Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 5 of 425
Found at i:1322791 original size:250 final size:251
Alignment explanation
Indices: 1322348--1322892 Score: 824
Period size: 250 Copynumber: 2.2 Consensus size: 251
1322338 TAATCTAAAA
* *
1322348 AAGCTTCTACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGT
1 AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTG-AAAAATAAATTTGAGAAGACGTGT
* * *
1322413 CTGCGCAAATAGTGTAAAAAACGCTTCAAGTAGAATGCATTGTCAGCAAAAGTACTGAAAGAAGC
65 CTGCACAAATAGTGTAAAAAACGCTTCAAGCAGAATACATTGTCAGCAAAAGTACTGAAAGAAGC
*
1322478 TCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGT
130 TCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGC
* *
1322543 GCAAATAGTGTAAAAAACGCTTCAAGCAATATGCATTGTCAGCAAAAGTACTGAAAG
195 ACAAATAGTGTAAAAAACGCTTCAAGCAAGATGCATTGTCAGCAAAAGTACTGAAAG
*
1322600 AAGCTTCCATGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAA-AAATTTGAGAAGACGTGTC
1 AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAATAAATTTGAGAAGACGTGTC
* * * * *
1322664 TGCACAAATAGTGGT-AAAAACGCTTCCAGCAGGATACATTTTCAGCAAAATTACTGGAAGAAGC
66 TGCACAAATAGT-GTAAAAAACGCTTCAAGCAGAATACATTGTCAGCAAAAGTACTGAAAGAAGC
* * *
1322728 TCCCACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGC
130 TCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGC
* * * * *
1322793 ATAAATAGTGTCAAAAACGCTTCAAGCAGGATGTATTTTCAGCAAAAGTACTGAAAG
195 ACAAATAGTGTAAAAAACGCTTCAAGCAAGATGCATTGTCAGCAAAAGTACTGAAAG
* * * *
1322850 AAGCTCCCACGTGGACGCTATTTTGCTACAATGGTTTCTGAAA
1 AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAA
1322893 TAACTTGGGC
Statistics
Matches: 265, Mismatches: 27, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
250 221 0.83
251 7 0.03
252 37 0.14
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (251 bp):
AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAATAAATTTGAGAAGACGTGTC
TGCACAAATAGTGTAAAAAACGCTTCAAGCAGAATACATTGTCAGCAAAAGTACTGAAAGAAGCT
CCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGCA
CAAATAGTGTAAAAAACGCTTCAAGCAAGATGCATTGTCAGCAAAAGTACTGAAAG
Found at i:1322892 original size:126 final size:126
Alignment explanation
Indices: 1322356--1322879 Score: 802
Period size: 126 Copynumber: 4.2 Consensus size: 126
1322346 AAAAGCTTCT
* *
1322356 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* *
1322421 ATAGTGTAAAAAACGCTTCAAGTAGAATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* **
1322482 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
** *
1322547 ATAGTGTAAAAAACGCTTCAAGCAATATGCATTGTCAGCAAAAGTACTGAAAGAAGCTTCC
66 ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
1322608 ATGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAA-AA-TTTGAGAAGACGTGTCTGCACAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* * * * *
1322671 ATAGTGGT-AAAAACGCTTCCAGCAGGATACATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGT-GTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * *
1322732 ACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* * *
1322797 ATAGTGTCAAAAACGCTTCAAGCAGGATGTATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
*
1322858 ACGTGGACGCTATTTTGCTACA
1 ACGTGGACGCTCTTTTGCTACA
1322880 ATGGTTTCTG
Statistics
Matches: 363, Mismatches: 31, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
124 105 0.29
125 8 0.02
126 250 0.69
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:1326081 original size:116 final size:116
Alignment explanation
Indices: 1325909--1326175 Score: 489
Period size: 116 Copynumber: 2.3 Consensus size: 116
1325899 TTTATATTTT
*
1325909 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTA
*
1325974 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACATTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
1326025 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTA
* *
1326090 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAATAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
*
1326141 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
1326176 TGTACAAATA
Statistics
Matches: 146, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 146 1.00
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
Found at i:1326592 original size:18 final size:18
Alignment explanation
Indices: 1326565--1326602 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
1326555 GAAAAAAGAA
*
1326565 ACATATAAGGGCTAGGAT
1 ACATAAAAGGGCTAGGAT
1326583 ACATAAAAGGGCTAGGAT
1 ACATAAAAGGGCTAGGAT
1326601 AC
1 AC
1326603 GTACCTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.18
Consensus pattern (18 bp):
ACATAAAAGGGCTAGGAT
Found at i:1327230 original size:7 final size:7
Alignment explanation
Indices: 1327220--1327246 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
1327210 GTTAAATAAA
1327220 AAATACT
1 AAATACT
1327227 AAATACT
1 AAATACT
1327234 AAATACT
1 AAATACT
1327241 AAATAC
1 AAATAC
1327247 GAATCCACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATACT
Found at i:1327231 original size:14 final size:14
Alignment explanation
Indices: 1327212--1327245 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1327202 AAATATTAGT
1327212 TAAATAAAAAATAC
1 TAAATAAAAAATAC
**
1327226 TAAATACTAAATAC
1 TAAATAAAAAATAC
1327240 TAAATA
1 TAAATA
1327246 CGAATCCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATAAAAAATAC
Found at i:1328417 original size:22 final size:22
Alignment explanation
Indices: 1328405--1328454 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 22
1328395 TAACGAGAGT
1328405 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
* *
1328427 TTTGAGA-G-ATTTGAGAGGAA
1 TTTGAGAGGAATTTAAGAGAAA
1328447 TTTGAGAG
1 TTTGAGAG
1328455 AATATTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 17 0.68
21 1 0.04
22 7 0.28
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (22 bp):
TTTGAGAGGAATTTAAGAGAAA
Found at i:1328462 original size:11 final size:10
Alignment explanation
Indices: 1328405--1328462 Score: 64
Period size: 11 Copynumber: 5.5 Consensus size: 10
1328395 TAACGAGAGT
1328405 TTTGAGAGGAA
1 TTTGAGA-GAA
*
1328416 TTTAAGAGAAA
1 TTTGAGAG-AA
1328427 TTTGAGAG-A
1 TTTGAGAGAA
1328436 TTTGAGAGGAA
1 TTTGAGA-GAA
1328447 TTTGAGAGAA
1 TTTGAGAGAA
1328457 TATTGA
1 T-TTGA
1328463 AAGATTGAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 8 0.20
10 6 0.15
11 27 0.66
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (10 bp):
TTTGAGAGAA
Found at i:1328468 original size:31 final size:31
Alignment explanation
Indices: 1328405--1328468 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
1328395 TAACGAGAGT
*
1328405 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGGAATTTAAGAGAAATTTGAAAGA
*
1328436 TTTGAGAGGAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGGAATTTAAGAGAAAT-TTGAAAGA
1328467 TT
1 TT
1328469 GAAGATTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.10
31 27 0.90
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (31 bp):
TTTGAGAGGAATTTAAGAGAAATTTGAAAGA
Found at i:1328936 original size:67 final size:68
Alignment explanation
Indices: 1328852--1328983 Score: 239
Period size: 67 Copynumber: 2.0 Consensus size: 68
1328842 AGGAAAAATA
*
1328852 TTCTCTCTGTATTGTTTTTATAGTCTCTTCAGTGCAATGATAAGTCATATATATGACATATCACA
1 TTCTCTCTGTATTGTTTTTATAGTCTCTTCAGTGCAATGATAAATCATATATATGACATATCACA
1328917 ATG
66 ATG
*
1328920 TTCTCT-TGTATTGTTTTTATAGTCTCTTCAGTGCAATGATAAATCATATATATGACATCTCACA
1 TTCTCTCTGTATTGTTTTTATAGTCTCTTCAGTGCAATGATAAATCATATATATGACATATCACA
1328984 TGTCATGACC
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
67 56 0.90
68 6 0.10
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (68 bp):
TTCTCTCTGTATTGTTTTTATAGTCTCTTCAGTGCAATGATAAATCATATATATGACATATCACA
ATG
Found at i:1330234 original size:30 final size:29
Alignment explanation
Indices: 1330170--1330236 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
1330160 ATAGGGATTT
*
1330170 GATCAAATTAGCCCTTCAACTATTAAATA
1 GATCAAATTAGCCCTTCAACTATTAAAAA
* *
1330199 GATCAATTTAGTCCCTT-TACTATTAAAAA
1 GATCAAATTAG-CCCTTCAACTATTAAAAA
1330228 GAATCAAAT
1 G-ATCAAAT
1330237 AAGACCAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 21 0.66
30 11 0.34
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (29 bp):
GATCAAATTAGCCCTTCAACTATTAAAAA
Found at i:1339328 original size:9 final size:9
Alignment explanation
Indices: 1339311--1339340 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
1339301 TTCGGTAGTC
1339311 GAACCAATT
1 GAACCAATT
*
1339320 GAACTAATT
1 GAACCAATT
1339329 GAACCAATT
1 GAACCAATT
1339338 GAA
1 GAA
1339341 TCGAAAACTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (9 bp):
GAACCAATT
Found at i:1347182 original size:29 final size:31
Alignment explanation
Indices: 1347112--1347184 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 31
1347102 CATACTCATG
* * *
1347112 GTCACTCAATTATCAGTAAATTTATATTTTA
1 GTCACTCAATTATCAGAAAAGTTATAATTTA
* * *
1347143 ATCATTAAATTAT-A-AAAAGTTATAATTTA
1 GTCACTCAATTATCAGAAAAGTTATAATTTA
1347172 GTCACTCAATTAT
1 GTCACTCAATTAT
1347185 TTGAAACAGA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
29 22 0.67
30 1 0.03
31 10 0.30
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.42
Consensus pattern (31 bp):
GTCACTCAATTATCAGAAAAGTTATAATTTA
Found at i:1350533 original size:38 final size:38
Alignment explanation
Indices: 1350482--1350559 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 38
1350472 CACCCGTGTC
* *
1350482 CTATGCATATTTGGACGTATGTACCGAGATATGACTCT
1 CTATGCATATTTGGACATATGTACCAAGATATGACTCT
* *
1350520 CTATGTATATTTGGCCATATGTACCAAGATATGACTCT
1 CTATGCATATTTGGACATATGTACCAAGATATGACTCT
1350558 CT
1 CT
1350560 GAGGACTCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (38 bp):
CTATGCATATTTGGACATATGTACCAAGATATGACTCT
Found at i:1354196 original size:11 final size:11
Alignment explanation
Indices: 1354180--1354209 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1354170 ACCTATTTTC
1354180 TTAATTTATAA
1 TTAATTTATAA
1354191 TTAATTTATAA
1 TTAATTTATAA
1354202 -TAATTTAT
1 TTAATTTAT
1354210 TTAATTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TTAATTTATAA
Found at i:1369856 original size:31 final size:29
Alignment explanation
Indices: 1369799--1369879 Score: 78
Period size: 29 Copynumber: 2.8 Consensus size: 29
1369789 TAAATTTTAA
* *
1369799 AATTATATATAT--TTTTTCATTCGATGTGT
1 AATTATATATATAAATTTTGATTCGA--TGT
*
1369828 AATT-TAATATATAAATTTTGATTTGATGT
1 AATTAT-ATATATAAATTTTGATTCGATGT
1369857 AATTATATATATAAAATTTTGAT
1 AATTATATATAT-AAATTTTGAT
1369880 CTTGGTTCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
28 1 0.02
29 23 0.52
30 11 0.25
31 9 0.20
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.52
Consensus pattern (29 bp):
AATTATATATATAAATTTTGATTCGATGT
Found at i:1370811 original size:8 final size:8
Alignment explanation
Indices: 1370798--1370898 Score: 63
Period size: 8 Copynumber: 13.0 Consensus size: 8
1370788 TTATGTTTAG
1370798 TATATTAT
1 TATATTAT
1370806 TATATTAT
1 TATATTAT
1370814 TATATTAT
1 TATATTAT
*
1370822 TATATAAT
1 TATATTAT
* * *
1370830 AAAAATAT
1 TATATTAT
* *
1370838 TTTATGTTT
1 TATAT-TAT
1370847 TA-ATTA-
1 TATATTAT
1370853 TAT-TATAT
1 TATAT-TAT
1370861 TATATTA-
1 TATATTAT
1370868 TAT-TATAT
1 TATAT-TAT
1370876 TATATTA-
1 TATATTAT
1370883 TAT-TATAT
1 TATAT-TAT
1370891 TATATTAT
1 TATATTAT
1370899 ATAAACTAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 22
0.67 0.12 0.21
Matches are distributed among these distances:
6 5 0.07
7 13 0.19
8 46 0.66
9 6 0.09
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (8 bp):
TATATTAT
Found at i:1370859 original size:5 final size:5
Alignment explanation
Indices: 1370849--1370900 Score: 104
Period size: 5 Copynumber: 10.4 Consensus size: 5
1370839 TTATGTTTTA
1370849 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1370899 AT
1 AT
1370901 AAACTAAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:1370947 original size:21 final size:20
Alignment explanation
Indices: 1370908--1370951 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
1370898 TATAAACTAA
*
1370908 AGAAACAAAAGAAAGGAAAC
1 AGAAACAAAAGAAACGAAAC
*
1370928 AGAAACAGAATGAAACGAAAC
1 AGAAACA-AAAGAAACGAAAC
1370949 AGA
1 AGA
1370952 GAGCAGGGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.66, C:0.11, G:0.20, T:0.02
Consensus pattern (20 bp):
AGAAACAAAAGAAACGAAAC
Found at i:1372527 original size:45 final size:45
Alignment explanation
Indices: 1372463--1372611 Score: 239
Period size: 45 Copynumber: 3.3 Consensus size: 45
1372453 CTGTTACCGC
* *
1372463 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1372508 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
1372553 TACTGTTACCGTTACCGATTCGGCACTTTGTGTG-CTGGATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTC-GAATATTGT
*
1372598 TACTG-TACTGTTAC
1 TACTGTTACCGTTAC
1372612 TGTTACTGTT
Statistics
Matches: 99, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
44 9 0.09
45 90 0.91
ACGTcount: A:0.17, C:0.20, G:0.22, T:0.40
Consensus pattern (45 bp):
TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:1372816 original size:18 final size:18
Alignment explanation
Indices: 1372785--1372861 Score: 75
Period size: 18 Copynumber: 4.3 Consensus size: 18
1372775 AAAGGTATAA
* *
1372785 AATAACTGATTATTACTG
1 AATAATTGACTATTACTG
*
1372803 AATAATTGACTATTACCG
1 AATAATTGACTATTACTG
* *
1372821 GATAATTGACTGTTACTG
1 AATAATTGACTATTACTG
* *
1372839 GAT-ATTAGACTGTTACTG
1 AATAATT-GACTATTACTG
1372857 AATAA
1 AATAA
1372862 ATAATTGTTC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
17 3 0.06
18 46 0.92
19 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (18 bp):
AATAATTGACTATTACTG
Found at i:1380960 original size:21 final size:21
Alignment explanation
Indices: 1380936--1380979 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
1380926 GAAATGAACA
1380936 TAGTTTTGGTCGTATAATGTT
1 TAGTTTTGGTCGTATAATGTT
1380957 TAGTTTTGGTCGTATAATGTT
1 TAGTTTTGGTCGTATAATGTT
1380978 TA
1 TA
1380980 TTGTTATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.05, G:0.23, T:0.52
Consensus pattern (21 bp):
TAGTTTTGGTCGTATAATGTT
Found at i:1386102 original size:13 final size:13
Alignment explanation
Indices: 1386086--1386113 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1386076 CCCCCCCCAA
1386086 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
1386099 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
1386112 AA
1 AA
1386114 GACCTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:1386105 original size:16 final size:16
Alignment explanation
Indices: 1386084--1386115 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1386074 ACCCCCCCCC
1386084 AAAAAAAAAAAAAAGA
1 AAAAAAAAAAAAAAGA
*
1386100 AAAAAAAAAAAGAAGA
1 AAAAAAAAAAAAAAGA
1386116 CCTTTGTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAAGA
Found at i:1388583 original size:26 final size:26
Alignment explanation
Indices: 1388557--1388605 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
1388547 ATAAATTAAT
1388557 TTAAATGAAAT-TTAATATTATGAAA
1 TTAAATGAAATGTTAATATTATGAAA
* * *
1388582 TTAATTTAAGTGTTAATATTATGA
1 TTAAATGAAATGTTAATATTATGA
1388606 TATATATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (26 bp):
TTAAATGAAATGTTAATATTATGAAA
Found at i:1394933 original size:123 final size:123
Alignment explanation
Indices: 1394775--1395027 Score: 497
Period size: 123 Copynumber: 2.1 Consensus size: 123
1394765 GAACAAAAAT
1394775 AATTCAAGGACCAAATTGGATAAAATTAACAAATTCAGGGACTAAATGTTGTTTTATCCCTTTAC
1 AATTCAAGGACCAAATTGGATAAAATTAACAAATTCAGGGACTAAATGTTGTTTTATCCCTTTAC
1394840 TTTTTAAAATAAACAAAACTACTAAAACCATAGGTGTCACTGAGTTTGAGTGATATTA
66 TTTTTAAAATAAACAAAACTACTAAAACCATAGGTGTCACTGAGTTTGAGTGATATTA
1394898 AATTCAAGGACCAAATTGGATAAAATTAACAAATTCAGGGACTAAATGTTGTTTTATCCCTTTAC
1 AATTCAAGGACCAAATTGGATAAAATTAACAAATTCAGGGACTAAATGTTGTTTTATCCCTTTAC
*
1394963 TTTTTAAAATAAACAAAACTACTAAAACCATAGGTGTCATTGAGTTTGAGTGATATTA
66 TTTTTAAAATAAACAAAACTACTAAAACCATAGGTGTCACTGAGTTTGAGTGATATTA
1395021 AATTCAA
1 AATTCAA
1395028 TCAAAAGCAT
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 129 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (123 bp):
AATTCAAGGACCAAATTGGATAAAATTAACAAATTCAGGGACTAAATGTTGTTTTATCCCTTTAC
TTTTTAAAATAAACAAAACTACTAAAACCATAGGTGTCACTGAGTTTGAGTGATATTA
Found at i:1395879 original size:14 final size:14
Alignment explanation
Indices: 1395862--1395895 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
1395852 GGGTTTTGAG
1395862 TTTAGGGTTCAAGA
1 TTTAGGGTTCAAGA
*
1395876 TTTAAGGTTCAAGA
1 TTTAGGGTTCAAGA
1395890 TTTAGG
1 TTTAGG
1395896 TTTGAGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.38
Consensus pattern (14 bp):
TTTAGGGTTCAAGA
Found at i:1395930 original size:14 final size:14
Alignment explanation
Indices: 1395867--1395939 Score: 51
Period size: 14 Copynumber: 5.4 Consensus size: 14
1395857 TTGAGTTTAG
* *
1395867 GGTTCAAGATTTAA
1 GGTTCAAGGTTTGA
*
1395881 GGTTCAAGATTT-A
1 GGTTCAAGGTTTGA
** *
1395894 GGTTTGA-GTTTTA
1 GGTTCAAGGTTTGA
**
1395907 GGTTTTAGGTTTGA
1 GGTTCAAGGTTTGA
*
1395921 GGTTCAAGGTTCGA
1 GGTTCAAGGTTTGA
1395935 GGTTC
1 GGTTC
1395940 TAAAACAATG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
12 3 0.06
13 13 0.27
14 33 0.67
ACGTcount: A:0.22, C:0.07, G:0.30, T:0.41
Consensus pattern (14 bp):
GGTTCAAGGTTTGA
Found at i:1397458 original size:22 final size:22
Alignment explanation
Indices: 1397427--1397471 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1397417 AAATTTTTAA
1397427 TAAATAAAAAATAA-AAAAATAT
1 TAAAT-AAAAATAACAAAAATAT
* *
1397449 TAAATTAAAATAACATAAATAT
1 TAAATAAAAATAACAAAAATAT
1397471 T
1 T
1397472 TTTTAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAATAAAAATAACAAAAATAT
Found at i:1399227 original size:18 final size:17
Alignment explanation
Indices: 1399197--1399234 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
1399187 TGGGTCTAGA
1399197 TTTTTTTTTAAAT-TTT
1 TTTTTTTTTAAATATTT
1399213 TTTTTGTTTTAAAATATTT
1 TTTTT-TTTT-AAATATTT
1399232 TTT
1 TTT
1399235 AATGTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.26
17 4 0.21
18 4 0.21
19 6 0.32
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTTTTTTAAATATTT
Found at i:1400992 original size:6 final size:6
Alignment explanation
Indices: 1400981--1401026 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
1400971 GGTTAGCAGT
*
1400981 GGCCCC GGCCCC GGCCCC GGCCCC GGCCTC GGCCCC GGCCCC GGCC
1 GGCCCC GGCCCC GGCCCC GGCCCC GGCCCC GGCCCC GGCCCC GGCC
1401027 TCAGCCCCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.00, C:0.63, G:0.35, T:0.02
Consensus pattern (6 bp):
GGCCCC
Found at i:1401027 original size:18 final size:18
Alignment explanation
Indices: 1400981--1401034 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
1400971 GGTTAGCAGT
*
1400981 GGCCCCGGCCCCGGCCCC
1 GGCCCCGGCCTCGGCCCC
1400999 GGCCCCGGCCTCGGCCCC
1 GGCCCCGGCCTCGGCCCC
*
1401017 GGCCCCGGCCTCAGCCCC
1 GGCCCCGGCCTCGGCCCC
1401035 CTAACATTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.02, C:0.63, G:0.31, T:0.04
Consensus pattern (18 bp):
GGCCCCGGCCTCGGCCCC
Found at i:1406836 original size:3 final size:3
Alignment explanation
Indices: 1406830--1406858 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1406820 TAAAAGTATG
1406830 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1406859 TCTACAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1407157 original size:38 final size:38
Alignment explanation
Indices: 1407029--1407157 Score: 124
Period size: 38 Copynumber: 3.4 Consensus size: 38
1407019 AGTAATAATT
* *
1407029 TATA-ATAATA-ATATATACACAATATGGTATTTAAAATA
1 TATACATAATATATATATA-ACTA-ATGGTATTAAAAATA
* * *
1407067 TATATAT-ATATATATAT-A-TAATAGTATTTAAGAATA
1 TATACATAATATATATATAACTAATGGTA-TTAAAAATA
* * *
1407103 TATACATAAGAAATATATAACTAATGGCATTAAAAATA
1 TATACATAATATATATATAACTAATGGTATTAAAAATA
1407141 TATACATAATATATATA
1 TATACATAATATATATA
1407158 AAATACCTAA
Statistics
Matches: 73, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
35 5 0.07
36 14 0.19
37 9 0.12
38 31 0.42
39 14 0.19
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (38 bp):
TATACATAATATATATATAACTAATGGTATTAAAAATA
Found at i:1407741 original size:12 final size:12
Alignment explanation
Indices: 1407707--1407741 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1407697 TTTTTGGTAG
*
1407707 GTTTTTCTTTTT
1 GTTTTTTTTTTT
*
1407719 CTTTTTTTTTTT
1 GTTTTTTTTTTT
1407731 GTTTTTTTTTT
1 GTTTTTTTTTT
1407742 GGGTTAGGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.89
Consensus pattern (12 bp):
GTTTTTTTTTTT
Found at i:1408523 original size:91 final size:91
Alignment explanation
Indices: 1408414--1408599 Score: 293
Period size: 91 Copynumber: 2.0 Consensus size: 91
1408404 AATAGACATT
*
1408414 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1408479 TCGATTTTTTTGAAAGACAGAAATTG
66 TCGATTTTTTTGAAAGACAGAAATTG
* * * **
1408505 AAAAAC-GAAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAG-AAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGA
*
1408569 GTTGATTTTTTTGAAAGACAGAAATTG
65 GTCGATTTTTTTGAAAGACAGAAATTG
1408596 AAAA
1 AAAA
1408600 TAGCTCAGCG
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
90 1 0.01
91 86 0.99
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (91 bp):
AAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
TCGATTTTTTTGAAAGACAGAAATTG
Found at i:1408629 original size:77 final size:77
Alignment explanation
Indices: 1408513--1408657 Score: 227
Period size: 77 Copynumber: 1.9 Consensus size: 77
1408503 TGAAAAACGA
* * * ** *
1408513 AAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTT
1408578 TTTGAAAGACAG
66 TTTGAAAGACAG
*
1408590 AAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTT
1 AAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTT
1408655 TTT
66 TTT
1408658 TTTTTGAAAG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
77 61 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (77 bp):
AAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTT
TTTGAAAGACAG
Found at i:1409001 original size:76 final size:75
Alignment explanation
Indices: 1408857--1408999 Score: 191
Period size: 74 Copynumber: 1.9 Consensus size: 75
1408847 TTGAAAAACG
* * * *
1408857 GAAATTGAAAATACCTTGACGTGTGACCTGAGGCTCAACTCGCCGCTTGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTAGACGTGT-ACCTGAAGCTCAACTCACCGCTCGCAATACGAGTTGATTT
1408922 TTTTGACAACA
65 TTTTGACAACA
* * *
1408933 GAAATTGAAATTACCTCAG-CGTGT-CCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCT-AGACGTGTACCTGAAGCTCAACTCACCGCTCGCAATACGAGTTGATTT
1408996 TTTT
65 TTTT
1409000 TTTGAAAGGC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
74 38 0.64
76 20 0.34
77 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (75 bp):
GAAATTGAAAATACCTAGACGTGTACCTGAAGCTCAACTCACCGCTCGCAATACGAGTTGATTTT
TTTGACAACA
Found at i:1409050 original size:168 final size:168
Alignment explanation
Indices: 1408417--1409948 Score: 1475
Period size: 168 Copynumber: 9.4 Consensus size: 168
1408407 AGACATTAAA
* *
1408417 AACAGAAATTGAAAATAGCTCAGCGCGTGAGCC--AAGGCTCAACTCACCTCTCGCAATATGAGT
1 AACAGAAATTGAAAATACCTCA--GCGTG-TCCTGAA-GCTCAACTCACCTCTCGCAATATGAGT
* * * *
1408480 CGA---TTTTTTTGAAAGACAGAAATTGAAAAACGAAAATTGAAAATACCTCGGCGTGTGATCTG
62 TGATTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTG
* *
1408542 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
127 AGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGAC
* *
1408584 AGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC--AAGGCTCAACTCACCTCTCGCAATATGAG
1 A-ACAGAAATTGAAAATACCTCA--GCGTG-TCCTGAA-GCTCAACTCACCTCTCGCAATATGAG
* * *
1408647 TCGATTTTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCATGTGAT
61 TTGA--TTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGAC
* *
1408712 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
124 CTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGAC
* *
1408757 AGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC--AAGGCTCAACTCACCTCTCGCAATATGAG
1 A-ACAGAAATTGAAAATACCTCA--GCGTG-TCCTGAA-GCTCAACTCACCTCTCGCAATATGAG
* * *
1408820 TCGATTTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTTGACGTGTGACC
61 TTGA-TTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACC
* * *
1408885 TGAGGCTCAACTCGCCGCTTGCAATACGAGTTGATTTTTTTGAC
125 TGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGAC
*
1408929 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
1408994 TTTTTTTTTGAAAGGCAAAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGC
66 TTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGC
* * *
1409059 TCAACTC-GCTGCTCGTAATACGAGTTGATTCTTTTGAC
131 TCAACTCACCT-CTCGCAATACGAGTTGATTTTTTTGAC
* *
1409097 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA-
1409162 TTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGG
65 TTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGG
* *
1409227 CTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTTAC
130 CTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGAC
*
1409266 AACAGAAATTAAAAATACCTCAGCGTGTCCT-AAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTGA
* ** * * *
1409330 ---TTTTTTT--AA---A-ACA-T-ACGAA---AAATTGACAATACCTCAGCGTGT--CCCGAGG
65 TTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGG
1409379 CTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGAC
130 CTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGAC
* * * *
1409418 AACAGAAATTG-AAATACCTCAGCGTGTCCTGAGGCTCAACTCACATCTCACAATGTGAGTTGA-
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGAT
* ** * * * *
1409481 --TTTTTTTG--A---A-AAA-T-ATAAATTG-AA---AAAATACCTCAGTGTGTGATCTGAAGC
66 TTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGC
* *
1409532 TCAACTCACCTCTCGCAATATGAGTTGATGTTTTTTTTTTTTGAA
131 TCAACTCACCTCTCGCAATACGAGTTGA-------TTTTTTTGAC
* * * ** *
1409577 AGACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTTACAATACGAGTT
1 A-ACAGAAATTGAAAATACCTCAGCGTGT--CCTGAAGCTCAACTCACCTCTCGCAATATGAGTT
* *
1409642 GA---TTTTTTTGACAA--CAGAAATT--------GAAA-T-----TACCTCAGCATGT--CCTG
63 GATTTTTTTTTTGA-AAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTG
*
1409686 AGGCTCAAGTCACCTCTCGCAATACGAGTTGATTTTTTTGAC
127 AGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGAC
* * *
1409728 AACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * * *
1409792 ----TTTTT------------TTGAAAAACAGAAATTGAAAATACCTCAGCATGT--CTTGAGGC
66 TTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGC
** * * * *
1409839 TCAACTCATTTCTCACAATATGAATTGATTTTTTTGAAA
131 TCAACTCACCTCTCGCAATACGAGTTGATTTTTTTG-AC
* * * * **
1409878 AACTGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGAT
1409943 TTTTTT
66 TTTTTT
1409949 GACAACAGAA
Statistics
Matches: 1218, Mismatches: 89, Indels: 128
0.85 0.06 0.09
Matches are distributed among these distances:
135 2 0.00
143 4 0.00
144 1 0.00
146 5 0.00
148 32 0.03
149 50 0.04
150 99 0.08
151 71 0.06
152 86 0.07
153 2 0.00
154 21 0.02
155 2 0.00
157 3 0.00
158 33 0.03
159 12 0.01
160 22 0.02
161 15 0.01
162 1 0.00
163 43 0.04
165 7 0.01
166 1 0.00
167 3 0.00
168 228 0.19
169 190 0.16
170 4 0.00
171 19 0.02
172 97 0.08
173 165 0.14
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (168 bp):
AACAGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGC
TCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGAC
Found at i:1409160 original size:74 final size:75
Alignment explanation
Indices: 1409025--1410189 Score: 811
Period size: 74 Copynumber: 15.1 Consensus size: 75
1409015 TTGAAAAACG
* * *
1409025 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCTGCTCGTAATACGAGTTGATTC
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCCCTGCTCGCAATACGAGTTGATTC
1409090 TTTTGACAACA
65 TTTTGACAACA
* *
1409101 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCT-CTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTC-CCTGCTCGCAATACGAGTTGA---
*
1409164 TTTTTTTTGA-AAGGCA
62 -TTCTTTTGACAA--CA
** *** * * * *
1409180 GAAATTGAAAA-A-CGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCG
1 GAAATTGAAAATACCTCAGCGTG----TACCT----GAG-G--CTCA-ACTC-CCT-G---CTCG
* *
1409243 CAATACGAGTTGATTTTTTTTACAACA
49 CAATACGAGTTGATTCTTTTGACAACA
* * * *
1409270 GAAATTAAAAATACCTCAGCGTGT-CCTAAGGCTCAACTCACCT-CTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTC-CCTGCTCGCAATACGAGTTGATTC
*
1409333 TTTTAAAACATACGA
65 TTTT--GACA-AC-A
* * * *
1409348 AAAATTGACAATACCTCAGCGTGT-CCCGAGGCTCAACTCACCT-CTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTC-CCTGCTCGCAATACGAGTTGATTC
1409411 TTTTGACAACA
65 TTTTGACAACA
* * ** *
1409422 GAAATTG-AAATACCTCAGCGTGT-CCTGAGGCTCAACTCACAT-CTCACAATGTGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTC-CCTGCTCGCAATACGAGTTGATTC
* *
1409484 TTTTGAAAAATA
65 TTTTG-ACAACA
* * * * *
1409496 TAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCT-CTCGCAATATGAGTTGA
1 GAAATTG--AAAATACCTCAGCGTGT-ACCTGAGGCTCAACTC-CCTGCTCGCAATACGAGTTGA
* *
1409560 TGTTTTTTTTTTTTGAAAGACA
62 -------TTCTTTTGACA-ACA
* **
1409582 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCT-CTTACAATACGAGTTGATT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTC-CCTGCTCGCAATACGAGTTGATT
*
1409646 TTTTTGACAACA
64 CTTTTGACAACA
* * * *
1409658 GAAATTGAAATTACCTCAGCATGT-CCTGAGGCTCAAGTCACCT-CTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTC-CCTGCTCGCAATACGAGTTGATTC
1409721 TTTTGACAACA
65 TTTTGACAACA
* * * *
1409732 GAAATTGAAATTACCTCAGCATGT-CCTGAGGCTCAACTCACCT-CTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTC-CCTGCTCGCAATACGAGTTGATTC
*
1409795 TTTTGAAAAACA
65 TTTTG-ACAACA
* * ** * * * * *
1409807 GAAATTGAAAATACCTCAGCATGT-CTTGAGGCTCAACTCATTTCTCACAATATGAATTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCCCTGCTCGCAATACGAGTTGATTCT
* *
1409871 TTTGAAAAACT
66 TTTG-ACAACA
* * ** * * *
1409882 GAAATTGAAAATACCTCAGCATGT-CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCCCTGCTCGCAATACGAGTTGATTCT
1409946 TTTGACAACA
66 TTTGACAACA
* * * * *
1409956 GAAATTGAAATTACCTCAGCGTGT-CTTGAGGCTCAACTCACCT-TTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTC-CCTGCTCGCAATACGAGTTGATTC
*
1410019 TTTTGAAAAACA
65 TTTTG-ACAACA
* * * * *
1410031 GAAGTTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCT-CTCACAATATGAGTTGA-T
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTC-CCTGCTCGCAATACGAGTTGATT
*
1410094 -TTTTGAAAACA
64 CTTTTGACAACA
* * * * * *
1410105 GAAATTGAAATTACCTCAGCGTGT-CCCGAGGCTCAACTTACCT-CTAGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAAC-TCCCTGCTCGCAATACGAGTTGATTC
*
1410168 TTTTGAAAAACA
65 TTTTG-ACAACA
1410180 GAAATT-AAAA
1 GAAATTGAAAA
1410190 GGCTTAACTC
Statistics
Matches: 927, Mismatches: 106, Indels: 114
0.81 0.09 0.10
Matches are distributed among these distances:
72 31 0.03
73 56 0.06
74 283 0.31
75 185 0.20
76 53 0.06
77 65 0.07
78 71 0.08
79 49 0.05
80 3 0.00
81 1 0.00
82 4 0.00
83 1 0.00
84 47 0.05
85 3 0.00
86 18 0.02
87 4 0.00
88 1 0.00
89 3 0.00
90 18 0.02
91 9 0.01
92 6 0.01
95 16 0.02
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (75 bp):
GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCCCTGCTCGCAATACGAGTTGATTCT
TTTGACAACA
Found at i:1409204 original size:337 final size:336
Alignment explanation
Indices: 1408451--1410097 Score: 1514
Period size: 337 Copynumber: 5.1 Consensus size: 336
1408441 GCGTGAGCCA
*
1408451 AGGCTCAACTCACCTCTCGCAATATGAGTCGA----TTTTTTTGAAAGACAGAAATTGAAAAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTTGAAAGGCAGAAATTGAAAAACG
* * * *
1408512 AAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
66 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTT
* * *
1408577 TTTTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAA
131 TTTTGACA-ACAGAAATTGAAAATACCTCA--GCGTG-TCCTAAGGCTCAACTCACCTCTCGCAA
* * *
1408641 TATGAGTCGATTTTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCA
192 TATGAGTTGA--TTTTTTTTTTGAAAGGCAAAAATTGAAAAACGGAAATTGAAAATACCTCGGCG
* * *
1408706 TGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAA
255 TGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGACA-ACAGAAATTG-A
* * *
1408771 AATAGCTCAGCGCGTGAGCC-A
318 AATACCTCA--GCGTG-TCCTG
1408792 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTTGAAAGGCAGAAATTGAAAAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTTGAAAGGCAGAAATTGAAAAACG
* * * *
1408857 GAAATTGAAAATACCTTGACGTGTGACCTGAGGCTCAACTCGCCGCTTGCAATACGAGTTGATTT
66 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTT
*
1408922 TTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAA-GCTCAACTCACCTCTCGCAATAT
131 TTTTGACAACAGAAATTGAAAATACCTCAGCGTGTCCT-AAGGCTCAACTCACCTCTCGCAATAT
1408986 GAGTTGATTTTTTTTTTGAAAGGCAAAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGA
195 GAGTTGATTTTTTTTTTGAAAGGCAAAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGA
* * *
1409051 CCTGAGGCTCAACTC-GCTGCTCGTAATACGAGTTGATTCTTTTGACAACAGAAATTGAAATTAC
260 CCTGAGGCTCAACTCACCT-CTCGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAAA-TAC
1409115 CTCAGCGTGTCCTG
323 CTCAGCGTGTCCTG
*
1409129 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTGAAAGGCAGAAATTGAAAAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTTGAAAGGCAGAAATTGAAAAACG
1409194 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTT
66 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTT
* *
1409259 TTTTTACAACAGAAATTAAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATG
131 TTTTGACAACAGAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATG
* ** * *
1409324 AGTTGA---TTTTTTT---A---AAACA-T-ACGAA---AAATTGACAATACCTCAGCGTGT--C
196 AGTTGATTTTTTTTTTGAAAGGCAAAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGAC
*
1409373 CCGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATACCTC
261 CTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATACCTC
1409438 AGCGTGTCCTG
326 AGCGTGTCCTG
* * * * * **
1409449 AGGCTCAACTCACATCTCACAATGTGAGTTGA----TTTTTTTG--A---A-AAA-T-ATAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTTGAAAGGCAGAAATTGAAAAACG
* * * * * *
1409502 G-AA---AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATGT
66 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGA---
* * * *
1409563 TTTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTC
128 ----TTTTTTTGACA-ACAGAAATTGAAAATACCTCAGCGTGT--CCTAAGGCTCAACTCACCTC
** * * *
1409628 TTACAATACGAGTTGA---TTTTTTTG--A--C-----------AACAGAAATTGAAATTACCTC
186 TCGCAATATGAGTTGATTTTTTTTTTGAAAGGCAAAAATTGAAAAACGGAAATTGAAAATACCTC
* * *
1409675 AGCATGT--CCTGAGGCTCAAGTCACCTCTCGCAATACGAGTTGATTTTTTTGACAACAGAAATT
251 GGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGACAACAGAAATT
*
1409738 GAAATTACCTCAGCATGTCCTG
316 GAAA-TACCTCAGCGTGTCCTG
* *
1409760 AGGCTCAACTCACCTCTCGCAATATGAGTTGA------TTTTT------------TTGAAAAACA
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTTGAAAGGCAGAAATTGAAAAACG
* * * *** * * *
1409807 GAAATTGAAAATACCTCAGCATGT--CTTGAGGCTCAACTCATTTCTCACAATATGAATTGATTT
66 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTT
* * * * * **
1409870 TTTTGAAAAACTGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAT
131 TTTTG-ACAACAGAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATAT
* * *
1409935 GAGTTGA---TTTTTTTG--A--C-----------AACAGAAATTGAAATTACCTCAGCGTGT--
195 GAGTTGATTTTTTTTTTGAAAGGCAAAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGA
* * * * * *
1409980 CTTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAGTTGAAAACAC
260 CCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTG-ACAACAGAAATTG-AAATAC
*
1410045 CTCAGCGTGTGACCCG
323 CTCAGCGTGT--CCTG
* *
1410061 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTT
1410098 GAAAACAGAA
Statistics
Matches: 1158, Mismatches: 105, Indels: 121
0.84 0.08 0.09
Matches are distributed among these distances:
298 106 0.09
299 22 0.02
300 35 0.03
301 37 0.03
304 50 0.04
305 5 0.00
306 2 0.00
307 33 0.03
308 5 0.00
309 21 0.02
310 81 0.07
311 55 0.05
312 25 0.02
314 39 0.03
315 1 0.00
316 8 0.01
320 46 0.04
321 53 0.05
322 2 0.00
323 21 0.02
326 3 0.00
327 1 0.00
328 4 0.00
331 1 0.00
334 7 0.01
336 4 0.00
337 195 0.17
338 3 0.00
339 18 0.02
340 94 0.08
341 34 0.03
342 34 0.03
343 2 0.00
344 19 0.02
345 92 0.08
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.30
Consensus pattern (336 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTTGAAAGGCAGAAATTGAAAAACG
GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTT
TTTTGACAACAGAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTTTTTGAAAGGCAAAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGAC
CTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATACCTC
AGCGTGTCCTG
Found at i:1409839 original size:149 final size:149
Alignment explanation
Indices: 1409184--1410189 Score: 1225
Period size: 149 Copynumber: 6.6 Consensus size: 149
1409174 AAGGCAGAAA
* * * *
1409184 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATAT
* * * *
1409249 GAGTTGATTTTTTTTACAACAGAAATTAAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTC
64 GAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
*
1409314 TCGCAATATGAGTTGATTTTT
129 TCACAATATGAGTTGATTTTT
* * * *
1409335 TTAAAACATACGAAAAATTGACAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-A-AC-AGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
* * *
1409400 CGAGTTGATTTTTTTGACAACAGAAATTG-AAATACCTCAGCGTGTCCTGAGGCTCAACTCACAT
63 TGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCT
*
1409464 CTCACAATGTGAGTTGATTTTT
128 CTCACAATATGAGTTGATTTTT
* * * * *
1409486 TTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTG--AAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAAT
*
1409551 ATGAGTTGATGTTTTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGC
62 ATGAGTTGA-------TTTTTTTGAAA-ACAGAAATTGAAAATACCTCAGCGTGT--CCTGAGGC
* * *
1409616 TCAACTCGCCTCTTACAATACGAGTTGATTTTT
117 TCAACTCACCTCTCACAATATGAGTTGATTTTT
* * * * *
1409649 TTG-ACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAAGTCACCTCTCGCAATACGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
1409713 GTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTC
66 GTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
*
1409778 GCAATATGAGTTGATTTTT
131 ACAATATGAGTTGATTTTT
* * ** *
1409797 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * * * **
1409862 ATTGATTTTTTTGAAAAACTGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCT
66 GTTGATTTTTTTG-AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
*
1409927 CGCAATATGAGTTGATTTTT
130 CACAATATGAGTTGATTTTT
* * * *
1409947 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTTTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
1410011 GTTGATTTTTTTGAAAAACAGAAGTTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCT
66 GTTGATTTTTTTG-AAAACAGAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCT
1410076 CTCACAATATGAGTTGA--TTT
128 CTCACAATATGAGTTGATTTTT
* * * *
1410096 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTTACCTCTAGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1410160 GTTGATTTTTTTGAAAAACAGAAATT-AAAA
66 GTTGATTTTTTTG-AAAACAGAAATTGAAAA
1410190 GGCTTAACTC
Statistics
Matches: 747, Mismatches: 86, Indels: 47
0.85 0.10 0.05
Matches are distributed among these distances:
148 51 0.07
149 245 0.33
150 108 0.14
151 104 0.14
152 86 0.12
153 2 0.00
154 21 0.03
158 32 0.04
159 10 0.01
160 24 0.03
161 15 0.02
162 10 0.01
163 39 0.05
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (149 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
ACAATATGAGTTGATTTTT
Found at i:1409841 original size:75 final size:75
Alignment explanation
Indices: 1409184--1410189 Score: 1186
Period size: 74 Copynumber: 13.3 Consensus size: 75
1409174 AAGGCAGAAA
* * * * *
1409184 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGT--CCTGAGGCTCAACTCACCTCTCGCAATAT
1409249 GAGTTGATTTTT
64 GAGTTGATTTTT
* * * * *
1409261 TT-TACAACAGAAATTAAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1409325 GTTGATTTTT
66 GTTGATTTTT
* * * * *
1409335 TTAAAACATACGAAAAATTGACAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-A-AC-AGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATA
*
1409400 CGAGTTGATTTTT
63 TGAGTTGATTTTT
* * * * *
1409413 TTG-ACAACAGAAATTG-AAATACCTCAGCGTGTCCTGAGGCTCAACTCACATCTCACAATGTGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1409476 GTTGATTTTT
66 GTTGATTTTT
* * ** * *
1409486 TTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTG--AAAATACCTCAGCATGT--CCTGAGGCTCAACTCACCTCTCGCAAT
1409551 ATGAGTTGATGTTTTTTTTTT
62 ATGAGTTGA-------TTTTT
* * * * ** *
1409572 TTGAAAGACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTTACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGT--CCTGAGGCTCAACTCACCTCTCGCAATAT
1409637 GAGTTGATTTTT
64 GAGTTGATTTTT
* * * *
1409649 TTG-ACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAAGTCACCTCTCGCAATACGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1409713 GTTGATTTTT
66 GTTGATTTTT
* *
1409723 TTG-ACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1409787 GTTGATTTTT
66 GTTGATTTTT
* ** *
1409797 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
1409862 ATTGATTTTT
66 GTTGATTTTT
* * **
1409872 TTGAAAAACTGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1409937 GTTGATTTTT
66 GTTGATTTTT
* * * * *
1409947 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTTTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1410011 GTTGATTTTT
66 GTTGATTTTT
* * * * *
1410021 TTGAAAAACAGAAGTTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCACAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGT--CCTGAGGCTCAACTCACCTCTCGCAATAT
1410086 GAGTTGA--TTT
64 GAGTTGATTTTT
* * * * *
1410096 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTTACCTCTAGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1410160 GTTGATTTTT
66 GTTGATTTTT
1410170 TTGAAAAACAGAAATT-AAAA
1 TTGAAAAACAGAAATTGAAAA
1410190 GGCTTAACTC
Statistics
Matches: 817, Mismatches: 88, Indels: 51
0.85 0.09 0.05
Matches are distributed among these distances:
72 33 0.04
73 54 0.07
74 272 0.33
75 186 0.23
76 53 0.06
77 60 0.07
78 62 0.08
79 31 0.04
84 47 0.06
86 19 0.02
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:1410622 original size:72 final size:73
Alignment explanation
Indices: 1410386--1410650 Score: 363
Period size: 75 Copynumber: 3.6 Consensus size: 73
1410376 AAGGTTCTCC
* * * *
1410386 CACCTCTCGCAATGTGAGTTGA-TTCTTGACAAACAGAAATTGAAATTACCTCATCGTGTCTTGA
1 CACCTCTCGCAATATGAGTTGATTTTTTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCTCGA
1410450 GGCTCAACT
65 GGCTCAACT
* * **
1410459 CACCTCTTGCAATATGAGTTGATTTTTTTGAAAGACAGAAGTTGAAAACACCTCAGCGTGTGACT
1 CACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAATTACCTCAGCGTGT--CT
1410524 CGAGGCTCAACT
62 CGAGGCTCAACT
* *
1410536 CACCTCTCGTAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAG
1 CACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTCGAG
1410600 GCTCAACT
66 GCTCAACT
1410608 CACCTCTCGCAATATGAGTTGATTTTTTTGAATAACAGAAATT
1 CACCTCTCGCAATATGAGTTGA-TTTTTTGAA-AACAGAAATT
1410651 AAAAGGCTTA
Statistics
Matches: 169, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
72 34 0.20
73 20 0.12
74 34 0.20
75 48 0.28
77 33 0.20
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (73 bp):
CACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTCGAG
GCTCAACT
Found at i:1410823 original size:465 final size:466
Alignment explanation
Indices: 1409924--1410896 Score: 1772
Period size: 465 Copynumber: 2.1 Consensus size: 466
1409914 TCAACTCATT
* *
1409924 TCTCGCAATATGAGTTGATTTTTTTGAC-AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGC
1 TCTCGCAATGTGAGTTGA--TTCTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGC
1409988 TCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAGTTGAAAACACCTCAGCGT
64 TCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAGTTGAAAACACCTCAGCGT
1410053 GTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTA
129 GTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTA
*
1410118 CCTCAGCGTGTCCCGAGGCTCAACTTACCTCTAGCAATATGAGTTGATTTTTTTGAAAAACAGAA
194 CCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAAACAGAA
1410183 ATTAAAAGGCTTAACTCACCTCTCGCAACATGAGTCAATTTAAAACTAAAAGTACCTCAACTTGC
259 ATTAAAAGGCTTAACTCACCTCTCGCAACATGAGTCAATTTAAAACTAAAAGTACCTCAACTTGC
1410248 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATTACCTCA
324 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATTACCTCA
*
1410313 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAA
389 GCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAA
*
1410378 GGTTC-TCCCACC
454 GGTTCAACCCACC
*
1410390 TCTCGCAATGTGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGTCTTGAGGCTC
1 TCTCGCAATGTGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTC
*
1410455 AACTCACCTCTT-GCAATATGAGTTGATTTTTTTGAAAGACAGAAGTTGAAAACACCTCAGCGTG
66 AACTCACCT-TTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAGTTGAAAACACCTCAGCGTG
* **
1410519 TGACTCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTAC
130 TGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTAC
* *
1410584 CTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAATAACAGAAA
195 CTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAAACAGAAA
1410649 TTAAAAGGCTTAACTCACCTCTCGCAACATGAGTCAATTTAAAACTAAAAGTACCTCAACTTGCC
260 TTAAAAGGCTTAACTCACCTCTCGCAACATGAGTCAATTTAAAACTAAAAGTACCTCAACTTGCC
1410714 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATTACCTCAG
325 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATTACCTCAG
1410779 CGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAG
390 CGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAG
1410844 GTTCAACCCACC
455 GTTCAACCCACC
* *
1410856 TCTCGTAATGTGAGTTGATTCTTGACAAATAGAAATTGAAA
1 TCTCGCAATGTGAGTTGATTCTTGACAAACAGAAATTGAAA
1410897 AACAGAAATT
Statistics
Matches: 490, Mismatches: 14, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
464 7 0.01
465 419 0.86
466 64 0.13
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (466 bp):
TCTCGCAATGTGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTC
AACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAGTTGAAAACACCTCAGCGTGT
GACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACC
TCAGCGTGTCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAAACAGAAAT
TAAAAGGCTTAACTCACCTCTCGCAACATGAGTCAATTTAAAACTAAAAGTACCTCAACTTGCCC
CGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATTACCTCAGC
GTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGG
TTCAACCCACC
Found at i:1410856 original size:54 final size:55
Alignment explanation
Indices: 1410792--1410897 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 55
1410782 GTCCTGAGGC
*
1410792 TCAACTCACCTCTCACAATATGAGCTGATT-TTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCACAATATGAGCTGATTCTTGAAAAA-TAGAAATTGAAAAGGT
** * * *
1410846 TCAACCCACCTCTCGTAATGTGAGTTGATTCTTGACAAATAGAAATTGAAAA
1 TCAACCCACCTCTCACAATATGAGCTGATTCTTGAAAAATAGAAATTGAAAA
1410898 ACAGAAATTG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
54 33 0.75
55 11 0.25
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (55 bp):
TCAACCCACCTCTCACAATATGAGCTGATTCTTGAAAAATAGAAATTGAAAAGGT
Found at i:1410988 original size:14 final size:14
Alignment explanation
Indices: 1410971--1410999 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1410961 GATCTTGACG
1410971 AACAGAAATTGAAA
1 AACAGAAATTGAAA
1410985 AACAGAAATTGAAA
1 AACAGAAATTGAAA
1410999 A
1 A
1411000 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:1410996 original size:88 final size:88
Alignment explanation
Indices: 1410846--1411051 Score: 349
Period size: 88 Copynumber: 2.3 Consensus size: 88
1410836 ATTAAAAGGT
* * * *
1410846 TCAACCCACCTCTCGTAATGTGAGTTGATTCTTGACAAATAGAAATTGAAAAACAGAAATTGAAA
1 TCAACTCACCTCTCGCAATATGAGTTGA-TCTTGACAAACAGAAATTGAAAAACAGAAATTGAAA
*
1410911 ATACCTCAGCGCGTGAGCTGAGGC
65 ATACCTCAGCGCGTGAGCTGAAGC
*
1410935 TCAACTCACCTCTCGCAATATGAGTTGATCTTGACGAACAGAAATTGAAAAACAGAAATTGAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATCTTGACAAACAGAAATTGAAAAACAGAAATTGAAAA
1411000 TACCTCAGCGCGTGAGCTGAAGC
66 TACCTCAGCGCGTGAGCTGAAGC
1411023 TCAACTCACCTCTCGCAATATGAGTTGAT
1 TCAACTCACCTCTCGCAATATGAGTTGAT
1411052 TTTTTTGATG
Statistics
Matches: 111, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
88 86 0.77
89 25 0.23
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (88 bp):
TCAACTCACCTCTCGCAATATGAGTTGATCTTGACAAACAGAAATTGAAAAACAGAAATTGAAAA
TACCTCAGCGCGTGAGCTGAAGC
Found at i:1419567 original size:27 final size:27
Alignment explanation
Indices: 1419537--1419760 Score: 66
Period size: 27 Copynumber: 8.4 Consensus size: 27
1419527 ATATTTGGTA
1419537 ATAATAATATAAAATAATAATATGTAC
1 ATAATAATATAAAATAATAATATGTAC
*
1419564 ATAA-AA-AT-ACATATATATATATG--C
1 ATAATAATATAAAATA-ATA-ATATGTAC
* * *
1419588 AT-ATAATA-AAAGTATGTAATA-ATA-
1 ATAATAATATAAAATA-ATAATATGTAC
*
1419612 ATAATAATAATAATAATAATAATATCTAC
1 ATAATAAT-ATAA-AATAATAATATGTAC
* * * * *
1419641 --AATAAAAGAAAATATTAGGAAACGTAC
1 ATAATAATATAAAATAATA--ATATGTAC
* * * *
1419668 ATAAAAAATATATACATAA-AAAATTTAC
1 AT-AATAATATA-AAATAATAATATGTAC
* *
1419696 AACAATAATATAAAATAATGATATGTAC
1 -ATAATAATATAAAATAATAATATGTAC
*
1419724 --AAT-ATATATATATATATACATATGTAC
1 ATAATAATATA-AAATA-ATA-ATATGTAC
1419751 ATAA-AATATA
1 ATAATAATATA
1419761 CACTAATATA
Statistics
Matches: 141, Mismatches: 29, Indels: 52
0.64 0.13 0.23
Matches are distributed among these distances:
23 1 0.01
24 19 0.13
25 30 0.21
26 13 0.09
27 34 0.24
28 25 0.18
29 8 0.06
30 7 0.05
31 4 0.03
ACGTcount: A:0.58, C:0.06, G:0.05, T:0.31
Consensus pattern (27 bp):
ATAATAATATAAAATAATAATATGTAC
Found at i:1419610 original size:3 final size:3
Alignment explanation
Indices: 1419604--1419635 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1419594 TAAAAGTATG
1419604 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1419636 TCTACAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1420132 original size:13 final size:13
Alignment explanation
Indices: 1420094--1420136 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
1420084 ATGTATATAT
1420094 AAAGAAAGAAAAA
1 AAAGAAAGAAAAA
* * *
1420107 AAA-TAACACAAA
1 AAAGAAAGAAAAA
1420119 AAAGAAAGAAAAA
1 AAAGAAAGAAAAA
1420132 AAAGA
1 AAAGA
1420137 TTCGAAAGAA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.81, C:0.05, G:0.12, T:0.02
Consensus pattern (13 bp):
AAAGAAAGAAAAA
Found at i:1420525 original size:16 final size:15
Alignment explanation
Indices: 1420444--1420524 Score: 59
Period size: 16 Copynumber: 5.7 Consensus size: 15
1420434 TTCTTCTTTT
1420444 TTTTTTTTGGGTTAGG
1 TTTTTTTT-GGTTAGG
1420460 TTTTTTTTGG-TAGG
1 TTTTTTTTGGTTAGG
**
1420474 TTTTCTTTTTCTT---
1 TTTT-TTTTGGTTAGG
*
1420487 TTTTTTTTTGTT---
1 TTTTTTTTGGTTAGG
1420499 TTTTTTTTGGGTTAGG
1 TTTTTTTT-GGTTAGG
1420515 TTTTTTTTGG
1 TTTTTTTTGG
1420525 GGGCTTAATG
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
12 15 0.27
13 7 0.13
14 8 0.15
15 8 0.15
16 17 0.31
ACGTcount: A:0.04, C:0.02, G:0.21, T:0.73
Consensus pattern (15 bp):
TTTTTTTTGGTTAGG
Found at i:1424935 original size:2 final size:2
Alignment explanation
Indices: 1424928--1424952 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1424918 CTTTTTATTC
1424928 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1424953 AATTAGTAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1434984 original size:19 final size:16
Alignment explanation
Indices: 1434942--1434975 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1434932 TAGAGTTCCC
1434942 CATGTTTACTCCACGT
1 CATGTTTACTCCACGT
1434958 CATGTTTACTCCACGT
1 CATGTTTACTCCACGT
1434974 CA
1 CA
1434976 GCATGTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (16 bp):
CATGTTTACTCCACGT
Found at i:1435314 original size:22 final size:22
Alignment explanation
Indices: 1435289--1435332 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1435279 TTGAAACAAA
* *
1435289 AAAAAAAATTAAATATCAAATT
1 AAAAAAAATCAAATACCAAATT
*
1435311 AAAAAAACTCAAATACCAAATT
1 AAAAAAAATCAAATACCAAATT
1435333 TAGTATTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAAAAAATCAAATACCAAATT
Found at i:1442578 original size:18 final size:18
Alignment explanation
Indices: 1442540--1442578 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
1442530 TTTTATTGTG
1442540 TTAATTTAATACTCAAGT
1 TTAATTTAATACTCAAGT
*
1442558 TTAACTTTAATAGTCAA-T
1 TTAA-TTTAATACTCAAGT
1442576 TTA
1 TTA
1442579 TTAATCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.46
Consensus pattern (18 bp):
TTAATTTAATACTCAAGT
Found at i:1443021 original size:17 final size:17
Alignment explanation
Indices: 1442991--1443027 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
1442981 ATATATAATT
1442991 AAAAGATTATAAAAATAA
1 AAAAGATTA-AAAAATAA
1443009 AAAAG-TTAAAAAATAA
1 AAAAGATTAAAAAATAA
1443025 AAA
1 AAA
1443028 TATTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.58
17 3 0.16
18 5 0.26
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (17 bp):
AAAAGATTAAAAAATAA
Found at i:1451479 original size:45 final size:45
Alignment explanation
Indices: 1451415--1451505 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
1451405 CTCCCTAGGA
1451415 GCATGCATAAATTGACTTATAACACTTACTCCAAAAGCTATGTCC
1 GCATGCATAAATTGACTTATAACACTTACTCCAAAAGCTATGTCC
1451460 GCATGCATAAATTGACTTATAACACTTACTCCAAAAGCTATGTCC
1 GCATGCATAAATTGACTTATAACACTTACTCCAAAAGCTATGTCC
1451505 G
1 G
1451506 GACGAGTGTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (45 bp):
GCATGCATAAATTGACTTATAACACTTACTCCAAAAGCTATGTCC
Found at i:1454462 original size:21 final size:22
Alignment explanation
Indices: 1454432--1454472 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1454422 ACACCAAGAA
*
1454432 AAAATCCAAATTCTAAAATATG
1 AAAATCCAAATACTAAAATATG
1454454 AAAA-CCAAATACTAAAATA
1 AAAATCCAAATACTAAAATA
1454473 CCCAGAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.61, C:0.15, G:0.02, T:0.22
Consensus pattern (22 bp):
AAAATCCAAATACTAAAATATG
Found at i:1460528 original size:75 final size:74
Alignment explanation
Indices: 1460405--1460557 Score: 288
Period size: 75 Copynumber: 2.1 Consensus size: 74
1460395 AATTTGTTTC
*
1460405 ATATACATCTTGTTCTAGTAGTAGAAAAATAACAGTAGCTGATGGTTCTGTGATCACAGTGGCCG
1 ATATACACCTTGTTCTAGTAGTAGAAAAATAACAGTAGCTGATGGTTCTGTGATCACAGTGGCCG
1460470 GTCAAGGTG
66 GTCAAGGTG
1460479 TATATACACCTTGTTCTAGTAGTAGAAAAATAACAGTAGCTGATGGTTCTGTGATCACAGTGGCC
1 -ATATACACCTTGTTCTAGTAGTAGAAAAATAACAGTAGCTGATGGTTCTGTGATCACAGTGGCC
1460544 GGTCAAGGTG
65 GGTCAAGGTG
1460554 ATAT
1 ATAT
1460558 TGTTATAAAC
Statistics
Matches: 77, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
74 4 0.05
75 73 0.95
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (74 bp):
ATATACACCTTGTTCTAGTAGTAGAAAAATAACAGTAGCTGATGGTTCTGTGATCACAGTGGCCG
GTCAAGGTG
Found at i:1466496 original size:14 final size:15
Alignment explanation
Indices: 1466479--1466507 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1466469 CTATAATATA
1466479 ATATATA-TATGTGC
1 ATATATATTATGTGC
1466493 ATATATATTATGTGC
1 ATATATATTATGTGC
1466508 TCTTATTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (15 bp):
ATATATATTATGTGC
Found at i:1470339 original size:33 final size:33
Alignment explanation
Indices: 1470301--1470367 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
1470291 TGGTCAAAGC
1470301 TAACGACACAATTTTCACACCATCATCAGATGT
1 TAACGACACAATTTTCACACCATCATCAGATGT
1470334 TAACGACACAATTTTCACACCATCATCAGATGT
1 TAACGACACAATTTTCACACCATCATCAGATGT
1470367 T
1 T
1470368 CTTGAAGGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.36, C:0.27, G:0.09, T:0.28
Consensus pattern (33 bp):
TAACGACACAATTTTCACACCATCATCAGATGT
Found at i:1486777 original size:20 final size:21
Alignment explanation
Indices: 1486748--1486789 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
1486738 AATTAAAATT
*
1486748 TATTTTTATATTAAT-ATTAA
1 TATTTATATATTAATGATTAA
*
1486768 TATTTATATATTCATGATTAA
1 TATTTATATATTAATGATTAA
1486789 T
1 T
1486790 TAATTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TATTTATATATTAATGATTAA
Found at i:1490150 original size:74 final size:75
Alignment explanation
Indices: 1490029--1490177 Score: 282
Period size: 74 Copynumber: 2.0 Consensus size: 75
1490019 TATGAAGGAG
*
1490029 AAAAGGATTACTTTATTTGGAGCACGGATTAACTGACAATTATAGTATTATATATTTCGGACT-T
1 AAAAGAATTACTTTATTTGGAGCACGGATTAACTGACAATTATAGTATTATATATTTCGGACTCT
1490093 TTTTTCCCAA
66 TTTTTCCCAA
1490103 AAAAGAATTACTTTATTTGGAGCACGGATTAACTGACAATTATAGTATTATATATTTCGGACTCT
1 AAAAGAATTACTTTATTTGGAGCACGGATTAACTGACAATTATAGTATTATATATTTCGGACTCT
1490168 TTTTTCCCAA
66 TTTTTCCCAA
1490178 GGTTTATGGT
Statistics
Matches: 73, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
74 62 0.85
75 11 0.15
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (75 bp):
AAAAGAATTACTTTATTTGGAGCACGGATTAACTGACAATTATAGTATTATATATTTCGGACTCT
TTTTTCCCAA
Found at i:1490409 original size:22 final size:23
Alignment explanation
Indices: 1490384--1490439 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
1490374 GTCCAATAAT
* *
1490384 TAAATAAATTATTA-AATTTTTA
1 TAAAAAAATTAATATAATTTTTA
* *
1490406 TAAAAAAATAAATATAATTTTTT
1 TAAAAAAATTAATATAATTTTTA
1490429 TAAAAAAATTA
1 TAAAAAAATTA
1490440 GTTTAATGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 11 0.39
23 17 0.61
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAAAAAATTAATATAATTTTTA
Found at i:1490446 original size:23 final size:22
Alignment explanation
Indices: 1490383--1490446 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
1490373 GGTCCAATAA
* *
1490383 TTAAATAAATTATTAAATTTTT
1 TTAAAAAAATTATTTAATTTTT
* * *
1490405 ATAAAAAAATAAATATAATTTTT
1 TTAAAAAAAT-TATTTAATTTTT
1490428 TTAAAAAAATTAGTTTAAT
1 TTAAAAAAATTA-TTTAAT
1490447 GAATTTTTAG
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
22 9 0.28
23 23 0.72
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
TTAAAAAAATTATTTAATTTTT
Found at i:1491892 original size:19 final size:20
Alignment explanation
Indices: 1491857--1491902 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
1491847 AATTTTTATT
*
1491857 AAAAATATATAATACAT-AA
1 AAAAATATATAAAACATCAA
1491876 AAAAATACTA-AAAACATCAA
1 AAAAATA-TATAAAACATCAA
1491896 AATAAAT
1 AA-AAAT
1491903 GTTTTCTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 13 0.57
20 6 0.26
21 4 0.17
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAAATATATAAAACATCAA
Found at i:1493102 original size:6 final size:6
Alignment explanation
Indices: 1493091--1493117 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1493081 TGCCATTTCA
1493091 ATAAAT ATAAAT ATAAAT ATAAAT ATA
1 ATAAAT ATAAAT ATAAAT ATAAAT ATA
1493118 TATAAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATAAAT
Found at i:1500811 original size:19 final size:19
Alignment explanation
Indices: 1500787--1500824 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1500777 GCAATAGCTT
1500787 AAGTTTTGAAGACAACGGC
1 AAGTTTTGAAGACAACGGC
1500806 AAGTTTTGAAGACAACGGC
1 AAGTTTTGAAGACAACGGC
1500825 TATACTTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (19 bp):
AAGTTTTGAAGACAACGGC
Found at i:1508526 original size:10 final size:9
Alignment explanation
Indices: 1508501--1508525 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1508491 TTTTAAAAGG
1508501 AAAAAAATT
1 AAAAAAATT
1508510 AAAAAAATT
1 AAAAAAATT
1508519 AAAAAAA
1 AAAAAAA
1508526 AAGGAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (9 bp):
AAAAAAATT
Found at i:1519543 original size:20 final size:20
Alignment explanation
Indices: 1519520--1519693 Score: 58
Period size: 20 Copynumber: 8.9 Consensus size: 20
1519510 AAAGTATTTT
1519520 AAAATATATAAAAATTGTAA
1 AAAATATATAAAAATTGTAA
* * * *
1519540 AAAA-AAAT-TAAATTATTA
1 AAAATATATAAAAATTGTAA
** * *
1519558 AAAA-A-GCAAATATTGTTA
1 AAAATATATAAAAATTGTAA
* * *
1519576 ACAATATTTTAAAATTGTAA
1 AAAATATATAAAAATTGTAA
*
1519596 AAAA-ATATTAAAAATTATAA
1 AAAATATA-TAAAAATTGTAA
* **
1519616 AATAT-TAATTAAATTTTGTAA
1 AAAATAT-A-TAAAAATTGTAA
* *
1519637 AAATTAT-TAAAAATTGCAA
1 AAAATATATAAAAATTGTAA
* *
1519656 ATAAT-TATTAAAAGTTGTAA
1 AAAATATA-TAAAAATTGTAA
* * *
1519676 AAATTATTTCAAAATTGT
1 AAAATATATAAAAATTGT
1519694 GAACCAATAG
Statistics
Matches: 107, Mismatches: 37, Indels: 20
0.65 0.23 0.12
Matches are distributed among these distances:
18 23 0.21
19 18 0.17
20 50 0.47
21 15 0.14
22 1 0.01
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAATATATAAAAATTGTAA
Found at i:1519628 original size:21 final size:19
Alignment explanation
Indices: 1519595--1519683 Score: 79
Period size: 19 Copynumber: 4.5 Consensus size: 19
1519585 TAAAATTGTA
*
1519595 AAAAAATATTAAAAATTAT
1 AAAAATTATTAAAAATTAT
** *
1519614 AAAATATTAATTAAATTTTGT
1 AAAA-ATT-ATTAAAAATTAT
**
1519635 AAAAATTATTAAAAATTGC
1 AAAAATTATTAAAAATTAT
* *
1519654 AAATAATTATTAAAAGTTGT
1 AAA-AATTATTAAAAATTAT
1519674 AAAAATTATT
1 AAAAATTATT
1519684 TCAAAATTGT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
19 23 0.40
20 22 0.38
21 13 0.22
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.38
Consensus pattern (19 bp):
AAAAATTATTAAAAATTAT
Found at i:1519640 original size:11 final size:10
Alignment explanation
Indices: 1519595--1519683 Score: 53
Period size: 10 Copynumber: 9.0 Consensus size: 10
1519585 TAAAATTGTA
*
1519595 AAAAAATATT
1 AAAAATTATT
1519605 AAAAATTA-T
1 AAAAATTATT
1519614 -AAAA-TATT
1 AAAAATTATT
*
1519622 AATTAAATTTTGT
1 AA--AAATTAT-T
1519635 AAAAATTATT
1 AAAAATTATT
**
1519645 AAAAATT-GC
1 AAAAATTATT
1519654 AAATAATTATT
1 AAA-AATTATT
* *
1519665 AAAAGTT-GT
1 AAAAATTATT
1519674 AAAAATTATT
1 AAAAATTATT
1519684 TCAAAATTGT
Statistics
Matches: 59, Mismatches: 11, Indels: 18
0.67 0.12 0.20
Matches are distributed among these distances:
7 2 0.03
8 5 0.08
9 12 0.20
10 23 0.39
11 12 0.20
12 2 0.03
13 3 0.05
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.38
Consensus pattern (10 bp):
AAAAATTATT
Found at i:1519658 original size:39 final size:39
Alignment explanation
Indices: 1519584--1519692 Score: 114
Period size: 40 Copynumber: 2.7 Consensus size: 39
1519574 TAACAATATT
* *
1519584 TTAAAA-TTGTAAAAAAATATTAAAAATTATAAAAT-ATTAA
1 TTAAAAGTTGT-AAAAATTATTAAAAATT-GAAAATAATT-A
** *
1519624 TTAAATTTTGTAAAAATTATTAAAAATTGCAAATAATTA
1 TTAAAAGTTGTAAAAATTATTAAAAATTGAAAATAATTA
*
1519663 TTAAAAGTTGTAAAAATTATTTCAAAATTG
1 TTAAAAGTTGTAAAAATTA-TTAAAAATTG
1519693 TGAACCAATA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 22 0.37
40 33 0.56
41 4 0.07
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.39
Consensus pattern (39 bp):
TTAAAAGTTGTAAAAATTATTAAAAATTGAAAATAATTA
Found at i:1519668 original size:30 final size:30
Alignment explanation
Indices: 1519549--1519668 Score: 83
Period size: 30 Copynumber: 4.1 Consensus size: 30
1519539 AAAAAAAATT
* *
1519549 AAATTATTAAAAA-AGCAAAT-ATTGTTAA
1 AAATTATTAAAAATTGCAAATAATTATTAA
* * *
1519577 CAATATT-TT-AAAATTGTAAAAAAATATTAA
1 -AA-ATTATTAAAAATTGCAAATAATTATTAA
* *
1519607 AAATTA-TAAAATATT--AATTAAATTTTGTAA
1 AAATTATTAAAA-ATTGCAAAT-AATTAT-TAA
1519637 AAATTATTAAAAATTGCAAATAATTATTAA
1 AAATTATTAAAAATTGCAAATAATTATTAA
1519667 AA
1 AA
1519669 GTTGTAAAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 21
0.68 0.11 0.21
Matches are distributed among these distances:
28 10 0.14
29 17 0.25
30 29 0.42
31 10 0.14
32 3 0.04
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.37
Consensus pattern (30 bp):
AAATTATTAAAAATTGCAAATAATTATTAA
Found at i:1525742 original size:25 final size:24
Alignment explanation
Indices: 1525709--1525759 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
1525699 TGATAAACAT
*
1525709 ATTCAAATACTTAAAAAAATTATAA
1 ATTCAAATAATTAAAAAAA-TATAA
* *
1525734 ATTCGAATAATTCAAAAAATATAA
1 ATTCAAATAATTAAAAAAATATAA
1525758 AT
1 AT
1525760 ATTTGAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (24 bp):
ATTCAAATAATTAAAAAAATATAA
Found at i:1533591 original size:56 final size:56
Alignment explanation
Indices: 1533506--1533617 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
1533496 CAAATCAGAT
*
1533506 ATATGGTCCCTAGGTAATATACATAGACCTGAAATAGTGTTACTTGTATGTGATTG
1 ATATGGTCCCTAGGTAACATACATAGACCTGAAATAGTGTTACTTGTATGTGATTG
1533562 ATATGGTCCCTAGGTAACATACATAGACCTGAAATAGTGTTACTTGTATGTGATTG
1 ATATGGTCCCTAGGTAACATACATAGACCTGAAATAGTGTTACTTGTATGTGATTG
1533618 TCGGATATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.35
Consensus pattern (56 bp):
ATATGGTCCCTAGGTAACATACATAGACCTGAAATAGTGTTACTTGTATGTGATTG
Found at i:1534739 original size:34 final size:34
Alignment explanation
Indices: 1534701--1534768 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
1534691 GGACCATGTT
1534701 ACTTTTTTATCTAATGTATAAGGATTAATTTACC
1 ACTTTTTTATCTAATGTATAAGGATTAATTTACC
1534735 ACTTTTTTATCTAATGTATAAGGATTAATTTACC
1 ACTTTTTTATCTAATGTATAAGGATTAATTTACC
1534769 CATCTTTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (34 bp):
ACTTTTTTATCTAATGTATAAGGATTAATTTACC
Found at i:1535295 original size:13 final size:13
Alignment explanation
Indices: 1535277--1535303 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1535267 TGATAGAATA
1535277 ATTAGACAGTGAT
1 ATTAGACAGTGAT
1535290 ATTAGACAGTGAT
1 ATTAGACAGTGAT
1535303 A
1 A
1535304 CGTGACTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (13 bp):
ATTAGACAGTGAT
Found at i:1538443 original size:5 final size:5
Alignment explanation
Indices: 1538435--1538460 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
1538425 AGTACATGAC
1538435 ATATA ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA A
1538461 ACTTAGAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:1547407 original size:18 final size:18
Alignment explanation
Indices: 1547384--1547421 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
1547374 ACATCAATAT
1547384 TTTCTACATCAAACCCAG
1 TTTCTACATCAAACCCAG
*
1547402 TTTCTACATCGAACCCAG
1 TTTCTACATCAAACCCAG
1547420 TT
1 TT
1547422 CCAACCGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.32
Consensus pattern (18 bp):
TTTCTACATCAAACCCAG
Found at i:1552911 original size:41 final size:41
Alignment explanation
Indices: 1552854--1552935 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
1552844 CATACTTAAG
1552854 AATGCAAAAAGAAAACCTACCATGTCCATCACGAAAAGCAT
1 AATGCAAAAAGAAAACCTACCATGTCCATCACGAAAAGCAT
1552895 AATGCAAAAAGAAAACCTACCATGTCCATCACGAAAAGCAT
1 AATGCAAAAAGAAAACCTACCATGTCCATCACGAAAAGCAT
1552936 TCTCAAGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.49, C:0.24, G:0.12, T:0.15
Consensus pattern (41 bp):
AATGCAAAAAGAAAACCTACCATGTCCATCACGAAAAGCAT
Found at i:1555430 original size:29 final size:29
Alignment explanation
Indices: 1555376--1555440 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
1555366 TGAATTTTAA
* * * *
1555376 TTTTAATATAATTTGGACTCATTTAATTT
1 TTTTAATATAATGTGGACTAAATTAATCT
1555405 TTTTAATA-ATATGTGGACTAAATTAATCT
1 TTTTAATATA-ATGTGGACTAAATTAATCT
*
1555434 ATTTAAT
1 TTTTAAT
1555441 TATCCAATCC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.51
Consensus pattern (29 bp):
TTTTAATATAATGTGGACTAAATTAATCT
Found at i:1561892 original size:7 final size:7
Alignment explanation
Indices: 1561856--1561880 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1561846 TTTAATTTCC
1561856 TTTTAAA
1 TTTTAAA
1561863 TTTTAAA
1 TTTTAAA
1561870 TTTTAAA
1 TTTTAAA
1561877 TTTT
1 TTTT
1561881 CATTTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (7 bp):
TTTTAAA
Found at i:1562316 original size:17 final size:17
Alignment explanation
Indices: 1562276--1562309 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1562266 TATATTAAAA
* *
1562276 TTATTATTATTATGGTT
1 TTATAATTATTATGATT
1562293 TTATAATTATTATGATT
1 TTATAATTATTATGATT
1562310 ATTTAATGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
TTATAATTATTATGATT
Found at i:1562726 original size:12 final size:12
Alignment explanation
Indices: 1562709--1562739 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1562699 CAAGCAGGGG
1562709 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
1562721 AGAAAAAGGGAA
1 AGAAAAAGAGAA
1562733 AGAAAAA
1 AGAAAAA
1562740 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:1563759 original size:39 final size:39
Alignment explanation
Indices: 1563649--1563786 Score: 104
Period size: 39 Copynumber: 3.5 Consensus size: 39
1563639 GACCTCGAGT
* *
1563649 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAAATT-
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCT--ATTC
** * **
1563690 CGATGAGGTACAGGGTACCAACT-TTACTTCGGCTATTC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTATTC
* *
1563728 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTATTC
* *
1563767 CGATGAGGCACTGAGTGTCA
1 CGATGAGACACTGGGTGTCA
1563787 TTTGGTGTGT
Statistics
Matches: 77, Mismatches: 16, Indels: 10
0.75 0.16 0.10
Matches are distributed among these distances:
37 3 0.04
38 18 0.23
39 36 0.47
40 4 0.05
41 14 0.18
42 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTATTC
Found at i:1563911 original size:18 final size:18
Alignment explanation
Indices: 1563888--1563928 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1563878 AAAAAAAAAA
1563888 AGAAATT-GAATTATGAAT
1 AGAAATTAGAATTATG-AT
*
1563906 AGAAATTAGAATTGTGAT
1 AGAAATTAGAATTATGAT
1563924 AGAAA
1 AGAAA
1563929 GAGAAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (18 bp):
AGAAATTAGAATTATGAT
Found at i:1564488 original size:20 final size:20
Alignment explanation
Indices: 1564465--1564502 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1564455 GTTATTAAAT
1564465 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
1564485 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
1564503 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:1564994 original size:14 final size:14
Alignment explanation
Indices: 1564975--1565002 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1564965 TTTCAAAGCA
1564975 TCAAAATAAATTAT
1 TCAAAATAAATTAT
1564989 TCAAAATAAATTAT
1 TCAAAATAAATTAT
1565003 CCATTGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (14 bp):
TCAAAATAAATTAT
Found at i:1566205 original size:46 final size:46
Alignment explanation
Indices: 1566145--1566364 Score: 278
Period size: 46 Copynumber: 5.0 Consensus size: 46
1566135 TTTGACATGA
* * * * * *
1566145 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
1566191 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1566237 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1566283 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C---TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1566321 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1566365 AGAGCACACT
Statistics
Matches: 154, Mismatches: 11, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
38 34 0.22
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 4 0.03
46 108 0.70
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:1566328 original size:38 final size:38
Alignment explanation
Indices: 1566277--1566352 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
1566267 ACATTTCATA
1566277 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1566315 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1566353 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:1568514 original size:11 final size:11
Alignment explanation
Indices: 1568498--1568549 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
1568488 TATACTAAAT
1568498 AAATAATAATA
1 AAATAATAATA
*
1568509 AAATAAT-ATT
1 AAATAATAATA
* *
1568519 AAATATCTCATA
1 AAATA-ATAATA
*
1568531 AAATATTAATA
1 AAATAATAATA
1568542 AAATAATA
1 AAATAATA
1568550 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:1570142 original size:31 final size:29
Alignment explanation
Indices: 1570101--1570169 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
1570091 CAAGCCCGAA
1570101 TATATTATGTTATAAAAAATAATTATACTAAT
1 TATATTATG-T-TAAAAAATAATTATA-TAAT
* *
1570133 TATA-TATGTTAAATAATAATTTTATAAT
1 TATATTATGTTAAAAAATAATTATATAAT
1570161 TATAATTAT
1 TAT-ATTAT
1570170 ATTTATATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 7 0.21
29 14 0.42
30 4 0.12
31 4 0.12
32 4 0.12
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (29 bp):
TATATTATGTTAAAAAATAATTATATAAT
Found at i:1570165 original size:6 final size:6
Alignment explanation
Indices: 1570153--1570195 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
1570143 AAATAATAAT
* *
1570153 TTTATA ATTATA ATTATA TTTATA TTTATA TTTATA TTTATA T
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA T
1570196 CAAATCACTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
TTTATA
Found at i:1571015 original size:2 final size:2
Alignment explanation
Indices: 1571003--1571038 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1570993 AATTGGCTAT
*
1571003 TA TA TA GA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1571039 ATCATTTTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1573284 original size:15 final size:15
Alignment explanation
Indices: 1573258--1573296 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
1573248 TATATTTACC
*
1573258 AAATAAAATTTC-AT
1 AAATAAATTTTCAAT
1573272 AAATTAAATTTTCAAT
1 AAA-TAAATTTTCAAT
1573288 AAATAAATT
1 AAATAAATT
1573297 ATTATTCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 14 0.64
16 5 0.23
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATAAATTTTCAAT
Found at i:1578552 original size:15 final size:15
Alignment explanation
Indices: 1578532--1578579 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
1578522 AAATTCAACA
1578532 ATTAATTATTAAAAT
1 ATTAATTATTAAAAT
* *
1578547 ATTAATTATAAAAAA
1 ATTAATTATTAAAAT
*
1578562 ATTAATATATTTAAAT
1 ATTAAT-TATTAAAAT
1578578 AT
1 AT
1578580 CATCTCAAGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 19 0.70
16 8 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTAATTATTAAAAT
Found at i:1579902 original size:18 final size:18
Alignment explanation
Indices: 1579865--1579903 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
1579855 TTCTAAATAT
*
1579865 AATTAATTAATTAATTAA
1 AATTAATTAATTAATAAA
*
1579883 AATTAATTAATTGATAAA
1 AATTAATTAATTAATAAA
1579901 AAT
1 AAT
1579904 AGTAGCAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
AATTAATTAATTAATAAA
Found at i:1586061 original size:1 final size:1
Alignment explanation
Indices: 1586055--1586081 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
1586045 CTTTATTTCG
1586055 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1586082 ACTTTCTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1587551 original size:3 final size:3
Alignment explanation
Indices: 1587543--1587585 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
1587533 ACTCGGGAAC
*
1587543 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1587586 CTTAGGCTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:1593114 original size:18 final size:18
Alignment explanation
Indices: 1593091--1593143 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 18
1593081 AAAAATATTC
1593091 AAAAAATAAGAATTCAAA
1 AAAAAATAAGAATTCAAA
*
1593109 AAAAAAT-TG---TCAAA
1 AAAAAATAAGAATTCAAA
* *
1593123 AATAAATAAAAATTCAAA
1 AAAAAATAAGAATTCAAA
1593141 AAA
1 AAA
1593144 TTAACATAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 8
0.67 0.13 0.21
Matches are distributed among these distances:
14 11 0.42
17 1 0.04
18 14 0.54
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.19
Consensus pattern (18 bp):
AAAAAATAAGAATTCAAA
Found at i:1593121 original size:29 final size:31
Alignment explanation
Indices: 1593081--1593143 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 31
1593071 TTAAATTTTT
*
1593081 AAAAATATTC-AAA-AAATAAGAATTCAAAA
1 AAAAATATTCAAAATAAATAAAAATTCAAAA
1593110 AAAAAT-TGTCAAAAATAAATAAAAATTCAAAA
1 AAAAATAT-TC-AAAATAAATAAAAATTCAAAA
1593142 AA
1 AA
1593144 TTAACATAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 1 0.03
29 8 0.28
31 3 0.10
32 17 0.59
ACGTcount: A:0.70, C:0.06, G:0.03, T:0.21
Consensus pattern (31 bp):
AAAAATATTCAAAATAAATAAAAATTCAAAA
Found at i:1593445 original size:15 final size:16
Alignment explanation
Indices: 1593425--1593461 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1593415 ACGCGCTGCC
1593425 ATAAAAA-TAT-ATTA
1 ATAAAAATTATAATTA
1593439 TATAAAAATTATAATTA
1 -ATAAAAATTATAATTA
1593456 ATAAAA
1 ATAAAA
1593462 GGTTAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 7 0.35
16 9 0.45
17 4 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATAAAAATTATAATTA
Found at i:1595414 original size:3 final size:3
Alignment explanation
Indices: 1595401--1595431 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1595391 TATTCATTTA
*
1595401 ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1595432 CCCATCAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:1599624 original size:26 final size:25
Alignment explanation
Indices: 1599594--1599653 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
1599584 ATTGAAATGG
*
1599594 TTTATTTTATTGATAAAA-ATAATATA
1 TTTATTTTATT-ATAAAAGAT-ATAAA
*
1599620 TTTATTTGATTATAAAAGATATAAA
1 TTTATTTTATTATAAAAGATATAAA
1599645 TATTATTTT
1 T-TTATTTT
1599654 TAAATAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 11 0.38
26 18 0.62
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (25 bp):
TTTATTTTATTATAAAAGATATAAA
Found at i:1608394 original size:26 final size:26
Alignment explanation
Indices: 1608357--1608440 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
1608347 TGATACAAAT
* *
1608357 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
1608383 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
1608409 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
1608435 TGATAA
1 TGATAA
1608441 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:1609956 original size:26 final size:26
Alignment explanation
Indices: 1609927--1609979 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
1609917 TTTACAGTTT
1609927 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* * *
1609953 TACCCTTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
1609979 T
1 T
1609980 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:1610472 original size:137 final size:136
Alignment explanation
Indices: 1610227--1610512 Score: 518
Period size: 137 Copynumber: 2.1 Consensus size: 136
1610217 GAATAGTCTC
*
1610227 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
1610292 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGAGCTCTGGCCCAGTACCA
1610357 CTGTTA
131 CTGTTA
*
1610363 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCCTAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1610428 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGAGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGAGCTCTGGCCCAGTACC
1610493 ACTGTTA
130 ACTGTTA
**
1610500 CCTGAATGGGCTT
1 CCCAAATGGGCTT
1610513 ATGTAATATC
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 20 0.14
137 124 0.86
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGAGCTCTGGCCCAGTACCA
CTGTTA
Found at i:1611859 original size:46 final size:46
Alignment explanation
Indices: 1611806--1611981 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
1611796 TATTTGGGCA
1611806 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
1611852 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
1611899 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
1611945 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1611982 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:1611961 original size:93 final size:93
Alignment explanation
Indices: 1611802--1611973 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
1611792 GGGATATTTG
* *
1611802 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
1611867 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
1611895 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
1611960 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
1611974 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:1614969 original size:15 final size:15
Alignment explanation
Indices: 1614930--1615007 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
1614920 GTATCTTGGG
*
1614930 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
1614945 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
1614960 TTTCTTTA-T-TGGG
1 TTTCTTTATTCTGGA
*
1614973 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
1614988 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
1615002 TTTCTT
1 TTTCTT
1615008 GTTATCTTTG
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 11 0.21
14 9 0.17
15 30 0.58
16 2 0.04
ACGTcount: A:0.10, C:0.17, G:0.14, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:1614988 original size:43 final size:42
Alignment explanation
Indices: 1614925--1615007 Score: 121
Period size: 43 Copynumber: 2.0 Consensus size: 42
1614915 GTATCGTATC
*
1614925 TTGGGTTTCTTTATCCTGGATCTCTTTATTCTGGATTTCTTTA
1 TTGGGTTTCTCTATCCTGGATCTCTTTATTC-GGATTTCTTTA
* * *
1614968 TTGGGTTTCTCTATCTTGGATTTCTTTATTCGGTTTTCTT
1 TTGGGTTTCTCTATCCTGGATCTCTTTATTCGGATTTCTT
1615008 GTTATCTTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 8 0.22
43 28 0.78
ACGTcount: A:0.10, C:0.16, G:0.17, T:0.58
Consensus pattern (42 bp):
TTGGGTTTCTCTATCCTGGATCTCTTTATTCGGATTTCTTTA
Found at i:1614996 original size:28 final size:28
Alignment explanation
Indices: 1614921--1615003 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
1614911 CATAGTATCG
* * * *
1614921 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTAT--TGGGTTTCTC
1614951 TAT-TCTGGATTTCTTTATTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTGGGTTTCTC
*
1614979 TATCTTGGATTTCTTTATTCGGTTT
1 TATCTTGGATTTCTTTATTGGGTTT
1615004 TCTTGTTATC
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
28 29 0.63
29 2 0.04
30 15 0.33
ACGTcount: A:0.11, C:0.16, G:0.17, T:0.57
Consensus pattern (28 bp):
TATCTTGGATTTCTTTATTGGGTTTCTC
Found at i:1617443 original size:46 final size:46
Alignment explanation
Indices: 1617390--1617565 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
1617380 TATTTGGGCA
1617390 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
1617436 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
1617483 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
1617529 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1617566 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:1617545 original size:93 final size:93
Alignment explanation
Indices: 1617386--1617557 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
1617376 GGGATATTTG
* *
1617386 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
1617451 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
1617479 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
1617544 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
1617558 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:1622161 original size:26 final size:26
Alignment explanation
Indices: 1622132--1622184 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
1622122 TTTACAGTTT
1622132 TACCCCTAGGAGATAAATT-ACCAAAA
1 TACCCCTAGG-GATAAATTGACCAAAA
* * *
1622158 TACCCTTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCAAAA
1622184 T
1 T
1622185 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCAAAA
Found at i:1622676 original size:136 final size:136
Alignment explanation
Indices: 1622432--1622716 Score: 509
Period size: 136 Copynumber: 2.1 Consensus size: 136
1622422 GAGTAGTCTC
* *
1622432 CCCAAATGGGCTTGCATATGTTATTGATGTTGCGTGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
1622497 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGAGCTCTGGCCCAGTACCA
1622562 CTGTTA
131 CTGTTA
1622568 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCC-TAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1622632 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGAGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGAGCTCTGGCCCAGTACC
1622697 ACTGTTA
130 ACTGTTA
**
1622704 CCTGAATGGGCTT
1 CCCAAATGGGCTT
1622717 AGGCCCAATA
Statistics
Matches: 143, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
136 105 0.73
137 38 0.27
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGAGCTCTGGCCCAGTACCA
CTGTTA
Found at i:1627375 original size:3 final size:3
Alignment explanation
Indices: 1627367--1627425 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
1627357 CTTTATTAAA
* * * *
1627367 TAT TAT TAT TAT T-T CTAA TAT TAT TAA TAT TAT CAA TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1627412 TAT T-T TAT ATAT TA
1 TAT TAT TAT -TAT TA
1627426 ATGTATATTT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
2 3 0.07
3 38 0.86
4 3 0.07
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:1627388 original size:18 final size:18
Alignment explanation
Indices: 1627365--1627425 Score: 81
Period size: 18 Copynumber: 3.4 Consensus size: 18
1627355 TTCTTTATTA
1627365 AATATTATTATTATTTCT
1 AATATTATTATTATTTCT
*
1627383 AATATTATTAATATTATC-
1 AATATTATTATTATT-TCT
1627401 AATATTATTATTATTT-T
1 AATATTATTATTATTTCT
1627418 ATATATTA
1 A-ATATTA
1627426 ATGTATATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
17 2 0.05
18 34 0.89
19 2 0.05
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
AATATTATTATTATTTCT
Done.