGATCTTTCCCGTCGTGTC
* *
9573583 TTCGTGGTACTGGATCCGCC
130 TTCATGGTACTAGATCCGCC
*
9573603 GTTGCGGCTTTAGATCTTT
1 GTCGCGGC-TTAGATCTTT
9573622 TTCGTCGTGT
Statistics
Matches: 143, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
146 62 0.43
147 42 0.29
148 29 0.20
149 10 0.07
ACGTcount: A:0.13, C:0.25, G:0.23, T:0.39
Consensus pattern (149 bp):
GTCGCGGCTTAGATCTTTCCCTTCATATCTTCGCGATACTGGATCCACCGTTGCGGTCTTAGATT
TTCCTCATCATGTTTTCGTGGTACTGGATCCACCGTTACTACCTTAGATCTTTCCCGTCGTGTCT
TCATGGTACTAGATCCGCC
Found at i:9574804 original size:12 final size:12
Alignment explanation
Indices: 9574787--9574812 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9574777 TGACCTCTCC
9574787 TTTTCTTTTCTT
1 TTTTCTTTTCTT
9574799 TTTTCTTTTCTT
1 TTTTCTTTTCTT
9574811 TT
1 TT
9574813 GTTCATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTCTTTTCTT
Found at i:9579486 original size:2 final size:2
Alignment explanation
Indices: 9579479--9579507 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9579469 ATAGTTTTAA
9579479 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9579508 AAGTTGTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9580093 original size:21 final size:21
Alignment explanation
Indices: 9580063--9580102 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9580053 AAAAACAACA
*
9580063 ATAATAATAAGATTATATATT
1 ATAATAATAAGATAATATATT
* *
9580084 ATAATGATAATATAATATA
1 ATAATAATAAGATAATATA
9580103 AGATAAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
ATAATAATAAGATAATATATT
Found at i:9580102 original size:16 final size:15
Alignment explanation
Indices: 9580063--9580108 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
9580053 AAAAACAACA
*
9580063 ATAATAATAAGATTAT
1 ATAAT-ATAAGATAAT
*
9580079 ATATTATAATGATAAT
1 ATAATATAA-GATAAT
9580095 ATAATATAAGATAA
1 ATAATATAAGATAA
9580109 AAAAAAAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 9 0.35
16 17 0.65
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (15 bp):
ATAATATAAGATAAT
Found at i:9592032 original size:38 final size:38
Alignment explanation
Indices: 9591981--9592083 Score: 129
Period size: 36 Copynumber: 2.7 Consensus size: 38
9591971 GGTAACAGGC
*
9591981 ATGACCTTTGGGTCAACAGGGAGAAAAAAATGAGCATA
1 ATGACCTTTGGGTCAACAGGGAGAAAAAAACGAGCATA
** *
9592019 ATGACCTTTGGGTCAACA--GAGAGTAAAACGAGCATC
1 ATGACCTTTGGGTCAACAGGGAGAAAAAAACGAGCATA
* *
9592055 ATGACCCTTGGGGTCAACAGGGAGTAAAA
1 ATGA-CCTTTGGGTCAACAGGGAGAAAAA
9592084 CGAATAACGA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
36 18 0.33
37 13 0.24
38 18 0.33
39 5 0.09
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.18
Consensus pattern (38 bp):
ATGACCTTTGGGTCAACAGGGAGAAAAAAACGAGCATA
Found at i:9592080 original size:37 final size:36
Alignment explanation
Indices: 9591980--9592086 Score: 142
Period size: 37 Copynumber: 2.9 Consensus size: 36
9591970 TGGTAACAGG
* *
9591980 CATGACCTTTGGGTCAACAGGGAGAAAAAAATGAGCAT
1 CATGACCTTTGGGTCAACAGGGAG--TAAAACGAGCAT
* *
9592018 AATGACCTTTGGGTCAACAGAGAGTAAAACGAGCAT
1 CATGACCTTTGGGTCAACAGGGAGTAAAACGAGCAT
*
9592054 CATGACCCTTGGGGTCAACAGGGAGTAAAACGA
1 CATGA-CCTTTGGGTCAACAGGGAGTAAAACGA
9592087 ATAACGATCG
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
36 14 0.23
37 25 0.41
38 22 0.36
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (36 bp):
CATGACCTTTGGGTCAACAGGGAGTAAAACGAGCAT
Found at i:9592651 original size:21 final size:21
Alignment explanation
Indices: 9592625--9592699 Score: 105
Period size: 21 Copynumber: 3.6 Consensus size: 21
9592615 GGAGTTTTTA
** *
9592625 GTATCGGTAGTAGTATGACTT
1 GTATCGGTAGTAGCCTTACTT
*
9592646 GTATCGGTAGTTGCCTTACTT
1 GTATCGGTAGTAGCCTTACTT
*
9592667 GTATCGGTAGTTGCCTTACTT
1 GTATCGGTAGTAGCCTTACTT
9592688 GTATCGGTAGTA
1 GTATCGGTAGTA
9592700 TTGTCAAGGG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.19, C:0.15, G:0.27, T:0.40
Consensus pattern (21 bp):
GTATCGGTAGTAGCCTTACTT
Found at i:9597882 original size:168 final size:168
Alignment explanation
Indices: 9597604--9597941 Score: 640
Period size: 168 Copynumber: 2.0 Consensus size: 168
9597594 TAACTAATAG
*
9597604 AAGTGACGTAGTAAGGTTGAAACACCTTGTTTTAATCAAAATAAAATAGATGACTTATTTTAATT
1 AAGTGACGTAGTAAGGTTGAAACACCTTGTTTTAATCAAAATAAAATAGATGACTTATTCTAATT
* *
9597669 AAAATAAAATAAAAGAAGTCTAGTTCTTTTTGGACTTTACTTTACTTTTATTTTATTTTATTACT
66 AAAATAAAATAAAAGAAGTATAGTTCTTTTTGGACTTTACTTTACTTTTATTTTATTTTATCACT
9597734 TTATTTTATTCTAACAAGAATTCTAGTCACCTAATTCT
131 TTATTTTATTCTAACAAGAATTCTAGTCACCTAATTCT
*
9597772 AAGTGACGTAGTAAGGTTGAAACACCTTGTTTTAATCAAAATAAAATTGATGACTTATTCTAATT
1 AAGTGACGTAGTAAGGTTGAAACACCTTGTTTTAATCAAAATAAAATAGATGACTTATTCTAATT
9597837 AAAATAAAATAAAAGAAGTATAGTTCTTTTTGGACTTTACTTTACTTTTATTTTATTTTATCACT
66 AAAATAAAATAAAAGAAGTATAGTTCTTTTTGGACTTTACTTTACTTTTATTTTATTTTATCACT
9597902 TTATTTTATTCTAACAAGAATTCTAGTCACCTAATTCT
131 TTATTTTATTCTAACAAGAATTCTAGTCACCTAATTCT
9597940 AA
1 AA
9597942 CATTTACAGT
Statistics
Matches: 166, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
168 166 1.00
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (168 bp):
AAGTGACGTAGTAAGGTTGAAACACCTTGTTTTAATCAAAATAAAATAGATGACTTATTCTAATT
AAAATAAAATAAAAGAAGTATAGTTCTTTTTGGACTTTACTTTACTTTTATTTTATTTTATCACT
TTATTTTATTCTAACAAGAATTCTAGTCACCTAATTCT
Found at i:9607680 original size:17 final size:18
Alignment explanation
Indices: 9607653--9607686 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
9607643 GCTTCGGAGA
9607653 ATATGCCAAAATCTTCAC
1 ATATGCCAAAATCTTCAC
9607671 ATAT-CCAAAATCTTCA
1 ATATGCCAAAATCTTCA
9607687 TAATTGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.41, C:0.26, G:0.03, T:0.29
Consensus pattern (18 bp):
ATATGCCAAAATCTTCAC
Found at i:9611369 original size:16 final size:16
Alignment explanation
Indices: 9611345--9611379 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9611335 AAACTATAAA
*
9611345 AAATTTAAAAATTATT
1 AAATATAAAAATTATT
*
9611361 AAATATAAAAATTCTT
1 AAATATAAAAATTATT
9611377 AAA
1 AAA
9611380 AAATTCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATATAAAAATTATT
Found at i:9611391 original size:27 final size:25
Alignment explanation
Indices: 9611333--9611391 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 25
9611323 CTAGTTGAGT
9611333 TAAAACTATAAAAAATTTAAAAATTA
1 TAAAA-TATAAAAAATTTAAAAATTA
* * *
9611359 TTAAATATAAAAATTCTTAAAAAATTC
1 TAAAATATAAAAAAT-TT-AAAAATTA
9611386 TAAAAT
1 TAAAAT
9611392 TTTTGAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 9 0.33
26 6 0.22
27 12 0.44
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (25 bp):
TAAAATATAAAAAATTTAAAAATTA
Found at i:9614771 original size:46 final size:48
Alignment explanation
Indices: 9614736--9614839 Score: 145
Period size: 48 Copynumber: 2.2 Consensus size: 48
9614726 GTAGATGAAA
9614736 GCTGCCAGCAAATTTATGGATAAACCACTAGTGTTTGCAGGATAATAC
1 GCTGCCAGCAAATTTATGGATAAACCACTAGTGTTTGCAGGATAATAC
** * * * *
9614784 GCTGCTGGTAAATTTGTGGATAAACCACTAGTGTTTGCAAGTTAATAC
1 GCTGCCAGCAAATTTATGGATAAACCACTAGTGTTTGCAGGATAATAC
*
9614832 GCTTCCAG
1 GCTGCCAG
9614840 TAGATTGTGA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (48 bp):
GCTGCCAGCAAATTTATGGATAAACCACTAGTGTTTGCAGGATAATAC
Found at i:9615038 original size:38 final size:39
Alignment explanation
Indices: 9614994--9615082 Score: 101
Period size: 38 Copynumber: 2.3 Consensus size: 39
9614984 GTACAAAAAT
* *
9614994 AATAGACATGCT-TAGCATGTATTCAAATTAATAGTAAC
1 AATAGACATGCTATAACATATATTCAAATTAATAGTAAC
* ** *
9615032 AGTAGACATG-TATAACATATATTCAGTTTATTAGTAAC
1 AATAGACATGCTATAACATATATTCAAATTAATAGTAAC
*
9615070 AATAGCCATGCTA
1 AATAGACATGCTA
9615083 ATCACGCAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
37 1 0.02
38 38 0.93
39 2 0.05
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
AATAGACATGCTATAACATATATTCAAATTAATAGTAAC
Found at i:9620446 original size:40 final size:40
Alignment explanation
Indices: 9620402--9620480 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
9620392 GTTAGCTTGA
9620402 TAATTAAAAATGTTCATTATCTCAAATGTAATCTGGATTC
1 TAATTAAAAATGTTCATTATCTCAAATGTAATCTGGATTC
9620442 TAATTAAAAATGTTCATTATCTCAAATGTAATCTGGATT
1 TAATTAAAAATGTTCATTATCTCAAATGTAATCTGGATT
9620481 TGAATCGCGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (40 bp):
TAATTAAAAATGTTCATTATCTCAAATGTAATCTGGATTC
Found at i:9631633 original size:58 final size:58
Alignment explanation
Indices: 9631536--9631725 Score: 197
Period size: 58 Copynumber: 3.3 Consensus size: 58
9631526 ATCGGGATCA
* * * ** *
9631536 AAAATAGAATTTTTCGACA-TTAGGGGGTAAAAGGGTAATTTTTGAAAGTTTTAAGGTC
1 AAAATAGAATTTTTGGA-AGTTCGAGGGTAAAAACGTAATTTTTGAAAGTTTCAAGGTC
* *
9631594 AAAATAGAATTTTTGGAAGTTCGAGGGTAAAAACATAATTTTT-AGAAGTTTCGAA-GTAA
1 AAAATAGAATTTTTGGAAGTTCGAGGGTAAAAACGTAATTTTTGA-AAGTTTC-AAGGT-C
* * * * *
9631653 AAAATGGAATTTTTGGAAGTTCGAGGGCAAAAATGTAATTTTTGGAAGTTTCAGGGTC
1 AAAATAGAATTTTTGGAAGTTCGAGGGTAAAAACGTAATTTTTGAAAGTTTCAAGGTC
*
9631711 AAAATATAATTTTTG
1 AAAATAGAATTTTTG
9631726 AATAGTTTAG
Statistics
Matches: 109, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
57 2 0.02
58 57 0.52
59 50 0.46
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.34
Consensus pattern (58 bp):
AAAATAGAATTTTTGGAAGTTCGAGGGTAAAAACGTAATTTTTGAAAGTTTCAAGGTC
Found at i:9631634 original size:117 final size:117
Alignment explanation
Indices: 9631478--9631725 Score: 270
Period size: 117 Copynumber: 2.1 Consensus size: 117
9631468 ATTGGGGTTA
* * * * *
9631478 AAAAT-GAAATTTTAGAAATTCGAGGGTAAAACGGTAATTTTTAGAAGAATCG-GGATCAAAAAT
1 AAAATAGAATTTTTGGAAATTCGAGGGTAAAACGATAATTTTTAGAAGAATCGAAG-TAAAAAAT
* * * *
9631541 AGAATTTTTCGACA-TTAGGGGGTAAAAGGGTAATTTTTGAAAGTTTTAAGGTC
65 AGAATTTTTCGA-AGTTAGAGGGCAAAAAGGTAATTTTTGAAAGTTTCAAGGTC
* **
9631594 AAAATAGAATTTTTGGAAGTTCGAGGGTAAAAAC-ATAATTTTTAGAAGTTTCGAAGTAAAAAAT
1 AAAATAGAATTTTTGGAAATTCGAGGGT-AAAACGATAATTTTTAGAAGAATCGAAGTAAAAAAT
* * * * * *
9631658 GGAATTTTTGGAAGTTCGAGGGCAAAAATGTAATTTTTGGAAGTTTCAGGGTC
65 AGAATTTTTCGAAGTTAGAGGGCAAAAAGGTAATTTTTGAAAGTTTCAAGGTC
*
9631711 AAAATATAATTTTTG
1 AAAATAGAATTTTTG
9631726 AATAGTTTAG
Statistics
Matches: 109, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
116 6 0.06
117 97 0.89
118 6 0.06
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.33
Consensus pattern (117 bp):
AAAATAGAATTTTTGGAAATTCGAGGGTAAAACGATAATTTTTAGAAGAATCGAAGTAAAAAATA
GAATTTTTCGAAGTTAGAGGGCAAAAAGGTAATTTTTGAAAGTTTCAAGGTC
Found at i:9631737 original size:29 final size:28
Alignment explanation
Indices: 9631571--9631737 Score: 106
Period size: 29 Copynumber: 5.7 Consensus size: 28
9631561 GGTAAAAGGG
*
9631571 TAATTTTTGAAAGTTTTAAGGTCAAAATA
1 TAATTTTTGAAAG-TTTAGGGTCAAAATA
* * * * *
9631600 GAATTTTTGGAAGTTCGAGGGTAAAAACA
1 TAATTTTTGAAAGTT-TAGGGTCAAAATA
* * *
9631629 TAATTTTT-AGAAGTTTCGAAGT-AAAAAA
1 TAATTTTTGA-AAGTTTAG-GGTCAAAATA
* * *
9631657 TGGAATTTTTGGAAGTTCGAGGG-CAAAAATG
1 T--AATTTTTGAAAGTT-TAGGGTC-AAAATA
*
9631688 TAATTTTTGGAAGTTTCAGGGTCAAAATA
1 TAATTTTTGAAAGTTT-AGGGTCAAAATA
9631717 TAATTTTTGAATAGTTTAGGG
1 TAATTTTTGAA-AGTTTAGGG
9631738 ACCTCTAGAG
Statistics
Matches: 105, Mismatches: 21, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
28 9 0.09
29 71 0.68
30 19 0.18
31 6 0.06
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.36
Consensus pattern (28 bp):
TAATTTTTGAAAGTTTAGGGTCAAAATA
Found at i:9633028 original size:3 final size:3
Alignment explanation
Indices: 9633020--9633067 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
9633010 CCCTTAGTGT
9633020 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9633068 AGGCTATTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:9634528 original size:92 final size:92
Alignment explanation
Indices: 9634413--9635295 Score: 1349
Period size: 92 Copynumber: 9.6 Consensus size: 92
9634403 ATTTGATACC
* *
9634413 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTGTCCAACTTTACTACA
1 GAAGCTTTATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
*
9634478 ACTTCAAAAGGATAGGAATTGATGTTT
66 ACTTCAAGAGGATAGGAATTGATGTTT
* * * * *
9634505 GAAGCTTCATCTTACTCTTACTACAACTTCAAAGAGATAAAGGCTTACTATCCAACTTTACTACA
1 GAAGCTTTATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
9634570 ACTTCAAGAGGATAGGAATTGATGTTT
66 ACTTCAAGAGGATAGGAATTGATGTTT
* *
9634597 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTATA
1 GAAGCTTTATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
* *
9634662 ACTTCAAGAGGATAAGAGTTGATGTTT
66 ACTTCAAGAGGATAGGAATTGATGTTT
* **
9634689 GAAGCTTTATCTTTCTCTTACTACAACCTT-AGAGAGATAAAGACTTGCTATCCAACTTTACTGT
1 GAAGCTTTATCTTGCTCTTACTACAA-CTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTAC
* *
9634753 AACTTCAAGAGGATAAGAGTTGATGTTT
65 AACTTCAAGAGGATAGGAATTGATGTTT
* * *
9634781 GAAGCTTTATCTTTCTCTTACTACAACCTCAGAGAGATAAAGACTTGCTATCCAACTTTACTGCA
1 GAAGCTTTATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
*
9634846 ACTTCAAGAGGATAGGAGTTGATGTTT
66 ACTTCAAGAGGATAGGAATTGATGTTT
* *
9634873 GAAGTTTTATCTTGCTCTTACTATAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
1 GAAGCTTTATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
*
9634938 ACTTTAAGAGGATAAGG-ATTGATGTTT
66 ACTTCAAGAGGAT-AGGAATTGATGTTT
*
9634965 GAAGCTTTATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTACTATCCAACTTTACTACA
1 GAAGCTTTATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
9635030 ACTTCAAGAGGATAAGG-ATTGATGTTT
66 ACTTCAAGAGGAT-AGGAATTGATGTTT
* * *
9635057 GAAGCTTTATCTTGATCTTACTACAACTTCAGAGAGATAAATACTTACTATCCAACTTTACTACA
1 GAAGCTTTATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
* *
9635122 ACTTCAAGAGGATAAGCATTGATGTTT
66 ACTTCAAGAGGATAGGAATTGATGTTT
* * * *
9635149 AAAGCTTCATCTTACTCTTACTACAACTTTAGAAAGAGATAAAGACTTGCTATCCAACTTTACTA
1 GAAGCTTTATCTTGCTCTTACTACAACTTCAG--AGAGATAAAGACTTGCTATCCAACTTTACTA
*
9635214 CAACTTCAAGAGGATAGGAGTTGATGTTT
64 CAACTTCAAGAGGATAGGAATTGATGTTT
* *
9635243 AAAACTTTATCTTGCTCTTACTACAACTTCAGAGAGGAATAAAGACTTGCTAT
1 GAAGCTTTATCTTGCTCTTACTACAACTTCAGAGA-G-ATAAAGACTTGCTAT
9635296 TTTGATCTAA
Statistics
Matches: 736, Mismatches: 47, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
91 4 0.01
92 627 0.85
93 7 0.01
94 98 0.13
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (92 bp):
GAAGCTTTATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
ACTTCAAGAGGATAGGAATTGATGTTT
Found at i:9646897 original size:2 final size:2
Alignment explanation
Indices: 9646890--9646955 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
9646880 GATCCTAGAA
9646890 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
9646932 AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG
9646956 GTACCGACGA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9647645 original size:44 final size:45
Alignment explanation
Indices: 9647557--9647646 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
9647547 AAAAATAAAA
* * * *
9647557 TCTTTCAAATACCAAAAAAGAAAATTTAAAAATTGGTATTCGCCG
1 TCTTCCAAATACCAAAAAAGAAAATTTAAAAATCGGAATCCGCCG
*
9647602 TCTTCCAAATACCAAAAACGAAAATTT-AAAATCGGAATCCGCCG
1 TCTTCCAAATACCAAAAAAGAAAATTTAAAAATCGGAATCCGCCG
9647646 T
1 T
9647647 GATTAACCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 15 0.38
45 25 0.62
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (45 bp):
TCTTCCAAATACCAAAAAAGAAAATTTAAAAATCGGAATCCGCCG
Found at i:9651578 original size:29 final size:29
Alignment explanation
Indices: 9651545--9652015 Score: 360
Period size: 30 Copynumber: 16.0 Consensus size: 29
9651535 GCTCAGGAGC
9651545 AAAAATGTAATTTTTGGAAAGTTTAGGGT
1 AAAAATGTAATTTTTGGAAAGTTTAGGGT
* *
9651574 CAAAAATGGAATTTTTGGATA-TTTGAGGGT
1 -AAAAATGTAATTTTTGGAAAGTTT-AGGGT
*
9651604 AAAAATGGTAACTTTTGGAAAGTTT-GAGGT
1 AAAAAT-GTAATTTTTGGAAAGTTTAG-GGT
*
9651634 CAAAAATGAAATTTTTGGAAAGTTT-GGGATT
1 -AAAAATGTAATTTTTGGAAAGTTTAGGG--T
9651665 AAAAATGTAATTTTTGGAAAG-TTAGGGGTT
1 AAAAATGTAATTTTTGGAAAGTTTA-GGG-T
** *
9651695 AAAAATGTAATTTTT--AAACATTCGGG-
1 AAAAATGTAATTTTTGGAAAGTTTAGGGT
* *
9651721 AGTAAAATGGTAACTTTT-GAAAGTTTCGGGGT
1 A--AAAAT-GTAATTTTTGGAAAGTTT-AGGGT
* *
9651753 AAAAAATGGAATTTTT-GATCA-TTTAGGGGT
1 -AAAAATGTAATTTTTGGA-AAGTTTA-GGGT
* *
9651783 -AAAATGGTAACTTTTGGAAAG-TTCGAGGT
1 AAAAAT-GTAATTTTTGGAAAGTTTAG-GGT
* * *
9651812 CAAAAATGAAATTTTTGGAAAGTTCGAGGTT
1 -AAAAATGTAATTTTTGGAAAGTT-TAGGGT
* * *
9651843 AAAAATGTAATTTTTAGAAAGTTCAAGGT
1 AAAAATGTAATTTTTGGAAAGTTTAGGGT
* * * * *
9651872 TAAAATGTAATTCTTGGAAAATTCAAGGT
1 AAAAATGTAATTTTTGGAAAGTTTAGGGT
9651901 CAAAAATGTAATTTTTGG-AAGTTTAGGGT
1 -AAAAATGTAATTTTTGGAAAGTTTAGGGT
*
9651930 -AAAATGTAATTTTTGTAAAGTTTAGGGGT
1 AAAAATGTAATTTTTGGAAAGTTTA-GGGT
*
9651959 -AAAATGTAATTTTTAGAAAGTTTAGGGGT
1 AAAAATGTAATTTTTGGAAAGTTTA-GGGT
* * * *
9651988 CAAAATATAATTTTTGGATAGTTCAGGG
1 AAAAATGTAATTTTTGGAAAGTTTAGGG
9652016 ACCTATTGGA
Statistics
Matches: 362, Mismatches: 48, Indels: 63
0.77 0.10 0.13
Matches are distributed among these distances:
26 1 0.00
27 15 0.04
28 24 0.07
29 107 0.30
30 183 0.51
31 30 0.08
32 1 0.00
33 1 0.00
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.36
Consensus pattern (29 bp):
AAAAATGTAATTTTTGGAAAGTTTAGGGT
Found at i:9651608 original size:59 final size:59
Alignment explanation
Indices: 9651545--9652005 Score: 373
Period size: 59 Copynumber: 7.8 Consensus size: 59
9651535 GCTCAGGAGC
* *
9651545 AAAAATGTAATTTTTGGAAAGTTTAGGGTCAAAAATGGAATTTTTGGATATTTGAGGGT
1 AAAAATGTAATTTTTGGAAAGTTTAGGGTCAAAAATGTAATTTTTGGAAATTTGAGGGT
* * *
9651604 AAAAATGGTAACTTTTGGAAAGTTT-GAGGTCAAAAATGAAATTTTTGGAAAGTTTG-GGATT
1 AAAAAT-GTAATTTTTGGAAAGTTTAG-GGTCAAAAATGTAATTTTTGGAAA-TTTGAGG-GT
* * *
9651665 AAAAATGTAATTTTTGGAAAG-TTAGGGGTTAAAAATGTAATTTTT-AAACATTCG-GGAGT
1 AAAAATGTAATTTTTGGAAAGTTTA-GGGTCAAAAATGTAATTTTTGGAA-ATTTGAGG-GT
* * * * *
9651724 -AAAATGGTAACTTTT-GAAAGTTTCGGGGTAAAAAATGGAATTTTT-GATCATTT-AGGGGT
1 AAAAAT-GTAATTTTTGGAAAGTTT-AGGGTCAAAAATGTAATTTTTGGA-AATTTGA-GGGT
* * * * *
9651783 -AAAATGGTAACTTTTGGAAAG-TTCGAGGTCAAAAATGAAATTTTTGGAAAGTTCGAGGTT
1 AAAAAT-GTAATTTTTGGAAAGTTTAG-GGTCAAAAATGTAATTTTTGGAAA-TTTGAGGGT
* * * * * * * *
9651843 AAAAATGTAATTTTTAGAAAGTTCAAGGT-TAAAATGTAATTCTTGGAAAATTCAAGGT
1 AAAAATGTAATTTTTGGAAAGTTTAGGGTCAAAAATGTAATTTTTGGAAATTTGAGGGT
*
9651901 CAAAAATGTAATTTTTGG-AAGTTTAGGGT--AAAATGTAATTTTTGTAAAGTTT-AGGGGT
1 -AAAAATGTAATTTTTGGAAAGTTTAGGGTCAAAAATGTAATTTTTGGAAA-TTTGA-GGGT
* *
9651959 -AAAATGTAATTTTTAGAAAGTTTAGGGGTC-AAAATATAATTTTTGGA
1 AAAAATGTAATTTTTGGAAAGTTTA-GGGTCAAAAATGTAATTTTTGGA
9652006 TAGTTCAGGG
Statistics
Matches: 330, Mismatches: 46, Indels: 52
0.77 0.11 0.12
Matches are distributed among these distances:
56 15 0.05
57 25 0.08
58 33 0.10
59 135 0.41
60 103 0.31
61 19 0.06
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.36
Consensus pattern (59 bp):
AAAAATGTAATTTTTGGAAAGTTTAGGGTCAAAAATGTAATTTTTGGAAATTTGAGGGT
Found at i:9653802 original size:6 final size:6
Alignment explanation
Indices: 9653791--9653882 Score: 68
Period size: 6 Copynumber: 16.0 Consensus size: 6
9653781 AATGAGACTT
* * * ** *
9653791 TTTAAA TTTAAA -ATAAT TTTAAT TTTAAA AGTAAA TTTAAA CTT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
9653837 TTTAAA TTTAAA TTTAAA -ATAAA TTTAAT TTTATAA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA
9653883 AATGAGTTCA
Statistics
Matches: 66, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
4 2 0.03
5 13 0.20
6 50 0.76
7 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:9653812 original size:17 final size:17
Alignment explanation
Indices: 9653791--9653882 Score: 112
Period size: 17 Copynumber: 5.4 Consensus size: 17
9653781 AATGAGACTT
*
9653791 TTTAAATTTAAAATAAT
1 TTTAAATTTAAAATAAA
*
9653808 TTTAATTTTAAAAGTAAA
1 TTTAAATTTAAAA-TAAA
* **
9653826 TTTAAACTTAATTTAAA
1 TTTAAATTTAAAATAAA
9653843 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
* *
9653860 TTTAATTTTATAATAAA
1 TTTAAATTTAAAATAAA
9653877 TTTAAA
1 TTTAAA
9653883 AATGAGTTCA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
17 50 0.81
18 12 0.19
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:9653816 original size:23 final size:22
Alignment explanation
Indices: 9653790--9653869 Score: 61
Period size: 23 Copynumber: 3.2 Consensus size: 22
9653780 TAATGAGACT
9653790 TTTTAAATTTAAAATAATTTTAA
1 TTTTAAATTTAAAATAA-TTTAA
*
9653813 TTTTAAAAGTAAATTTAAACTTAATTTAA
1 -TTT-----TAAATTTAAA-ATAATTTAA
*
9653842 ATTTAAATTTAAAATAAATTTAA
1 TTTTAAATTTAAAAT-AATTTAA
9653865 TTTTA
1 TTTTA
9653870 TAATAAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 15
0.70 0.06 0.23
Matches are distributed among these distances:
22 1 0.02
23 21 0.47
24 3 0.07
28 2 0.04
29 15 0.33
30 3 0.07
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (22 bp):
TTTTAAATTTAAAATAATTTAA
Found at i:9653840 original size:29 final size:29
Alignment explanation
Indices: 9653793--9653848 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
9653783 TGAGACTTTT
*
9653793 TAAATTTAAAATAATTTTAATTTTAAAAG
1 TAAATTTAAAATAATTTTAAATTTAAAAG
*
9653822 TAAATTTAAACTTAA-TTTAAATTTAAA
1 TAAATTTAAA-ATAATTTTAAATTTAAA
9653849 TTTAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (29 bp):
TAAATTTAAAATAATTTTAAATTTAAAAG
Done.