Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 114 of 226
Found at i:39105867 original size:15 final size:15
Alignment explanation
Indices: 39105847--39105894 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
39105837 TTTGAGTTAA
*
39105847 AAAAATGATGAAA-TG
1 AAAAATGA-AAAAGTG
39105862 AAAAATGAAAAAGTG
1 AAAAATGAAAAAGTG
39105877 AAAAATGAAAAAGT-
1 AAAAATGAAAAAGTG
39105891 AAAA
1 AAAA
39105895 TGGAGAGGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
14 7 0.23
15 24 0.77
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.15
Consensus pattern (15 bp):
AAAAATGAAAAAGTG
Found at i:39105869 original size:7 final size:7
Alignment explanation
Indices: 39105847--39105888 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
39105837 TTTGAGTTAA
39105847 AAAAATG
1 AAAAATG
*
39105854 ATGAAATG
1 A-AAAATG
39105862 AAAAATG
1 AAAAATG
39105869 AAAAAGTG
1 AAAAA-TG
39105877 AAAAATG
1 AAAAATG
39105884 AAAAA
1 AAAAA
39105889 GTAAAATGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 18 0.58
8 13 0.42
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:39107383 original size:131 final size:131
Alignment explanation
Indices: 39107149--39107525 Score: 560
Period size: 132 Copynumber: 2.9 Consensus size: 131
39107139 GTGAAACACT
* *
39107149 AAGCCTTGTCTCCCTAAGCAACAGCGGAGTAGGTT-AAGGATCGTAGATCTTATCTCCCTAAGCA
1 AAGCCTTGTCTCCCTGAGCAACAGCGGAGTAGGTTGAA-GATTGTAGATCTTATCTCCCTAAGCA
* * * * * * * *
39107213 GTAGTGGCGTAGATCGATGATGGCAACTTTTATCTTTCCAAGATAGTGGGAAGTAGA-TTAAGCA
65 GTAGTGGAGCAGATCCAAGA-CGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCA
39107277 ACC
129 ACC
* * *
39107280 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTATAGATCTTATCTCCCTAAGTAG
1 AAGCCTTGTCTCCCTGAGCAACAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
*
39107345 TAGTGGAGCAGATCCAAGACCGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAGATCCAAGA-CGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCAA
39107410 CC
130 CC
*
39107412 AAGCCTTGTCTCCCTGAGCAACAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAACAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
*
39107477 TAGTGGAGCAGATCCAAGACGACAAATCTTATCTTTTCAAGATAGTGGG
66 TAGTGGAGCAGATCCAAGACG-CAAATCTTATCTTTCCAAGATAGTGGG
39107526 NNNNNNNNNN
Statistics
Matches: 223, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
131 106 0.48
132 117 0.52
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (131 bp):
AAGCCTTGTCTCCCTGAGCAACAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCCAAGACGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCAAC
C
Found at i:39107919 original size:19 final size:19
Alignment explanation
Indices: 39107891--39107954 Score: 92
Period size: 19 Copynumber: 3.3 Consensus size: 19
39107881 AATTTTCGAG
* *
39107891 GATATACAATCTTTGATAT
1 GATATGCAATCTTAGATAT
39107910 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
39107929 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
39107950 GATAT
1 GATAT
39107955 ATACAATCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 22 0.54
21 19 0.46
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:39107937 original size:21 final size:21
Alignment explanation
Indices: 39107892--39107965 Score: 107
Period size: 21 Copynumber: 3.6 Consensus size: 21
39107882 ATTTTCGAGG
*
39107892 ATATACAATCTTTGATATG--
1 ATATACAATCTTAGATATGAT
*
39107911 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
39107932 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
39107953 ATATACAATCTTA
1 ATATACAATCTTA
39107966 AAAGATATGA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
19 17 0.34
21 33 0.66
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:39107973 original size:40 final size:40
Alignment explanation
Indices: 39107892--39107973 Score: 96
Period size: 40 Copynumber: 2.0 Consensus size: 40
39107882 ATTTTCGAGG
* * *
39107892 ATATACAATCTTTGATATGATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGATATACAATCTTAGATAAGAT
*
39107932 ATATGCAATCTTAGATATGATATATACAATCTTA-A-AAGAT
1 ATATACAATCTTAGATATG--ATATACAATCTTAGATAAGAT
39107972 AT
1 AT
39107974 GATTTTGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
40 23 0.64
41 1 0.03
42 12 0.33
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (40 bp):
ATATACAATCTTAGATATGATATACAATCTTAGATAAGAT
Found at i:39108574 original size:21 final size:21
Alignment explanation
Indices: 39108549--39108589 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
39108539 TTTTAAAAAA
*
39108549 ATATATGTATATATATTTTTC
1 ATATATGCATATATATTTTTC
*
39108570 ATATATGCATATTTATTTTT
1 ATATATGCATATATATTTTT
39108590 TGTAGTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (21 bp):
ATATATGCATATATATTTTTC
Found at i:39109872 original size:26 final size:27
Alignment explanation
Indices: 39109810--39109874 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
39109800 CGGTTTCGAC
*
39109810 AATGACCGTAATACCTCTGTAAGGAAA
1 AATGACCGTAATACCCCTGTAAGGAAA
* * *
39109837 AATGTCCGTAATACCCCTGT-GGGATA
1 AATGACCGTAATACCCCTGTAAGGAAA
39109863 AATGACCGTAAT
1 AATGACCGTAAT
39109875 TCCCTGATGG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
26 15 0.45
27 18 0.55
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
AATGACCGTAATACCCCTGTAAGGAAA
Found at i:39111531 original size:6 final size:6
Alignment explanation
Indices: 39111520--39111544 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
39111510 GCATTTATGT
39111520 AAAGGA AAAGGA AAAGGA AAAGGA A
1 AAAGGA AAAGGA AAAGGA AAAGGA A
39111545 TGGTTTCGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (6 bp):
AAAGGA
Found at i:39114534 original size:18 final size:18
Alignment explanation
Indices: 39114474--39114534 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
39114464 TTAAAATTTA
* * *
39114474 AAAATTATTAAAAGATCAT
1 AAAATT-TTAAAAAATAAC
*
39114493 AAAATTTATAAAAAA-AAG
1 AAAATTT-TAAAAAATAAC
*
39114511 ATAATTTTAAAAAATAAC
1 AAAATTTTAAAAAATAAC
39114529 AAAATT
1 AAAATT
39114535 GACCCAATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
17 7 0.21
18 15 0.44
19 12 0.35
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (18 bp):
AAAATTTTAAAAAATAAC
Found at i:39125414 original size:12 final size:12
Alignment explanation
Indices: 39125399--39125480 Score: 51
Period size: 12 Copynumber: 6.5 Consensus size: 12
39125389 CTTTTTCTTT
39125399 TTTTCTTTTTCA
1 TTTTCTTTTTCA
* *
39125411 TTTTCCTTTTAA
1 TTTTCTTTTTCA
*
39125423 ATTTCTTTTTC-
1 TTTTCTTTTTCA
*
39125434 TCTTTCTCTTT-A
1 T-TTTCTTTTTCA
*
39125446 TTTTTCTCCTCTCTCA
1 -TTTTCT--T-TTTCA
39125462 TTTTCCTTTTTCA
1 TTTT-CTTTTTCA
39125475 TTTTCT
1 TTTTCT
39125481 CTCTCTCTCT
Statistics
Matches: 52, Mismatches: 10, Indels: 16
0.67 0.13 0.21
Matches are distributed among these distances:
12 33 0.63
13 9 0.17
14 1 0.02
15 6 0.12
16 3 0.06
ACGTcount: A:0.09, C:0.23, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTCTTTTTCA
Found at i:39125431 original size:38 final size:38
Alignment explanation
Indices: 39125347--39125444 Score: 99
Period size: 38 Copynumber: 2.6 Consensus size: 38
39125337 GTTTCTTGCC
* *
39125347 TCTCTTTTTTTTCTTTTTCTTTCTCACTTTCTGTTTCAA
1 TCTCTTTTTCTT-TTTTTCTTTCTCACTTTCTGTTTAAA
* * *
39125386 TCCCTTTTTCTTTTTTTCTTTTTCATTTTCCT-TTTAAA
1 TCTCTTTTTCTTTTTTTCTTTCTCACTTT-CTGTTTAAA
* * *
39125424 TTTCTTTTTCTCTTTCTCTTT
1 TCTCTTTTTCTTTTTTTCTTT
39125445 ATTTTTCTCC
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
38 37 0.76
39 12 0.24
ACGTcount: A:0.07, C:0.22, G:0.01, T:0.69
Consensus pattern (38 bp):
TCTCTTTTTCTTTTTTTCTTTCTCACTTTCTGTTTAAA
Found at i:39125451 original size:24 final size:24
Alignment explanation
Indices: 39125398--39125471 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
39125388 CCTTTTTCTT
39125398 TTTTTCTTTTTCATTTTCCTTTTA
1 TTTTTCTTTTTCATTTTCCTTTTA
**
39125422 AATTTCTTTTTC-TCTTT-CTCTTTA
1 TTTTTCTTTTTCAT-TTTCCT-TTTA
*
39125446 TTTTTCTCCTCTCTCATTTTCCTTTT
1 TTTTTCT--T-TTTCATTTTCCTTTT
39125472 TCATTTTCTC
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
23 3 0.08
24 22 0.58
26 1 0.03
27 9 0.24
28 3 0.08
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTTCTTTTTCATTTTCCTTTTA
Found at i:39126415 original size:16 final size:15
Alignment explanation
Indices: 39126364--39126423 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 15
39126354 CTCACAATAT
*
39126364 TTTTTTTCACTTCAAA
1 TTTTTTTCACTT-TAA
39126380 TTTTTTTCAACTCTT-A
1 TTTTTTTC-ACT-TTAA
39126396 -TTTTTTCACTTTGAA
1 TTTTTTTCACTTT-AA
*
39126411 TTTTTTTAACTTT
1 TTTTTTTCACTTT
39126424 TTTAATAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 2 0.05
14 3 0.08
15 8 0.22
16 20 0.54
17 3 0.08
18 1 0.03
ACGTcount: A:0.20, C:0.15, G:0.02, T:0.63
Consensus pattern (15 bp):
TTTTTTTCACTTTAA
Found at i:39129286 original size:3 final size:3
Alignment explanation
Indices: 39129278--39129335 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
39129268 GGTAATTCAT
39129278 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
39129326 TTA TTA TTA T
1 TTA TTA TTA T
39129336 ATGAGAGTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:39129441 original size:10 final size:10
Alignment explanation
Indices: 39129428--39129498 Score: 57
Period size: 10 Copynumber: 7.5 Consensus size: 10
39129418 ATAAAAAAAT
39129428 TAAAAATTTA
1 TAAAAATTTA
39129438 TAAATAA-TTA
1 TAAA-AATTTA
*
39129448 TAAAAATAT-
1 TAAAAATTTA
39129457 TAAAAA--TA
1 TAAAAATTTA
39129465 TAAAAA-TTA
1 TAAAAATTTA
39129474 TAGAAAATTT-
1 TA-AAAATTTA
39129484 T-AAAATGTTA
1 TAAAAAT-TTA
39129494 TAAAA
1 TAAAA
39129499 GTTTTTTTAA
Statistics
Matches: 51, Mismatches: 1, Indels: 17
0.74 0.01 0.25
Matches are distributed among these distances:
7 1 0.02
8 11 0.22
9 14 0.27
10 18 0.35
11 7 0.14
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (10 bp):
TAAAAATTTA
Found at i:39129450 original size:29 final size:28
Alignment explanation
Indices: 39129407--39129498 Score: 98
Period size: 29 Copynumber: 3.3 Consensus size: 28
39129397 TGAACATAGA
* *
39129407 TTATGAAAATCATAAAAAAATTAAAAAT
1 TTATAAAAATTATAAAAAAATTAAAAAT
*
39129435 TTATAAATAATTATAAAAATATTAAAAA-
1 TTATAAA-AATTATAAAAAAATTAAAAAT
* * *
39129463 -TATAAAAATTATAGAAAATTTTAAAAT
1 TTATAAAAATTATAAAAAAATTAAAAAT
39129490 GTTATAAAA
1 -TTATAAAA
39129499 GTTTTTTTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
26 16 0.30
27 6 0.11
28 6 0.11
29 25 0.47
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (28 bp):
TTATAAAAATTATAAAAAAATTAAAAAT
Found at i:39129480 original size:18 final size:17
Alignment explanation
Indices: 39129412--39129481 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 17
39129402 ATAGATTATG
* *
39129412 AAAATCATAAAAAAATTA
1 AAAATTATAAAAATA-TA
39129430 AAAATTTATAAATAATTATA
1 AAAA-TTATAAA-AA-TATA
39129450 AAAA-TATTAAAAATATA
1 AAAATTA-TAAAAATATA
39129467 AAAATTATAGAAAAT
1 AAAATTATA-AAAAT
39129482 TTTAAAATGT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
17 10 0.23
18 15 0.34
19 10 0.23
20 8 0.18
21 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (17 bp):
AAAATTATAAAAATATA
Found at i:39133426 original size:23 final size:22
Alignment explanation
Indices: 39133396--39133438 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
39133386 ATTAAATCTC
39133396 TAAGATTACAAAATCATATCTTG
1 TAAGATTAC-AAATCATATCTTG
*
39133419 TAAGATTACATATCATATCT
1 TAAGATTACAAATCATATCT
39133439 AAGATTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (22 bp):
TAAGATTACAAATCATATCTTG
Found at i:39133443 original size:19 final size:19
Alignment explanation
Indices: 39133394--39133491 Score: 106
Period size: 19 Copynumber: 4.8 Consensus size: 19
39133384 AAATTAAATC
*
39133394 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
39133414 TCTTGTAAGATTACATATCATA
1 TC---TAAGATTACATATCATA
*
39133436 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
39133457 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
39133476 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
39133492 TTCGAAGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
19 31 0.45
20 2 0.03
21 18 0.26
22 9 0.13
23 9 0.13
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:39133454 original size:21 final size:21
Alignment explanation
Indices: 39133428--39133490 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
39133418 GTAAGATTAC
39133428 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
39133449 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
39133468 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
39133489 AT
1 AT
39133491 CTTCGAAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.47
21 21 0.52
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:39134200 original size:173 final size:173
Alignment explanation
Indices: 39134019--39134476 Score: 612
Period size: 173 Copynumber: 2.6 Consensus size: 173
39134009 TTAGTATGCC
39134019 CCACTGCAACTTCAGCG-AGATAAGA-T-TCGCCATCTTCAA-TCTGC-CTCACTACAACTTCA-
1 CCACTGCAACTTCAG-GAAGATAAGATTATCGCC-T-TT-AACT-TGCTC-CACTACAACTTCAG
**
39134078 GGAGGATAAGACTTGATTA-CTT-AGTCTG-CTCCACTGCAACTTTAGGAAGATAAGACTAGATG
60 GGA-GATAAGA-TTGACCATCTTCAGTCTGCCT-CACTGCAACTTTAGGAAGATAAGACTAGATG
*
39134140 CGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGATTTTAATCCACT
122 CGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCACT
* * *
39134192 CCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACTTGCTCCACTGCAACTTCAGGGAGAT
1 CCACTGCAACTTCAGGAAGATAAGATTATCGCCTTTAACTTGCTCCACTACAACTTCAGGGAGAT
* * *
39134257 AAGATTTACCATCTTCAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTGATGCGATCTGCT
66 AAGATTGACCATCTTCAGTCTGCCTCACTGCAACTTTAGGAAGATAAGACTAGATGCGATCTGCT
*
39134322 CTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACT
131 CTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCACT
* * * *
39134365 CCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGAT
1 CCACTGCAACTTCAGGAAGATAAGATTATCGCCTTTAACTTGCTCCACTACAACTTCAGGGAGAT
* *
39134430 AAGATTTG-CCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAA
66 AAGA-TTGACCATCTTCAGTCTGCCTCACTGCAACTTTAGGAAGATAA
39134477 AACTTGCTTG
Statistics
Matches: 262, Mismatches: 13, Indels: 20
0.89 0.04 0.07
Matches are distributed among these distances:
171 4 0.02
172 28 0.11
173 220 0.84
174 6 0.02
175 4 0.02
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (173 bp):
CCACTGCAACTTCAGGAAGATAAGATTATCGCCTTTAACTTGCTCCACTACAACTTCAGGGAGAT
AAGATTGACCATCTTCAGTCTGCCTCACTGCAACTTTAGGAAGATAAGACTAGATGCGATCTGCT
CTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCACT
Found at i:39134258 original size:217 final size:218
Alignment explanation
Indices: 39133882--39134311 Score: 614
Period size: 217 Copynumber: 2.0 Consensus size: 218
39133872 TACTTTTTTG
* * * * *
39133882 AGTCTGCTCCACTGCAACTTTGGGGAGATAAGACTCGATGTGATCTACTCTACTGCAACTTTAGA
1 AGTCTGCTCCACTGCAACTTTAGGAAGATAAGACTAGATGCGATCTACTCTACTGCAACTTCAGA
** * * * ** *
39133947 GAGATAAGATCTGTGGTTTTAATTCACTCCACTGCAACTTCAGGGAGACAGGATTTGTTTATTTA
66 GAGATAAGATCTAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGACAGGATTTGGCTATTAA
* *
39134012 GTATGCCCCACTGCAACTTCAGCGAGATAAGATTCGCCATCTTCAATCTGCCTCACTACAACTTC
131 CTATGCCCCACTGCAACTTCAGCGAGATAAGATTCACCATCTTCAATCTGCCTCACTACAACTTC
39134077 AGGAGGATAAGACTTGATTACTT
196 AGGAGGATAAGACTTGATTACTT
*
39134100 AGTCTGCTCCACTGCAACTTTAGGAAGATAAGACTAGATGCGATCTGCTCT-CTGCAACTTCAGA
1 AGTCTGCTCCACTGCAACTTTAGGAAGATAAGACTAGATGCGATCTACTCTACTGCAACTTCAGA
*
39134164 GAGATAAGATCTAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCT-TT
66 GAGATAAGATCTAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGACAGGATT-T-GGCTATT
* * * * *
39134228 AACT-TGCTCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTCAGTCTGCCTCACTGCAACT
129 AACTATGCCCCACTGCAACTTCAGCGAGATAAGATTCACCATCTTCAATCTGCCTCACTACAACT
*
39134292 TTAGGAGGATAAGACTTGAT
194 TCAGGAGGATAAGACTTGAT
39134312 GCGATCTGCT
Statistics
Matches: 187, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
217 134 0.72
218 51 0.27
219 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (218 bp):
AGTCTGCTCCACTGCAACTTTAGGAAGATAAGACTAGATGCGATCTACTCTACTGCAACTTCAGA
GAGATAAGATCTAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGACAGGATTTGGCTATTAA
CTATGCCCCACTGCAACTTCAGCGAGATAAGATTCACCATCTTCAATCTGCCTCACTACAACTTC
AGGAGGATAAGACTTGATTACTT
Found at i:39134374 original size:217 final size:215
Alignment explanation
Indices: 39133928--39134695 Score: 666
Period size: 217 Copynumber: 3.5 Consensus size: 215
39133918 GATGTGATCT
* * ** *
39133928 ACTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTAATTCACTCCACTGCAACTTCAGGGA
1 ACTCCACTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGA
* ** * * * *
39133993 GACAGGATTTGTTTATTTAGTATGCCCCACTGCAACTTCAGCGAGATAAGATTCGCCATCTTCAA
66 GATAGGATTTGCCTATTAAGTATG-CCCACTGCAACTTCAGGGAGATAAGATT-TCCATCTTCAG
* * * *
39134058 TCTGCCTCACTACAACTTCAGGAGGATAAGACTTGATTACTTAGTCTGCTCCACTGCAACTTTAG
129 TCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGA-TGC-GA-TCTGCT-CTCTGCAACTTTAG
* * *** *
39134123 -GAAGATAAGA--CTA-GATGCGATCT
190 AG-AGATAAGATCCAAGGTTTTAATCC
* * * *
39134146 GCT-CTCTGCAACTTCAGAGAGATAAGATCTAAGATTTTAATCCACTCCACTGCAACTTCAGGAA
1 ACTCCACTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGA
* *
39134210 GATAGGATTATCGGCT-TTAACT-TGCTCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTC
66 GATAGGATT-T-GCCTATTAAGTATGC-CCACTGCAACTTCAGGGAGATAAGATTT-CCATCTTC
* *
39134273 AGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAG
127 AGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTTAGAG
39134338 AGATAAGATCCAAGGTTTTAATCC
192 AGATAAGATCCAAGGTTTTAATCC
* * * *
39134362 ACTCCACTGCAACTTCAG-GAAGATAGGAT-TATCGGCTTTAA-CCTGCTCCACTGCAACTTCAG
1 ACTCCACTGCAACTTCAGAG-AGATAAGATCTA-AGGTTTTAATCC-ACTCCACTGCAACTTCAG
* * * * * * * *
39134424 GGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCA-GGAGGATAAAACTTGCTTGC
63 GGAGATAGGATTTGCC-TATTAAGTATGCC-CACTGCAACTTCAGGGA-GATAAGATTTCCAT-C
* * *
39134488 TT-AGTCTG-CTCCATTGTAACTTCAGG-GAGATAAGACTAGATGCGATCTGCTCTCTGCAACTT
124 TTCAGTCTGCCT-CACTGCAACTTCAGGAG-GATAAGACTTGATGCGATCTGCTCTCTGCAACTT
*** *
39134550 TAGAGAGATAAGATCTGTGATTTTAATCC
187 TAGAGAGATAAGATCCAAGGTTTTAATCC
* * * ** * ** *
39134579 GCTCCACTGCAACTTCAGGGAGATAGGAT-TGTCGGCTTTAATCTGCTCCACTGCAACCTCAGGG
1 ACTCCACTGCAACTTCAGAGAGATAAGATCT-AAGGTTTTAATCCACTCCACTGCAACTTCAGGG
* * * *
39134643 AGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGGAGATAAGA
65 AGATAGGATTTGCC-TATTAAGTATGCC-CACTGCAACTTCAGGGAGATAAGA
39134696 CTAGATACGA
Statistics
Matches: 467, Mismatches: 59, Indels: 49
0.81 0.10 0.09
Matches are distributed among these distances:
213 20 0.04
214 7 0.01
215 5 0.01
216 20 0.04
217 374 0.80
218 39 0.08
219 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (215 bp):
ACTCCACTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGA
GATAGGATTTGCCTATTAAGTATGCCCACTGCAACTTCAGGGAGATAAGATTTCCATCTTCAGTC
TGCCTCACTGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTTAGAGAGAT
AAGATCCAAGGTTTTAATCC
Found at i:39134377 original size:390 final size:390
Alignment explanation
Indices: 39133882--39134776 Score: 1314
Period size: 390 Copynumber: 2.3 Consensus size: 390
39133872 TACTTTTTTG
* * * * *
39133882 AGTCTG-CTCCACTGCAACTTTGGGGAGATAAGACTCGATGTGATCTACTCTACTGCAACTTTAG
1 AGTCTGCCT-CACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCT-CTGCAACTTCAG
** * *
39133946 AGAGATAAGATCTGTGGTTTTAATTCACTCCACTGCAACTTCAGGGAGACAGGATT-T-GTTTAT
64 AGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGAGACAGGATTATCG--GAT
**
39134009 TTAGTATGCCCCACTGCAACTTCAGCGAGATAAGATTCGCCATCTTCAATCTGCCTCACTACAAC
127 TTAACATGCCCCACTGCAACTTCAGCGAGATAAGATTCGCCATCTTCAATCTGCCTCACTACAAC
* *
39134074 TTCAGGAGGATAAGACTTGATTACTTAGTCTGCTCCACTGCAACTTTAGGAAGATAAGACTAGAT
192 TTCAGGAGGATAAAACTTGATTACTTAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGAT
39134139 GCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGATTTTAATCCACTCCACTGCAACTT
257 GCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGATTTTAATCCACTCCACTGCAACTT
*
39134204 CAGGAAGATAGGATTATCGGCTTTAA-CTTGCTCCACTGCAACTTCAGGGAGATAAGATTTACCA
322 CAGGAAGATAGGATTATCGGCTTTAATC-TGCTCCACTGCAACCTCAGGGAGATAAGATTTACCA
39134268 TCTTC
386 TCTTC
*
39134273 AGTCTGCCTCACTGCAACTTTA-GGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGA
1 AGTCTGCCTCACTGCAACTTTAGGGA-GATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGA
* * * *
39134337 GAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTA
65 GAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGAGACAGGATTATCGGATTTA
* * * * * *
39134402 ACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTC
130 ACATGCCCCACTGCAACTTCAGCGAGATAAGATTCGCCATCTTCAATCTGCCTCACTACAACTTC
* * * * *
39134467 AGGAGGATAAAACTTGCTTGCTTAGTCTGCTCCATTGTAACTTCAGGGAGATAAGACTAGATGCG
195 AGGAGGATAAAACTTGATTACTTAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGATGCG
* ** *
39134532 ATCTGCTCTCTGCAACTTTAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAG
260 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGATTTTAATCCACTCCACTGCAACTTCAG
* * *
39134597 GGAGATAGGATTGTCGGCTTTAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTT
325 GAAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTACCATCTT
39134662 C
390 C
* *
39134663 AGTCTGCCTCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTGCTCTCTGCAACTTCAGAG
1 AGTCTGCCTCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
* ** *
39134728 AGATAAGATCTAAAGTTTTAATCTGCTCCACTGCAACTTCAGAGAGACA
66 AGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGAGACA
39134777 AGGCTTGGTG
Statistics
Matches: 452, Mismatches: 46, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
390 404 0.89
391 45 0.10
392 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (390 bp):
AGTCTGCCTCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
AGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGAGACAGGATTATCGGATTTAA
CATGCCCCACTGCAACTTCAGCGAGATAAGATTCGCCATCTTCAATCTGCCTCACTACAACTTCA
GGAGGATAAAACTTGATTACTTAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGATGCGA
TCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGATTTTAATCCACTCCACTGCAACTTCAGG
AAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTACCATCTTC
Found at i:39134547 original size:173 final size:174
Alignment explanation
Indices: 39134195--39134774 Score: 591
Period size: 173 Copynumber: 3.4 Consensus size: 174
39134185 ATCCACTCCA
* *
39134195 CTGCAACTTCAG-GAAGATAGGAT-TATCGGCTTTAACTTGCTCCACTGCAACTTCAGGGAGATA
1 CTGCAACTTCAGAG-AGATAAGATCTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATA
* * *
39134258 AGATTTACCATCTTCAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTG-ATGC-GA-TCTG
65 AGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCATGCTTAGTCTG
* * * *** ** *
39134320 CT-C-TCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCA
130 CTCCAT-TGCAACTTCAGGGAGATAAGA--CTA-GATACGATCTGCT-CT
*
39134368 CTGCAACTTCAG-GAAGATAGGAT-TATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATA
1 CTGCAACTTCAGAG-AGATAAGATCTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATA
* *
39134431 AGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAAACTTGCTTGCTTAGTCTG
65 AGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCATGCTTAGTCTG
* *
39134496 CTCCATTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
130 CTCCATTGCAACTTCAGGGAGATAAGACTAGATACGATCTGCTCT
* * **
39134541 CTGCAACTTTAGAGAGATAAGATCTGT-GATTTTAATCC-GCTCCACTGCAACTTCAGGGAGATA
1 CTGCAACTTCAGAGAGATAAGATCTATCGGCTTTAA-CCTGCTCCACTGCAACTTCAGGGAGATA
* * ** * * * *
39134604 GGA-TTGTCGGCTTTAATCTG-CTCCACTGCAACCTCAGG-GAGATAAGATTTGCCAT-CTTCAG
65 AGATTTGCCATCTTCAGTCTGCCT-CACTGCAACTTCAGGAG-GATAAGACTTG-CATGCTT-AG
*
39134665 TCTGC-CTCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTGCTCT
126 TCTGCTC-CATTGCAACTTCAGGGAGATAAGACTAGATACGATCTGCTCT
** * * *
39134714 CTGCAACTTCAGAGAGATAAGATCTA-AAGTTTTAATCTGCTCCACTGCAACTTCAGAGAGA
1 CTGCAACTTCAGAGAGATAAGATCTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGA
39134775 CAAGGCTTGG
Statistics
Matches: 352, Mismatches: 40, Indels: 30
0.83 0.09 0.07
Matches are distributed among these distances:
171 3 0.01
172 40 0.11
173 264 0.75
174 15 0.04
175 3 0.01
176 6 0.02
177 20 0.06
178 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (174 bp):
CTGCAACTTCAGAGAGATAAGATCTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAA
GATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCATGCTTAGTCTGC
TCCATTGCAACTTCAGGGAGATAAGACTAGATACGATCTGCTCT
Found at i:39134721 original size:40 final size:40
Alignment explanation
Indices: 39134020--39134774 Score: 285
Period size: 44 Copynumber: 17.5 Consensus size: 40
39134010 TAGTATGCCC
* * *
39134020 CACTGCAACTTCAGCGAGATAAGATTCGCCATCTTCAATCTGCCT
1 CACTGCAACTTCAGGGAGATAAGACTAG--A--TTCAATCTG-CT
* * *
39134065 CACTACAACTTCA-GGAGGATAAGACTTGATTACTTAGTCTGCT
1 CACTGCAACTTCAGGGA-GATAAGACTAGATT-C--AATCTGCT
* * * *
39134108 CCACTGCAACTTTAGGAAGATAAGACTAGATGCGATCTGCT
1 -CACTGCAACTTCAGGGAGATAAGACTAGATTCAATCTGCT
* * * **
39134149 CTCTGCAACTTCAGAGAGATAAGATCTAAGATTTTAATCCACT
1 CACTGCAACTTCAGGGAGATAAGA-CT-AGA-TTCAATCTGCT
* * * * *
39134192 CCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAA-CTTGCT
1 -CACTGCAACTTCAGGGAGATAAGACTA---GATTCAATC-TGCT
* * *
39134236 CCACTGCAACTTCAGGGAGATAAGATTTACCATCTTCAGTCTGCCT
1 -CACTGCAACTTCAGGGAGATAAGA-CTA-GA--TTCAATCTG-CT
* * * *
39134282 CACTGCAACTTTA-GGAGGATAAGACTTGATGCGATCTGCT
1 CACTGCAACTTCAGGGA-GATAAGACTAGATTCAATCTGCT
* * * * * **
39134322 CTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACT
1 CACTGCAACTTCAGGGAGATAAGA--CTA-GATTCAATCTGCT
* * * * * *
39134365 CCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCT
1 -CACTGCAACTTCAGGGAGATAAGACTA---GATTCAATCTGCT
* * *
39134409 CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
1 -CACTGCAACTTCAGGGAGATAAGACTAG--A--TTCAATCTG-CT
* * * *
39134455 CACTGCAACTTCA-GGAGGATAAAACTTGCTTGCTTAGTCTGCT
1 CACTGCAACTTCAGGGA-GATAAGACTAGATT-C--AATCTGCT
* * * *
39134498 CCATTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCT
1 -CACTGCAACTTCAGGGAGATAAGACTAGATTCAATCTGCT
* * * * * *
39134539 CTCTGCAACTTTAGAGAGATAAGATCTGTGATTTTAATCCGCT
1 CACTGCAACTTCAGGGAGATAAGA-CT-AGA-TTCAATCTGCT
* * * * *
39134582 CCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCT
1 -CACTGCAACTTCAGGGAGATAAGA--CT-AGATTCAATCTGCT
* * * *
39134626 CCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
1 -CACTGCAACTTCAGGGAGATAAGACTAG--A--TTCAATCTG-CT
* *
39134672 CACTGCAACTTCAGGGAGATAAGACTAGATACGATCTGCT
1 CACTGCAACTTCAGGGAGATAAGACTAGATTCAATCTGCT
* * * *
39134712 CTCTGCAACTTCAGAGAGATAAGATCTAAAGTTTTAATCTGCT
1 CACTGCAACTTCAGGGAGATAAGA-CT--AGATTCAATCTGCT
*
39134755 CCACTGCAACTTCAGAGAGA
1 -CACTGCAACTTCAGGGAGA
39134775 CAAGGCTTGG
Statistics
Matches: 537, Mismatches: 121, Indels: 105
0.70 0.16 0.14
Matches are distributed among these distances:
40 83 0.15
41 38 0.07
42 11 0.02
43 41 0.08
44 240 0.45
45 117 0.22
46 7 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (40 bp):
CACTGCAACTTCAGGGAGATAAGACTAGATTCAATCTGCT
Found at i:39134764 original size:217 final size:216
Alignment explanation
Indices: 39134285--39134774 Score: 641
Period size: 217 Copynumber: 2.3 Consensus size: 216
39134275 TCTGCCTCAC
* * *
39134285 TGCAACTTTAG-GAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCC
1 TGCAACTTCAGAGA-GATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAGATCC
*
39134349 AAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACT
65 AAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACT
*
39134414 GCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAAA
130 GCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAAA
* * * *
39134479 CTTGCTTGCTTAGTCTGCTCCA
195 CTAGCATACTGAGTCTGCTCCA
* * * * *
39134501 TTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTTAGAGAGATAAGATCT
1 -TGCAACTTCAGAGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAGATCC
** * * * *
39134566 GTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACT
65 AAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACT
*
39134631 GCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGG-GAGATAAG
130 GCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAG-GATAAA
39134695 ACTAG-ATAC-GA-TCTGCTCTC-
194 ACTAGCATACTGAGTCTGCTC-CA
* ** *
39134715 TGCAACTTCAGAGAGATAAGATCTAAAGTTTTAATCTGCTCCACTGCAACTTCAGAGAGA
1 TGCAACTTCAGAGAGATAAGA-CT--AGATGCAATCTGCT-CTCTGCAACTTCAGAGAGA
39134775 CAAGGCTTGG
Statistics
Matches: 240, Mismatches: 26, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
213 19 0.08
214 9 0.04
215 2 0.01
216 13 0.05
217 195 0.81
218 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (216 bp):
TGCAACTTCAGAGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCA
AGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTG
CAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAAAC
TAGCATACTGAGTCTGCTCCA
Found at i:39134940 original size:132 final size:132
Alignment explanation
Indices: 39134727--39135178 Score: 665
Period size: 132 Copynumber: 3.4 Consensus size: 132
39134717 CAACTTCAGA
* * * ** *
39134727 GAGATAAGATCTA-AAGT-TTTAATCTGCTCCACTGCAACTTCAGAGAGACAAGGCTTGGTGGCT
1 GAGATAAGATCTACAA-TCTTCAACCTACTCCACTGCTGC-TCAGGGAGACAAGGCTTGGTGGCT
* * * *
39134790 TAAATCTGCTTCCCACTATCTTGGAAAGATATGATTTGTCGTTTTCGATCTGCTCCACTGCTGCT
64 TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCT
39134855 TAGG
129 TAGG
*
39134859 GAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTA
1 GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTA
* *
39134924 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCAATCTTCTCCACTACTGCTTA
66 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTA
39134989 GG
131 GG
* * *
39134991 GAGATAAGATCTACAATCTTCAACCTACTCTACTGCTGCTCAAGGAGACAAAGCTTGGTGGCTTA
1 GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTA
* * *
39135056 AATCTGCTTCCCACTATCTTGGAAAGAGAAGATTTGCCGTCCTCGATCTACTCCACTACTGCTTA
66 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTA
39135121 GG
131 GG
* * * *
39135123 GAGATAAGATCTACGATCCTCAACCTACTCCACTGTTGCTCAGGGAGACAATGCTT
1 GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTT
39135179 AGTGTTTCAC
Statistics
Matches: 291, Mismatches: 27, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
132 274 0.94
133 17 0.06
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (132 bp):
GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTA
AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTA
GG
Found at i:39134996 original size:44 final size:44
Alignment explanation
Indices: 39134816--39135132 Score: 123
Period size: 44 Copynumber: 7.2 Consensus size: 44
39134806 TATCTTGGAA
* * * *
39134816 AGATATGATTTGTCGTTTTCGATCTGCTCCACTGCTGCTTAGGG
1 AGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * * *
39134860 AGATAAGATCT-ACAATCTTCAACCTACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGTC-GTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * *
39134904 AGACAAGGCTTGGT-GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTTGTCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
*
39134948 AGATAAGATTTGTCGTCTTCAATCTTCTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * * * *
39134992 AGATAAGATCT-ACAATCTTCAACCTACTCTACTGCTGCTCAAGG
1 AGATAAGATTTGTC-GTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * *
39135036 AGACAAAGCTTGGT-GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGA-TAAGATTTGTCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* * * * *
39135080 AGAGAAGATTTGCCGTCCTCGATCTACTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
39135124 AGATAAGAT
1 AGATAAGAT
39135133 CTACGATCCT
Statistics
Matches: 187, Mismatches: 66, Indels: 40
0.64 0.23 0.14
Matches are distributed among these distances:
42 12 0.06
43 20 0.11
44 133 0.71
45 14 0.07
46 8 0.04
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
AGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:39139880 original size:154 final size:154
Alignment explanation
Indices: 39139600--39139906 Score: 596
Period size: 154 Copynumber: 2.0 Consensus size: 154
39139590 AATGTCATGT
*
39139600 CGTGCAATCAAAATAAAACACAAAAAGTCAGTATCATAAAATATAATCAAGAAATAGTAAAATAG
1 CGTGCAATCAAAATAAAACACAAAAAGTCAGTATCATAAAATATAATCAAGAAATAGTAAAACAG
*
39139665 CTAATCGGATATCTACTAGGGTTCAGTATAGTTCTACCTAAGGTGGATTCCTAAGGTTCATTATA
66 CTAATCGGATATCTACTAGGGTTCAATATAGTTCTACCTAAGGTGGATTCCTAAGGTTCATTATA
39139730 TGAGGTTTGGCTTCTAGAGCAAGG
131 TGAGGTTTGGCTTCTAGAGCAAGG
39139754 CGTGCAATCAAAATAAAACACAAAAAGTCAGTATCATAAAATATAATCAAGAAATAGTAAAACAG
1 CGTGCAATCAAAATAAAACACAAAAAGTCAGTATCATAAAATATAATCAAGAAATAGTAAAACAG
39139819 CTAATCGGATATCTACTAGGGTTCAATATAGTTCTACCTAAGGTGGATTCCTAAGGTTCATTATA
66 CTAATCGGATATCTACTAGGGTTCAATATAGTTCTACCTAAGGTGGATTCCTAAGGTTCATTATA
39139884 TGAGGTTTGGCTTCTAGAGCAAG
131 TGAGGTTTGGCTTCTAGAGCAAG
39139907 AGTACCTGAA
Statistics
Matches: 151, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
154 151 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (154 bp):
CGTGCAATCAAAATAAAACACAAAAAGTCAGTATCATAAAATATAATCAAGAAATAGTAAAACAG
CTAATCGGATATCTACTAGGGTTCAATATAGTTCTACCTAAGGTGGATTCCTAAGGTTCATTATA
TGAGGTTTGGCTTCTAGAGCAAGG
Found at i:39141703 original size:25 final size:25
Alignment explanation
Indices: 39141652--39141712 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
39141642 AAAAGGATAT
* *
39141652 ATATATAAATATTAAATAATAATTAC
1 ATAT-TAAAAATTAAATAATAAGTAC
*
39141678 AATATTAAAAATTAAAT-ATACGTAC
1 -ATATTAAAAATTAAATAATAAGTAC
39141703 ATA-TAAAAAT
1 ATATTAAAAAT
39141713 ATTTGTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 7 0.23
24 3 0.10
25 6 0.19
26 11 0.35
27 4 0.13
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (25 bp):
ATATTAAAAATTAAATAATAAGTAC
Found at i:39142449 original size:19 final size:19
Alignment explanation
Indices: 39142417--39142470 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
39142407 AATCACATCT
*
39142417 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
39142436 TCTAATATTGCATATCATA
1 TCTAAGATTGCATATCATA
39142455 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
39142471 TTCGAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:39146271 original size:26 final size:26
Alignment explanation
Indices: 39146242--39146292 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
39146232 TTGTAGTAGC
*
39146242 TGGTTTGACCAACTAATTTTATTAAT
1 TGGTTTGACCAACTAATTCTATTAAT
**
39146268 TGGTTTGATTAACTAATTCTATTAA
1 TGGTTTGACCAACTAATTCTATTAA
39146293 CTTTTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (26 bp):
TGGTTTGACCAACTAATTCTATTAAT
Found at i:39147626 original size:10 final size:10
Alignment explanation
Indices: 39147589--39147637 Score: 53
Period size: 10 Copynumber: 4.6 Consensus size: 10
39147579 TGCAACACGC
39147589 GAAAACAACAA
1 GAAAA-AACAA
* *
39147600 GGACAAACAGA
1 GAAAAAACA-A
39147611 GCAAAAAACAA
1 G-AAAAAACAA
39147622 GAAAAAACAA
1 GAAAAAACAA
39147632 GAAAAA
1 GAAAAA
39147638 GAAACAGATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
10 19 0.59
11 7 0.22
12 6 0.19
ACGTcount: A:0.71, C:0.14, G:0.14, T:0.00
Consensus pattern (10 bp):
GAAAAAACAA
Found at i:39147629 original size:22 final size:20
Alignment explanation
Indices: 39147589--39147637 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 20
39147579 TGCAACACGC
* *
39147589 GAAAACAACAAGGACAAACAGA
1 GAAAA-AACAAGAAAAAACA-A
39147611 GCAAAAAACAAGAAAAAACAA
1 G-AAAAAACAAGAAAAAACAA
39147632 GAAAAA
1 GAAAAA
39147638 GAAACAGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 5 0.21
21 2 0.08
22 13 0.54
23 4 0.17
ACGTcount: A:0.71, C:0.14, G:0.14, T:0.00
Consensus pattern (20 bp):
GAAAAAACAAGAAAAAACAA
Found at i:39148490 original size:3 final size:3
Alignment explanation
Indices: 39148484--39148572 Score: 160
Period size: 3 Copynumber: 29.7 Consensus size: 3
39148474 TAATGTTACC
*
39148484 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
39148532 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
39148573 ATTTCCATTT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 82 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:39148690 original size:16 final size:17
Alignment explanation
Indices: 39148654--39148697 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
39148644 GTGCTTATAT
*
39148654 ATATATATATATATTTC
1 ATATATATATATATTTA
*
39148671 ATATATA-ATTTATTTA
1 ATATATATATATATTTA
39148687 ATATATATATA
1 ATATATATATA
39148698 AATACTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
ATATATATATATATTTA
Found at i:39149263 original size:112 final size:109
Alignment explanation
Indices: 39149068--39149278 Score: 341
Period size: 112 Copynumber: 1.9 Consensus size: 109
39149058 TTTCTAATTG
39149068 AGGCAATATTTAGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATATTTAGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
39149133 CATTCAACCAAATAGCTAAATATCCTTTCAAAAATTTTAAAATA
66 CATTCAACCAAATAGCTAAATATCCTTTCAAAAATTTTAAAATA
* * *
39149177 AGGCAATGTTTTGCGTTTGGGAAATTCGAGAGAACGTGCCCTATAAGGTGCTGGGTGTCGATTTT
1 AGGCAATATTTAGCGTTT-GGAAATTCGAGAAAACGTGCCC--TAAGGTGCTGGGTGTCGATTTT
* * *
39149242 TCTCGTTCAACCAAATGGCTAAATATCCTTTTAAAAA
63 TCTCATTCAACCAAATAGCTAAATATCCTTTCAAAAA
39149279 ATTCTCGTTC
Statistics
Matches: 93, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
109 16 0.17
110 21 0.23
112 56 0.60
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (109 bp):
AGGCAATATTTAGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
CATTCAACCAAATAGCTAAATATCCTTTCAAAAATTTTAAAATA
Found at i:39153312 original size:48 final size:48
Alignment explanation
Indices: 39153258--39153355 Score: 133
Period size: 48 Copynumber: 2.0 Consensus size: 48
39153248 ATCCGATTCG
** *
39153258 AAAAAAAGGAAAAGAAAAAGAGAAAAAAAATCAAAATCAAAATCAAAAT
1 AAAAAAACAAAAAGAAAAAGAG-AAAAAAATCAAAATCAAAATAAAAAT
** *
39153307 AAAAAAACAAAAAGAAAAAGAGAAATCAATCAAAGTCAAAATAAAAAT
1 AAAAAAACAAAAAGAAAAAGAGAAAAAAATCAAAATCAAAATAAAAAT
39153355 A
1 A
39153356 TGAAACGCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 23 0.53
49 20 0.47
ACGTcount: A:0.74, C:0.07, G:0.09, T:0.09
Consensus pattern (48 bp):
AAAAAAACAAAAAGAAAAAGAGAAAAAAATCAAAATCAAAATAAAAAT
Found at i:39153346 original size:42 final size:42
Alignment explanation
Indices: 39153267--39153353 Score: 115
Period size: 42 Copynumber: 2.0 Consensus size: 42
39153257 GAAAAAAAGG
*
39153267 AAAAGAAAAAGAGAAAAAAAATCAAAATCAAAATCAAAATAAA
1 AAAACAAAAAGAGAAAAAAAATC-AAATCAAAATCAAAATAAA
*
39153310 AAAACAAAAAGA-AAAAGAGAAATC-AATCAAAGTCAAAATAAA
1 AAAACAAAAAGAGAAAA-A-AAATCAAATCAAAATCAAAATAAA
39153352 AA
1 AA
39153354 TATGAAACGC
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
42 23 0.57
43 12 0.30
44 5 0.12
ACGTcount: A:0.75, C:0.08, G:0.08, T:0.09
Consensus pattern (42 bp):
AAAACAAAAAGAGAAAAAAAATCAAATCAAAATCAAAATAAA
Found at i:39153741 original size:20 final size:20
Alignment explanation
Indices: 39153713--39153756 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
39153703 GAAGTTCAAA
39153713 AAAAAGAAAGATG-AAAAATG
1 AAAAAGAAA-ATGAAAAAATG
*
39153733 AAAATGAAAATGAAAAAATG
1 AAAAAGAAAATGAAAAAATG
39153753 AAAA
1 AAAA
39153757 GTAAAATGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (20 bp):
AAAAAGAAAATGAAAAAATG
Found at i:39153762 original size:20 final size:19
Alignment explanation
Indices: 39153714--39153764 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
39153704 AAGTTCAAAA
39153714 AAAAG-AAAGATGAAAAATG
1 AAAAGTAAA-ATGAAAAATG
39153733 AAAA-TGAAAATGAAAAAATG
1 AAAAGT-AAAATG-AAAAATG
39153753 AAAAGTAAAATG
1 AAAAGTAAAATG
39153765 GAGAGGCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
19 7 0.25
20 20 0.71
21 1 0.04
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.14
Consensus pattern (19 bp):
AAAAGTAAAATGAAAAATG
Found at i:39155082 original size:43 final size:43
Alignment explanation
Indices: 39155035--39155600 Score: 160
Period size: 43 Copynumber: 13.2 Consensus size: 43
39155025 AGAAGCAGAT
*
39155035 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCAAAAACAAAGC
* * * * * * * *
39155078 CTTGCC-TCCAT-CGGTT-GCAGTGGAGCTGGTTAAAGAAGCAGA-T
1 CTTGCCTTCC-TGC-GTTAACAGCGAAGCAGATCAAA-AA-CAAAGC
*
39155121 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCAAAAACAAAGC
* * * * * * * * *
39155164 CTTACC-TCCAT-CGGTT-GCAGTGGAGCTGGTTAAAGAAGCAGA-T
1 CTTGCCTTCC-TGC-GTTAACAGCGAAGCAGATCAAA-AA-CAAAGC
*
39155207 TTTGCCTTCCTGCGTTAACAGCGAAGCAGATCAAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCAAAAACAAAGC
** * * * ** *
39155250 CTTGCC-TCCAT-CGGTT-GTAGTGGAGCTAG-TTAAAGAA-GTAGAT
1 CTTGCCTTCC-TGC-GTTAACAGCGAAGC-AGATCAAA-AACAAAG-C
* *
39155293 TTTGCATTCCTGCGTTAACAGCGAAGCAGATCAAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCAAAAACAAAGC
* * * * * * * *
39155336 CTTGCC-TCCAT-CGGTT-GCAGTGGAGCTGGTTAAAGAAGCAGA-T
1 CTTGCCTTCC-TGC-GTTAACAGCGAAGCAGATCAAA-AA-CAAAGC
* *
39155379 CTTGCCTTCCTACGTTAACAACGAAGCAGATCAAAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATC-AAAAACAAAGC
* * * * * * * *
39155423 CTTGCC-TCCAT-CGGTT-GCAGTGGAGCTGGTTAAAGAAGCAGA-T
1 CTTGCCTTCC-TGC-GTTAACAGCGAAGCAGATCAAA-AA-CAAAGC
* *
39155466 TTTGCCTTCCTGCGTGAACAGCGAAGCAGATCAAAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATC-AAAAACAAAGC
* * * * * * * *
39155510 CTTGCC-TCCAT-CGGTT-GCAGTGGAGCTGGTTAAAGAAGCAGA-T
1 CTTGCCTTCC-TGC-GTTAACAGCGAAGCAGATCAAA-AA-CAAAGC
* *
39155553 CTTGCCTTCCTACGTTAACAGCGAAGTAGAT-AAAAA-AAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCAAAAACAAAGC
39155594 CTTGCCT
1 CTTGCCT
39155601 CCATCGATTG
Statistics
Matches: 358, Mismatches: 113, Indels: 106
0.62 0.20 0.18
Matches are distributed among these distances:
40 2 0.01
41 7 0.02
42 76 0.21
43 146 0.41
44 121 0.34
45 6 0.02
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (43 bp):
CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCAAAAACAAAGC
Found at i:39155095 original size:86 final size:86
Alignment explanation
Indices: 39154976--39155666 Score: 1163
Period size: 86 Copynumber: 8.0 Consensus size: 86
39154966 AGACCAGTGA
* * *
39154976 AGATCGAAAACGAAGCCTTGCCTCCATCAGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCC
39155041 TTCCTGCGTTAACAGCGAAGC
66 TTCCTGCGTTAACAGCGAAGC
*
39155062 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCC
39155127 TTCCTGCGTTAACAGCGAAGC
66 TTCCTGCGTTAACAGCGAAGC
* * *
39155148 AGATCGAAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATTTTGCC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCC
39155213 TTCCTGCGTTAACAGCGAAGC
66 TTCCTGCGTTAACAGCGAAGC
* * * * *
39155234 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTAGTTAAAGAAGTAGATTTTGCA
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCC
39155299 TTCCTGCGTTAACAGCGAAGC
66 TTCCTGCGTTAACAGCGAAGC
39155320 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCC
* *
39155385 TTCCTACGTTAACAACGAAGC
66 TTCCTGCGTTAACAGCGAAGC
*
39155406 AGATCAAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATTTTGC
1 AGATC-AAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGC
*
39155471 CTTCCTGCGTGAACAGCGAAGC
65 CTTCCTGCGTTAACAGCGAAGC
39155493 AGATCAAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGC
1 AGATC-AAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGC
* *
39155558 CTTCCTACGTTAACAGCGAAGT
65 CTTCCTGCGTTAACAGCGAAGC
*
39155580 AGAT-AAAAA-AAAGCCTTGCCTCCATCGATTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCC
39155643 TTCCTGCGTTAACAGC-AGAGC
66 TTCCTGCGTTAACAGCGA-AGC
39155664 AGA
1 AGA
39155667 CTGAAGACCA
Statistics
Matches: 575, Mismatches: 28, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
83 1 0.00
84 73 0.13
85 5 0.01
86 332 0.58
87 164 0.29
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (86 bp):
AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCC
TTCCTGCGTTAACAGCGAAGC
Found at i:39155860 original size:44 final size:43
Alignment explanation
Indices: 39155728--39156014 Score: 208
Period size: 44 Copynumber: 6.6 Consensus size: 43
39155718 CCACCAGTCC
* * * * *
39155728 TATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATGGTAGATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT-GCAAATCT
* * * * *
39155772 TATCTCCCTAAGCTGTAGTGGAGTAGGTCAAAGATTGCAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGCAAATCT
*
39155816 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT-GCAAATCT
* ** *** * *
39155860 TATTTTCCC-AAG-A-TAGTGGAGAAGCAGATTTAAGCCACCAATCC
1 TA-TCTCCCTAAGCAGTAGT-G-G-AGCAGATCGAAGATGCAAATCT
* * * * *
39155904 TATCTCCCTGAGTAGTAGTGGAGTAGATTGAAGATGTAAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGCAA-ATCT
* * *
39155948 TTTCTCCCTAAGCAGTAGTGGAGCAGATC--ACAT-CAAGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGCAAATCT
*
39155988 TATCTCCCTAAGTAGTAGTGGAGCAGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGA
39156015 CAAAAGAAAC
Statistics
Matches: 194, Mismatches: 39, Indels: 24
0.75 0.15 0.09
Matches are distributed among these distances:
40 28 0.14
41 2 0.01
42 7 0.04
43 19 0.10
44 116 0.60
45 18 0.09
46 4 0.02
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (43 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGCAAATCT
Found at i:39156561 original size:10 final size:10
Alignment explanation
Indices: 39156524--39156572 Score: 53
Period size: 10 Copynumber: 4.6 Consensus size: 10
39156514 TGCAACACGC
39156524 GAAAACAACAA
1 GAAAA-AACAA
* *
39156535 GGACAAACAGA
1 GAAAAAACA-A
39156546 GCAAAAAACAA
1 G-AAAAAACAA
39156557 GAAAAAACAA
1 GAAAAAACAA
39156567 GAAAAA
1 GAAAAA
39156573 GAAACAGATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
10 19 0.59
11 7 0.22
12 6 0.19
ACGTcount: A:0.71, C:0.14, G:0.14, T:0.00
Consensus pattern (10 bp):
GAAAAAACAA
Found at i:39156564 original size:22 final size:20
Alignment explanation
Indices: 39156524--39156572 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 20
39156514 TGCAACACGC
* *
39156524 GAAAACAACAAGGACAAACAGA
1 GAAAA-AACAAGAAAAAACA-A
39156546 GCAAAAAACAAGAAAAAACAA
1 G-AAAAAACAAGAAAAAACAA
39156567 GAAAAA
1 GAAAAA
39156573 GAAACAGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 5 0.21
21 2 0.08
22 13 0.54
23 4 0.17
ACGTcount: A:0.71, C:0.14, G:0.14, T:0.00
Consensus pattern (20 bp):
GAAAAAACAAGAAAAAACAA
Found at i:39157435 original size:3 final size:3
Alignment explanation
Indices: 39157427--39157490 Score: 110
Period size: 3 Copynumber: 21.3 Consensus size: 3
39157417 GTTACCATTG
*
39157427 TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
39157475 TTA TTA TTA TCA TTA T
1 TTA TTA TTA TTA TTA T
39157491 ATTTCCATTT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:39157603 original size:16 final size:17
Alignment explanation
Indices: 39157567--39157610 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
39157557 AAGTGCTTAT
*
39157567 ATATATATATATATTTC
1 ATATATATATATATTTA
*
39157584 ATATATA-ATTTATTTA
1 ATATATATATATATTTA
39157600 ATATATATATA
1 ATATATATATA
39157611 AATACTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
ATATATATATATATTTA
Found at i:39158606 original size:24 final size:23
Alignment explanation
Indices: 39158578--39158632 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
39158568 CAACAATAAT
*
39158578 AATATAATTAAAATTTCAATATTA
1 AATATAATTAAAATTACAAT-TTA
* *
39158602 AATATCATTAACATTACAATTTA
1 AATATAATTAAAATTACAATTTA
39158625 ACATATAA
1 A-ATATAA
39158633 AGATTTCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (23 bp):
AATATAATTAAAATTACAATTTA
Found at i:39159897 original size:11 final size:11
Alignment explanation
Indices: 39159846--39159898 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
39159836 ACATTAGCGA
*
39159846 AAAAAATAAAT
1 AAAATATAAAT
*
39159857 AAATTATAAAT
1 AAAATATAAAT
39159868 AAATACATATGAAAT
1 -AA-A-ATAT-AAAT
39159883 AAAATATAAAT
1 AAAATATAAAT
39159894 AAAAT
1 AAAAT
39159899 GATTTATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
11 18 0.51
12 6 0.17
13 2 0.06
14 5 0.14
15 4 0.11
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (11 bp):
AAAATATAAAT
Found at i:39163830 original size:50 final size:50
Alignment explanation
Indices: 39163719--39163904 Score: 198
Period size: 50 Copynumber: 3.7 Consensus size: 50
39163709 GGTAAAGAGA
* * * **
39163719 TCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGATATAAGAAC
*** *
39163769 TCCCCCATAAGACCATGTCTAGGACATGGCATGGGCACCGATATAAGAAC
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGATATAAGAAC
* * *
39163819 TCCCATGTAAGACCATATCTAGCATATGGCATTGGCA--G-TATAAGAAAC
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGATATAAG-AAC
* * *
39163867 ATCCCATGTAAGACCATGGCTGGGACATGGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA
39163905 TGTTATTATC
Statistics
Matches: 112, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
47 6 0.05
48 4 0.04
49 31 0.28
50 71 0.63
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.22
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGATATAAGAAC
Found at i:39170525 original size:56 final size:56
Alignment explanation
Indices: 39170426--39170677 Score: 278
Period size: 56 Copynumber: 4.7 Consensus size: 56
39170416 ATTTGGGTGA
* * *
39170426 AGAGATCCCATGTAAGACCATGTGTGGGACATGGCATTAGCATCATTGAGGTTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATG
* *
39170482 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGTATTGGCATCATTGAGGTTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATG
* *
39170538 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGA-G--ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATG
* *
39170588 AGAGGTCCC-TCGTAAGACCATGTCTGGGACATGGCATGGGCA-C--CGA---TATG
1 AGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATG
** * * *
39170638 AGAACTCCCATGTAAGACCATATCTGGGATATGACATTGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
39170678 TAGTACAAGA
Statistics
Matches: 176, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
49 1 0.01
50 80 0.45
51 1 0.01
52 1 0.01
53 2 0.01
55 1 0.01
56 90 0.51
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (56 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATG
Found at i:39170593 original size:50 final size:50
Alignment explanation
Indices: 39170426--39170728 Score: 261
Period size: 56 Copynumber: 5.8 Consensus size: 50
39170416 ATTTGGGTGA
* * * *
39170426 AGAGATCCCATGTAAGACCATGTGTGGGACATGGCATTAGCATCATTGAGGTTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATG
* * *
39170482 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGTATTGGCATCATTGAGGTTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATG
*
39170538 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
39170588 AGAGGTCCC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * * *
39170638 AGAACTCCCATGTAAGACCATATCTGGGATATGACATTGGTA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** *
39170687 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
39170729 TGTTATTATC
Statistics
Matches: 215, Mismatches: 29, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
48 1 0.00
49 38 0.18
50 81 0.38
51 1 0.00
52 1 0.00
53 2 0.01
55 1 0.00
56 90 0.42
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:39173527 original size:87 final size:87
Alignment explanation
Indices: 39173253--39173577 Score: 322
Period size: 87 Copynumber: 3.8 Consensus size: 87
39173243 TACGTCTTTG
* * * * * *
39173253 TTTGGAAACAAAA-CAATATCGAATAAAATCTTGTTAAACAGCGGGAATAAATCCTGACATAGAT
1 TTTGGAAACAAAATCAA-ATCAAATAAAATCTTGTTAAACGGTGGGAATAAATCCCGAAACAGA-
* *
39173317 TTTTATTTAATTTAA-TTC-GA-A
64 TTTTATTTAATTTAATTTCTCATT
* * * * *
39173338 TTTGGAAAAAAAATAAAATCAAATAAAATCTTCTTAAACGGTGGGAATAAATCTCGAAACAAATT
1 TTTGGAAACAAAATCAAATCAAATAAAATCTTGTTAAACGGTGGGAATAAATCCCGAAACAGATT
* *
39173403 TAATTTAATTTAATTTCTCGTT
66 TTATTTAATTTAATTTCTCATT
* * * * * *
39173425 TCTAGCAATATAATCAAATCAAAT-AAATCTTTATTAAACGGTGGGAATAAATCCCGAAACAGAT
1 TTTGGAAACAAAATCAAATCAAATAAAATC-TTGTTAAACGGTGGGAATAAATCCCGAAACAGAT
39173489 TTTATTTAATTTAATTTCTCATT
65 TTTATTTAATTTAATTTCTCATT
* ** * * *
39173512 TTTGGCAACAAAATCAAAATGTAAT-AAAT-TTGTTGAATGGTGGGAATCAATCCCGAAACAGAT
1 TTTGGAAACAAAATC-AAATCAAATAAAATCTTGTTAAACGGTGGGAATAAATCCCGAAACAGAT
39173575 TTT
65 TTT
39173578 GTTTTACTCA
Statistics
Matches: 198, Mismatches: 36, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
84 14 0.07
85 52 0.26
86 40 0.20
87 81 0.41
88 11 0.06
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (87 bp):
TTTGGAAACAAAATCAAATCAAATAAAATCTTGTTAAACGGTGGGAATAAATCCCGAAACAGATT
TTATTTAATTTAATTTCTCATT
Found at i:39173636 original size:79 final size:78
Alignment explanation
Indices: 39173506--39173656 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 78
39173496 AATTTAATTT
* * * * * *
39173506 CTCATTTTTGGCAACAAAATCAAAATGTAATAAATTTGTTGAATGGTGGGAATCAATCCCGAAAC
1 CTCATTTTTGGAAACAAAATCAAAATGGAATAAAATCGTTGAACGGCGGGAATCAATCCCGAAAC
39173571 AGATTTTGTTTTA
66 AGATTTTGTTTTA
* *
39173584 CTCATTTTTGGAAATAAAA-CAAAATTTGGAATAAAATCGTTGAACGGCGGGAATCACTCCCGAA
1 CTCATTTTTGGAAACAAAATCAAAA--TGGAATAAAATCGTTGAACGGCGGGAATCAATCCCGAA
39173648 ACAGATTTT
64 ACAGATTTT
39173657 ATTTACCTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
77 5 0.08
78 17 0.27
79 41 0.65
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (78 bp):
CTCATTTTTGGAAACAAAATCAAAATGGAATAAAATCGTTGAACGGCGGGAATCAATCCCGAAAC
AGATTTTGTTTTA
Found at i:39176777 original size:20 final size:20
Alignment explanation
Indices: 39176752--39176790 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
39176742 TGAGTCATTT
39176752 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
39176772 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
39176791 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:39183981 original size:50 final size:50
Alignment explanation
Indices: 39183876--39183982 Score: 146
Period size: 50 Copynumber: 2.1 Consensus size: 50
39183866 TTATTGAGGT
* *
39183876 TATGAGGGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGTACTGA
1 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGATGGTACTGA
* *
39183926 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGC-ATGGTCACCT-A
1 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGATGGT-A-CTGA
39183976 TATGAGA
1 TATGAGA
39183983 ACACTCATGT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
49 4 0.08
50 44 0.88
51 2 0.04
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.22
Consensus pattern (50 bp):
TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGATGGTACTGA
Found at i:39197187 original size:17 final size:19
Alignment explanation
Indices: 39197151--39197187 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
39197141 AAACTGAGTC
*
39197151 TGAGATTCATTGGGTCGTA
1 TGAGATTCATTGGATCGTA
39197170 TGAGATT-ATT-GATCGTA
1 TGAGATTCATTGGATCGTA
39197187 T
1 T
39197188 CAGGCCGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 7 0.41
18 3 0.18
19 7 0.41
ACGTcount: A:0.24, C:0.08, G:0.27, T:0.41
Consensus pattern (19 bp):
TGAGATTCATTGGATCGTA
Found at i:39202208 original size:21 final size:22
Alignment explanation
Indices: 39202165--39202215 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
39202155 ACTTGCAATC
39202165 AAACACATTTAAACAAACATATT
1 AAACACATTTAAAC-AACATATT
* *
39202188 AATCACATTTAAAC-TCATATT
1 AAACACATTTAAACAACATATT
39202209 AAACACA
1 AAACACA
39202216 AAACACATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.48
23 13 0.52
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (22 bp):
AAACACATTTAAACAACATATT
Found at i:39202210 original size:11 final size:11
Alignment explanation
Indices: 39202165--39202215 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 11
39202155 ACTTGCAATC
39202165 AAACACAT-TT
1 AAACACATATT
39202175 AAACAAACATATT
1 AAAC--ACATATT
*
39202188 AATCACAT-TT
1 AAACACATATT
*
39202198 AAACTCATATT
1 AAACACATATT
39202209 AAACACA
1 AAACACA
39202216 AAACACATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
10 12 0.36
11 12 0.36
12 4 0.12
13 5 0.15
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (11 bp):
AAACACATATT
Found at i:39203002 original size:331 final size:331
Alignment explanation
Indices: 39202400--39203064 Score: 1312
Period size: 331 Copynumber: 2.0 Consensus size: 331
39202390 AATGACGCTT
39202400 GATGAGCTGAACCAAGGACGTTCGCAGGGCGAGATCATATCAGTGTGTCTAGGTGGGAAAAGCCA
1 GATGAGCTGAACCAAGGACGTTCGCAGGGCGAGATCATATCAGTGTGTCTAGGTGGGAAAAGCCA
39202465 ATTGGATTCCGTCAAAAGAGATAGAGATCGGATTTAAACAATCCACGCGGTTGAGGCCGTTGATT
66 ATTGGATTCCGTCAAAAGAGATAGAGATCGGATTTAAACAATCCACGCGGTTGAGGCCGTTGATT
39202530 CAAGTTGGGCTTTTCAGATCGCAAGGTTGTCGAAATCTGAAATTGCGAACACGTGCATCACAGTG
131 CAAGTTGGGCTTTTCAGATCGCAAGGTTGTCGAAATCTGAAATTGCGAACACGTGCATCACAGTG
39202595 AGAAATTTGGCAAGAGTCAGTTTGCAGGTCGTACCGAGATTAACTACATAAGGAAAAGTTGGCGA
196 AGAAATTTGGCAAGAGTCAGTTTGCAGGTCGTACCGAGATTAACTACATAAGGAAAAGTTGGCGA
39202660 TCGGGACTTTCTTGGTTGTTATAACCAGCTTATTTCTTGGAAGGGAAAATCTATTTCAAGGATCA
261 TCGGGACTTTCTTGGTTGTTATAACCAGCTTATTTCTTGGAAGGGAAAATCTATTTCAAGGATCA
39202725 ATTCAG
326 ATTCAG
39202731 GATGAGCTGAACCAAGGACGTTCGCAGGGCGAGATCATATCAGTGTGTCTAGGTGGGAAAAGCCA
1 GATGAGCTGAACCAAGGACGTTCGCAGGGCGAGATCATATCAGTGTGTCTAGGTGGGAAAAGCCA
39202796 ATTGGATTCCGTCAAAAGAGATAGAGATCGGATTTAAACAATCCACGCGGTTGAGGCCGTTGATT
66 ATTGGATTCCGTCAAAAGAGATAGAGATCGGATTTAAACAATCCACGCGGTTGAGGCCGTTGATT
*
39202861 CAAGTTGGGCTTTTCAGATCGCAAGGTTGTCGAAATCTGAAATTGCGAACACGTGCATCGCAGTG
131 CAAGTTGGGCTTTTCAGATCGCAAGGTTGTCGAAATCTGAAATTGCGAACACGTGCATCACAGTG
39202926 AGAAATTTGGCAAGAGTCAGTTTGCAGGTCGTACCGAGATTAACTACATAAGGAAAAGTTGGCGA
196 AGAAATTTGGCAAGAGTCAGTTTGCAGGTCGTACCGAGATTAACTACATAAGGAAAAGTTGGCGA
*
39202991 TCGGGACTTTCTTGGTTGTTATAACCAGCTTATTTCTTGGAAGGGAAAATCTATTTCAATGATCA
261 TCGGGACTTTCTTGGTTGTTATAACCAGCTTATTTCTTGGAAGGGAAAATCTATTTCAAGGATCA
39203056 ATTCAG
326 ATTCAG
39203062 GAT
1 GAT
39203065 TGGAGTATAC
Statistics
Matches: 332, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
331 332 1.00
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (331 bp):
GATGAGCTGAACCAAGGACGTTCGCAGGGCGAGATCATATCAGTGTGTCTAGGTGGGAAAAGCCA
ATTGGATTCCGTCAAAAGAGATAGAGATCGGATTTAAACAATCCACGCGGTTGAGGCCGTTGATT
CAAGTTGGGCTTTTCAGATCGCAAGGTTGTCGAAATCTGAAATTGCGAACACGTGCATCACAGTG
AGAAATTTGGCAAGAGTCAGTTTGCAGGTCGTACCGAGATTAACTACATAAGGAAAAGTTGGCGA
TCGGGACTTTCTTGGTTGTTATAACCAGCTTATTTCTTGGAAGGGAAAATCTATTTCAAGGATCA
ATTCAG
Found at i:39206892 original size:6 final size:6
Alignment explanation
Indices: 39206881--39206906 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
39206871 ATGCAAAAGG
39206881 GTATAT GTATAT GTATAT GTATAT GT
1 GTATAT GTATAT GTATAT GTATAT GT
39206907 GTATAAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:39206987 original size:2 final size:2
Alignment explanation
Indices: 39206968--39207178 Score: 109
Period size: 2 Copynumber: 109.0 Consensus size: 2
39206958 AAAATTAAAA
* * *
39206968 AT AT GT AT AT AA AG 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
* * * *
39207010 AT AT AT AT AT AT AT AT AT A- AT A- AG AT AC A- AA AT AT AT AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
39207049 AT AT GA- AA AT -T AA AA AT AC AT AT AT AA 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
* * * * * * * *
39207090 AA AG AT AT A- AA AT AT AT AT AT GA- AA AT -T AA AA AT AC GT AT
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT
* * * *
39207130 AT AA AG AT AT AT AT AT AT AT AT AT A- AT A- AG AT AT AA AGT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
39207171 AT AT AT AT
1 AT AT AT AT
39207179 GAAAATTAAA
Statistics
Matches: 162, Mismatches: 34, Indels: 26
0.73 0.15 0.12
Matches are distributed among these distances:
1 10 0.06
2 149 0.92
3 3 0.02
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.37
Consensus pattern (2 bp):
AT
Found at i:39207090 original size:68 final size:65
Alignment explanation
Indices: 39207001--39207192 Score: 263
Period size: 58 Copynumber: 3.0 Consensus size: 65
39206991 TATATATATA
*
39207001 TATATATATATATATATATATATATATAATAAGATACAAAATATATAGATATGAAAATTAAAAAT
1 TATATA-ATATATATATATATATATATAATAAGATATAAAATATATA-ATATGAAAATTAAAAAT
39207066 AC
64 AC
39207068 -ATAT-ATA-A-ATATATATATATAT-A-AAGATATAAAATATAT-ATATGAAAATTAAAAATAC
1 TATATAATATATATATATATATATATAATAAGATATAAAATATATAATATGAAAATTAAAAATAC
* *
39207126 GTATATAAAGATATATATATATATATATAATAAGATATAAAGTATATATATATGAAAATTAAAAA
1 -TATAT-AATATATATATATATATATATAATAAGATATAAAATATATA-ATATGAAAATTAAAAA
39207191 TA
63 TA
39207193 TGTATAGACG
Statistics
Matches: 112, Mismatches: 3, Indels: 19
0.84 0.02 0.14
Matches are distributed among these distances:
58 19 0.17
60 19 0.17
61 1 0.01
62 16 0.14
63 2 0.02
64 17 0.15
65 1 0.01
66 19 0.17
68 18 0.16
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (65 bp):
TATATAATATATATATATATATATATAATAAGATATAAAATATATAATATGAAAATTAAAAATAC
Found at i:39207198 original size:68 final size:65
Alignment explanation
Indices: 39206998--39207198 Score: 254
Period size: 68 Copynumber: 3.1 Consensus size: 65
39206988 ATATATATAT
* * * *
39206998 ATATATATATATATATATATATATATATATAATAAGATACAAAATATATAGATATGAAAATTAAA
1 ATATGTATATAAATATATATATATATATATAATAAGATA-TAAATATATATATATGAAAATTAAA
39207063 A
65 A
* *
39207064 ATA--CATAT--ATAAATATATATATATAT-A-AAGATATAAA-ATATATATATGAAAATTAAAA
1 ATATGTATATAAATATATATATATATATATAATAAGATATAAATATATATATATGAAAATTAAAA
*
39207122 ATACGTATATAAAGATATATATATATATATATAATAAGATATAAAGTATATATATATGAAAATTA
1 ATATGTATAT-AA-ATATATATATATATATATAATAAGATATAAA-TATATATATATGAAAATTA
39207187 AAA
63 AAA
39207190 ATATGTATA
1 ATATGTATA
39207199 GACGTGTAGA
Statistics
Matches: 118, Mismatches: 7, Indels: 18
0.83 0.05 0.13
Matches are distributed among these distances:
58 23 0.19
59 3 0.03
60 10 0.08
61 1 0.01
62 17 0.14
64 21 0.18
65 1 0.01
66 13 0.11
68 29 0.25
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.36
Consensus pattern (65 bp):
ATATGTATATAAATATATATATATATATATAATAAGATATAAATATATATATATGAAAATTAAAA
Found at i:39209069 original size:44 final size:43
Alignment explanation
Indices: 39209008--39209760 Score: 288
Period size: 44 Copynumber: 17.3 Consensus size: 43
39208998 CTGCAACTTC
* * *
39209008 AGGGAGGTAAGGTTTGTGGTTTTCGATCTGCTCCACTACTTCTT
1 AGGGAGATAAGATTTGT-GTTTTCGATCTGCTCCACTACTGCTT
* *
39209052 AGGGAGATAAGATTTGTGGTTTTCGGTCTGCTCCATTACTGCTT
1 AGGGAGATAAGATTTGT-GTTTTCGATCTGCTCCACTACTGCTT
**** * * * * * *
39209096 AGGGAGATAAGATCTACAATCTTCGACCTCCTCCGCTGCTGCTC
1 AGGGAGATAAGAT-TTGTGTTTTCGATCTGCTCCACTACTGCTT
* * * * *
39209140 AGGGAGATAGGGTTGGTGCTTTCGATCTGCTCTACTACTGCTT
1 AGGGAGATAAGATTTGTGTTTTCGATCTGCTCCACTACTGCTT
**** * * * * * ** **
39209183 AGGGAGATAAGATCTACAATCTTCGACCTACTTCGCTGTTGCCC
1 AGGGAGATAAGAT-TTGTGTTTTCGATCTGCTCCACTACTGCTT
** * * *
39209227 AGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCACTGCTGCTT
1 AGGGAGATAAGATTTGTGTTTTCGATCTGCTCCACTACTGCTT
** ** *
39209270 AGGGAGATAAGGCTACTGCTTTCGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATTTGTGTTTTCGATCTGCTCCACTACTGCTT
**** * * * ** * *
39209313 AGGGAGATAAGATCTACAATCTTCGACCTTCTCTGCTGCTGCTC
1 AGGGAGATAAGAT-TTGTGTTTTCGATCTGCTCCACTACTGCTT
** * * * *
39209357 AGGGAGATAAGGCTAGTGTTTTCAATCTGCTCCGCTATTGCTT
1 AGGGAGATAAGATTTGTGTTTTCGATCTGCTCCACTACTGCTT
**** * * * * * * *
39209400 AGGGAGATAAGATCTACAATCTTCGACCTACTTCGCTGCTGCTC
1 AGGGAGATAAGAT-TTGTGTTTTCGATCTGCTCCACTACTGCTT
* ** * * *
39209444 AAGGAGATAAGGCTGGTGCTTTT-GATATGCTCTACTACTGCTT
1 AGGGAGATAAGATTTGTG-TTTTCGATCTGCTCCACTACTGCTT
**** * * * ** * **
39209487 AGGGAGATAAGATCTACAATCTTCGACCTACTCCGTTGCTGCCC
1 AGGGAGATAAGAT-TTGTGTTTTCGATCTGCTCCACTACTGCTT
** * * *
39209531 AGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCAGTACTGCTT
1 AGGGAGATAAGATTTGTGTTTTCGATCTGCTCCACTACTGCTT
**** * * * * * *
39209574 AGGGAGATAAGATCTACAATCTTCGACCTTCTCCGCTGCTGCTC
1 AGGGAGATAAGAT-TTGTGTTTTCGATCTGCTCCACTACTGCTT
** * *
39209618 AGGGAGATAAGGCTAGTGCTTTT-GATCTGCTCCGCTACTGCTT
1 AGGGAGATAAGATTTGTG-TTTTCGATCTGCTCCACTACTGCTT
**** * * *
39209661 AGGGAGATAAGATCTACAATCTTT-GACCTACTCCACTACTGCTC
1 AGGGAGATAAGAT-TTGTGT-TTTCGATCTGCTCCACTACTGCTT
* ** * * *
39209705 AAGGAGATAAGGCTGGTGCTTTCAATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATTTGTGTTTTCGATCTGCTCCACTACTGCTT
39209748 AGGGAGATAAGAT
1 AGGGAGATAAGAT
39209761 CTACAATCTT
Statistics
Matches: 497, Mismatches: 200, Indels: 25
0.69 0.28 0.03
Matches are distributed among these distances:
42 3 0.01
43 238 0.48
44 255 0.51
45 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (43 bp):
AGGGAGATAAGATTTGTGTTTTCGATCTGCTCCACTACTGCTT
Found at i:39209182 original size:87 final size:87
Alignment explanation
Indices: 39209072--39209280 Score: 328
Period size: 87 Copynumber: 2.4 Consensus size: 87
39209062 GATTTGTGGT
* * *
39209072 TTTCGGTCTGCTCCATTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTCCTCCGCTGCTG
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGCTG
* * *
39209137 CTCAGGGAGATAGGGTTGGTGC
66 CCCAGGGAGATAAGGCTGGTGC
* * *
39209159 TTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTTCGCTGTTG
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGCTG
39209224 CCCAGGGAGATAAGGCTGGTGC
66 CCCAGGGAGATAAGGCTGGTGC
*
39209246 TTTCGATCTGCTCCACTGCTGCTTAGGGAGATAAG
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
39209281 GCTACTGCTT
Statistics
Matches: 111, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 111 1.00
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.30
Consensus pattern (87 bp):
TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGCTG
CCCAGGGAGATAAGGCTGGTGC
Found at i:39209187 original size:43 final size:42
Alignment explanation
Indices: 39209028--39209762 Score: 363
Period size: 43 Copynumber: 17.0 Consensus size: 42
39209018 GGTTTGTGGT
* * *
39209028 TTTCGATCTGCTCCACTACTTCTTAGGGAGATAA-GATTTGTGGT
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGA--TCT-GC
* * *
39209072 TTTCGGTCTGCTCCATTACTGCTTAGGGAGATAA-GATCTAC
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGATCTGC
* * * * * * * *
39209113 AATCTTCGACCTCCTCCGCTGCTGCTCAGGGAGATAGGGTTGGTGC
1 --T-TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGAT-CTGC
* *
39209159 TTTCGATCTGCTCTACTACTGCTTAGGGAGATAA-GATCTAC
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGATCTGC
* * * * ** ** * *
39209200 AATCTTCGACCTACTTCGCTGTTGCCCAGGGAGATAAGGCTGGTGC
1 --T-TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGAT-CTGC
* *
39209246 TTTCGATCTGCTCCACTGCTGCTTAGGGAGATAAGGCTACTGC
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGAT-CTGC
*
39209289 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAA-GATCTAC
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGATCTGC
* * ** * * * * *
39209330 AATCTTCGACCTTCTCTGCTGCTGCTCAGGGAGATAAGGCTAGTGT
1 --T-TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGAT-CTGC
* * * *
39209376 TTTCAATCTGCTCCGCTATTGCTTAGGGAGATAA-GATCTAC
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGATCTGC
* * * * * * * * *
39209417 AATCTTCGACCTACTTCGCTGCTGCTCAAGGAGATAAGGCTGGTGC
1 --T-TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGAT-CTGC
* * * *
39209463 TTTTGATATGCTCTACTACTGCTTAGGGAGATAA-GATCTAC
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGATCTGC
* * ** * ** * *
39209504 AATCTTCGACCTACTCCGTTGCTGCCCAGGGAGATAAGGCTGGTGC
1 --T-TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGAT-CTGC
* *
39209550 TTTCGATCTGCTCCAGTACTGCTTAGGGAGATAA-GATCTAC
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGATCTGC
* * * * * * *
39209591 AATCTTCGACCTTCTCCGCTGCTGCTCAGGGAGATAAGGCTAGTGC
1 --T-TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGAT-CTGC
* * *
39209637 TTTTGATCTGCTCCGCTACTGCTTAGGGAGATAA-GATCTAC
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGATCTGC
* * * * * * *
39209678 AATCTTTGACCTACTCCACTACTGCTCAAGGAGATAAGGCTGGTGC
1 --T-TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGAT-CTGC
*
39209724 TTTCAATCTGCTCCACTACTGCTTAGGGAGATAA-GATCT
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGATCT
39209763 ACAATCTTCG
Statistics
Matches: 504, Mismatches: 152, Indels: 73
0.69 0.21 0.10
Matches are distributed among these distances:
41 13 0.03
42 16 0.03
43 229 0.45
44 219 0.43
45 14 0.03
46 13 0.03
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.31
Consensus pattern (42 bp):
TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGATCTGC
Found at i:39209363 original size:174 final size:172
Alignment explanation
Indices: 39209177--39209813 Score: 676
Period size: 174 Copynumber: 3.7 Consensus size: 172
39209167 TGCTCTACTA
* * * * * ** *
39209177 CTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTTCGCTGTTGCCCAGGGAGATAAG-GCT
1 CTGCTCAGGGAGATAAG-GCTA-AGTCTTCGATCTGCTTCGCTGTTGCTTAGGGAGATAAGATCT
** * * * * * *
39209241 -GGTGCTTTCGATCTGCTCCACTGCTGCTTAGGGAGATAAGGCTACTGCTTTCGATCTGCTCCAC
64 ACAT-C-TTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTAGTGCTTTTGATCTGCTCCAC
* *
39209305 TACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTTCTCTGCTG
127 TACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTG
* * * * *
39209351 CTGCTCAGGGAGATAAGGCTAGTGTTTTCAATCTGCTCCGCTATTGCTTAGGGAGATAAGATCTA
1 CTGCTCAGGGAGATAAGGCTA-AGTCTTCGATCTGCTTCGCTGTTGCTTAGGGAGATAAGATCTA
* * * * *
39209416 CAATCTTCGACCTACTTCGCTGCTGCTCAAGGAGATAAGGCTGGTGCTTTTGATATGCTCTACTA
65 C-ATCTTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTAGTGCTTTTGATCTGCTCCACTA
*
39209481 CTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGTTG
129 CTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTG
* * *
39209525 CTGCCCAGGGAGATAAGGCT-GGTGCTTTCGATCTGC-TC-CAGTACTGCTTAGGGAGATAAGAT
1 CTGCTCAGGGAGATAAGGCTAAGT-C-TTCGATCTGCTTCGCTGT--TGCTTAGGGAGATAAGAT
* *
39209587 CTACAATCTTCGACCTTCTCCGCTGCTGCTCAGGGAGATAAGGCTAGTGCTTTTGATCTGCTCCG
62 CTAC-ATCTTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTAGTGCTTTTGATCTGCTCCA
* * *
39209652 CTACTGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCACTA
126 CTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTG
* * * * * **
39209699 CTGCTCAAGGAGATAAGGCT-GGTGCTTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
1 CTGCTCAGGGAGATAAGGCTAAGT-C-TTCGATCTGCTTCGCTGTTGCTTAGGGAGATAAGATCT
* *
39209763 ACAATCTTCGACCTACTCCGCTGTTGCTCAGGGAGAT-AGGACTGGTGCTTT
64 AC-ATCTTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGG-CTAGTGCTTT
39209814 CACCGATCTG
Statistics
Matches: 395, Mismatches: 58, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
172 4 0.01
173 35 0.09
174 352 0.89
175 2 0.01
176 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (172 bp):
CTGCTCAGGGAGATAAGGCTAAGTCTTCGATCTGCTTCGCTGTTGCTTAGGGAGATAAGATCTAC
ATCTTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTAGTGCTTTTGATCTGCTCCACTACT
GCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTG
Found at i:39209404 original size:217 final size:218
Alignment explanation
Indices: 39209028--39209503 Score: 711
Period size: 217 Copynumber: 2.2 Consensus size: 218
39209018 GGTTTGTGGT
* * ** * * *
39209028 TTTCGATCTGCTCCACTACTTCTTAGGGAGATAAGATTTGTGGTTTTCGGTCTGCTCCATTACTG
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACTACTGGCTTTCGATCTGCTCCACTACTG
* * *
39209093 CTTAGGGAGATAAGATCTACAATCTTCGACCTCCTCCGCTGCTGCTCAGGGAGATAGGGTTGGTG
66 CTTAGGGAGATAAGATCTACAATCTTCGACCTCCTCCGCTGCTGCTCAGGGAGATAAGGCTAGTG
* * *
39209158 CTTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTTCGCTGTT
131 CTTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTTCGCTGCT
*
39209223 GCCCAGGGAGATAAGGCTGGTGC
196 GCCCAAGGAGATAAGGCTGGTGC
* *
39209246 TTTCGATCTGCTCCACTGCTGCTTAGGGAGATAAGGCTACT-GCTTTCGATCTGCTCCACTACTG
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACTACTGGCTTTCGATCTGCTCCACTACTG
* *
39209310 CTTAGGGAGATAAGATCTACAATCTTCGACCTTCTCTGCTGCTGCTCAGGGAGATAAGGCTAGTG
66 CTTAGGGAGATAAGATCTACAATCTTCGACCTCCTCCGCTGCTGCTCAGGGAGATAAGGCTAGTG
* * *
39209375 TTTTCAATCTGCTCCGCTATTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTTCGCTGCT
131 CTTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTTCGCTGCT
*
39209440 GCTCAAGGAGATAAGGCTGGTGC
196 GCCCAAGGAGATAAGGCTGGTGC
* * *
39209463 TTTTGATATGCTCTACTACTGCTTAGGGAGATAAGATCTAC
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA-CTAC
39209504 AATCTTCGAC
Statistics
Matches: 230, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
217 191 0.83
218 39 0.17
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (218 bp):
TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACTACTGGCTTTCGATCTGCTCCACTACTG
CTTAGGGAGATAAGATCTACAATCTTCGACCTCCTCCGCTGCTGCTCAGGGAGATAAGGCTAGTG
CTTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTTCGCTGCT
GCCCAAGGAGATAAGGCTGGTGC
Found at i:39209815 original size:87 final size:87
Alignment explanation
Indices: 39209247--39209814 Score: 841
Period size: 87 Copynumber: 6.5 Consensus size: 87
39209237 GGCTGGTGCT
* * * * **
39209247 TTCGATCTGCTCCACTGCTGCTTAGGGAGATAAGGCTACTGCTTTCGATCTGCTCCACTACTGCT
1 TTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCACTACTGCT
39209312 TAGGGAGATAAGATCTACAATC
66 TAGGGAGATAAGATCTACAATC
* * * * * * *
39209334 TTCGACCTTCTCTGCTGCTGCTCAGGGAGATAAGGCTAGTGTTTTCAATCTGCTCCGCTATTGCT
1 TTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCACTACTGCT
39209399 TAGGGAGATAAGATCTACAATC
66 TAGGGAGATAAGATCTACAATC
* * * * *
39209421 TTCGACCTACTTCGCTGCTGCTCAAGGAGATAAGGCTGGTGCTTTTGATATGCTCTACTACTGCT
1 TTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCACTACTGCT
39209486 TAGGGAGATAAGATCTACAATC
66 TAGGGAGATAAGATCTACAATC
* * *
39209508 TTCGACCTACTCCGTTGCTGCCCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCAGTACTGCT
1 TTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCACTACTGCT
39209573 TAGGGAGATAAGATCTACAATC
66 TAGGGAGATAAGATCTACAATC
* * * *
39209595 TTCGACCTTCTCCGCTGCTGCTCAGGGAGATAAGGCTAGTGCTTTTGATCTGCTCCGCTACTGCT
1 TTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCACTACTGCT
39209660 TAGGGAGATAAGATCTACAATC
66 TAGGGAGATAAGATCTACAATC
* * * * *
39209682 TTTGACCTACTCCACTACTGCTCAAGGAGATAAGGCTGGTGCTTTCAATCTGCTCCACTACTGCT
1 TTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCACTACTGCT
39209747 TAGGGAGATAAGATCTACAATC
66 TAGGGAGATAAGATCTACAATC
*
39209769 TTCGACCTACTCCGCTGTTGCTCAGGGAGAT-AGGACTGGTGCTTTC
1 TTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGG-CTGGTGCTTTC
39209815 ACCGATCTGT
Statistics
Matches: 429, Mismatches: 51, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
86 3 0.01
87 426 0.99
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.30
Consensus pattern (87 bp):
TTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCACTACTGCT
TAGGGAGATAAGATCTACAATC
Found at i:39211583 original size:36 final size:35
Alignment explanation
Indices: 39211543--39211615 Score: 85
Period size: 36 Copynumber: 2.0 Consensus size: 35
39211533 ATACCAACTT
39211543 ATATC-TAAAAGTAAAATTATAAAATAAAAAATATAA
1 ATATCGTAAAAGT-AAATTATAAAAT-AAAAATATAA
***
39211579 ATATCGGTTGGAGTAAATTATAAAATAAAAATATAA
1 ATATC-GTAAAAGTAAATTATAAAATAAAAATATAA
39211615 A
1 A
39211616 GTGTAATAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 16 0.50
37 12 0.38
38 4 0.12
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (35 bp):
ATATCGTAAAAGTAAATTATAAAATAAAAATATAA
Found at i:39214319 original size:82 final size:82
Alignment explanation
Indices: 39214057--39214581 Score: 443
Period size: 82 Copynumber: 6.5 Consensus size: 82
39214047 TAAAAATTAA
* * * ** * *
39214057 AATTGAATAAAATCTATTTCGGGAGTTATTCCCGCCGTTCAATAGATTTT-TTCCT-TTTTCATT
1 AATTGAAT-AATTCTGTTTCGGGATTTATTCCCATCGTTCAACAGATTTTATT-CTATTTTGATT
* *
39214120 TTGTTTCTAAACGAGAATT
64 TTGTTTCCAAACAAGAATT
* * * * *
39214139 AATTGAATAATTTTGTTTCGGTATTTATTCCCATCGTTCAATAGCTTTTATTCCT-TTTT-ATTC
1 AATTGAATAATTCTGTTTCGGGATTTATTCCCATCGTTCAACAGATTTTATT-CTATTTTGATTT
* *
39214202 T-TTTCTAAACGAGAATT
65 TGTTTCCAAACAAGAATT
* *
39214219 AATTGAATAATTCTGTTTCGGGATTTATTCCCGTCATTCAACAGATTTTATTCTATTTTGATTTT
1 AATTGAATAATTCTGTTTCGGGATTTATTCCCATCGTTCAACAGATTTTATTCTATTTTGATTTT
*
39214284 GTTTCCAAACGAGAATT
66 GTTTCCAAACAAGAATT
* * * ** * *
39214301 AATTGAATAAATCTGTTTCGGGATTTATTCCCACCATTCAGGAAATTTTATTCAATTTTGATTTT
1 AATTGAATAATTCTGTTTCGGGATTTATTCCCATCGTTCAACAGATTTTATTCTATTTTGATTTT
*
39214366 GTTTCCAAACAAAAATTT
66 GTTTCCAAACAAGAA-TT
* * * * * * *
39214384 AATTAAATAATTCTATTTCGAGATTTATACCC-TCGTTTAATAGA-TTTA----ATTTTGGTTTT
1 AATTGAATAATTCTGTTTCGGGATTTATTCCCATCGTTCAACAGATTTTATTCTATTTTGATTTT
* *
39214443 GTTTCGAAACAAGATTT
66 GTTTCCAAACAAGAATT
** * * * * *
39214460 AATCAAATAATTCTATTTCGGGATTTATTCTCATCGTTTAAC--A---TATTTTATTTTGGTTTT
1 AATTGAATAATTCTGTTTCGGGATTTATTCCCATCGTTCAACAGATTTTATTCTATTTTGATTTT
* *
39214520 ATTTCCAAACAAGATTT
66 GTTTCCAAACAAGAATT
* * * * **
39214537 AATTAAATAATTTTGTTTCGAGATTTAATCCTGTCGTTCAACAGA
1 AATTGAATAATTCTGTTTCGGGATTTATTCCCATCGTTCAACAGA
39214582 ATTGATTTTG
Statistics
Matches: 374, Mismatches: 57, Indels: 27
0.82 0.12 0.06
Matches are distributed among these distances:
73 2 0.01
75 1 0.00
76 30 0.08
77 89 0.24
79 3 0.01
80 66 0.18
81 45 0.12
82 109 0.29
83 29 0.08
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (82 bp):
AATTGAATAATTCTGTTTCGGGATTTATTCCCATCGTTCAACAGATTTTATTCTATTTTGATTTT
GTTTCCAAACAAGAATT
Found at i:39214352 original size:162 final size:165
Alignment explanation
Indices: 39214048--39214489 Score: 465
Period size: 162 Copynumber: 2.7 Consensus size: 165
39214038 TTTTGAAAAT
* * * *
39214048 AAAAATTAAAATTGAATAAAATCTATTTCGGGAGTTATTCCCGCCGTTCAATAGATTTT-TTCCT
1 AAAAATT-TAATTGAAT-AATTCTATTTCGGGATTTATTCCCGTCGTTCAATAGATTTTATT-CT
* * * * * *
39214112 -TTTTCATTTTGTTTCTAAACGAGAATTAATTGAATAATTTTGTTTCGGTATTTATTCCCATCGT
63 ATTTTGATTTTGTTTCCAAACGAGAATTAATTGAATAATTCTGTTTCGGGATTTATTCCCACCAT
* ** * * *
39214176 TCAATAGCTTTTATTC-CTTTTTATTCT-TTTCTAAAC
128 TCAAGAAATTTTATTCAATTTTGATTCTGTTTCCAAAC
* * * * *
39214212 GAGAA-TTAATTGAATAATTCTGTTTCGGGATTTATTCCCGTCATTCAACAGATTTTATTCTATT
1 AAAAATTTAATTGAATAATTCTATTTCGGGATTTATTCCCGTCGTTCAATAGATTTTATTCTATT
*
39214276 TTGATTTTGTTTCCAAACGAGAATTAATTGAATAAATCTGTTTCGGGATTTATTCCCACCATTCA
66 TTGATTTTGTTTCCAAACGAGAATTAATTGAATAATTCTGTTTCGGGATTTATTCCCACCATTCA
* *
39214341 GGAAATTTTATTCAATTTTGATTTTGTTTCCAAAC
131 AGAAATTTTATTCAATTTTGATTCTGTTTCCAAAC
* * * *
39214376 AAAAATTTAATTAAATAATTCTATTTCGAGATTTATACCC-TCGTTTAATAGA-TTTA----ATT
1 AAAAATTTAATTGAATAATTCTATTTCGGGATTTATTCCCGTCGTTCAATAGATTTTATTCTATT
* * * * ** *
39214435 TTGGTTTTGTTTCGAAACAAGATTTAATCAAATAATTCTATTTCGGGATTTATTC
66 TTGATTTTGTTTCCAAACGAGAATTAATTGAATAATTCTGTTTCGGGATTTATTC
39214490 TCATCGTTTA
Statistics
Matches: 232, Mismatches: 41, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
159 50 0.22
161 37 0.16
162 79 0.34
163 13 0.06
164 23 0.10
165 30 0.13
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.45
Consensus pattern (165 bp):
AAAAATTTAATTGAATAATTCTATTTCGGGATTTATTCCCGTCGTTCAATAGATTTTATTCTATT
TTGATTTTGTTTCCAAACGAGAATTAATTGAATAATTCTGTTTCGGGATTTATTCCCACCATTCA
AGAAATTTTATTCAATTTTGATTCTGTTTCCAAAC
Found at i:39214479 original size:159 final size:153
Alignment explanation
Indices: 39214273--39214601 Score: 363
Period size: 159 Copynumber: 2.1 Consensus size: 153
39214263 ATTTTATTCT
* ** *
39214273 ATTTTGATTTTGTTTCCAAACGAGAATTAATTGAATAAATCTGTTTCGGGATTTATTCCCACCAT
1 ATTTTGATTTTGTTTCCAAACAAGAATTAATCAAATAAATCTATTTCGGGATTTATTCCCACCAT
* *
39214338 TCAGGAAATTTTATTCAATTTTGATTTTGTTTCCAAACAAAAATTTAATTAAATAATTCTATTTC
66 TCA--AAATATT-TT--ATTTTGATTTTATTTCCAAAC-AAAATTTAATTAAATAATTCTATTTC
39214403 GAGATTTATACCCTCGTTTAATAGATTTA
125 GAGATTTATACCCTCGTTTAATAGATTTA
* * * * * * *
39214432 ATTTTGGTTTTGTTTCGAAACAAGATTTAATCAAATAATTCTATTTCGGGATTTATTCTCATCGT
1 ATTTTGATTTTGTTTCCAAACAAGAATTAATCAAATAAATCTATTTCGGGATTTATTCCCACCAT
* * * * * *
39214497 TTAACATATTTTATTTTGGTTTTATTTCCAAACAAGATTTAATTAAATAATTTTGTTTCGAGATT
66 TCAAAATATTTTATTTTGATTTTATTTCCAAACAAAATTTAATTAAATAATTCTATTTCGAGATT
* * * * *
39214562 TA-ATCCTGTCGTTCAACAGAATTG
131 TATA-CC-CTCGTTTAATAGATTTA
39214586 ATTTTGATTTTGTTTC
1 ATTTTGATTTTGTTTC
39214602 AGAATAGTAA
Statistics
Matches: 143, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
152 1 0.01
153 33 0.23
154 46 0.32
156 2 0.01
157 5 0.03
159 56 0.39
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (153 bp):
ATTTTGATTTTGTTTCCAAACAAGAATTAATCAAATAAATCTATTTCGGGATTTATTCCCACCAT
TCAAAATATTTTATTTTGATTTTATTTCCAAACAAAATTTAATTAAATAATTCTATTTCGAGATT
TATACCCTCGTTTAATAGATTTA
Found at i:39214485 original size:76 final size:77
Alignment explanation
Indices: 39214354--39214601 Score: 293
Period size: 77 Copynumber: 3.2 Consensus size: 77
39214344 AATTTTATTC
* * *
39214354 AATTTTGATTTTGTTTCCAAACAAAAATTTAATTAAATAATTCTATTTCGAGATTTATAC-CCTC
1 AATTTTGGTTTTGTTTCCAAAC-AAGATTTAATTAAATAATTCTATTTCGAGATTTATACTCATC
*
39214418 GTTTAATAGATTT
65 GTTTAACAGATTT
* * * *
39214431 AATTTTGGTTTTGTTTCGAAACAAGATTTAATCAAATAATTCTATTTCGGGATTTATTCTCATCG
1 AATTTTGGTTTTGTTTCCAAACAAGATTTAATTAAATAATTCTATTTCGAGATTTATACTCATCG
*
39214496 TTTAACATATTT
66 TTTAACAGATTT
* * * * * *
39214508 TATTTTGGTTTTATTTCCAAACAAGATTTAATTAAATAATTTTGTTTCGAGATTTAATCCT-GTC
1 AATTTTGGTTTTGTTTCCAAACAAGATTTAATTAAATAATTCTATTTCGAGATTT-ATACTCATC
* *
39214572 GTTCAACAGAATT
65 GTTTAACAGATTT
* *
39214585 GATTTTGATTTTGTTTC
1 AATTTTGGTTTTGTTTC
39214602 AGAATAGTAA
Statistics
Matches: 145, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
76 33 0.23
77 108 0.74
78 4 0.03
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (77 bp):
AATTTTGGTTTTGTTTCCAAACAAGATTTAATTAAATAATTCTATTTCGAGATTTATACTCATCG
TTTAACAGATTT
Found at i:39217962 original size:79 final size:78
Alignment explanation
Indices: 39217793--39217968 Score: 257
Period size: 79 Copynumber: 2.2 Consensus size: 78
39217783 AGTGGCACAC
* *
39217793 AATCACATTTTGGGATTGATTCCCATCGTTCAACGATTTAATTCCAAAATATTTTTATTTCCAAA
1 AATCA-ATTTCGGGATTGATTCCCACCGTTCAACGATTTAATTCCAAAATATTTTTATTTCCAAA
39217858 AACGAGTAAAATAA
65 AACGAGTAAAATAA
* *
39217872 AATTC-GTTTCGGGATTGATTCCCACCGTTCAACGATGTT-ATTCCAAAATTTGTTTTATTTCCA
1 AA-TCAATTTCGGGATTGATTCCCACCGTTCAACGAT-TTAATTCCAAAATAT-TTTTATTTCCA
*
39217935 AAAACGAGTAAAGTAA
63 AAAACGAGTAAAATAA
39217951 AATCAATTTCGGGATTGA
1 AATCAATTTCGGGATTGA
39217969 CTCTTGTCGT
Statistics
Matches: 87, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
78 41 0.47
79 44 0.51
80 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (78 bp):
AATCAATTTCGGGATTGATTCCCACCGTTCAACGATTTAATTCCAAAATATTTTTATTTCCAAAA
ACGAGTAAAATAA
Found at i:39218113 original size:86 final size:86
Alignment explanation
Indices: 39217996--39218244 Score: 233
Period size: 86 Copynumber: 2.9 Consensus size: 86
39217986 ATTATTACAT
* * *
39217996 TTTGATTTTGTTGCCAAAAATGAAAATTTAAATTAAATATAATCCGTTTCAGGATTTATTCCCAC
1 TTTGATTATGTTGCCAAAAATGAAAATTTAAATTAAATAAAATCCATTTCAGGATTTATTCCCAC
39218061 CGTTTAATAAAGATTTATTGTA
66 CGTTTAA-AAAGATTTATTGTA
* * * *
39218083 TTTGATTAT-TTGCCAGAAATGAGAAA-TTAAATTAAATAAAATCTATTTCGGGATTTATTCCTA
1 TTTGATTATGTTGCCAAAAATGA-AAATTTAAATTAAATAAAATCCATTTCAGGATTTATTCCCA
* *
39218146 TCGTTTAACAAGATTTTATT-TGA
65 CCGTTTAAAAAGA-TTTATTGT-A
* * * * * * ** *
39218169 TTTTATT-TTTTTCC-AAACT-CAAA-TTGAATTAAATAAAATTTATTTCAGGATTTATTCCCGC
1 TTTGATTATGTTGCCAAAAATGAAAATTTAAATTAAATAAAATCCATTTCAGGATTTATTCCCAC
* *
39218230 CATTTAACAAGATTT
66 CGTTTAAAAAGATTT
39218245 TATCGATATT
Statistics
Matches: 137, Mismatches: 21, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
82 3 0.02
83 46 0.34
85 9 0.07
86 68 0.50
87 11 0.08
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (86 bp):
TTTGATTATGTTGCCAAAAATGAAAATTTAAATTAAATAAAATCCATTTCAGGATTTATTCCCAC
CGTTTAAAAAGATTTATTGTA
Found at i:39218207 original size:83 final size:83
Alignment explanation
Indices: 39218023--39218269 Score: 223
Period size: 83 Copynumber: 2.9 Consensus size: 83
39218013 AAATGAAAAT
* ** * * *
39218023 TTAAATTAAATATAATCCGTTTCAGGATTTATTCCCACCGTTTAATAAAGA-TTTATTG-TATT-
1 TTAAATTAAATAAAATCTATTTCAGGATTTATTCCCACCATTTAA-CAAGATTTTATCGATATTA
* * * *
39218085 TGATTATTTGCCAGAAATGAGAAA
65 T-CTTGTTT-CCA-AACT--CAAA
* * * * * *
39218109 TTAAATTAAATAAAATCTATTTCGGGATTTATTCCTATCGTTTAACAAGATTTTATTTGATTTTA
1 TTAAATTAAATAAAATCTATTTCAGGATTTATTCCCACCATTTAACAAGATTTTA-TCGATATTA
*
39218174 T-TTTTTTCCAAACTCAAA
65 TCTTGTTTCCAAACTCAAA
* * *
39218192 TTGAATTAAATAAAATTTATTTCAGGATTTATTCCCGCCATTTAACAAGATTTTATCGATATTAT
1 TTAAATTAAATAAAATCTATTTCAGGATTTATTCCCACCATTTAACAAGATTTTATCGATATTAT
39218257 CTTGTTTCCAAAC
66 CTTGTTTCCAAAC
39218270 AAAGACGTAA
Statistics
Matches: 135, Mismatches: 21, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
82 8 0.06
83 62 0.46
85 7 0.05
86 46 0.34
87 8 0.06
88 3 0.02
89 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (83 bp):
TTAAATTAAATAAAATCTATTTCAGGATTTATTCCCACCATTTAACAAGATTTTATCGATATTAT
CTTGTTTCCAAACTCAAA
Found at i:39224570 original size:100 final size:100
Alignment explanation
Indices: 39224397--39224595 Score: 319
Period size: 100 Copynumber: 2.0 Consensus size: 100
39224387 CCAATTTTTT
* * * *
39224397 CTTAATCGTAAATTAACCATAGGAACCACCTAACAATTAAGCCTTATCAAACAAATAGCCCCGAA
1 CTTAATCGTAAATTAACCACAGGAAACACATAACAATTAAGCCTTATCAAACAAATAGCCCCAAA
*
39224462 ATTCGCTTCCATGGTTTAATCCTTCTAG-AACCTTC
66 AGTCGCTTCCATGGTTTAATCCTTCT-GCAACCTTC
* *
39224497 CTTAATCGTAAATTAATCACAGGAAACACATGACAATTAAGCCTTATCAAACAAATAGCCCCAAA
1 CTTAATCGTAAATTAACCACAGGAAACACATAACAATTAAGCCTTATCAAACAAATAGCCCCAAA
39224562 AGTCGCTTCCATGGTTTAATCCTTCTGCAACCTT
66 AGTCGCTTCCATGGTTTAATCCTTCTGCAACCTT
39224596 GCGAACTATA
Statistics
Matches: 91, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
99 1 0.01
100 90 0.99
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.28
Consensus pattern (100 bp):
CTTAATCGTAAATTAACCACAGGAAACACATAACAATTAAGCCTTATCAAACAAATAGCCCCAAA
AGTCGCTTCCATGGTTTAATCCTTCTGCAACCTTC
Found at i:39228348 original size:22 final size:23
Alignment explanation
Indices: 39228318--39228362 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
39228308 TTGCAATCAT
*
39228318 AGATTTGAT-ATGTAATCTTAGA
1 AGATATGATCATGTAATCTTAGA
*
39228340 AGATATGATCTTGTAATCTTAGA
1 AGATATGATCATGTAATCTTAGA
39228363 GATTCAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATCATGTAATCTTAGA
Found at i:39233492 original size:22 final size:21
Alignment explanation
Indices: 39233462--39233519 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
39233452 TTGCAATCAT
*
39233462 AGATTTGATATGTAATCTTAG
1 AGATTTGATTTGTAATCTTAG
*
39233483 AAGATATGATCTTGTAATCTTAG
1 -AGATTTGAT-TTGTAATCTTAG
39233506 AGATTTGATTTGTA
1 AGATTTGATTTGTA
39233520 GATACCATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.16
22 16 0.50
23 11 0.34
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (21 bp):
AGATTTGATTTGTAATCTTAG
Found at i:39234622 original size:2 final size:2
Alignment explanation
Indices: 39234615--39234648 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
39234605 TCTTGGTCCA
39234615 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
39234649 TGTCTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39237450 original size:28 final size:27
Alignment explanation
Indices: 39237375--39237477 Score: 77
Period size: 26 Copynumber: 3.8 Consensus size: 27
39237365 TTGTCAAAAA
* * * *
39237375 TATAACAAATATATATGTGTATATAAAT
1 TATAA-AATTATATAAGTATATATATAT
* *
39237403 TATAAAATATATGTAA--ATATATGTAT
1 TATAAAAT-TATATAAGTATATATATAT
*
39237429 TATAAAATGTATATAAGTATATGTATAT
1 TATAAAAT-TATATAAGTATATATATAT
* *
39237457 TTTAATATTATA-AAGTATATA
1 TATAAAATTATATAAGTATATA
39237478 CAAAAAAAGA
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
26 29 0.49
27 6 0.10
28 24 0.41
ACGTcount: A:0.49, C:0.01, G:0.08, T:0.43
Consensus pattern (27 bp):
TATAAAATTATATAAGTATATATATAT
Found at i:39237451 original size:26 final size:26
Alignment explanation
Indices: 39237401--39237454 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
39237391 GTGTATATAA
*
39237401 ATTATAAAATATATGTAAATATATGT
1 ATTATAAAATATATATAAATATATGT
* *
39237427 ATTATAAAATGTATATAAGTATATGT
1 ATTATAAAATATATATAAATATATGT
39237453 AT
1 AT
39237455 ATTTTAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (26 bp):
ATTATAAAATATATATAAATATATGT
Found at i:39237597 original size:35 final size:34
Alignment explanation
Indices: 39237558--39237627 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 34
39237548 ATGCATGTAC
*
39237558 ACACATATATATATATTAAAGT-TATAAAATATAAA
1 ACACATATATATATA-TAAA-TATATAAAACATAAA
* *
39237593 ACACATATGTATGTATAAATATATAAAACATAAA
1 ACACATATATATATATAAATATATAAAACATAAA
39237627 A
1 A
39237628 TATATGTGCG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 1 0.03
34 17 0.55
35 13 0.42
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.31
Consensus pattern (34 bp):
ACACATATATATATATAAATATATAAAACATAAA
Found at i:39237693 original size:4 final size:4
Alignment explanation
Indices: 39237684--39237731 Score: 53
Period size: 4 Copynumber: 12.0 Consensus size: 4
39237674 AACAAAGTTT
* * *
39237684 TAAA TAAA TATA TAAA TAAGA -AAA CAAA TAAA TAAA TGAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAA-A TAAA TAAA TAAA TAAA TAAA TAAA TAAA
39237732 GAATTAAGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
3 1 0.03
4 35 0.95
5 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:39239564 original size:44 final size:44
Alignment explanation
Indices: 39239508--39239931 Score: 224
Period size: 44 Copynumber: 9.8 Consensus size: 44
39239498 TCATCGTTTT
*
39239508 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTC
* *
39239552 AATCTGCCCCACTGCAACTTCAGGGGGATAGGATTAGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTC
* * * * * * * *
39239596 AATCTACTCCATTGTAACTTCAAGGAGATAAGACTT-GTGGTTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGA-TTAGTAGCTTC
* * * * * * **
39239640 AATCCGGTTCACTGCAACTTTAGGGAGATATGATTGGTTTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTC
* * * * * *
39239684 TATCTGCTCCACTGTAACTTCAGGGAGATAAGACT-G--GATAC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTC
* * * * * * *
39239725 GATCTGCTCTACTGCAACTTTAGAGAGATAAGATCT-GT-GTTTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TAGTAG-CTTC
* * * * ** *
39239769 AATCCGCTCCACTACAACTCCAGGGAGATAGGATTGGTTTCGTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTC
* * * * * * *
39239813 TATCTGCTCCACTGTAACTTTA-GGAGATAAGACT-G--GATGC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTC
* * * * * *
39239853 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT-GT-GTTTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TAGTAG-CTTC
* * *
39239897 AATCTGCTCCGCTGCAACTTCAGAGAGGTAGGATT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATT
39239932 GATTTCTTCG
Statistics
Matches: 285, Mismatches: 84, Indels: 23
0.73 0.21 0.06
Matches are distributed among these distances:
40 19 0.07
41 39 0.14
42 5 0.02
43 17 0.06
44 203 0.71
45 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTC
Found at i:39239781 original size:85 final size:85
Alignment explanation
Indices: 39239649--39239844 Score: 209
Period size: 85 Copynumber: 2.3 Consensus size: 85
39239639 TAATCCGGTT
* * * ** *
39239649 CACTGCAACTTTAGGGAGATATGATTGGTTTCTTCTATCTGCTCCACTGTAACTTCAGGGAGATA
1 CACTGCAACTTTA-GGAGATAAGATTGGTTTCTTCAATCCGCTCCACTACAACTCCAGGGAGATA
39239714 AGACTGGATACG-ATCTGCTC
65 AGACTGGATACGTATCTGCTC
*
39239734 TACTGCAACTTTAGAGAGATAAGATCTGTGTTT-TT-AATCCGCTCCACTACAACTCCAGGGAGA
1 CACTGCAACTTTAG-GAGATAAGAT-TG-GTTTCTTCAATCCGCTCCACTACAACTCCAGGGAGA
* * * *
39239797 TAGGATTGGTTTCGTCTATCTGCTC
63 TAAGACTGGATACG--TATCTGCTC
*
39239822 CACTGTAACTTTAGGAGATAAGA
1 CACTGCAACTTTAGGAGATAAGA
39239845 CTGGATGCGA
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
84 1 0.01
85 54 0.59
86 4 0.04
87 13 0.14
88 20 0.22
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (85 bp):
CACTGCAACTTTAGGAGATAAGATTGGTTTCTTCAATCCGCTCCACTACAACTCCAGGGAGATAA
GACTGGATACGTATCTGCTC
Found at i:39239884 original size:128 final size:129
Alignment explanation
Indices: 39239504--39239948 Score: 527
Period size: 128 Copynumber: 3.4 Consensus size: 129
39239494 TGATTCATCG
* ** * * *
39239504 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCCCCACTGCAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTATCTGCTCCACTGTAA
* * * * * * * * * *
39239569 CTTCAGGGGGATAGGATTAGTAGCTTCAATCTACTCCATTGTAACTTCA-AGGAGATAAGA-CTT
66 CTTCAGGGAGATAAGACT-G--GATACGATCTGCTCTACTGCAACTTCAGA-GAGATAAGATC-T
*
39239632 GTGG
126 GTGT
* * * *
39239636 TTTTAATCCGGTTCACTGCAACTTTAGGGAGATATGATTGGTTTCTTCTATCTGCTCCACTGTAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTATCTGCTCCACTGTAA
*
39239701 CTTCAGGGAGATAAGACTGGATACGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTGT
66 CTTCAGGGAGATAAGACTGGATACGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGT
* * *
39239765 TTTTAATCCGCTCCACTACAACTCCAGGGAGATAGGATTGGTTTCGTCTATCTGCTCCACTGTAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTATCTGCTCCACTGTAA
* *
39239830 CTTTA-GGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGT
66 CTTCAGGGAGATAAGACTGGATACGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGT
* * * * * *
39239893 TTTTAATCTGCTCCGCTGCAACTTCAGAGAGGTAGGATTGATTTCTTCGATCTGCT
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTATCTGCT
39239949 TCGCTGCCAA
Statistics
Matches: 270, Mismatches: 41, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
128 103 0.38
129 94 0.35
130 2 0.01
131 1 0.00
132 70 0.26
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (129 bp):
TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTATCTGCTCCACTGTAA
CTTCAGGGAGATAAGACTGGATACGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGT
Found at i:39241707 original size:12 final size:13
Alignment explanation
Indices: 39241685--39241714 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
39241675 CATGCCCCAC
39241685 ATAGAGAAAGTCT
1 ATAGAGAAAGTCT
39241698 ATAG-GAAAGTCT
1 ATAGAGAAAGTCT
39241710 ATAGA
1 ATAGA
39241715 TCGACCCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.47, C:0.07, G:0.23, T:0.23
Consensus pattern (13 bp):
ATAGAGAAAGTCT
Found at i:39244659 original size:26 final size:26
Alignment explanation
Indices: 39244630--39244683 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
39244620 GTGTCTATAA
* *
39244630 ATTATAAAATATATGTAAATATATGT
1 ATTATAAAATATATATAAATATACGT
* *
39244656 ATTATAAAATGTATATAAGTATACGT
1 ATTATAAAATATATATAAATATACGT
39244682 AT
1 AT
39244684 ATTTTAAGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (26 bp):
ATTATAAAATATATATAAATATACGT
Found at i:39255099 original size:79 final size:86
Alignment explanation
Indices: 39254921--39255198 Score: 222
Period size: 79 Copynumber: 3.3 Consensus size: 86
39254911 TAAAAGTAGG
* * * *
39254921 TAAAATCCGTTACGGGATTGATTTCCACCGTTCAACGGATTTTATTCCATTATTTTGATTTTATT
1 TAAAATCTGTTTCGGGATTGATTCCCACCGTTCAACGGATTTTATTCCATAATTTTGATTTTATT
39254986 TCCAAACGGAAAATTAAAGATAAA
66 TCCAAA--GAAAA-TAAAGATAAA
* *
39255010 TAAAGTCTGTTTCGGGATTGATTCCCACTGTTCAAC-GATTTTATTCCA-AATTTTG-TTTTATT
1 TAAAATCTGTTTCGGGATTGATTCCCACCGTTCAACGGATTTTATTCCATAATTTTGATTTTATT
*
39255072 T-C-AA-AAAA-CAAG-TAAAA
66 TCCAAAGAAAATAAAGAT-AAA
** * * * * * *
39255089 TAAAATCTGTTTTAGGATTGATTCTCGCCATTCAACGGA-TTCATT--A-CATTTTGATTTTGTT
1 TAAAATCTGTTTCGGGATTGATTCCCACCGTTCAACGGATTTTATTCCATAATTTTGATTTTATT
*
39255150 GCCAAAATGAGAAATAAA-ATTAAA
66 TCC-AAA-GA-AAATAAAGA-TAAA
* * *
39255174 TAGAATCTATTTCGGGATTTATTCC
1 TAAAATCTGTTTCGGGATTGATTCC
39255199 TACCATTTGA
Statistics
Matches: 152, Mismatches: 25, Indels: 28
0.74 0.12 0.14
Matches are distributed among these distances:
77 7 0.05
78 7 0.05
79 41 0.27
80 2 0.01
81 6 0.04
83 1 0.01
84 5 0.03
85 25 0.16
86 9 0.06
87 6 0.04
88 12 0.08
89 31 0.20
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (86 bp):
TAAAATCTGTTTCGGGATTGATTCCCACCGTTCAACGGATTTTATTCCATAATTTTGATTTTATT
TCCAAAGAAAATAAAGATAAA
Found at i:39256583 original size:24 final size:25
Alignment explanation
Indices: 39256551--39256702 Score: 118
Period size: 25 Copynumber: 6.2 Consensus size: 25
39256541 AAATGACATG
* * * *
39256551 TCATTAGAGATTACTGATT-TCAGA
1 TCATGAGAGCTTACCGATTCTCAGC
**
39256575 TCATGAGAGCTTATTGATTCTCAGC
1 TCATGAGAGCTTACCGATTCTCAGC
*
39256600 TCGT-ATGAGCTTACCGATT-TCAGC
1 TCATGA-GAGCTTACCGATTCTCAGC
*
39256624 TCGTGAGAGCTTACCGATTCTCAGC
1 TCATGAGAGCTTACCGATTCTCAGC
* *
39256649 TCAT-ATGAGCTTACAGATT-TACAAC
1 TCATGA-GAGCTTACCGATTCT-CAGC
* *
39256674 TCGTGAGAGCATACCGATTCAT-AGC
1 TCATGAGAGCTTACCGATTC-TCAGC
39256699 TCAT
1 TCAT
39256703 ATGAGCATAC
Statistics
Matches: 104, Mismatches: 15, Indels: 17
0.76 0.11 0.12
Matches are distributed among these distances:
24 41 0.39
25 61 0.59
26 1 0.01
27 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (25 bp):
TCATGAGAGCTTACCGATTCTCAGC
Found at i:39256643 original size:49 final size:49
Alignment explanation
Indices: 39256561--39256713 Score: 191
Period size: 49 Copynumber: 3.1 Consensus size: 49
39256551 TCATTAGAGA
* * * ** *
39256561 TTACTGATTTCAGATCATGAGAGCTTATTGATTCTCAGCTCGTATGAGC
1 TTACAGATTTCAGCTCGTGAGAGCTTACCGATTCTCAGCTCATATGAGC
*
39256610 TTACCGATTTCAGCTCGTGAGAGCTTACCGATTCTCAGCTCATATGAGC
1 TTACAGATTTCAGCTCGTGAGAGCTTACCGATTCTCAGCTCATATGAGC
* *
39256659 TTACAGATTTACAACTCGTGAGAGCATACCGATTCAT-AGCTCATATGAGC
1 TTACAGATTT-CAGCTCGTGAGAGCTTACCGATTC-TCAGCTCATATGAGC
*
39256709 ATACA
1 TTACA
39256714 TGTACAAGAA
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
49 52 0.57
50 39 0.42
51 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (49 bp):
TTACAGATTTCAGCTCGTGAGAGCTTACCGATTCTCAGCTCATATGAGC
Found at i:39256700 original size:50 final size:49
Alignment explanation
Indices: 39256590--39256713 Score: 178
Period size: 50 Copynumber: 2.5 Consensus size: 49
39256580 AGAGCTTATT
* * * *
39256590 GATTCTCAGCTCGTATGAGCTTACCGATTTCAGCTCGTGAGAGCTTACC
1 GATTCTCAGCTCATATGAGCTTACAGATTTCAACTCGTGAGAGCATACC
39256639 GATTCTCAGCTCATATGAGCTTACAGATTTACAACTCGTGAGAGCATACC
1 GATTCTCAGCTCATATGAGCTTACAGATTT-CAACTCGTGAGAGCATACC
*
39256689 GATTCAT-AGCTCATATGAGCATACA
1 GATTC-TCAGCTCATATGAGCTTACA
39256714 TGTACAAGAA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
49 28 0.41
50 39 0.57
51 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (49 bp):
GATTCTCAGCTCATATGAGCTTACAGATTTCAACTCGTGAGAGCATACC
Found at i:39256712 original size:25 final size:25
Alignment explanation
Indices: 39256581--39256708 Score: 122
Period size: 25 Copynumber: 5.2 Consensus size: 25
39256571 CAGATCATGA
**
39256581 GAGCTTATTGATTCTCAGCTCGTAT
1 GAGCTTACCGATTCTCAGCTCGTAT
39256606 GAGCTTACCGATT-TCAGCTCGTGA-
1 GAGCTTACCGATTCTCAGCTCGT-AT
*
39256630 GAGCTTACCGATTCTCAGCTCATAT
1 GAGCTTACCGATTCTCAGCTCGTAT
* *
39256655 GAGCTTACAGATT-TACAACTCGTGA-
1 GAGCTTACCGATTCT-CAGCTCGT-AT
* *
39256680 GAGCATACCGATTCAT-AGCTCATAT
1 GAGCTTACCGATTC-TCAGCTCGTAT
39256705 GAGC
1 GAGC
39256709 ATACATGTAC
Statistics
Matches: 85, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
24 25 0.29
25 58 0.68
26 1 0.01
27 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (25 bp):
GAGCTTACCGATTCTCAGCTCGTAT
Found at i:39260264 original size:350 final size:346
Alignment explanation
Indices: 39259627--39260326 Score: 1231
Period size: 350 Copynumber: 2.0 Consensus size: 346
39259617 AATATAAACC
* * *
39259627 CTAACATGAATTAGCGGTAGAATAAGCTAAAACGAGCTACGAGGACTCCAAAAACGTAAAAAAAT
1 CTAACATGAATTAACGGTAGAATAAGCTAAAACGAGCTACGAGGACTCCAAAAACATAAAAAAAA
*
39259692 AAAAAAACGAGGCTTGGATCACTTACTATGAGCTTGAGAAAATGAAGAAACCATAGCTATGGAGT
66 AAAAAAACGAGGCTTGGATCACTTACTATGAGCTTGAGAAAATGAAAAAACCATAGCTATGGAGT
* *
39259757 CCCTTGAAGTTTCGGCCCTTATCGAAGAAGATGAGCACATTTTGTCATCTTTTACCCTTTAATTC
131 CCCTTGAAGTTTCGGCCCTTATCGAAGAAGATGAGCACATTTTGCCATATTTTACCCTTTAATTC
39259822 TTTTTATTACCAAAGGACTAAAATGCCCTTCATTAAAACTTTAGTTATTTTTATCTATGCATGCC
196 TTTTTATTACCAAAGGACTAAAATGCCCTTCATTAAAACTTTAGTTATTTTTATCTATGCATGCC
*
39259887 CATTTTTGTCAATGAAAATCTAATGGTCTAATTACCATTTAAGGACCTCTACTTCAATTATGCAC
261 CATTTTTGTCAATGAAAATCTAATGGTCTAATTACCATTTAAGGACCTCTACTTCAATAATGCAC
39259952 TTCTATTAAATCCTTTATCAT
326 TTCTATTAAATCCTTTATCAT
* *
39259973 CTAACATGAATTAATGGTAGAATAAGCTAAACCGAGCTACGAGGACTCCAAAAACATAAAAAAAA
1 CTAACATGAATTAACGGTAGAATAAGCTAAAACGAGCTACGAGGACTCCAAAAACATAAAAAAAA
*
39260038 ACATTAAAAAC-AGGGCTTGGATGCACTTACTATGAGCTTGAGAAAATGAAAAAACCCTAGCTAT
66 A-A--AAAAACGA-GGCTTGGAT-CACTTACTATGAGCTTGAGAAAATGAAAAAACCATAGCTAT
*
39260102 GGAGTCCCTTGAAGTTTCGGCCCTTATCGAAGAAGATGAGCACATTTTGCCATATTTTTCCCTTT
126 GGAGTCCCTTGAAGTTTCGGCCCTTATCGAAGAAGATGAGCACATTTTGCCATATTTTACCCTTT
*
39260167 AATTCTTTTTATTACCAAATGACTAAAATGCCCTTCATTAAAACTTTAGTTATTTTTATCTATGC
191 AATTCTTTTTATTACCAAAGGACTAAAATGCCCTTCATTAAAACTTTAGTTATTTTTATCTATGC
*
39260232 ATGCCCATTTTTGTCCATGAAAATCTAATGGTCTAATTACCATTTAAGGACCTCTACTTCAATAA
256 ATGCCCATTTTTGTCAATGAAAATCTAATGGTCTAATTACCATTTAAGGACCTCTACTTCAATAA
39260297 TGCACTTCTATTAAATCCTTTATCAT
321 TGCACTTCTATTAAATCCTTTATCAT
39260323 CTAA
1 CTAA
39260327 AGCTCATATT
Statistics
Matches: 336, Mismatches: 13, Indels: 6
0.95 0.04 0.02
Matches are distributed among these distances:
346 61 0.18
347 1 0.00
348 1 0.00
349 15 0.04
350 258 0.77
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (346 bp):
CTAACATGAATTAACGGTAGAATAAGCTAAAACGAGCTACGAGGACTCCAAAAACATAAAAAAAA
AAAAAAACGAGGCTTGGATCACTTACTATGAGCTTGAGAAAATGAAAAAACCATAGCTATGGAGT
CCCTTGAAGTTTCGGCCCTTATCGAAGAAGATGAGCACATTTTGCCATATTTTACCCTTTAATTC
TTTTTATTACCAAAGGACTAAAATGCCCTTCATTAAAACTTTAGTTATTTTTATCTATGCATGCC
CATTTTTGTCAATGAAAATCTAATGGTCTAATTACCATTTAAGGACCTCTACTTCAATAATGCAC
TTCTATTAAATCCTTTATCAT
Found at i:39266534 original size:20 final size:20
Alignment explanation
Indices: 39266509--39266547 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
39266499 TACTTTATTC
39266509 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
39266529 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
39266548 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:39270999 original size:15 final size:15
Alignment explanation
Indices: 39270981--39271009 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
39270971 GATGTTTTAT
39270981 TTGACCATGTTAAAC
1 TTGACCATGTTAAAC
39270996 TTGACCATGTTAAA
1 TTGACCATGTTAAA
39271010 GAGGGCGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (15 bp):
TTGACCATGTTAAAC
Found at i:39274169 original size:3 final size:3
Alignment explanation
Indices: 39274161--39274218 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
39274151 CATAAATTTA
39274161 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
39274209 AAT AAT AAT A
1 AAT AAT AAT A
39274219 GTAGTGATAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:39276974 original size:20 final size:22
Alignment explanation
Indices: 39276949--39276988 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
39276939 ATCCCTATAC
*
39276949 TTTTTAGATT-TATA-AACCTG
1 TTTTTAAATTATATATAACCTG
39276969 TTTTTAAATTATATATAACC
1 TTTTTAAATTATATATAACC
39276989 GCGCAACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 4 0.24
22 4 0.24
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (22 bp):
TTTTTAAATTATATATAACCTG
Found at i:39279998 original size:31 final size:32
Alignment explanation
Indices: 39279942--39280008 Score: 77
Period size: 31 Copynumber: 2.1 Consensus size: 32
39279932 TTATTTATAT
*
39279942 AGGTTGGCCGAATGTGTGGGATCA-TTTAACA
1 AGGTTAGCCGAATGTGTGGGATCATTTTAACA
*
39279973 AGGTTAGCCGAAT-T-TGGAGATTCATTTTAGCA
1 AGGTTAGCCGAATGTGTGG-GA-TCATTTTAACA
39280005 AGGT
1 AGGT
39280009 GCATGCAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 3 0.10
30 3 0.10
31 15 0.48
32 10 0.32
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.31
Consensus pattern (32 bp):
AGGTTAGCCGAATGTGTGGGATCATTTTAACA
Found at i:39280828 original size:22 final size:22
Alignment explanation
Indices: 39280800--39280843 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
39280790 TTTTGAACCA
39280800 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
39280822 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
39280844 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:39286240 original size:18 final size:17
Alignment explanation
Indices: 39286219--39286262 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
39286209 ACTAAATATC
39286219 ATAAATAAAAAAATAAA
1 ATAAATAAAAAAATAAA
* *
39286236 GATAAAGCATAAAAATAAA
1 -ATAAA-TAAAAAAATAAA
39286255 ATAAATAA
1 ATAAATAA
39286263 CCATATGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
17 1 0.05
18 10 0.48
19 10 0.48
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (17 bp):
ATAAATAAAAAAATAAA
Found at i:39297543 original size:33 final size:33
Alignment explanation
Indices: 39297505--39297570 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
39297495 TTTAAATATC
39297505 TTTCCTATTTATCATGAACTATCATTATAATTT
1 TTTCCTATTTATCATGAACTATCATTATAATTT
*
39297538 TTTCCTATTTATCATGATCTATCATTATAATTT
1 TTTCCTATTTATCATGAACTATCATTATAATTT
39297571 ATGCATGTCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.15, G:0.03, T:0.53
Consensus pattern (33 bp):
TTTCCTATTTATCATGAACTATCATTATAATTT
Found at i:39301858 original size:9 final size:11
Alignment explanation
Indices: 39301825--39301855 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
39301815 TTATTTCTTT
39301825 AAATTTCTCTC
1 AAATTTCTCTC
39301836 AAATTTCTCTC
1 AAATTTCTCTC
39301847 AAATTTCTC
1 AAATTTCTC
39301856 AAAGCTCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (11 bp):
AAATTTCTCTC
Found at i:39303646 original size:18 final size:18
Alignment explanation
Indices: 39303623--39303665 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
39303613 TACCAGGTGC
*
39303623 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
39303641 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
39303659 GTTTCCT
1 GTATCCT
39303666 TTTCCCAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:39303930 original size:21 final size:21
Alignment explanation
Indices: 39303906--39303946 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
39303896 CCAACACCTA
39303906 CAACCACAACCCCCACCGGAG
1 CAACCACAACCCCCACCGGAG
*
39303927 CAACCACAACCCCCGCCGGA
1 CAACCACAACCCCCACCGGA
39303947 AGCTTAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.54, G:0.15, T:0.00
Consensus pattern (21 bp):
CAACCACAACCCCCACCGGAG
Found at i:39304170 original size:8 final size:9
Alignment explanation
Indices: 39304154--39304183 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
39304144 TGAATAAGGC
39304154 AATATTTTT
1 AATATTTTT
39304163 AATATTTTT
1 AATATTTTT
39304172 -ATATTTTT
1 AATATTTTT
39304180 AATA
1 AATA
39304184 AAATAGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
AATATTTTT
Found at i:39307644 original size:19 final size:20
Alignment explanation
Indices: 39307620--39307657 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
39307610 ACTACAGTTA
39307620 TTCAAA-AG-TGTAATGTTGT
1 TTCAAATAGTTGTAA-GTTGT
39307639 TTCAAATAGTTGTAAGTTG
1 TTCAAATAGTTGTAAGTTG
39307658 GATTCGGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 6 0.35
21 5 0.29
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (20 bp):
TTCAAATAGTTGTAAGTTGT
Found at i:39311165 original size:12 final size:12
Alignment explanation
Indices: 39311137--39311178 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
39311127 CCATTTTTTT
39311137 ATTTTTTATATA
1 ATTTTTTATATA
*
39311149 A-TTTTAATATA
1 ATTTTTTATATA
39311160 ATTTTTTATATA
1 ATTTTTTATATA
*
39311172 AATTTTT
1 ATTTTTT
39311179 CACCTATGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTTTTTATATA
Found at i:39311166 original size:13 final size:12
Alignment explanation
Indices: 39311137--39311178 Score: 59
Period size: 11 Copynumber: 3.5 Consensus size: 12
39311127 CCATTTTTTT
39311137 ATTTTTTATATA
1 ATTTTTTATATA
*
39311149 A-TTTTAATATA
1 ATTTTTTATATA
39311160 ATTTTTTATATAA
1 ATTTTTTATAT-A
39311173 ATTTTT
1 ATTTTT
39311179 CACCTATGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 10 0.38
12 9 0.35
13 7 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTTTTTATATA
Found at i:39311803 original size:25 final size:26
Alignment explanation
Indices: 39311744--39311804 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
39311734 TGAAAACAGA
39311744 GTGAACAAAACAAAACCACGAAAACT
1 GTGAACAAAACAAAACCACGAAAACT
* * *
39311770 AT-AGGCAAAACAAAACCAC-AAAATT
1 GTGA-ACAAAACAAAACCACGAAAACT
39311795 GTGAACAAAA
1 GTGAACAAAA
39311805 TTGCGATAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
25 12 0.43
26 16 0.57
ACGTcount: A:0.59, C:0.20, G:0.11, T:0.10
Consensus pattern (26 bp):
GTGAACAAAACAAAACCACGAAAACT
Found at i:39314104 original size:2 final size:2
Alignment explanation
Indices: 39314099--39314166 Score: 100
Period size: 2 Copynumber: 34.0 Consensus size: 2
39314089 TATATATGTA
* *
39314099 TG TG TG TG TG CG TG CG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* *
39314141 TG TG CG TG CG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
39314167 CGTGGCTTAG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.00, C:0.06, G:0.50, T:0.44
Consensus pattern (2 bp):
TG
Found at i:39314122 original size:18 final size:18
Alignment explanation
Indices: 39314099--39314170 Score: 117
Period size: 18 Copynumber: 4.0 Consensus size: 18
39314089 TATATATGTA
39314099 TGTGTGTGTGCGTGCGTG
1 TGTGTGTGTGCGTGCGTG
* *
39314117 TGTGTGTGTGTGTGTGTG
1 TGTGTGTGTGCGTGCGTG
39314135 TGTGTGTGTGCGTGCGTG
1 TGTGTGTGTGCGTGCGTG
*
39314153 TGTGTGTGTGTGTGCGTG
1 TGTGTGTGTGCGTGCGTG
39314171 GCTTAGCCAC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.00, C:0.07, G:0.50, T:0.43
Consensus pattern (18 bp):
TGTGTGTGTGCGTGCGTG
Found at i:39322259 original size:29 final size:29
Alignment explanation
Indices: 39322226--39322291 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
39322216 GTTACAAGAT
39322226 ATATCAGATATAGATAAATGAT-ATATCAG
1 ATATCAGATATAGATAAA-GATCATATCAG
*
39322255 ATATCAGATATAGATACAGATCATATCAG
1 ATATCAGATATAGATAAAGATCATATCAG
39322284 ATA-CAGAT
1 ATATCAGAT
39322292 GAAGATTTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
28 8 0.23
29 27 0.77
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.29
Consensus pattern (29 bp):
ATATCAGATATAGATAAAGATCATATCAG
Found at i:39322264 original size:16 final size:15
Alignment explanation
Indices: 39322245--39322291 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
39322235 ATAGATAAAT
39322245 GATATATCAGATATCA
1 GATATATCAGATA-CA
39322261 G--ATAT-AGATACA
1 GATATATCAGATACA
39322273 GATCATATCAGATACA
1 GAT-ATATCAGATACA
39322289 GAT
1 GAT
39322292 GAAGATTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 3 0.11
13 5 0.19
14 4 0.15
15 4 0.15
16 11 0.41
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.28
Consensus pattern (15 bp):
GATATATCAGATACA
Done.