Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 7488280
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 125249 characters in sequence are not A, C, G, or T
File 10 of 47
Found at i:1308167 original size:20 final size:20
Alignment explanation
Indices: 1308139--1308213 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
1308129 TCATACCCTG
1308139 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
1308159 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
1308179 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
1308199 ATGTATCGATACATT
1 ATGTATCGATACATT
1308214 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1308206 original size:40 final size:39
Alignment explanation
Indices: 1308139--1308216 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1308129 TCATACCCTG
* *
1308139 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
1308179 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
1308217 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:1309151 original size:23 final size:23
Alignment explanation
Indices: 1309124--1309179 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
1309114 AGCCTTTGAC
1309124 CATGCATTTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
1309147 CATGCA-TTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
1309169 CATGCATTTTT
1 CATGCATTTTT
1309180 AACATGTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 22 0.69
23 10 0.31
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.62
Consensus pattern (23 bp):
CATGCATTTTTTTTATTATGTTT
Found at i:1309186 original size:20 final size:21
Alignment explanation
Indices: 1309132--1309186 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
1309122 ACCATGCATT
**
1309132 TTTTTTATTATGTTTCATGCA
1 TTTTTTAACATGTTTCATGCA
**
1309153 TTTTTTTATTATGTTTCATGCA
1 -TTTTTTAACATGTTTCATGCA
1309175 -TTTTTAACATGT
1 TTTTTTAACATGT
1309187 CCAGCATCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 10 0.32
22 21 0.68
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.62
Consensus pattern (21 bp):
TTTTTTAACATGTTTCATGCA
Found at i:1313563 original size:132 final size:133
Alignment explanation
Indices: 1313347--1313610 Score: 460
Period size: 132 Copynumber: 2.0 Consensus size: 133
1313337 TCATACGAAG
1313347 ACACTAACTTTCATAATTTTTCTTTGTAAGACGAAGAAATTGGAATGAGAACAAACTATTGTTTG
1 ACACTAACTTTCATAATTTTTCTTTGTAAGACGAAGAAATTGGAATGAGAACAAACTATTGTTTG
1313412 CCATTTTTAAGGCTAAAAAAACCAACTTTGATGCCATCTTGAAGGAGAAAAGAGAGAGAGA-AAA
66 CCATTTTTAAGGCTAAAAAAACCAACTTTGATGCCATCTTGAAGGAGAAAAGAGAGAGAGAGAAA
1313476 GGA
131 GGA
* *
1313479 ACACTAACTTTTATAATTTTTCTTTGTAAGACG-AGAAAATTGGAATGAGAATAAACTATTGTTT
1 ACACTAACTTTCATAATTTTTCTTTGTAAGACGAAG-AAATTGGAATGAGAACAAACTATTGTTT
* *
1313543 GTCATTTTTTAAGGCTAAAAAAACCGACTTTGATGCCATCTTGAAGGAGAAAAGAGAGAGAGAGA
65 GCCA-TTTTTAAGGCTAAAAAAACCAACTTTGATGCCATCTTGAAGGAGAAAAGAGAGAGAGAGA
1313608 AAG
129 AAG
1313611 AGGTGTTGGA
Statistics
Matches: 125, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
131 2 0.02
132 62 0.50
133 57 0.46
134 4 0.03
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (133 bp):
ACACTAACTTTCATAATTTTTCTTTGTAAGACGAAGAAATTGGAATGAGAACAAACTATTGTTTG
CCATTTTTAAGGCTAAAAAAACCAACTTTGATGCCATCTTGAAGGAGAAAAGAGAGAGAGAGAAA
GGA
Found at i:1317566 original size:10 final size:9
Alignment explanation
Indices: 1317548--1317615 Score: 57
Period size: 10 Copynumber: 7.1 Consensus size: 9
1317538 GGACATTTGC
1317548 AATAATTTT
1 AATAATTTT
1317557 AATAACTTTT
1 AATAA-TTTT
*
1317567 ATATTATTTT
1 A-ATAATTTT
*
1317577 AAAAATATTT
1 AATAAT-TTT
1317587 AATAA-TTT
1 AATAATTTT
*
1317595 AATATTTTTT
1 AATA-ATTTT
1317605 ATATAATTTT
1 A-ATAATTTT
1317615 A
1 A
1317616 TACCAAAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
8 7 0.15
9 8 0.17
10 26 0.55
11 6 0.13
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (9 bp):
AATAATTTT
Found at i:1318554 original size:32 final size:33
Alignment explanation
Indices: 1318508--1318586 Score: 97
Period size: 32 Copynumber: 2.4 Consensus size: 33
1318498 ATTTAAATTT
*
1318508 TTTATATTTATATAAATATTAATATA-TTAATAA
1 TTTATA-TTATATAAATATTAAAATATTTAATAA
* *
1318541 TTTATATTATATAAATTTTAAAATATTTATTAA
1 TTTATATTATATAAATATTAAAATATTTAATAA
*
1318574 TATAATATTATAT
1 T-TTATATTATAT
1318587 TTTAAGTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
32 17 0.43
33 13 0.32
34 10 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (33 bp):
TTTATATTATATAAATATTAAAATATTTAATAA
Found at i:1319869 original size:28 final size:27
Alignment explanation
Indices: 1319814--1319905 Score: 100
Period size: 28 Copynumber: 3.4 Consensus size: 27
1319804 GCCACCCATT
1319814 TATTTGTCAAAAATGGTGGTTATTTTG
1 TATTTGTCAAAAATGGTGGTTATTTTG
*
1319841 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TATTTGTCAAAAATGGTGGTTAT--TTTG
* * * *
1319869 TATTTGTCAAATATGGAGGCT-TGTT-
1 TATTTGTCAAAAATGGTGGTTATTTTG
1319894 TATTTGTCAAAA
1 TATTTGTCAAAA
1319906 TTTGTGGCTA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
25 11 0.20
26 3 0.05
27 20 0.36
28 22 0.39
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.46
Consensus pattern (27 bp):
TATTTGTCAAAAATGGTGGTTATTTTG
Found at i:1324444 original size:28 final size:27
Alignment explanation
Indices: 1324389--1324459 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
1324379 GCCACCCATT
1324389 TGTTTGTCAAAAATGGTGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
1324416 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGGTTAT--TTTG
* *
1324444 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
1324460 AGGCTTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.23, C:0.07, G:0.24, T:0.46
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:1324800 original size:2 final size:2
Alignment explanation
Indices: 1324793--1324827 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1324783 CTTGTGCTTT
1324793 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1324828 TTTAAGTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1325438 original size:70 final size:70
Alignment explanation
Indices: 1325316--1325454 Score: 206
Period size: 70 Copynumber: 2.0 Consensus size: 70
1325306 CAGATTTGCC
* * * *
1325316 CAAAGCTGAACCATCCATGTTCAACTTTAGTCCACCAGACGTCCGCGGAACCCATTCAATACGAG
1 CAAAGCTGAACCATCCACGTTAAACTTTAGTCCACCAGACGTACGCGAAACCCATTCAATACGAG
1325381 ACCTA
66 ACCTA
* * * *
1325386 CAAAGCTGAACCTTCCACGTTAAACTTTAGTCCACCAGACGTAGGCGAAACCCATTCAATGCTAG
1 CAAAGCTGAACCATCCACGTTAAACTTTAGTCCACCAGACGTACGCGAAACCCATTCAATACGAG
1325451 ACCT
66 ACCT
1325455 CTTTCCCTTC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
70 61 1.00
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.21
Consensus pattern (70 bp):
CAAAGCTGAACCATCCACGTTAAACTTTAGTCCACCAGACGTACGCGAAACCCATTCAATACGAG
ACCTA
Found at i:1325842 original size:20 final size:19
Alignment explanation
Indices: 1325796--1325872 Score: 73
Period size: 20 Copynumber: 3.9 Consensus size: 19
1325786 TCATACCCTG
* *
1325796 ATGTATCGATGCATTTTTCA
1 ATGTATCGATACA-TTATCA
* *
1325816 ATATATCGATACATGTATGA
1 ATGTATCGATACAT-TATCA
* *
1325836 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTAT-CA
1325856 ATGTATCGATACATTAT
1 ATGTATCGATACATTAT
1325873 GTCTTTTTAC
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
19 3 0.07
20 42 0.93
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (19 bp):
ATGTATCGATACATTATCA
Found at i:1325863 original size:40 final size:39
Alignment explanation
Indices: 1325796--1325873 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
1325786 TCATACCCTG
* * *
1325796 ATGTATCGATGCATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
1325836 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
1325874 TCTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:1326794 original size:23 final size:23
Alignment explanation
Indices: 1326767--1326822 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
1326757 AGCCTTTGAC
1326767 CATGCATTTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
1326790 CATGCA-TTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
1326812 CATGCATTTTT
1 CATGCATTTTT
1326823 AACATGTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 22 0.69
23 10 0.31
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.62
Consensus pattern (23 bp):
CATGCATTTTTTTTATTATGTTT
Found at i:1326829 original size:20 final size:21
Alignment explanation
Indices: 1326775--1326829 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
1326765 ACCATGCATT
**
1326775 TTTTTTATTATGTTTCATGCA
1 TTTTTTAACATGTTTCATGCA
**
1326796 TTTTTTTATTATGTTTCATGCA
1 -TTTTTTAACATGTTTCATGCA
1326818 -TTTTTAACATGT
1 TTTTTTAACATGT
1326830 CCAGCATCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 10 0.32
22 21 0.68
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.62
Consensus pattern (21 bp):
TTTTTTAACATGTTTCATGCA
Found at i:1334694 original size:13 final size:13
Alignment explanation
Indices: 1334676--1334701 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1334666 CAATTTTTTG
1334676 TGTATCGATACAT
1 TGTATCGATACAT
1334689 TGTATCGATACAT
1 TGTATCGATACAT
1334702 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1334766 original size:21 final size:21
Alignment explanation
Indices: 1334740--1334815 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1334730 CTGCCAAGAA
*
1334740 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1334761 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1334781 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1334802 ATGTATCGATACAT
1 ATGTATCGATACAT
1334816 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1334786 original size:20 final size:20
Alignment explanation
Indices: 1334761--1334833 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1334751 CATCTTTTTT
1334761 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1334781 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1334802 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1334822 ATGTATCGATAC
1 ATGTATCGATAC
1334834 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1334797 original size:41 final size:41
Alignment explanation
Indices: 1334740--1334833 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1334730 CTGCCAAGAA
*
1334740 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1334781 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1334822 ATGTATCGATAC
1 ATGTATCGATAC
1334834 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1337275 original size:13 final size:13
Alignment explanation
Indices: 1337257--1337295 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1337247 ATAATCACCC
*
1337257 TGTATCGATACAG
1 TGTATCGATACAA
1337270 TGTATCGATACAA
1 TGTATCGATACAA
1337283 TGTATCGATACAA
1 TGTATCGATACAA
1337296 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1337306 original size:20 final size:20
Alignment explanation
Indices: 1337281--1337359 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
1337271 GTATCGATAC
1337281 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
1337301 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
1337326 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
1337346 CATGTATCGATACA
1 AATGTATCGATACA
1337360 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1339394 original size:15 final size:15
Alignment explanation
Indices: 1339374--1339404 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1339364 ATTTCGTTTG
*
1339374 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1339389 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1339404 G
1 G
1339405 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1343485 original size:13 final size:13
Alignment explanation
Indices: 1343467--1343492 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1343457 CAATTTTTTG
1343467 TGTATCGATACAT
1 TGTATCGATACAT
1343480 TGTATCGATACAT
1 TGTATCGATACAT
1343493 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1343578 original size:20 final size:20
Alignment explanation
Indices: 1343553--1343625 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1343543 ATCTTTTTTT
1343553 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1343573 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1343594 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1343614 ATGTATCGATAC
1 ATGTATCGATAC
1343626 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1343604 original size:41 final size:42
Alignment explanation
Indices: 1343531--1343625 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
1343521 CTGCCAAGAA
*
1343531 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1343573 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1343614 ATGTATCGATAC
1 ATGTATCGATAC
1343626 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:1349864 original size:1 final size:1
Alignment explanation
Indices: 1349858--1349928 Score: 70
Period size: 1 Copynumber: 71.0 Consensus size: 1
1349848 CTTTACACCC
* * * * * * * *
1349858 AAAAAAACAAAACAAAAAAAAACAAAAAAAACAAAACAAAACAAAAAAACAAAAAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1349923 AAAAAA
1 AAAAAA
1349929 TAGAAGGGTC
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.89, C:0.10, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:1349879 original size:10 final size:10
Alignment explanation
Indices: 1349860--1349927 Score: 86
Period size: 10 Copynumber: 6.9 Consensus size: 10
1349850 TTACACCCAA
1349860 AAAAACAAAAC
1 AAAAA-AAAAC
1349871 AAAAAAAAAC
1 AAAAAAAAAC
1349881 -AAAAAAAAC
1 AAAAAAAAAC
*
1349890 AAAACAAAAC
1 AAAAAAAAAC
*
1349900 AAAAAAACA-
1 AAAAAAAAAC
*
1349909 AAAAAAAAAG
1 AAAAAAAAAC
1349919 AAAAAAAAA
1 AAAAAAAAA
1349928 ATAGAAGGGT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
9 17 0.33
10 29 0.57
11 5 0.10
ACGTcount: A:0.88, C:0.10, G:0.01, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:1349885 original size:24 final size:23
Alignment explanation
Indices: 1349858--1349928 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 23
1349848 CTTTACACCC
1349858 AAAAAAACAAAACAAAAAAAAACA
1 AAAAAAACAAAACAAAAAAAAA-A
1349882 AAAAAAACAAAACAAAACAAAAAA
1 AAAAAAACAAAACAAAA-AAAAAA
*
1349906 ACAAAAAA-AAAAGAAAAAAAAAA
1 A-AAAAAACAAAACAAAAAAAAAA
1349929 TAGAAGGGTC
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
23 6 0.14
24 27 0.61
25 11 0.25
ACGTcount: A:0.89, C:0.10, G:0.01, T:0.00
Consensus pattern (23 bp):
AAAAAAACAAAACAAAAAAAAAA
Found at i:1349890 original size:19 final size:19
Alignment explanation
Indices: 1349861--1349925 Score: 89
Period size: 19 Copynumber: 3.4 Consensus size: 19
1349851 TACACCCAAA
1349861 AAAACAAAACAAAAAAAAAC
1 AAAA-AAAACAAAAAAAAAC
*
1349881 AAAAAAAACAAAACAAAAC
1 AAAAAAAACAAAAAAAAAC
1349900 -AAAAAAACAAAAAAAAA-
1 AAAAAAAACAAAAAAAAAC
1349917 AGAAAAAAA
1 A-AAAAAAA
1349926 AAATAGAAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
18 16 0.39
19 21 0.51
20 4 0.10
ACGTcount: A:0.88, C:0.11, G:0.02, T:0.00
Consensus pattern (19 bp):
AAAAAAAACAAAAAAAAAC
Found at i:1349893 original size:29 final size:29
Alignment explanation
Indices: 1349861--1349927 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
1349851 TACACCCAAA
1349861 AAAACAAAACAAAAAAA-AACAAAAAAAAC
1 AAAACAAAACAAAAAAACAA-AAAAAAAAC
*
1349890 AAAACAAAACAAAAAAACAAAAAAAAAAG
1 AAAACAAAACAAAAAAACAAAAAAAAAAC
*
1349919 AAAAAAAAA
1 AAAACAAAA
1349928 ATAGAAGGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 33 0.94
30 2 0.06
ACGTcount: A:0.88, C:0.10, G:0.01, T:0.00
Consensus pattern (29 bp):
AAAACAAAACAAAAAAACAAAAAAAAAAC
Found at i:1351186 original size:29 final size:29
Alignment explanation
Indices: 1351144--1352144 Score: 1403
Period size: 28 Copynumber: 34.9 Consensus size: 29
1351134 AATGTTCATC
1351144 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1351173 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1351202 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1351230 CCTTTCAAAGCCCACAACTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1351258 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1351287 CCTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1351316 CTTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1351344 CCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1351372 CCTTTCAAAGCCCACAACTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1351400 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1351429 CCTTTCAAAGCCCACAAATCAGTTGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1351458 CTTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1351486 CCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1351514 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1351543 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1351571 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1351600 CATTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1351628 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1351657 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1351686 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
**
1351715 ATTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
1351744 CTTTTCAAAGCCCACAAATCAGTGGCGCT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1351773 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1351801 CCTTTCAAAGTCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1351829 CCTTTCAGAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1351857 CCTTTCGAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
1351885 CATTGCGAAGCCCACAATTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1351914 -CTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
1351941 CCTTTTAAAGCTCACACAAGTCAGTGGCACT
1 CCTTTCAAAGC-C-CACAAGTCAGTGGCACT
* * *
1351972 CCTTTTAAAGCTCACGCAAGTCAGTGGTAC-
1 CCTTTCAAAGC-C-CACAAGTCAGTGGCACT
*
1352002 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1352031 -CTTTCAAAGCCCACAAGTCAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1352058 CCTTTCAAAGCCCACGAGTTAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1352086 TCTTTCAAAGCCCACGCACGTCAGTGGCAC-
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCACT
* *
1352116 CCTTTTAAAGCCCATGCAAGTCAATGGCA
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCA
1352145 ACCCTTTTCA
Statistics
Matches: 884, Mismatches: 73, Indels: 29
0.90 0.07 0.03
Matches are distributed among these distances:
27 1 0.00
28 448 0.51
29 348 0.39
30 59 0.07
31 28 0.03
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.22
Consensus pattern (29 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:1351343 original size:114 final size:114
Alignment explanation
Indices: 1351143--1352156 Score: 1459
Period size: 114 Copynumber: 8.8 Consensus size: 114
1351133 GAATGTTCAT
* *
1351143 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
*
1351208 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCA
66 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
*
1351257 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
*
1351322 AAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
66 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
1351371 CCCTTTCAAAGCCCACAACTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* * * *
1351435 AAAGCCCACAAATCAGTTGCACTCTTTTCAAAGCCCACAAGTTAGTGGCA
66 AAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA
1351485 CCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
1351549 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
66 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
1351598 CTCATTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTT
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTT
* *
1351662 CAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCA
65 CAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA
** * * *
1351713 CTATTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCGCTCTTTT
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTT
* *
1351778 CAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGTCCACAAGTTAGTGGCA
65 CAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
1351828 CCCTTTCAGAGCCCACAAGTCAGTGGCAC-CCTTTCGAAGCCCACAAGTTAGTGGCAC-CATTGC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* * *
1351891 GAAGCCCACAATTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA
66 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
1351940 CCCTTTTAAAGCTCACACAAGTCAGTGGCACTCCTTTTAAAGCTCACGCAAGTCAGTGGTAC-CT
1 CCCTTTCAAAGC-C-CACAAGTCAGTGGCACTCCTTTCAAAGC-C-CACAAGTCAGTGGCACTCT
*
1352004 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA
62 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * * * *
1352057 TCCTTTCAAAGCCCACGAGTTAGTGGCA-TTCTTTCAAAGCCCACGCACGTCAGTGGCACCCTTT
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCA--CAAGTCAGTGGCACTCTTT
*
1352121 T-AAAGCCCATGCAAGTCAATGGCAACCCTTTTCAAA
64 TCAAAGCCCA--CAAGTCAGTGGC-ACCC-TTTCAAA
1352157 TCACCACTGT
Statistics
Matches: 814, Mismatches: 70, Indels: 28
0.89 0.08 0.03
Matches are distributed among these distances:
112 59 0.07
113 103 0.13
114 399 0.49
115 103 0.13
116 66 0.08
117 77 0.09
118 7 0.01
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.22
Consensus pattern (114 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:1352679 original size:20 final size:19
Alignment explanation
Indices: 1352633--1352709 Score: 73
Period size: 20 Copynumber: 3.9 Consensus size: 19
1352623 TCATACCCTG
* *
1352633 ATGTATCGATGCATTTTTCA
1 ATGTATCGATACA-TTATCA
* *
1352653 ATATATCGATACATGTATGA
1 ATGTATCGATACAT-TATCA
* *
1352673 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTAT-CA
1352693 ATGTATCGATACATTAT
1 ATGTATCGATACATTAT
1352710 GTCTTTTTAC
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
19 3 0.07
20 42 0.93
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (19 bp):
ATGTATCGATACATTATCA
Found at i:1352700 original size:40 final size:39
Alignment explanation
Indices: 1352633--1352710 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
1352623 TCATACCCTG
* * *
1352633 ATGTATCGATGCATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
1352673 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
1352711 TCTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:1353651 original size:24 final size:24
Alignment explanation
Indices: 1353619--1353676 Score: 109
Period size: 23 Copynumber: 2.5 Consensus size: 24
1353609 AGCCTTTGAC
1353619 CATGCATTTTTTTTTATTATGTTT
1 CATGCATTTTTTTTTATTATGTTT
1353643 CATGCA-TTTTTTTTATTATGTTT
1 CATGCATTTTTTTTTATTATGTTT
1353666 CATGCATTTTT
1 CATGCATTTTT
1353677 AACATGTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 23 0.70
24 10 0.30
ACGTcount: A:0.17, C:0.10, G:0.09, T:0.64
Consensus pattern (24 bp):
CATGCATTTTTTTTTATTATGTTT
Found at i:1353683 original size:20 final size:21
Alignment explanation
Indices: 1353628--1353683 Score: 51
Period size: 23 Copynumber: 2.6 Consensus size: 21
1353618 CCATGCATTT
**
1353628 TTTTTTATTATGTTTCATGCA
1 TTTTTTAACATGTTTCATGCA
**
1353649 TTTTTTTTATTATGTTTCATGCA
1 --TTTTTTAACATGTTTCATGCA
1353672 -TTTTTAACATGT
1 TTTTTTAACATGT
1353684 CCAGCATCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 10 0.32
23 21 0.68
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.62
Consensus pattern (21 bp):
TTTTTTAACATGTTTCATGCA
Found at i:1356418 original size:3 final size:3
Alignment explanation
Indices: 1356410--1356442 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
1356400 TAATTAATTT
*
1356410 ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1356443 TAAATTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:1356530 original size:23 final size:24
Alignment explanation
Indices: 1356472--1356530 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
1356462 CTGACATTGT
1356472 ATAAATTTAT-ACACTATTAATAA
1 ATAAATTTATCACACTATTAATAA
* *
1356495 ATCAAATTATATCATATTATTAA-AA
1 AT-AAATT-TATCACACTATTAATAA
1356520 ATAAATTTATC
1 ATAAATTTATC
1356531 TAAATTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 6 0.19
24 10 0.32
25 7 0.23
26 8 0.26
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (24 bp):
ATAAATTTATCACACTATTAATAA
Found at i:1356539 original size:25 final size:26
Alignment explanation
Indices: 1356486--1356547 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 26
1356476 ATTTATACAC
*
1356486 TATTAATAAATCAAATTATATCATAT
1 TATTAATAAATCAAATTATATCAAAT
1356512 TATTAA-AAAT-AAATT-TATCTAAATT
1 TATTAATAAATCAAATTATATC-AAA-T
*
1356537 TATTTATAAAT
1 TATTAATAAAT
1356548 ATTTTTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 4 0.13
24 7 0.23
25 10 0.32
26 10 0.32
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (26 bp):
TATTAATAAATCAAATTATATCAAAT
Found at i:1357330 original size:2 final size:2
Alignment explanation
Indices: 1357325--1357352 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1357315 ACTTTCATAC
1357325 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1357353 CAACCTATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1362636 original size:2 final size:2
Alignment explanation
Indices: 1362629--1362659 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1362619 AAATTACTTG
1362629 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1362660 TTTAATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1364590 original size:7 final size:7
Alignment explanation
Indices: 1364574--1364621 Score: 60
Period size: 7 Copynumber: 6.6 Consensus size: 7
1364564 TAAAGATTAT
1364574 ATTTTAA
1 ATTTTAA
*
1364581 ATTTTGA
1 ATTTTAA
*
1364588 ATTTTGA
1 ATTTTAA
1364595 ATTTTGACA
1 ATTTT-A-A
1364604 ATTTTAA
1 ATTTTAA
1364611 ATTTTAA
1 ATTTTAA
1364618 ATTT
1 ATTT
1364622 GAAACCATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
7 30 0.81
8 1 0.03
9 6 0.16
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.56
Consensus pattern (7 bp):
ATTTTAA
Found at i:1366404 original size:166 final size:161
Alignment explanation
Indices: 1366043--1366465 Score: 482
Period size: 166 Copynumber: 2.6 Consensus size: 161
1366033 TGTTTGCTGA
* * * *
1366043 GGGATTTTTCTGGGTTTAGAATTTTTAAAATTCATTAAATATCATCTTTTAATTACAGTAAATCA
1 GGGATTTTTCTTGGTTTAAAATTTTTAAAATTCATCAAATATCATCATTTAATTACAGTAAATCA
* * *
1366108 GTTTTGAAAATTTCTTTTTTATTTCATAAATTGTTTCATTTATTTAAATTCTTCTATTTTCGAAA
66 GTTTTGAAAAATTCATTTATATTTCATAAATTGTTTCATTTATTTAAATTCTTCTATTTTCGAAA
* *
1366173 TACGAAGTTTTCTACTCCGTAAATATTTAGG
131 AACGAAGTTTTCTACTCCATAAATATTTAGG
* * * * *
1366204 GGGATTTTTCTTGATTTATAATTTTTAAAATTCATCAAATATCATCATTTAATTCATAGTGAATT
1 GGGATTTTTCTTGGTTTAAAATTTTTAAAATTCATCAAATATCATCATTTAATT-ACAGTAAATC
*
1366269 AGTTTTGAAAAAATT-ATTTAT-TTTCAT-AATTTTTTCATTTTTATTTAAAATTC-TCTTATTT
65 AGTTTTG-AAAAATTCATTTATATTTCATAAATTGTTTCA--TTTATTT-AAATTCTTC-TA-TT
* *
1366330 TTCGAAAAATCG-AGTTTTCTATTCCATAAATATTTTCGG
124 TTCGAAAAA-CGAAGTTTTCTACTCCATAAATA-TTTAGG
* * * * *
1366369 GATGATTTTTCTTGGTTTAAAATTTTTAAAATTCATCTAATATTATCATTAAATTTACATTAAAT
1 G-GGATTTTTCTTGGTTTAAAATTTTTAAAATTCATCAAATATCATCATTTAA-TTACAGTAAAT
* *
1366434 CAG-TTTGAAAAATTCAATT-TATTTCATGAATT
64 CAGTTTTGAAAAATTCATTTATATTTCATAAATT
1366466 TTGAATTTTT
Statistics
Matches: 221, Mismatches: 27, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
160 9 0.04
161 55 0.25
162 27 0.12
163 14 0.06
164 36 0.16
165 21 0.10
166 57 0.26
167 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.09, T:0.49
Consensus pattern (161 bp):
GGGATTTTTCTTGGTTTAAAATTTTTAAAATTCATCAAATATCATCATTTAATTACAGTAAATCA
GTTTTGAAAAATTCATTTATATTTCATAAATTGTTTCATTTATTTAAATTCTTCTATTTTCGAAA
AACGAAGTTTTCTACTCCATAAATATTTAGG
Found at i:1367699 original size:20 final size:20
Alignment explanation
Indices: 1367674--1367713 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1367664 TTTAAGTTGT
1367674 TTTTAAGATGT-TCTTGTGTG
1 TTTTAA-ATGTATCTTGTGTG
*
1367694 TTTTAAATGTATTTTGTGTG
1 TTTTAAATGTATCTTGTGTG
1367714 CATTTTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.17, C:0.03, G:0.23, T:0.57
Consensus pattern (20 bp):
TTTTAAATGTATCTTGTGTG
Found at i:1368757 original size:149 final size:145
Alignment explanation
Indices: 1368531--1369067 Score: 443
Period size: 148 Copynumber: 3.6 Consensus size: 145
1368521 TTAGGGGCAA
* * ** * *** * *
1368531 TTTCATAATTTTCCTAGAGCTGAGTCCTAATTTGTCACCAAATCGCTTCTATGCCAAGGATACAT
1 TTTCTTAATTTTCCTAGAACCAAGTCCTAATTTGTCATCGGGTCG-TTCTATGCCAAGGGTACGT
* * *
1368596 ACTAGGCATAGGTTCGCTTTTCTTTTTTAGTGTCCATTAAGGGTACCGAGATGCTTTTACGTCGA
65 ATTAGGCATAGGTTCGCTTTTCTTTTTTA-AGTCC-TTAAGGGTACCGAGATGCTTTCACGTCGA
*
1368661 AGGTATACCTCAACAATAT
128 AGGTATACCTCAA-AACAT
* * *
1368680 TTTCTTAATTTTCTTAGAACCAAGTCCTAAGTTGTCATCGGGTCGTTTATATGCCAAGGGTACGT
1 TTTCTTAATTTTCCTAGAACCAAGTCCTAATTTGTCATCGGGTCG-TTCTATGCCAAGGGTACGT
** ** * ** ** *
1368745 ATTAGGTGTAGGTTCATTTTTCCTTTTTAAGTCCTTTAAGATTACCGAGATAATTTCACATCGAA
65 ATTAGGCATAGGTTCGCTTTTCTTTTTTAAGTCC-TTAAGGGTACCGAGATGCTTTCACGTCGAA
* *
1368810 AGTATA-CTCCAAGGACAT
129 GGTATACCT-CAA-AACAT
* * * * * * *
1368828 TTT-TGTAATTTTCCTAGAGCCAAGTCCTAATTTATCATCGAGTCACTTCTACGCCGATGGTACG
1 TTTCT-TAATTTTCCTAGAACCAAGTCCTAATTTGTCATCGGGTC-GTTCTATGCCAAGGGTACG
* * ** *
1368892 TATTAGGCATAGGTTTGCTTTT-TCTTTTTAAGTCCTTTAGGGTTACTAAGATGCTTTCATGTCG
64 TATTAGGCATAGGTTCGCTTTTCT-TTTTTAAGTCCTTAAGGG-TACCGAGATGCTTTCACGTCG
*
1368956 AAGATATACC-CATAAAGGCAT
127 AAGGTATACCTCA-AAA--CAT
* * * * * **
1368977 TTTCATAATTTTCCTAAAATCGAGTCCTAATTTGTCATTGGGTCGTTCTATGTAAAGGGTACGTA
1 TTTCTTAATTTTCCTAGAACCAAGTCCTAATTTGTCATCGGGTCGTTCTATGCCAAGGGTACGTA
** *
1369042 TTAGGTGTATGTTCGCTTTTCTTTTT
66 TTAGGCATAGGTTCGCTTTTCTTTTT
1369068 ATGTCCCTTA
Statistics
Matches: 299, Mismatches: 78, Indels: 23
0.75 0.19 0.06
Matches are distributed among these distances:
147 10 0.03
148 175 0.59
149 114 0.38
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (145 bp):
TTTCTTAATTTTCCTAGAACCAAGTCCTAATTTGTCATCGGGTCGTTCTATGCCAAGGGTACGTA
TTAGGCATAGGTTCGCTTTTCTTTTTTAAGTCCTTAAGGGTACCGAGATGCTTTCACGTCGAAGG
TATACCTCAAAACAT
Found at i:1373120 original size:19 final size:21
Alignment explanation
Indices: 1373096--1373138 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
1373086 AGTTTATAAA
1373096 TTTTGATG-ATTTA-CTTGAT
1 TTTTGATGTATTTAGCTTGAT
*
1373115 TTTTGATGTATTTAGGTTGAT
1 TTTTGATGTATTTAGCTTGAT
1373136 TTT
1 TTT
1373139 CATTATGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 5 0.24
21 8 0.38
ACGTcount: A:0.19, C:0.02, G:0.19, T:0.60
Consensus pattern (21 bp):
TTTTGATGTATTTAGCTTGAT
Found at i:1374884 original size:147 final size:143
Alignment explanation
Indices: 1374613--1375044 Score: 419
Period size: 147 Copynumber: 2.9 Consensus size: 143
1374603 TTTAGTGTCC
* * * *
1374613 ATACTTTCACATAGAAGGTATACCCTAG-GAGTATTTTT-GTAATTTTTTAAAAACCAGTCCTAG
1 ATACTTTCACGTCGAAGGTATACCCTAGAG-GT-TTTTTCATAATTTTTTAAAAA--AGTCCTAA
* * * ** * * **
1374676 TTTGTCATCGAGTCGCTTCTATACCAAAGGTACGTATTAGGCGTAGGTTTGCTTTTTCTTTTTAA
62 TTTGTCATCGGGTCTCTTCTATGCTGAAGGTACGTATTAGGTGTAAGTTAAC-TTTTCTTTTTAA
*
1374741 GTCCTTTAGGTTGCCGAG
126 GTCCTTTAGGTTACCGAG
*
1374759 ATACTTTCACGTCGAAGGAATACCCTAGAGGTTTTTTCATAATTTTCTTAATACAAAGTCCTAAT
1 ATACTTTCACGTCGAAGGTATACCCTAGAGGTTTTTTCATAATTTT-TTAA-A-AAAGTCCTAAT
1374824 TTGTCATCGGGTCTCTTCTATGCTGAAGGTACGTATTAGGTGTAAGTTAACTTTTCCTTTTTAAG
63 TTGTCATCGGGTCTCTTCTATGCTGAAGGTACGTATTAGGTGTAAGTTAACTTTT-CTTTTTAAG
*
1374889 TCCTTTAGGGTTACTGAG
127 TCCTTTA-GGTTACCGAG
* * * **
1374907 ATACTTTCATGTCGAAGGTATACCCATAAAGGTATTTTCATAATTTTTCTAGAATTGAGTCCTAA
1 ATACTTTCACGTCGAAGGTATACCC-TAGAGGTTTTTTCATAATTTTT-TA-AA-AAAGTCCTAA
* * * * *
1374972 -TTGTCACCAGGTCAT-TTCGATGCTG-AGCGTATGTATTAGGTGT-AGATTCACTTTTCTTTTT
62 TTTGTCATCGGGTC-TCTTCTATGCTGAAG-GTACGTATTAGGTGTAAG-TTAACTTTTCTTTTT
1375033 ATA-TCCTTTAGG
124 A-AGTCCTTTAGG
1375045 ATCTCCAAGC
Statistics
Matches: 244, Mismatches: 28, Indels: 28
0.81 0.09 0.09
Matches are distributed among these distances:
145 5 0.02
146 40 0.16
147 89 0.36
148 76 0.31
149 33 0.14
150 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (143 bp):
ATACTTTCACGTCGAAGGTATACCCTAGAGGTTTTTTCATAATTTTTTAAAAAAGTCCTAATTTG
TCATCGGGTCTCTTCTATGCTGAAGGTACGTATTAGGTGTAAGTTAACTTTTCTTTTTAAGTCCT
TTAGGTTACCGAG
Found at i:1374996 original size:148 final size:147
Alignment explanation
Indices: 1374702--1375044 Score: 387
Period size: 148 Copynumber: 2.3 Consensus size: 147
1374692 TTCTATACCA
* * ** *
1374702 AAGGTACGTATTAGGCGTAGGTTTGCTTTTTCTTTTTAAGTCCTTTA-GGTTGCCGAGATACTTT
1 AAGGTACGTATTAGGTGTAAGTTAAC-TTTTCTTTTTAAGTCCTTTAGGGTTACCGAGATACTTT
* * *
1374766 CACGTCGAAGGAATACCCTAGAGGTTTTTTCATAATTTTCTTAATACAAAGTCCTAATTTGTCAT
65 CACGTCGAAGGAATACCCTAAAGGTATTTTCATAATTTTCTTAATACAAAGTCCTAATTTGTCAC
* *
1374831 CGGGTCTCTTCTATGCTG
130 CAGGTCTCTTCGATGCTG
*
1374849 AAGGTACGTATTAGGTGTAAGTTAACTTTTCCTTTTTAAGTCCTTTAGGGTTACTGAGATACTTT
1 AAGGTACGTATTAGGTGTAAGTTAACTTTT-CTTTTTAAGTCCTTTAGGGTTACCGAGATACTTT
* * ***
1374914 CATGTCGAAGGTATACCCATAAAGGTATTTTCATAATTTT-TCTAGA-ATTGAGTCCTAA-TTGT
65 CACGTCGAAGGAATACCC-TAAAGGTATTTTCATAATTTTCT-TA-ATACAAAGTCCTAATTTGT
1374976 CACCAGGTCAT-TTCGATGCTG
127 CACCAGGTC-TCTTCGATGCTG
* *
1374997 -AGCGTATGTATTAGGTGT-AGATTCACTTTTCTTTTTATA-TCCTTTAGG
1 AAG-GTACGTATTAGGTGTAAG-TTAACTTTTCTTTTTA-AGTCCTTTAGG
1375045 ATCTCCAAGC
Statistics
Matches: 169, Mismatches: 18, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
146 4 0.02
147 58 0.34
148 75 0.44
149 31 0.18
150 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (147 bp):
AAGGTACGTATTAGGTGTAAGTTAACTTTTCTTTTTAAGTCCTTTAGGGTTACCGAGATACTTTC
ACGTCGAAGGAATACCCTAAAGGTATTTTCATAATTTTCTTAATACAAAGTCCTAATTTGTCACC
AGGTCTCTTCGATGCTG
Found at i:1377182 original size:33 final size:33
Alignment explanation
Indices: 1377145--1377211 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
1377135 AAGAGAACTA
* *
1377145 AAGTGCTCA-TCTATGCGCTGCGAGAGTGAAGTG
1 AAGTGCTCATTC-ATGCGCTGCGAAAGTAAAGTG
*
1377178 AAGTGCTCATTCATGTGCTGCGAAAGTAAAGTG
1 AAGTGCTCATTCATGCGCTGCGAAAGTAAAGTG
1377211 A
1 A
1377212 TCAACTCTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.25
Consensus pattern (33 bp):
AAGTGCTCATTCATGCGCTGCGAAAGTAAAGTG
Found at i:1378709 original size:13 final size:13
Alignment explanation
Indices: 1378690--1378729 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
1378680 ATAGTAACCT
1378690 ATGTATCGATACA
1 ATGTATCGATACA
* *
1378703 TTGTATCGATATA
1 ATGTATCGATACA
1378716 ATGTATCGATACA
1 ATGTATCGATACA
1378729 A
1 A
1378730 AGAACATTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1384312 original size:13 final size:13
Alignment explanation
Indices: 1384294--1384318 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1384284 CAATTCTTCA
1384294 TGTATCGATATAT
1 TGTATCGATATAT
1384307 TGTATCGATATA
1 TGTATCGATATA
1384319 AATAGTGGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
TGTATCGATATAT
Found at i:1384392 original size:19 final size:20
Alignment explanation
Indices: 1384348--1384394 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1384338 CTGCCAGTTT
* **
1384348 CATGTATCGATACATTTGTT
1 CATGTATCGATACATATGAA
1384368 CATGTATCGATACA-ATGAA
1 CATGTATCGATACATATGAA
1384387 CATGTATC
1 CATGTATC
1384395 AATATATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (20 bp):
CATGTATCGATACATATGAA
Found at i:1385765 original size:13 final size:13
Alignment explanation
Indices: 1385747--1385773 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1385737 ACATGCTGCC
1385747 TTGTATCGATACA
1 TTGTATCGATACA
1385760 TTGTATCGATACA
1 TTGTATCGATACA
1385773 T
1 T
1385774 GTTCAATGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1385810 original size:21 final size:20
Alignment explanation
Indices: 1385759--1385814 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
1385749 GTATCGATAC
**
1385759 ATTGTATCGATACATGTTCA
1 ATTGTATCGATACATGGACA
*
1385779 A-TGTATTGATACATGGACAA
1 ATTGTATCGATACATGGAC-A
1385799 ATTGTATCGATACATG
1 ATTGTATCGATACATG
1385815 AAACTGGTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 14 0.47
20 3 0.10
21 13 0.43
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:1392898 original size:286 final size:286
Alignment explanation
Indices: 1392386--1392959 Score: 1130
Period size: 286 Copynumber: 2.0 Consensus size: 286
1392376 AGGAGAAGGT
1392386 ATTTTGAGGTGTTTTTGTGGGAAGGAAGGAGGAGCTCCGGGAATTTGTGTTTTCTGAAATGGAGA
1 ATTTTGAGGTGTTTTTGTGGGAAGGAAGGAGGAGCTCCGGGAATTTGTGTTTTCTGAAATGGAGA
1392451 AGTGTTTGTGGGAACTAGAGGGTGCTGGAGACATGCTCAACAAAAAACCTCTTTTGCTGAGAACA
66 AGTGTTTGTGGGAACTAGAGGGTGCTGGAGACATGCTCAACAAAAAACCTCTTTTGCTGAGAACA
1392516 AAATTAGCCTTTTATAGGCTAGATTTATGGTGACCAAGTGAAGGTGTTTAAGACATTTTACTCTC
131 AAATTAGCCTTTTATAGGCTAGATTTATGGTGACCAAGTGAAGGTGTTTAAGACATTTTACTCTC
1392581 ACCATTAAATGAAAAGCTAGCTAGCTAAGGTGGCTGATATTATTGCCTATGATAGCTGGCGAAAT
196 ACCATTAAATGAAAAGCTAGCTAGCTAAGGTGGCTGATATTATTGCCTATGATAGCTGGCGAAAT
1392646 TCAGGAAGAGGATAGGGTGGCTGGAG
261 TCAGGAAGAGGATAGGGTGGCTGGAG
1392672 ATTTTGAGGTGTTTTTGTGGGAAGGAAGGAGGAGCTCCGGGAATTTGTGTTTTCTGAAATGGAGA
1 ATTTTGAGGTGTTTTTGTGGGAAGGAAGGAGGAGCTCCGGGAATTTGTGTTTTCTGAAATGGAGA
*
1392737 AGTGTTTGTGGGAACTAGAGGGTGCTGGAGACATGCTCAGCAAAAAACCTCTTTTGCTGAGAACA
66 AGTGTTTGTGGGAACTAGAGGGTGCTGGAGACATGCTCAACAAAAAACCTCTTTTGCTGAGAACA
*
1392802 AAATTAGCCTTTTATAGGCTAGATTTGTGGTGACCAAGTGAAGGTGTTTAAGACATTTTACTCTC
131 AAATTAGCCTTTTATAGGCTAGATTTATGGTGACCAAGTGAAGGTGTTTAAGACATTTTACTCTC
1392867 ACCATTAAATGAAAAGCTAGCTAGCTAAGGTGGCTGATATTATTGCCTATGATAGCTGGCGAAAT
196 ACCATTAAATGAAAAGCTAGCTAGCTAAGGTGGCTGATATTATTGCCTATGATAGCTGGCGAAAT
1392932 TCAGGAAGAGGATAGGGTGGCTGGAG
261 TCAGGAAGAGGATAGGGTGGCTGGAG
1392958 AT
1 AT
1392960 AAGGCTTGGC
Statistics
Matches: 286, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
286 286 1.00
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (286 bp):
ATTTTGAGGTGTTTTTGTGGGAAGGAAGGAGGAGCTCCGGGAATTTGTGTTTTCTGAAATGGAGA
AGTGTTTGTGGGAACTAGAGGGTGCTGGAGACATGCTCAACAAAAAACCTCTTTTGCTGAGAACA
AAATTAGCCTTTTATAGGCTAGATTTATGGTGACCAAGTGAAGGTGTTTAAGACATTTTACTCTC
ACCATTAAATGAAAAGCTAGCTAGCTAAGGTGGCTGATATTATTGCCTATGATAGCTGGCGAAAT
TCAGGAAGAGGATAGGGTGGCTGGAG
Found at i:1393234 original size:52 final size:52
Alignment explanation
Indices: 1393156--1393284 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
1393146 CGAAATATGA
1393156 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
* * *
1393208 AAATTTTCCTGCATGTATCGATACATTTTATAGTGTATGGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
*
1393260 AAATTTGCCTGCATGTATCGCTACA
1 AAATTTGCCTGCATGTATCGATACA
1393285 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:1393295 original size:52 final size:51
Alignment explanation
Indices: 1393156--1393304 Score: 210
Period size: 52 Copynumber: 2.9 Consensus size: 51
1393146 CGAAATATGA
1393156 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* * *
1393208 AAATTTTCCTGCATGTATCGATACATTTTATAGTGTATGGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
1393260 AAATTTGCCTGCATGTATCGCTACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1393305 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:1393311 original size:13 final size:13
Alignment explanation
Indices: 1393293--1393317 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1393283 CAAAGATCAG
1393293 TGTATCGATACAA
1 TGTATCGATACAA
1393306 TGTATCGATACA
1 TGTATCGATACA
1393318 TTTTTTGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1393363 original size:19 final size:19
Alignment explanation
Indices: 1393339--1393403 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
1393329 TAGCTTATAT
1393339 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
1393358 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
1393371 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
1393390 TGTATCGATACAAA
1 TGTATCGATACAAA
1393404 TCGTTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1393376 original size:13 final size:13
Alignment explanation
Indices: 1393358--1393382 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1393348 ACAAAACTTA
1393358 TGTATCGATACAT
1 TGTATCGATACAT
1393371 TGTATCGATACA
1 TGTATCGATACA
1393383 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1393378 original size:32 final size:32
Alignment explanation
Indices: 1393337--1393401 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
1393327 AGTAGCTTAT
1393337 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
*
1393369 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
1393401 A
1 A
1393402 AATCGTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (32 bp):
ATTGTATCGATACAAAACTTATGTATCGATAC
Found at i:1397844 original size:19 final size:19
Alignment explanation
Indices: 1397820--1397857 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1397810 TACATAAGAG
1397820 GGAGAAGATAACTGGTTAA
1 GGAGAAGATAACTGGTTAA
*
1397839 GGAGAAGATAACTGTTTAA
1 GGAGAAGATAACTGGTTAA
1397858 AGGGGAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.05, G:0.29, T:0.24
Consensus pattern (19 bp):
GGAGAAGATAACTGGTTAA
Found at i:1397866 original size:19 final size:19
Alignment explanation
Indices: 1397823--1397882 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
1397813 ATAAGAGGGA
*
1397823 GAAGATAACTGGTT-AAGG
1 GAAGATAACTGTTTAAAGG
1397841 AGAAGATAACTGTTTAAAGG
1 -GAAGATAACTGTTTAAAGG
*
1397861 GGAGATAA-TCGTTTAAGAGG
1 GAAGATAACT-GTTTAA-AGG
1397881 GA
1 GA
1397883 GAATATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 1 0.03
19 26 0.74
20 8 0.23
ACGTcount: A:0.40, C:0.05, G:0.32, T:0.23
Consensus pattern (19 bp):
GAAGATAACTGTTTAAAGG
Found at i:1398456 original size:13 final size:13
Alignment explanation
Indices: 1398438--1398464 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1398428 ACATGCTGCC
1398438 TTGTATCGATACA
1 TTGTATCGATACA
1398451 TTGTATCGATACA
1 TTGTATCGATACA
1398464 T
1 T
1398465 GTTCAATGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1398476 original size:19 final size:21
Alignment explanation
Indices: 1398450--1398505 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 21
1398440 GTATCGATAC
**
1398450 ATTGTATCGATACATGTTC-A
1 ATTGTATCGATACATGGACAA
*
1398470 A-TGTATCAATACATGGACAA
1 ATTGTATCGATACATGGACAA
1398490 ATTGTATCGATACATG
1 ATTGTATCGATACATG
1398506 AAACTGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 14 0.47
20 3 0.10
21 13 0.43
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (21 bp):
ATTGTATCGATACATGGACAA
Found at i:1398571 original size:13 final size:13
Alignment explanation
Indices: 1398550--1398580 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1398540 CGATACATGG
*
1398550 TACAATGTATCGA
1 TACATTGTATCGA
1398563 TACATTGTATCGA
1 TACATTGTATCGA
1398576 TACAT
1 TACAT
1398581 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1398576 original size:33 final size:32
Alignment explanation
Indices: 1398534--1398600 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
1398524 CTATCACTAT
1398534 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
1398567 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
1398600 T
1 T
1398601 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:1400329 original size:12 final size:12
Alignment explanation
Indices: 1400312--1400346 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
1400302 TATGCAAGAA
1400312 CTATAACTATAG
1 CTATAACTATAG
1400324 CTATAACTATAG
1 CTATAACTATAG
*
1400336 CTAGAACTATA
1 CTATAACTATA
1400347 TAGTTTGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (12 bp):
CTATAACTATAG
Found at i:1402960 original size:51 final size:51
Alignment explanation
Indices: 1402892--1402988 Score: 115
Period size: 51 Copynumber: 1.9 Consensus size: 51
1402882 AAATAACAAG
*
1402892 GTTGGAGTATCCGTGATTATAGAAAATCGATATTATGAAAATAAAACCGGA
1 GTTGGAATATCCGTGATTATAGAAAATCGATATTATGAAAATAAAACCGGA
* * * * * *
1402943 GTTGGAATATCTC-TGATTGTGGAAAATTGGTATTTTGGAAATAAAA
1 GTTGGAATATC-CGTGATTATAGAAAATCGATATTATGAAAATAAAA
1402989 TCGGGGTTAG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
51 37 0.97
52 1 0.03
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (51 bp):
GTTGGAATATCCGTGATTATAGAAAATCGATATTATGAAAATAAAACCGGA
Found at i:1403042 original size:79 final size:79
Alignment explanation
Indices: 1402957--1403114 Score: 244
Period size: 79 Copynumber: 2.0 Consensus size: 79
1402947 GAATATCTCT
* * * *
1402957 GATTGTGGAAAATTGGTATTTTGGAAATAAAATCGGGGTTAGAGTATCCCCTCGGAAGTAACGGG
1 GATTGTGAAAAACTGGTATTTTGGAAATAAAATCGGGGTTAGAGTATCCCCTCGGAAATAACGAG
*
1403022 ATTGGAGTATCCCC
66 ATTGGAGCATCCCC
* * *
1403036 GATTGTGAAAAACTGGTGTTTTGGGAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGAG
1 GATTGTGAAAAACTGGTATTTTGGAAATAAAATCGGGGTTAGAGTATCCCCTCGGAAATAACGAG
1403101 ATTGGAGCATCCCC
66 ATTGGAGCATCCCC
1403115 AATGACATAA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 71 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (79 bp):
GATTGTGAAAAACTGGTATTTTGGAAATAAAATCGGGGTTAGAGTATCCCCTCGGAAATAACGAG
ATTGGAGCATCCCC
Found at i:1403106 original size:28 final size:28
Alignment explanation
Indices: 1403069--1403168 Score: 103
Period size: 28 Copynumber: 3.6 Consensus size: 28
1403059 GGAATAAAAT
1403069 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCTCGGAAATAA
* * * *** *
1403097 CGAGATTGGAGCATCCCCAATGACATAA
1 CGGGGTTGGAGTATCCCCTCGGAAATAA
* * *
1403125 TGGGGTTGGAGTA-ACCCTCGGGAATAA
1 CGGGGTTGGAGTATCCCCTCGGAAATAA
1403152 CGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
1403169 TGACTATGAG
Statistics
Matches: 52, Mismatches: 19, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
27 20 0.38
28 32 0.62
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCGGAAATAA
Found at i:1403167 original size:134 final size:135
Alignment explanation
Indices: 1402991--1403253 Score: 314
Period size: 134 Copynumber: 2.0 Consensus size: 135
1402981 AAATAAAATC
* * * ** *
1402991 GGGGTTAGAGTATCCCCTCGGAAGTAACGGGATTGGAGTATCCCCGATTGTGAAAAACTGGTGTT
1 GGGGTTAGAGTATACCCTCGGAAGTAACGGGATTGGAGTATCCCCGACTATGAAAAACTAATATT
* * * **
1403056 TTGGGAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGAGATTGGAGCATCCCCAATGAC
66 TTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGAGATTGGAGCATCCCCAATGAC
1403121 ATAAT
131 ATAAT
* * * * *
1403126 GGGGTTGGAGTA-ACCCTCGGGAA-TAACGGGGTTGGAGTATCCCTGACTATGAGAAATTAATAT
1 GGGGTTAGAGTATACCCTC-GGAAGTAACGGGATTGGAGTATCCCCGACTATGAAAAACTAATAT
* * * * *
1403189 TTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATGA
65 TTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGAGATTGGAGCATCCCCAATGA
1403254 AAAATTGATG
Statistics
Matches: 106, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
134 91 0.86
135 15 0.14
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (135 bp):
GGGGTTAGAGTATACCCTCGGAAGTAACGGGATTGGAGTATCCCCGACTATGAAAAACTAATATT
TTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGAGATTGGAGCATCCCCAATGAC
ATAAT
Found at i:1403286 original size:76 final size:77
Alignment explanation
Indices: 1403147--1403296 Score: 230
Period size: 76 Copynumber: 1.9 Consensus size: 77
1403137 AACCCTCGGG
* * *
1403147 AATAACGGGGTTGGAGTATCCCTGACTATGAGAAATTAATATTTTAGAAATAAAGCCGGGGTTGG
1 AATAACGGGGTTGGAGTATCCC--ACGATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGG
1403212 AGTATCCCCTCAAA
64 AGTATCCCCTCAAA
* *
1403226 AATAACGGGGTTGGAGTATCCC-CGATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAG
1 AATAACGGGGTTGGAGTATCCCACGATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAG
1403290 TATCCCC
66 TATCCCC
1403297 GATTAAGAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
76 44 0.67
79 22 0.33
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.26
Consensus pattern (77 bp):
AATAACGGGGTTGGAGTATCCCACGATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAG
TATCCCCTCAAA
Found at i:1403331 original size:51 final size:51
Alignment explanation
Indices: 1403231--1403451 Score: 259
Period size: 51 Copynumber: 4.4 Consensus size: 51
1403221 TCAAAAATAA
1403231 CGGGGTTGGAGTATCCCCGA-T--GAAAAATTGATGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTAGAAATAAAAC
* * **
1403279 CGGGGTTGGAGTATCCCCGATTAAGAAAAATTGACGTTTTGGAAATGGAAC
1 CGGGGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTAGAAATAAAAC
* * ** ** * * *
1403330 CGGGATTGGAGTATCCCCGGTTGCGGTAAATCGATGCTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTAGAAATAAAAC
* * *
1403381 CGGAGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAAC
1 CGGGGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTAGAAATAAAAC
* *
1403432 TGGGATTGGAGTATCCCCGA
1 CGGGGTTGGAGTATCCCCGA
1403452 GATGAAAAAA
Statistics
Matches: 138, Mismatches: 32, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
48 20 0.14
49 1 0.01
51 117 0.85
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.27
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTAGAAATAAAAC
Found at i:1403409 original size:102 final size:102
Alignment explanation
Indices: 1403255--1403450 Score: 329
Period size: 102 Copynumber: 1.9 Consensus size: 102
1403245 CCCCGATGAA
* * *
1403255 AAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGATTAAGAAAAATTGACGTTTTG
1 AAATCGATGCTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGATTAAGAAAAATTGACGTTTTG
*
1403320 GAAATGGAACCGGGATTGGAGTATCCCCGGTTGCGGT
66 GAAATGAAACCGGGATTGGAGTATCCCCGGTTGCGGT
* *
1403357 AAATCGATGCTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTG
1 AAATCGATGCTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGATTAAGAAAAATTGACGTTTTG
*
1403422 GAAATGAAACTGGGATTGGAGTATCCCCG
66 GAAATGAAACCGGGATTGGAGTATCCCCG
1403451 AGATGAAAAA
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 87 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.28
Consensus pattern (102 bp):
AAATCGATGCTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGATTAAGAAAAATTGACGTTTTG
GAAATGAAACCGGGATTGGAGTATCCCCGGTTGCGGT
Found at i:1403463 original size:102 final size:100
Alignment explanation
Indices: 1403231--1403460 Score: 327
Period size: 102 Copynumber: 2.3 Consensus size: 100
1403221 TCAAAAATAA
* * * *
1403231 CGGGGTTGGAGTATCCCC-GATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
1 CGGGATTGGAGTATCCCCGGATGAAAAATCGATGCTTTAGAAATAAAACCGGAGTTGGAGTATCC
*
1403295 CCGATTAAGAAAAATTGACGTTTTGGAAATGGAAC
66 CCGATTAAGAAAAATTGACGTTTTGGAAATGAAAC
* ** *
1403330 CGGGATTGGAGTATCCCCGGTTGCGGTAAATCGATGCTTTAGAAATAAAATCGGAGTTGGAGTAT
1 CGGGATTGGAGTATCCCCGGAT--GAAAAATCGATGCTTTAGAAATAAAACCGGAGTTGGAGTAT
*
1403395 CCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAAC
64 CCCCGATTAAGAAAAATTGACGTTTTGGAAATGAAAC
*
1403432 TGGGATTGGAGTATCCCCGAGATGAAAAA
1 CGGGATTGGAGTATCCCCG-GATGAAAAA
1403461 ATCTAGAAAT
Statistics
Matches: 113, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
99 17 0.15
100 2 0.02
101 4 0.04
102 88 0.78
103 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.26
Consensus pattern (100 bp):
CGGGATTGGAGTATCCCCGGATGAAAAATCGATGCTTTAGAAATAAAACCGGAGTTGGAGTATCC
CCGATTAAGAAAAATTGACGTTTTGGAAATGAAAC
Found at i:1405766 original size:20 final size:20
Alignment explanation
Indices: 1405741--1405814 Score: 105
Period size: 20 Copynumber: 3.7 Consensus size: 20
1405731 AAAATGCCTG
*
1405741 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATGTAA
*
1405761 AATGTATCGATACAAT-TAGC
1 AATGTATCGATACAATGTA-A
*
1405781 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATGTAA
1405801 AATGTATCGATACA
1 AATGTATCGATACA
1405815 TCTGGGTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.04
20 45 0.94
21 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACAATGTAA
Found at i:1409563 original size:20 final size:20
Alignment explanation
Indices: 1409538--1409596 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
1409528 AAATAGAATA
1409538 TATCGATACATTGAAAAATG
1 TATCGATACATTGAAAAATG
1409558 TATCGATACATTGAAAAATG
1 TATCGATACATTGAAAAATG
*
1409578 TATTGATACATTGAAAAAT
1 TATCGATACATTGAAAAAT
1409597 ATATTAATAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (20 bp):
TATCGATACATTGAAAAATG
Found at i:1409601 original size:20 final size:20
Alignment explanation
Indices: 1409534--1409600 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
1409524 AAAAAAATAG
1409534 AATATATCGATACATTGAAA
1 AATATATCGATACATTGAAA
*
1409554 AATGTATCGATACATTGAAA
1 AATATATCGATACATTGAAA
* *
1409574 AATGTATTGATACATTGAAA
1 AATATATCGATACATTGAAA
1409594 AATATAT
1 AATATAT
1409601 TAATACATCT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (20 bp):
AATATATCGATACATTGAAA
Found at i:1409606 original size:20 final size:20
Alignment explanation
Indices: 1409542--1409608 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
1409532 AGAATATATC
*
1409542 GATACATTGAAAAATGTATC
1 GATACATTGAAAAATGTATT
1409562 GATACATTGAAAAATGTATT
1 GATACATTGAAAAATGTATT
*
1409582 GATACATTGAAAAATATATT
1 GATACATTGAAAAATGTATT
*
1409602 AATACAT
1 GATACAT
1409609 CTTGGTAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (20 bp):
GATACATTGAAAAATGTATT
Found at i:1412034 original size:20 final size:20
Alignment explanation
Indices: 1412009--1412046 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1411999 AGCTTTAGAT
1412009 AAAGTTGGA-AAAGAAGCATA
1 AAAGTTGGAGAAA-AAGCATA
1412029 AAAGTTGGAGAAAAAGCA
1 AAAGTTGGAGAAAAAGCA
1412047 AAGTAGCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.55, C:0.05, G:0.26, T:0.13
Consensus pattern (20 bp):
AAAGTTGGAGAAAAAGCATA
Found at i:1413496 original size:20 final size:21
Alignment explanation
Indices: 1413469--1413509 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1413459 TCTGGTGGTT
1413469 TTAGAATTTAAAATTTATAAT
1 TTAGAATTTAAAATTTATAAT
* *
1413490 TTA-AATTTTAAATTTTTAAT
1 TTAGAATTTAAAATTTATAAT
1413510 GATGTATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
TTAGAATTTAAAATTTATAAT
Found at i:1414848 original size:3 final size:3
Alignment explanation
Indices: 1414840--1414871 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
1414830 TGACGATGTT
*
1414840 TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1414872 GTTAAATCTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1416154 original size:20 final size:20
Alignment explanation
Indices: 1416069--1416156 Score: 58
Period size: 20 Copynumber: 4.3 Consensus size: 20
1416059 TTTGATAAAC
*
1416069 AAAATAAATATAAATAAA-TA
1 AAAATAAA-ATAAACAAATTA
* *
1416089 AATATAATACATAAACAAA-GA
1 AAAATAA-A-ATAAACAAATTA
*
1416110 AACAA-ACAAATAAACAAATTC
1 AA-AATA-AAATAAACAAATTA
1416131 AAAATAAAAT-AACAAATATA
1 AAAATAAAATAAACAAAT-TA
1416151 AAAATA
1 AAAATA
1416157 TAAAGAAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
19 7 0.13
20 28 0.52
21 17 0.31
22 2 0.04
ACGTcount: A:0.72, C:0.08, G:0.01, T:0.19
Consensus pattern (20 bp):
AAAATAAAATAAACAAATTA
Found at i:1417372 original size:9 final size:9
Alignment explanation
Indices: 1417346--1417396 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 9
1417336 TATGGAAAAT
*
1417346 GAAAAAAAA
1 GAAAAGAAA
* *
1417355 TAAAGGAAA
1 GAAAAGAAA
1417364 GAAAAGAAA
1 GAAAAGAAA
*
1417373 GAAGAG-AA
1 GAAAAGAAA
1417381 GAAAAGAAA
1 GAAAAGAAA
*
1417390 GGAAAGA
1 GAAAAGA
1417397 GAAAAAAATT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
8 7 0.21
9 26 0.79
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (9 bp):
GAAAAGAAA
Found at i:1417382 original size:17 final size:19
Alignment explanation
Indices: 1417362--1417403 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 19
1417352 AAATAAAGGA
1417362 AAGAAAAGAAA-G-AAGAG
1 AAGAAAAGAAAGGAAAGAG
1417379 AAGAAAAGAAAGGAAAGAG
1 AAGAAAAGAAAGGAAAGAG
1417398 AA-AAAA
1 AAGAAAA
1417404 ATTTATGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.48
18 5 0.22
19 7 0.30
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (19 bp):
AAGAAAAGAAAGGAAAGAG
Found at i:1417952 original size:19 final size:22
Alignment explanation
Indices: 1417928--1417967 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
1417918 AATTTGAGAA
1417928 ATTGAC-CTT-CGT-ATATTTT
1 ATTGACACTTACGTGATATTTT
1417947 ATTGACACTTACGTGATATTT
1 ATTGACACTTACGTGATATTT
1417968 GGGCCGATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 3 0.17
21 3 0.17
22 6 0.33
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.47
Consensus pattern (22 bp):
ATTGACACTTACGTGATATTTT
Found at i:1418669 original size:153 final size:153
Alignment explanation
Indices: 1418409--1418740 Score: 418
Period size: 153 Copynumber: 2.2 Consensus size: 153
1418399 TATTTTCAAA
* * * **
1418409 ATACAGAGTTTTTTACTTCGTAAA-TTTTTGGGATATGATTCTTCTAAATTCATTATTTTCAAAA
1 ATACAAAGTTTTCTAATTCGTAAATTTTTTCAGATATGATTCTTCTAAATTCATTATTTTCAAAA
*** * ** * *
1418473 TTCTTAAAATATTATTATTTAATTTATAGTAGATTAGTTTTGAAAATTTTAATTTATTTTATGAG
66 TTCTTAAAATATTATTATTTAAACCATAGTAAAGCAGTTTTGAAAAATTGAATTTATTTTATGAG
1418538 TTTTAGAATTTTTCTATTACTAAG
131 TTTTAGAATTTTTCTA-TACTAAG
* * * *
1418562 ATACAAAGTTTTCTATTTCGTAAATTTTTTCAG-TATGATTTTTCTAAGTT-TTTAATTTTCAAA
1 ATACAAAGTTTTCTAATTCGTAAATTTTTTCAGATATGATTCTTCTAAATTCATT-ATTTTCAAA
* * *
1418625 ATTCTTCAAATATTATTGTTTAAACCATATTAAAGCAGTTTTGAAAAATTGAATTTATTTTATGA
65 ATTCTTAAAATATTATTATTTAAACCATAGTAAAGCAGTTTTGAAAAATTGAATTTATTTTATGA
*
1418690 GTTTTAGAATTTTTTTATACTAAG
130 GTTTTAGAATTTTTCTATACTAAG
* *
1418714 ATACGAAGTTTTCTAATCCGTAAATTT
1 ATACAAAGTTTTCTAATTCGTAAATTT
1418741 CTCTGATTGA
Statistics
Matches: 154, Mismatches: 23, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
152 33 0.21
153 115 0.75
154 6 0.04
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (153 bp):
ATACAAAGTTTTCTAATTCGTAAATTTTTTCAGATATGATTCTTCTAAATTCATTATTTTCAAAA
TTCTTAAAATATTATTATTTAAACCATAGTAAAGCAGTTTTGAAAAATTGAATTTATTTTATGAG
TTTTAGAATTTTTCTATACTAAG
Found at i:1420360 original size:20 final size:19
Alignment explanation
Indices: 1420311--1420370 Score: 77
Period size: 19 Copynumber: 3.1 Consensus size: 19
1420301 GCTTTGTATC
1420311 GATATATTGTATCGATACAT
1 GATA-ATTGTATCGATACAT
* *
1420331 GATCATTGTATCGATGCAT
1 GATAATTGTATCGATACAT
1420350 GGATAATTGTATC-ATACAT
1 -GATAATTGTATCGATACAT
1420369 GA
1 GA
1420371 AACTGGCAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
18 2 0.06
19 19 0.54
20 14 0.40
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (19 bp):
GATAATTGTATCGATACAT
Found at i:1426577 original size:20 final size:20
Alignment explanation
Indices: 1426552--1426633 Score: 92
Period size: 20 Copynumber: 3.8 Consensus size: 20
1426542 AATTTTCCAA
1426552 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTGAAG
*
1426572 AATGTATCGATACATCTGAAAAACCAA
1 AATGTATCGATACAT-TG----A--AG
1426599 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTGAAG
1426619 AATGTATCGATACAT
1 AATGTATCGATACAT
1426634 CTGGAAAACC
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
20 31 0.58
21 2 0.04
22 1 0.02
25 1 0.02
26 2 0.04
27 16 0.30
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACATTGAAG
Found at i:1426601 original size:47 final size:47
Alignment explanation
Indices: 1426548--1426658 Score: 197
Period size: 47 Copynumber: 2.4 Consensus size: 47
1426538 TAAAAATTTT
1426548 CCAAAATGTATCGATACATTGAAGAATGTATCGATACATCTGAAAAA
1 CCAAAATGTATCGATACATTGAAGAATGTATCGATACATCTGAAAAA
*
1426595 CCAAAATGTATCGATACATTGAAGAATGTATCGATACATCTGGAAAA
1 CCAAAATGTATCGATACATTGAAGAATGTATCGATACATCTGAAAAA
*
1426642 CC-AGATGTATCGATACA
1 CCAAAATGTATCGATACA
1426659 ACATTCCTTG
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
46 14 0.23
47 48 0.77
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.25
Consensus pattern (47 bp):
CCAAAATGTATCGATACATTGAAGAATGTATCGATACATCTGAAAAA
Found at i:1426656 original size:26 final size:25
Alignment explanation
Indices: 1426572--1426658 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 25
1426562 TACATTGAAG
*
1426572 AATGTATCGATACATCTGAAAAACC
1 AATGTATCGATACATCTGGAAAACC
*
1426597 AAAATGTATCGATACAT-T-G--AA-G
1 --AATGTATCGATACATCTGGAAAACC
1426619 AATGTATCGATACATCTGGAAAACC
1 AATGTATCGATACATCTGGAAAACC
1426644 AGATGTATCGATACA
1 A-ATGTATCGATACA
1426659 ACATTCCTTG
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
20 15 0.29
21 1 0.02
22 1 0.02
23 2 0.04
24 2 0.04
25 1 0.02
26 14 0.27
27 15 0.29
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (25 bp):
AATGTATCGATACATCTGGAAAACC
Found at i:1426684 original size:13 final size:13
Alignment explanation
Indices: 1426666--1426692 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1426656 ACAACATTCC
1426666 TTGTATCGATACA
1 TTGTATCGATACA
1426679 TTGTATCGATACA
1 TTGTATCGATACA
1426692 T
1 T
1426693 GGGTTACTAT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1426856 original size:20 final size:21
Alignment explanation
Indices: 1426820--1426858 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1426810 TTACAAATTT
*
1426820 CTTCATTTTTACTTCAAAACA
1 CTTCATTTTTACATCAAAACA
1426841 CTTCATTTTT-CATCAAAA
1 CTTCATTTTTACATCAAAA
1426859 TCACCAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (21 bp):
CTTCATTTTTACATCAAAACA
Found at i:1430245 original size:51 final size:51
Alignment explanation
Indices: 1430128--1430264 Score: 204
Period size: 51 Copynumber: 2.7 Consensus size: 51
1430118 TTTTAACTAG
* *
1430128 ATGTATTGATACATTGAAAAATGTATCGATACATCTGGAAAAAAAAGACAGA
1 ATGTATCGATACATTGAAGAATGTATCGATACATCTGG-AAAAAAAGACAGA
* *
1430180 ATGTATCGATACATTGAAGAATGTATCGATACATCTAGG-TAAAAAGATAGA
1 ATGTATCGATACATTGAAGAATGTATCGATACATCT-GGAAAAAAAGACAGA
*
1430231 ATGTATCGATACATTCAAGAATGTATCGATACAT
1 ATGTATCGATACATTGAAGAATGTATCGATACAT
1430265 TCATACATGT
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
51 43 0.54
52 34 0.43
53 2 0.03
ACGTcount: A:0.44, C:0.11, G:0.18, T:0.28
Consensus pattern (51 bp):
ATGTATCGATACATTGAAGAATGTATCGATACATCTGGAAAAAAAGACAGA
Found at i:1430253 original size:20 final size:20
Alignment explanation
Indices: 1430228--1430301 Score: 96
Period size: 20 Copynumber: 3.7 Consensus size: 20
1430218 GTAAAAAGAT
1430228 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTCA
1430248 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTCA
* * *
1430268 TA-CATGTAACGATACATTAA
1 -AGAATGTATCGATACATTCA
*
1430288 AAAATGTATCGATA
1 AGAATGTATCGATA
1430302 GATTTGGGTA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTCA
Found at i:1431260 original size:28 final size:29
Alignment explanation
Indices: 1431093--1431731 Score: 530
Period size: 28 Copynumber: 22.3 Consensus size: 29
1431083 TTTTTTTTAA
* *
1431093 AAAAGG-TGCCACTAACATGTGTGGGATTTG
1 AAAAGGATGCCACTGAC-T-TGTGGGCTTTG
* * *
1431123 AAAAGAGTTGCCACCGACTCGTGTAGGCTTTG
1 AAAAG-GATGCCACTGACT--TGTGGGCTTTG
* * *
1431155 AAAA-GAGTGTCAATGGCTTGTGGGCTTTG
1 AAAAGGA-TGCCACTGACTTGTGGGCTTTG
* *
1431184 AAAA-GAGTGTCACTGGCTTGTGGGCTTTG
1 AAAAGGA-TGCCACTGACTTGTGGGCTTTG
*
1431213 AAAA-GACTGCCACTAACTTGTGGGCTTTG
1 AAAAGGA-TGCCACTGACTTGTGGGCTTTG
*
1431242 AAAACG-TGCCACTGACTTGTGGGCTTT-
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
1431269 AAAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
* * *
1431298 -AAAGGGTACCACTGACTTGTGGTCTTTG
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
* *
1431326 -AAAGGATGCCACTAACTTGTGGCCTTTG
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
* *
1431354 AAATGGGTTGCCACTGACTTGTGTGGGCTTTG
1 AAA-AGGATGCCACTGAC-T-TGTGGGCTTTG
1431386 -AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
* * *
1431414 AAAATAGTTGCCACCGACTCGTGTGGGCTTTG
1 AAAA-GGATGCCACTGACT--TGTGGGCTTTG
* *
1431446 -AAAGGGTACCACTGACTTGTGGGCTTTG
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
* *
1431474 AAAAGAATGGCACTGACTTGTGGGCTTTG
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
* *
1431503 -AAAGGGTGTCACTGACTTGTGGGCTTTG
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
1431531 -AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
1431559 AAAA-GAGTGCCACGGAGTGGTGGACTTT-
1 AAAAGGA-TGCCACTGACTTGTGGGCTTTG
* * * *
1431587 AAAAGGATACCACAGAGTTGT-GGATTT-
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
* *
1431614 AAAAGGATGCCACGGAGTTGTGGGC-TT-
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
* * * * *
1431641 AAAAGGGTGCCACGGAGTGGTGGAC-TT-
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
1431668 AAAAGGATGCCACGGAGTTATGGACTTT-
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
1431696 AAAAGGGTGCCACGGAGTTGTGGACTTT-
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
1431724 AAAAGGAT
1 AAAAGGAT
1431732 ACCATGGAGT
Statistics
Matches: 521, Mismatches: 67, Indels: 44
0.82 0.11 0.07
Matches are distributed among these distances:
27 76 0.15
28 217 0.42
29 119 0.23
30 51 0.10
31 15 0.03
32 43 0.08
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.27
Consensus pattern (29 bp):
AAAAGGATGCCACTGACTTGTGGGCTTTG
Found at i:1431626 original size:27 final size:27
Alignment explanation
Indices: 1431531--1431846 Score: 294
Period size: 27 Copynumber: 11.4 Consensus size: 27
1431521 GTGGGCTTTG
* * *
1431531 AAAGGATGCCACTGACTTGTGGGCTTTGA
1 AAAGGATGCCACGGAGTTGT-GGATTT-A
*
1431560 AAA-GAGTGCCACGGAGTGGTGGACTTTA
1 AAAGGA-TGCCACGGAGTTGTGGA-TTTA
* *
1431588 AAAGGATACCACAGAGTTGTGGATTTA
1 AAAGGATGCCACGGAGTTGTGGATTTA
**
1431615 AAAGGATGCCACGGAGTTGTGGGCTTA
1 AAAGGATGCCACGGAGTTGTGGATTTA
* * *
1431642 AAAGGGTGCCACGGAGTGGTGGACTTA
1 AAAGGATGCCACGGAGTTGTGGATTTA
*
1431669 AAAGGATGCCACGGAGTTATGGACTTTA
1 AAAGGATGCCACGGAGTTGTGGA-TTTA
*
1431697 AAAGGGTGCCACGGAGTTGTGGACTTTA
1 AAAGGATGCCACGGAGTTGTGGA-TTTA
* * * *
1431725 AAAGGATACCATGGAGTTGTAGACTTA
1 AAAGGATGCCACGGAGTTGTGGATTTA
* * * *
1431752 AAAGTATGCCATGAAGTTGTGGACTTA
1 AAAGGATGCCACGGAGTTGTGGATTTA
* * * *
1431779 AAAAGATGCCACAGAGTTGTGAACTTA
1 AAAGGATGCCACGGAGTTGTGGATTTA
*
1431806 AAATGG-TGCCACGGAGTGGTGGACTTTA
1 AAA-GGATGCCACGGAGTTGTGGA-TTTA
*
1431834 AAAGAAATGCCAC
1 AAAG-GATGCCAC
1431847 TGAATCGTGG
Statistics
Matches: 238, Mismatches: 41, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
27 136 0.57
28 77 0.32
29 25 0.11
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (27 bp):
AAAGGATGCCACGGAGTTGTGGATTTA
Found at i:1431670 original size:54 final size:54
Alignment explanation
Indices: 1431531--1431860 Score: 329
Period size: 54 Copynumber: 6.0 Consensus size: 54
1431521 GTGGGCTTTG
* * * * *
1431531 AAAGGATGCCACTGACTTGTGGGCTTTGAAAA-GAGTGCCACGGAGTGGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGA-TGCCACGGAGTTGTGGAC-TTA
* * * * *
1431588 AAAGGATACCACAGAGTTGTGGATTTAAAAGGATGCCACGGAGTTGTGGGCTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTA
* *
1431642 AAAGGGTGCCACGGAGTGGTGGACTTAAAAGGATGCCACGGAGTTATGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TTA
* * *
1431697 AAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATACCATGGAGTTGTAGACTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTA
** * * * * *
1431752 AAAGTATGCCATGAAGTTGTGGACTTAAAAAGATGCCACAGAGTTGTGAACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTA
* * * * * *
1431806 AAATGGTGCCACGGAGTGGTGGACTTTAAAAGAAATGCCACTGAATCGTGGACTT
1 AAAGGGTGCCACGGAGTTGTGGAC-TTAAAAG-GATGCCACGGAGTTGTGGACTT
1431861 TGAAGAGGTC
Statistics
Matches: 227, Mismatches: 41, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
54 89 0.39
55 75 0.33
56 44 0.19
57 19 0.08
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (54 bp):
AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTA
Found at i:1431723 original size:137 final size:137
Alignment explanation
Indices: 1431386--1431861 Score: 432
Period size: 137 Copynumber: 3.4 Consensus size: 137
1431376 GTGGGCTTTG
* * * * * * * *
1431386 AAAGGATGCCACTGACTTGTGGGCTTTGAAAATAGTTGCCACCGACTCGTGTGGGCTTTGAAAGG
1 AAAGGATGCCACGGAGTTGTGGACTTT-AAAAGAG-TGCCACGGAGT--TGTGGACTTTAAAAGG
* * * * * * * * * *
1431451 GTACCACTGACTTGTGGGCTTTGAAAAGAATGGCACTGACTTGTGGGCTTTGAAAGGGTGTCACT
62 ATACCACAGAGTTGT-GGATTT-AAAAGAATGCCACGGAGTTGTGGGC-TTAAAAGGGTGCCACA
* * *
1431516 GACTTGTGGGCTTTG
124 GAGTTGTGGAC-TTA
* * * *
1431531 AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACGGAGTGGTGGACTTTAAAAGGATA
1 AAAGGATGCCACGGAGTTGTGGACTTT-AAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGATA
* * *
1431596 CCACAGAGTTGTGGATTTAAAAGGATGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTGG
65 CCACAGAGTTGTGGATTTAAAAGAATGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTG
1431661 TGGACTTA
130 TGGACTTA
* *
1431669 AAAGGATGCCACGGAGTTATGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATAC
1 AAAGGATGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGATAC
** * * * * * * * *
1431734 CATGGAGTTGTAGACTTAAAAGTATGCCATGAAGTTGTGGACTTAAAAAGATGCCACAGAGTTGT
66 CACAGAGTTGTGGATTTAAAAGAATGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGT
*
1431799 GAACTTA
131 GGACTTA
* * * * *
1431806 AAATGG-TGCCACGGAGTGGTGGACTTTAAAAGAAATGCCACTGAATCGTGGACTTT
1 AAA-GGATGCCACGGAGTTGTGGACTTTAAAAG-AGTGCCACGGAGTTGTGGACTTT
1431862 GAAGAGGTCA
Statistics
Matches: 282, Mismatches: 47, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
137 122 0.43
138 45 0.16
139 21 0.07
140 21 0.07
141 5 0.02
142 25 0.09
144 9 0.03
145 34 0.12
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (137 bp):
AAAGGATGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGATAC
CACAGAGTTGTGGATTTAAAAGAATGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGT
GGACTTA
Found at i:1431740 original size:28 final size:28
Alignment explanation
Indices: 1431230--1431861 Score: 391
Period size: 28 Copynumber: 22.4 Consensus size: 28
1431220 TGCCACTAAC
* * * *
1431230 TTGTGGGCTTTGAAAACG-TGCCACTGAC
1 TTGTGGACTTT-AAAAGGATGCCACGGAG
* * *
1431258 TTGTGGGCTTTAAAAGGATGCCACTGAC
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* * * * * *
1431286 TTGTGGGCTTTGAAAGGGTACCACTGAC
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* * ** *
1431314 TTGTGGTCTTTGAAAGGATGCCACTAAC
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* * * * *
1431342 TTGTGGCCTTTGAAATGGGTTGCCACTGACT
1 TTGTGGACTTT-AAA-AGGATGCCACGGA-G
* * * *
1431373 TGTGTGGGCTTTGAAAGGATGCCACTGAC
1 T-TGTGGACTTTAAAAGGATGCCACGGAG
* * * * *
1431402 TTGTGGGCTTTGAAAATAGTTGCCACCGAC
1 TTGTGGACTTT-AAAA-GGATGCCACGGAG
* * * * * *
1431432 TCGTGTGGGCTTTGAAAGGGTACCACTGAC
1 T--TGTGGACTTTAAAAGGATGCCACGGAG
* * * * *
1431462 TTGTGGGCTTTGAAAAGAATGGCACTGAC
1 TTGTGGACTTT-AAAAGGATGCCACGGAG
* * * * * *
1431491 TTGTGGGCTTTGAAAGGGTGTCACTGAC
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* * * *
1431519 TTGTGGGCTTTGAAAGGATGCCACTGAC
1 TTGTGGACTTTAAAAGGATGCCACGGAG
*
1431547 TTGTGGGCTTTGAAAA-GAGTGCCACGGAG
1 TTGTGGACTTT-AAAAGGA-TGCCACGGAG
* * *
1431576 TGGTGGACTTTAAAAGGATACCACAGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
1431604 TTGTGGA-TTTAAAAGGATGCCACGGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* *
1431631 TTGTGGGC-TTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
*
1431658 TGGTGGAC-TTAAAAGGATGCCACGGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* *
1431685 TTATGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* *
1431713 TTGTGGACTTTAAAAGGATACCATGGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* * * *
1431741 TTGTAGAC-TTAAAAGTATGCCATGAAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* *
1431768 TTGTGGAC-TTAAAAAGATGCCACAGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
*
1431795 TTGTGAAC-TTAAAATGG-TGCCACGGAG
1 TTGTGGACTTTAAAA-GGATGCCACGGAG
* * * *
1431822 TGGTGGACTTTAAAAGAAATGCCACTGAA
1 TTGTGGACTTTAAAAG-GATGCCACGGAG
*
1431851 TCGTGGACTTT
1 TTGTGGACTTT
1431862 GAAGAGGTCA
Statistics
Matches: 505, Mismatches: 80, Indels: 37
0.81 0.13 0.06
Matches are distributed among these distances:
27 143 0.28
28 226 0.45
29 69 0.14
30 42 0.08
31 6 0.01
32 19 0.04
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (28 bp):
TTGTGGACTTTAAAAGGATGCCACGGAG
Found at i:1431874 original size:82 final size:79
Alignment explanation
Indices: 1431503--1431874 Score: 300
Period size: 82 Copynumber: 4.5 Consensus size: 79
1431493 GTGGGCTTTG
* * * * * * * *
1431503 AAAGGGTGTCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTG
1 AAAGGATGCCACTGAATTGTGGACTTTAAAAGG-T-CCACAGAGTTGTGGAC-TT-AAAAG-GTG
1431568 CCACGGAGTGGTGGACTTTA
61 CCACGGAGTGGTGGAC-TTA
* * * * *
1431588 AAAGGATACCACAGAGTTGTGGA-TTTAAAAGGATGCCACGGAGTTGTGGGCTTAAAAGGGTGCC
1 AAAGGATGCCACTGAATTGTGGACTTTAAAAGG-T-CCACAGAGTTGTGGACTTAAAA-GGTGCC
1431652 ACGGAGTGGTGGACTTA
63 ACGGAGTGGTGGACTTA
* * * * *
1431669 AAAGGATGCCACGGAGTTATGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATAC
1 AAAGGATGCCACTGAATTGTGGACTTTAAAA-GGT-CCACAGAGTTGTGGAC-TTAAAAGG-TGC
* * *
1431734 CATGGAGTTGTAGACTTA
62 CACGGAGTGGTGGACTTA
* * * *
1431752 AAAGTATGCCA-TGAAGTTGTGGACTTAAAAAGATGCCACAGAGTTGTGAACTTAAAATGGTGCC
1 AAAGGATGCCACTGAA-TTGTGGACTTTAAAAGGT-CCACAGAGTTGTGGACTTAAAA-GGTGCC
1431816 ACGGAGTGGTGGACTTTA
63 ACGGAGTGGTGGAC-TTA
* * *
1431834 AAAGAAATGCCACTGAATCGTGGACTTTGAAGAGGT-CACAG
1 AAAG-GATGCCACTGAATTGTGGACTTT-AAAAGGTCCACAG
1431875 TATTAGGGAG
Statistics
Matches: 242, Mismatches: 34, Indels: 25
0.80 0.11 0.08
Matches are distributed among these distances:
81 43 0.18
82 82 0.34
83 66 0.27
84 34 0.14
85 17 0.07
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.24
Consensus pattern (79 bp):
AAAGGATGCCACTGAATTGTGGACTTTAAAAGGTCCACAGAGTTGTGGACTTAAAAGGTGCCACG
GAGTGGTGGACTTA
Found at i:1433257 original size:33 final size:33
Alignment explanation
Indices: 1433220--1433286 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1433210 TTCAACGATT
*
1433220 TGTATTGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1433253 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1433286 T
1 T
1433287 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1433258 original size:13 final size:13
Alignment explanation
Indices: 1433240--1433264 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1433230 CATAAAATGT
1433240 TGTATCGATACAA
1 TGTATCGATACAA
1433253 TGTATCGATACA
1 TGTATCGATACA
1433265 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1433345 original size:13 final size:13
Alignment explanation
Indices: 1433327--1433351 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1433317 ATTACTCAAA
1433327 TGTATCGATACAT
1 TGTATCGATACAT
1433340 TGTATCGATACA
1 TGTATCGATACA
1433352 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1433396 original size:52 final size:51
Alignment explanation
Indices: 1433340--1433475 Score: 166
Period size: 52 Copynumber: 2.6 Consensus size: 51
1433330 ATCGATACAT
** *
1433340 TGTATCGATACACTGATCTTTGTATCGATATACACAGGCAAATTTGCCCAGA
1 TGTATCGATACACTGAT-AATGTATCGATACACACAGGCAAATTTGCCCAGA
* * **
1433392 TGTATCGATACATTTTATAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACA-CTGATAATGTATCGATACACACAGGCAAATTTGCCCAGA
1433444 TGTATCGATACACT-ATTAAATGTATCGATACA
1 TGTATCGATACACTGA-T-AATGTATCGATACA
1433476 TGCAAGCAAC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
50 1 0.01
51 2 0.03
52 67 0.92
53 3 0.04
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (51 bp):
TGTATCGATACACTGATAATGTATCGATACACACAGGCAAATTTGCCCAGA
Found at i:1433476 original size:52 final size:52
Alignment explanation
Indices: 1433360--1433484 Score: 189
Period size: 52 Copynumber: 2.4 Consensus size: 52
1433350 CACTGATCTT
* ** *
1433360 TGTATCGATATACACAGGCAAATTTGCCCAGATGTATCGATACATTTTATAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATATTATAA
1433412 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTA-AA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACA-TATTATAA
*
1433464 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
1433485 CTTTTCATAT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
52 63 0.94
53 4 0.06
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATATTATAA
Found at i:1437136 original size:28 final size:28
Alignment explanation
Indices: 1437103--1437156 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
1437093 GTTATCTTTA
*
1437103 GAAGTTTTAGGTAGAAAGGCAAGACTTG
1 GAAGTTTAAGGTAGAAAGGCAAGACTTG
1437131 GAAGTTTAAGGTAGAAAGGCAAGACT
1 GAAGTTTAAGGTAGAAAGGCAAGACT
1437157 AAGAATCACG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.07, G:0.31, T:0.22
Consensus pattern (28 bp):
GAAGTTTAAGGTAGAAAGGCAAGACTTG
Found at i:1439485 original size:35 final size:35
Alignment explanation
Indices: 1439434--1439505 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
1439424 AAGATAATTA
1439434 AATGAAAATGCAATTATTGCCCTGATGGTCAAGAC
1 AATGAAAATGCAATTATTGCCCTGATGGTCAAGAC
*
1439469 AATGGAAATGCAATTATTGCCCTGATGGTCAAGAC
1 AATGAAAATGCAATTATTGCCCTGATGGTCAAGAC
1439504 AA
1 AA
1439506 GTGATACGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (35 bp):
AATGAAAATGCAATTATTGCCCTGATGGTCAAGAC
Found at i:1446283 original size:13 final size:13
Alignment explanation
Indices: 1446265--1446291 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1446255 ACATTATGCT
1446265 TTGTATCGATACA
1 TTGTATCGATACA
1446278 TTGTATCGATACA
1 TTGTATCGATACA
1446291 T
1 T
1446292 GATCATTATA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1446289 original size:33 final size:32
Alignment explanation
Indices: 1446246--1446310 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
1446236 ACACACTAGA
* * *
1446246 TGTATAGATACATTATGCTTTGTATCGATACAT
1 TGTATAGATACATGAT-CATTATATCGATACAT
*
1446279 TGTATCGATACATGATCATTATATCGATACAT
1 TGTATAGATACATGATCATTATATCGATACAT
1446311 AGACAATTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (32 bp):
TGTATAGATACATGATCATTATATCGATACAT
Found at i:1446325 original size:20 final size:19
Alignment explanation
Indices: 1446276--1446332 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
1446266 TGTATCGATA
1446276 CATTGTATCGATACATGAT
1 CATTGTATCGATACATGAT
*
1446295 CATTATATCGATACATAGA-
1 CATTGTATCGATACAT-GAT
1446314 CAATTGTATCGATACATGA
1 C-ATTGTATCGATACATGA
1446333 AACTGGCAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Found at i:1446384 original size:20 final size:20
Alignment explanation
Indices: 1446359--1446412 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1446349 CCTACCACTG
*
1446359 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
*
1446379 TTGTATTGATACATGATGAA
1 TTGTATCGATACATGATGAA
1446399 TTGTATCGATACAT
1 TTGTATCGATACAT
1446413 TGCTTGTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:1448152 original size:157 final size:156
Alignment explanation
Indices: 1447961--1448302 Score: 413
Period size: 157 Copynumber: 2.2 Consensus size: 156
1447951 TCCTAAAATA
* ** * *
1447961 GAGTCCTAGGTTGTCACTAGGATACTTTTATGCCGAAGGTGTGCATTTAGGATAAGTTTATCTAA
1 GAGTCCTAGGTTGTCACGAGGATACTTTTATGCCGAAAATGTGCATTTAGGATAAGTTCATCCAA
** * * *
1448026 TTTATGATCATTTTAGTGTCCATTAGTGTTATC-ATGATACTTTCATATCGAAGGTATGCCCTAA
66 TTTATGATCATTTTAGCATCCATTAGGGTTATCGA-GATACTTTCATATCGAAAGTATACCCT-A
1448090 GAGG-TATTTTCGTAATTTTAATTGAATC
129 G-GGATATTTTCGTAATTTTAATTGAATC
* * * *
1448118 GAGTCTTAGGTTGTCATCGA-GATGCTTTTATGCCGAAAATGTGCATTTAGGATACGTTCGTCCA
1 GAGTCCTAGGTTGTCA-CGAGGATACTTTTATGCCGAAAATGTGCATTTAGGATAAGTTCATCCA
*
1448182 ATTTATGATCATTTTAGCATCCATTAGGGTTATCGAGATACTTTCATGTCGAAAGTATACCCTAG
65 ATTTATGATCATTTTAGCATCCATTAGGGTTATCGAGATACTTTCATATCGAAAGTATACCCTAG
* * ** **
1448247 GGATATTTTCGTAAGTATCCTAAAATC
130 GGATATTTTCGTAATTTTAATTGAATC
*
1448274 GAGTCCTAGGTTGTTACTG-GGATACTTTT
1 GAGTCCTAGGTTGTCAC-GAGGATACTTTT
1448303 TGTAAACACC
Statistics
Matches: 156, Mismatches: 24, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
155 3 0.02
156 43 0.28
157 107 0.69
158 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.38
Consensus pattern (156 bp):
GAGTCCTAGGTTGTCACGAGGATACTTTTATGCCGAAAATGTGCATTTAGGATAAGTTCATCCAA
TTTATGATCATTTTAGCATCCATTAGGGTTATCGAGATACTTTCATATCGAAAGTATACCCTAGG
GATATTTTCGTAATTTTAATTGAATC
Found at i:1448623 original size:21 final size:21
Alignment explanation
Indices: 1448583--1448624 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1448573 AAATTTTTTA
* **
1448583 TTTTTGAAAATTTTCTAAATT
1 TTTTTGAAAAATTTAAAAATT
1448604 TTTTTGAAAAATTTAAAAATT
1 TTTTTGAAAAATTTAAAAATT
1448625 AACTATCGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.52
Consensus pattern (21 bp):
TTTTTGAAAAATTTAAAAATT
Found at i:1449946 original size:20 final size:22
Alignment explanation
Indices: 1449895--1449952 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
1449885 TTAAATCAGT
1449895 CATAATGTATCGATACAAATAC
1 CATAATGTATCGATACAAATAC
1449917 CATAATGTATCGATACAAATAC
1 CATAATGTATCGATACAAATAC
1449939 C-T-ATGTATCGATAC
1 CATAATGTATCGATAC
1449953 TTTGAAGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.33
21 1 0.03
22 23 0.64
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.29
Consensus pattern (22 bp):
CATAATGTATCGATACAAATAC
Found at i:1450457 original size:19 final size:19
Alignment explanation
Indices: 1450433--1450470 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1450423 CCCTTGATAA
1450433 ACGGTTAAAAAGATTTTCT
1 ACGGTTAAAAAGATTTTCT
1450452 ACGGTTAAAAAGATTTTCT
1 ACGGTTAAAAAGATTTTCT
1450471 CCCCTTTGAT
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:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
ACGGTTAAAAAGATTTTCT
Found at i:1452238 original size:22 final size:20
Alignment explanation
Indices: 1452193--1452240 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
1452183 TTCGTTGATG
*
1452193 ATTTTGATGAAAAATGAAGT
1 ATTTTGATGAAAAATGAAGA
1452213 ATTTTGAAGTGAAAAAT-AAGA
1 ATTTTG-A-TGAAAAATGAAGA
*
1452234 AATTTGA
1 ATTTTGA
1452241 AAAATATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 7 0.29
21 9 0.38
22 8 0.33
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (20 bp):
ATTTTGATGAAAAATGAAGA
Found at i:1452239 original size:21 final size:22
Alignment explanation
Indices: 1452200--1452241 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
1452190 ATGATTTTGA
* *
1452200 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
1452222 TGAAAAAT-AAGAAATTTGAA
1 TGAAAAATGAAGAAATTTGAA
1452242 AAATATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:1459024 original size:7 final size:7
Alignment explanation
Indices: 1459012--1459054 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
1459002 TATTCTCTTC
1459012 TAAAAAA
1 TAAAAAA
1459019 TAAAAAAA
1 T-AAAAAA
1459027 TAAAAAA
1 TAAAAAA
*
1459034 CAAAAACA
1 TAAAAA-A
1459042 -AAAAAA
1 TAAAAAA
1459048 TAAAAAA
1 TAAAAAA
1459055 CCTGGTTAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
6 1 0.03
7 23 0.72
8 8 0.25
ACGTcount: A:0.86, C:0.05, G:0.00, T:0.09
Consensus pattern (7 bp):
TAAAAAA
Done.