Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, whole genome shotgun sequence
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: 9158330
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 27 of 35
Found at i:6428420 original size:20 final size:20
Alignment explanation
Indices: 6428395--6428462 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
6428385 TATGCTTACA
6428395 TATGTTTTAGATTAATTTAT
1 TATGTTTTAGATTAATTTAT
* *
6428415 TATG-TTT-GCATATCATTTACA
1 TATGTTTTAG-AT-TAATTTA-T
6428436 TATGTTTTAGATTAATTTAT
1 TATGTTTTAGATTAATTTAT
6428456 TATGTTT
1 TATGTTT
6428463 CATGTATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
18 1 0.03
19 5 0.13
20 17 0.44
21 10 0.26
22 5 0.13
23 1 0.03
ACGTcount: A:0.28, C:0.04, G:0.10, T:0.57
Consensus pattern (20 bp):
TATGTTTTAGATTAATTTAT
Found at i:6429204 original size:20 final size:20
Alignment explanation
Indices: 6429171--6429210 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6429161 GAATATGGTA
* *
6429171 CAAAATAGCTTGGTACACGT
1 CAAAACAGCGTGGTACACGT
6429191 CAAAACAGCGTGGTACACGT
1 CAAAACAGCGTGGTACACGT
6429211 TGTTGGAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (20 bp):
CAAAACAGCGTGGTACACGT
Found at i:6430759 original size:20 final size:20
Alignment explanation
Indices: 6430734--6430801 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
6430724 TATGTTTACA
6430734 TATGTTTTAGATTAATTTAT
1 TATGTTTTAGATTAATTTAT
* * *
6430754 TATGTTTT-CATATCATTTACA
1 TATGTTTTAGAT-TAATTTA-T
6430775 TATGTTTTAGATTAATTTAT
1 TATGTTTTAGATTAATTTAT
6430795 TATGTTT
1 TATGTTT
6430802 CATGTATATG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.05
20 21 0.54
21 14 0.36
22 2 0.05
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.59
Consensus pattern (20 bp):
TATGTTTTAGATTAATTTAT
Found at i:6431543 original size:20 final size:20
Alignment explanation
Indices: 6431510--6431549 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6431500 GAATCTGGTA
* *
6431510 CAAAATAGCTTGGTACACGT
1 CAAAACAGCATGGTACACGT
6431530 CAAAACAGCATGGTACACGT
1 CAAAACAGCATGGTACACGT
6431550 TGTTGGAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (20 bp):
CAAAACAGCATGGTACACGT
Found at i:6433098 original size:20 final size:20
Alignment explanation
Indices: 6433073--6433140 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
6433063 TATGTTTACA
6433073 TATGTTTTAGATTAATTTAT
1 TATGTTTTAGATTAATTTAT
* *
6433093 TATG-TTT-GCATATCATTTACA
1 TATGTTTTAG-AT-TAATTTA-T
6433114 TATGTTTTAGATTAATTTAT
1 TATGTTTTAGATTAATTTAT
6433134 TATGTTT
1 TATGTTT
6433141 CATGTATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
18 1 0.03
19 5 0.13
20 17 0.44
21 10 0.26
22 5 0.13
23 1 0.03
ACGTcount: A:0.28, C:0.04, G:0.10, T:0.57
Consensus pattern (20 bp):
TATGTTTTAGATTAATTTAT
Found at i:6435355 original size:45 final size:46
Alignment explanation
Indices: 6435267--6435356 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 46
6435257 TTGAAATAGC
* *
6435267 CTGAGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
6435313 CTGAGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGC
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGC
6435357 TTTCGATGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
45 21 0.50
46 21 0.50
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (46 bp):
CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
Found at i:6443409 original size:19 final size:19
Alignment explanation
Indices: 6443387--6443438 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
6443377 TTGGACTCTC
6443387 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
6443406 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
*
6443425 AGTGCATCGATGCA
1 AGTGCATCGGTGCA
6443439 TGAAATGCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (19 bp):
AGTGCATCGGTGCACTAAG
Found at i:6443530 original size:46 final size:45
Alignment explanation
Indices: 6443467--6443557 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
6443457 TTGAAATAGC
* * * *
6443467 CTGAGTGCATCGATGCATGGTCTTGTGTATCGATTCATCAAATGCA
1 CTGAGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
*
6443513 CTGAGTGCATTGATGCATGGTATGTGCATCGATGCATAAAATGCA
1 CTGAGTGCATCGATGCATGGTATGTGCATCGATGCATAAAATGCA
6443558 TTCAATGTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 20 0.50
46 20 0.50
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (45 bp):
CTGAGTGCATCGATGCATGGTATGTGCATCGATGCATAAAATGCA
Found at i:6444226 original size:22 final size:21
Alignment explanation
Indices: 6444192--6444232 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
6444182 TTTACACATC
* *
6444192 TTTACTTAGCTTTATATTATG
1 TTTACATAGCTTTAGATTATG
6444213 TTTACATATGCTTTAGATTA
1 TTTACATA-GCTTTAGATTA
6444233 ATTTATTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.54
Consensus pattern (21 bp):
TTTACATAGCTTTAGATTATG
Found at i:6444244 original size:20 final size:20
Alignment explanation
Indices: 6444219--6444283 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
6444209 TATGTTTACA
6444219 TATGCTTTAGATTAATTTAT
1 TATGCTTTAGATTAATTTAT
* *
6444239 TATGC-TT-GCATATCATTTACA
1 TATGCTTTAG-AT-TAATTTA-T
*
6444260 TATGTTTTAGATTAATTTAT
1 TATGCTTTAGATTAATTTAT
6444280 TATG
1 TATG
6444284 TTTCATGCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
18 1 0.03
19 4 0.11
20 15 0.43
21 10 0.29
22 4 0.11
23 1 0.03
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.52
Consensus pattern (20 bp):
TATGCTTTAGATTAATTTAT
Found at i:6449883 original size:22 final size:22
Alignment explanation
Indices: 6449835--6449884 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
6449825 TTCTTTCTTT
**
6449835 TTTTCTTCTTTTGAGTTTTTCA
1 TTTTCTTCTTTTGAGTGCTTCA
*
6449857 ATTTCTTCTTTTTGAGTGCTTC-
1 TTTTCTTC-TTTTGAGTGCTTCA
6449879 TTTTCT
1 TTTTCT
6449885 GTTTTTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.08, C:0.16, G:0.10, T:0.66
Consensus pattern (22 bp):
TTTTCTTCTTTTGAGTGCTTCA
Found at i:6452674 original size:20 final size:20
Alignment explanation
Indices: 6452649--6452715 Score: 59
Period size: 20 Copynumber: 3.3 Consensus size: 20
6452639 ATGTTTACAT
6452649 ATGTTTTAGATTAATTTATC
1 ATGTTTTAGATTAATTTATC
*
6452669 ATG-TTT-GCATATCATTTA-C
1 ATGTTTTAG-AT-TAATTTATC
*
6452688 ATGTGTTTTAGATTAATTTATT
1 A--TGTTTTAGATTAATTTATC
6452710 ATGTTT
1 ATGTTT
6452716 CATGCATATG
Statistics
Matches: 37, Mismatches: 3, Indels: 14
0.69 0.06 0.26
Matches are distributed among these distances:
18 1 0.03
19 7 0.19
20 14 0.38
21 8 0.22
22 6 0.16
23 1 0.03
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.55
Consensus pattern (20 bp):
ATGTTTTAGATTAATTTATC
Found at i:6455027 original size:20 final size:20
Alignment explanation
Indices: 6455002--6455110 Score: 93
Period size: 20 Copynumber: 5.3 Consensus size: 20
6454992 TATGTTTACA
6455002 TATGTTTTAGATTAATTTAT
1 TATGTTTTAGATTAATTTAT
* *
6455022 TATGTTTT-CATATCATTTGCA-
1 TATGTTTTAGAT-TAATTT--AT
6455043 TATGTTTTAGATTAATTTAT
1 TATGTTTTAGATTAATTTAT
*
6455063 TATG-TTT-GCATATCATTTGCA-
1 TATGTTTTAG-AT-TAATTT--AT
6455084 TATGTTTTAGATTAATTTAT
1 TATGTTTTAGATTAATTTAT
6455104 TATGTTT
1 TATGTTT
6455111 CATGATTATG
Statistics
Matches: 71, Mismatches: 6, Indels: 24
0.70 0.06 0.24
Matches are distributed among these distances:
18 1 0.01
19 9 0.13
20 29 0.41
21 22 0.31
22 9 0.13
23 1 0.01
ACGTcount: A:0.27, C:0.06, G:0.11, T:0.57
Consensus pattern (20 bp):
TATGTTTTAGATTAATTTAT
Found at i:6455057 original size:41 final size:41
Alignment explanation
Indices: 6455000--6455110 Score: 213
Period size: 41 Copynumber: 2.7 Consensus size: 41
6454990 ATTATGTTTA
*
6455000 CATATGTTTTAGATTAATTTATTATGTTTTCATATCATTTG
1 CATATGTTTTAGATTAATTTATTATGTTTGCATATCATTTG
6455041 CATATGTTTTAGATTAATTTATTATGTTTGCATATCATTTG
1 CATATGTTTTAGATTAATTTATTATGTTTGCATATCATTTG
6455082 CATATGTTTTAGATTAATTTATTATGTTT
1 CATATGTTTTAGATTAATTTATTATGTTT
6455111 CATGATTATG
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.27, C:0.06, G:0.11, T:0.56
Consensus pattern (41 bp):
CATATGTTTTAGATTAATTTATTATGTTTGCATATCATTTG
Found at i:6455856 original size:20 final size:20
Alignment explanation
Indices: 6455823--6455862 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6455813 GAATCTGGTA
* *
6455823 CAAAACATCTTGGTACACGT
1 CAAAACAGCATGGTACACGT
*
6455843 CAAAACAGCATGGTGCACGT
1 CAAAACAGCATGGTACACGT
6455863 TGTTGGAGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
CAAAACAGCATGGTACACGT
Found at i:6457423 original size:20 final size:20
Alignment explanation
Indices: 6457398--6457465 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
6457388 TATGTTTACA
6457398 TATGTTTTAGATTAATTTAT
1 TATGTTTTAGATTAATTTAT
*
6457418 TATG-TTT-GCATATCATTTGCA-
1 TATGTTTTAG-AT-TAATTT--AT
6457439 TATGTTTTAGATTAATTTAT
1 TATGTTTTAGATTAATTTAT
6457459 TATGTTT
1 TATGTTT
6457466 CATGCATATG
Statistics
Matches: 39, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
18 1 0.03
19 6 0.15
20 16 0.41
21 9 0.23
22 6 0.15
23 1 0.03
ACGTcount: A:0.26, C:0.04, G:0.12, T:0.57
Consensus pattern (20 bp):
TATGTTTTAGATTAATTTAT
Found at i:6458202 original size:20 final size:20
Alignment explanation
Indices: 6458177--6458216 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
6458167 GAATCTTGTA
*
6458177 CAAAACAGCTTGGTACACGT
1 CAAAACAGCATGGTACACGT
6458197 CAAAACAGCATGGTACACGT
1 CAAAACAGCATGGTACACGT
6458217 TGTTGGAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (20 bp):
CAAAACAGCATGGTACACGT
Found at i:6461513 original size:13 final size:12
Alignment explanation
Indices: 6461490--6461519 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
6461480 ACTAAACACC
6461490 TTTCACATACCT
1 TTTCACATACCT
6461502 TTTCAGCATACCT
1 TTTCA-CATACCT
6461515 TTTCA
1 TTTCA
6461520 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.23, C:0.30, G:0.03, T:0.43
Consensus pattern (12 bp):
TTTCACATACCT
Found at i:6467880 original size:15 final size:15
Alignment explanation
Indices: 6467845--6467873 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6467835 GTGCTTTAAC
6467845 TTCTTT-CTTTTCTT
1 TTCTTTGCTTTTCTT
6467859 TTCTTTGCTTTTCTT
1 TTCTTTGCTTTTCTT
6467874 CTTTTTGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (15 bp):
TTCTTTGCTTTTCTT
Found at i:6470456 original size:20 final size:20
Alignment explanation
Indices: 6470431--6470497 Score: 75
Period size: 20 Copynumber: 3.3 Consensus size: 20
6470421 ATGTTTACAC
6470431 ATGTTTTAGATTAATTTATT
1 ATGTTTTAGATTAATTTATT
* *
6470451 ATG-TTT-GCATATCATTTACAT
1 ATGTTTTAG-AT-TAATTTA-TT
6470472 ATGTTTTAGATTAATTTATT
1 ATGTTTTAGATTAATTTATT
6470492 ATGTTT
1 ATGTTT
6470498 CATGCATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
18 1 0.03
19 5 0.13
20 16 0.42
21 10 0.26
22 5 0.13
23 1 0.03
ACGTcount: A:0.28, C:0.04, G:0.10, T:0.57
Consensus pattern (20 bp):
ATGTTTTAGATTAATTTATT
Found at i:6471223 original size:20 final size:20
Alignment explanation
Indices: 6471198--6471237 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
6471188 GAATCTGGTA
*
6471198 CAAAACAGCTTGGTACACGT
1 CAAAACAGCATGGTACACGT
6471218 CAAAACAGCATGGTACACGT
1 CAAAACAGCATGGTACACGT
6471238 TGTTGGAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (20 bp):
CAAAACAGCATGGTACACGT
Found at i:6472787 original size:21 final size:21
Alignment explanation
Indices: 6472752--6472836 Score: 77
Period size: 20 Copynumber: 4.1 Consensus size: 21
6472742 TTTACTTAGC
* *
6472752 TTTATATTATGTTTACATATAT
1 TTTATATTA-ATTTACATATGT
* *
6472774 TTTAGATTAATTTA-TTATGT
1 TTTATATTAATTTACATATGT
*
6472794 TTGCATATT-ATTTACATATGT
1 TT-TATATTAATTTACATATGT
*
6472815 TTTATATTAATTTA-TTATGT
1 TTTATATTAATTTACATATGT
6472835 TT
1 TT
6472837 CATGCATATG
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
20 23 0.45
21 20 0.39
22 8 0.16
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.60
Consensus pattern (21 bp):
TTTATATTAATTTACATATGT
Found at i:6473368 original size:40 final size:40
Alignment explanation
Indices: 6473301--6473416 Score: 162
Period size: 40 Copynumber: 2.9 Consensus size: 40
6473291 AACAGCTTGA
6473301 TGGAGCATTTGGAAGACATATACAACTCACAAACAACTTAG
1 TGGAGCATTT-GAAGACATATACAACTCACAAACAACTTAG
* *
6473342 TGGAGCATTTGAA-ATTATATACAACTCACAAACAGCTTAG
1 TGGAGCATTTGAAGA-CATATACAACTCACAAACAACTTAG
* *
6473382 TGGAGCACTTGGAAGACATATACAGCTCACAAACA
1 TGGAGCA-TTTGAAGACATATACAACTCACAAACA
6473417 GATGACACAC
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
39 1 0.01
40 33 0.49
41 32 0.48
42 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (40 bp):
TGGAGCATTTGAAGACATATACAACTCACAAACAACTTAG
Found at i:6473415 original size:41 final size:40
Alignment explanation
Indices: 6473291--6473417 Score: 168
Period size: 41 Copynumber: 3.1 Consensus size: 40
6473281 CACACATTGG
6473291 AACAGCTT-GATGGAGCATTTGGAAGACATATACAACTCACA
1 AACAGCTTAG-TGGAGCA-TTGGAAGACATATACAACTCACA
* * *
6473332 AACAACTTAGTGGAGCATTTGAA-ATTATATACAACTCACA
1 AACAGCTTAGTGGAGCATTGGAAGA-CATATACAACTCACA
*
6473372 AACAGCTTAGTGGAGCACTTGGAAGACATATACAGCTCACA
1 AACAGCTTAGTGGAGCA-TTGGAAGACATATACAACTCACA
6473413 AACAG
1 AACAG
6473418 ATGACACACG
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
39 1 0.01
40 35 0.47
41 37 0.49
42 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (40 bp):
AACAGCTTAGTGGAGCATTGGAAGACATATACAACTCACA
Found at i:6476303 original size:25 final size:21
Alignment explanation
Indices: 6476283--6476331 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 21
6476273 AACTTTTCTA
6476283 TCCATTTCAATTCTTTCC-TTTT
1 TCCATTT--ATTCTTTCCTTTTT
6476305 TCCATTTATTCTTTCC-TTTT
1 TCCATTTATTCTTTCCTTTTT
6476325 TCCATTT
1 TCCATTT
6476332 CATTTTCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 20 0.74
22 7 0.26
ACGTcount: A:0.12, C:0.27, G:0.00, T:0.61
Consensus pattern (21 bp):
TCCATTTATTCTTTCCTTTTT
Found at i:6476315 original size:20 final size:20
Alignment explanation
Indices: 6476292--6476331 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
6476282 ATCCATTTCA
6476292 ATTCTTTCCTTTTTCCATTT
1 ATTCTTTCCTTTTTCCATTT
6476312 ATTCTTTCCTTTTTCCATTT
1 ATTCTTTCCTTTTTCCATTT
6476332 CATTTTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.25, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTCTTTCCTTTTTCCATTT
Found at i:6481936 original size:20 final size:20
Alignment explanation
Indices: 6481913--6481952 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
6481903 ATCCATTTCA
*
6481913 ATTCTTTCCTTTTTCCATTT
1 ATTCTTTCATTTTTCCATTT
6481933 ATTCTTTCATTTTTCCATTT
1 ATTCTTTCATTTTTCCATTT
6481953 CCATTTCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.23, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTCTTTCATTTTTCCATTT
Found at i:6485818 original size:19 final size:19
Alignment explanation
Indices: 6485794--6485833 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
6485784 CCTTACTCTA
6485794 ACACTTATCCCCTTTAAAC
1 ACACTTATCCCCTTTAAAC
*
6485813 ACACTTCTCCCCTTTAAAC
1 ACACTTATCCCCTTTAAAC
6485832 AC
1 AC
6485834 TTTAGCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.30, C:0.40, G:0.00, T:0.30
Consensus pattern (19 bp):
ACACTTATCCCCTTTAAAC
Found at i:6488085 original size:23 final size:22
Alignment explanation
Indices: 6488039--6488120 Score: 96
Period size: 23 Copynumber: 3.7 Consensus size: 22
6488029 AGAACCCCAG
* *
6488039 GGGGGTATCGATTCCCCTAC-A
1 GGGGGAATCGATTCCCCTTCAA
*
6488060 GGGGGAATC-AGTTCTCCTTCAAA
1 GGGGGAATCGA-TTCCCCTTC-AA
6488083 GGGGGAATCGATTCCCCTTCAA
1 GGGGGAATCGATTCCCCTTCAA
*
6488105 GGGGGTATCGATTCCC
1 GGGGGAATCGATTCCC
6488121 TCTACACCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
20 1 0.02
21 15 0.29
22 17 0.33
23 18 0.35
24 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.24
Consensus pattern (22 bp):
GGGGGAATCGATTCCCCTTCAA
Found at i:6492683 original size:8 final size:8
Alignment explanation
Indices: 6492670--6492733 Score: 80
Period size: 8 Copynumber: 8.1 Consensus size: 8
6492660 TATTTTTTTT
6492670 ACAAAAAA
1 ACAAAAAA
6492678 AC-AAAAA
1 ACAAAAAA
6492685 ACAAAAAA
1 ACAAAAAA
6492693 AGGCAAAAAA
1 A--CAAAAAA
6492703 A-AAAAAA
1 ACAAAAAA
*
6492710 GC-AAAAA
1 ACAAAAAA
6492717 ACAAAAAA
1 ACAAAAAA
6492725 ACAAAAAA
1 ACAAAAAA
6492733 A
1 A
6492734 AGAGCCAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
7 19 0.39
8 22 0.45
10 8 0.16
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (8 bp):
ACAAAAAA
Found at i:6492690 original size:6 final size:7
Alignment explanation
Indices: 6492673--6492732 Score: 66
Period size: 7 Copynumber: 7.9 Consensus size: 7
6492663 TTTTTTTACA
6492673 AAAAAAC
1 AAAAAAC
6492680 AAAAAAC
1 AAAAAAC
6492687 AAAAAAAGGC
1 -AAAAAA--C
*
6492697 AAAAAAA
1 AAAAAAC
6492704 AAAAAAGC
1 AAAAAA-C
6492712 AAAAAAC
1 AAAAAAC
6492719 AAAAAAAC
1 -AAAAAAC
6492727 AAAAAA
1 AAAAAA
6492733 AAGAGCCAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
7 20 0.43
8 19 0.41
9 6 0.13
10 1 0.02
ACGTcount: A:0.85, C:0.10, G:0.05, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:6492690 original size:15 final size:16
Alignment explanation
Indices: 6492670--6492732 Score: 96
Period size: 15 Copynumber: 4.1 Consensus size: 16
6492660 TATTTTTTTT
6492670 ACAAAAAAA-CAAAAA
1 ACAAAAAAAGCAAAAA
6492685 ACAAAAAAAGGCAAAAA
1 ACAAAAAAA-GCAAAAA
6492702 A-AAAAAAAGCAAAAA
1 ACAAAAAAAGCAAAAA
6492717 ACAAAAAAA-CAAAAA
1 ACAAAAAAAGCAAAAA
6492732 A
1 A
6492733 AAGAGCCAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
15 24 0.53
16 14 0.31
17 7 0.16
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (16 bp):
ACAAAAAAAGCAAAAA
Found at i:6492715 original size:32 final size:29
Alignment explanation
Indices: 6492672--6492734 Score: 99
Period size: 32 Copynumber: 2.1 Consensus size: 29
6492662 TTTTTTTTAC
6492672 AAAAAAACAAAAAACAAAAAAAGGCAAAAAA
1 AAAAAAACAAAAAACAAAAAAA--CAAAAAA
6492703 AAAAAAAGCAAAAAACAAAAAAACAAAAAA
1 AAAAAAA-CAAAAAACAAAAAAACAAAAAA
6492733 AA
1 AA
6492735 GAGCCAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
30 9 0.29
31 7 0.23
32 15 0.48
ACGTcount: A:0.86, C:0.10, G:0.05, T:0.00
Consensus pattern (29 bp):
AAAAAAACAAAAAACAAAAAAACAAAAAA
Found at i:6499692 original size:14 final size:14
Alignment explanation
Indices: 6499675--6499708 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
6499665 CACTCAAAAG
6499675 AAGAAAAAAAAGAA
1 AAGAAAAAAAAGAA
*
6499689 AAGAAAAGAAAGAA
1 AAGAAAAAAAAGAA
6499703 AA-AAAA
1 AAGAAAA
6499709 GGTTGAAGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAAAGAA
Found at i:6503919 original size:16 final size:15
Alignment explanation
Indices: 6503898--6503938 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
6503888 TTTTTTTTTC
6503898 AAAAAAAAAAGGCAA
1 AAAAAAAAAAGGCAA
6503913 AAAAAAAAAAGGCAA
1 AAAAAAAAAAGGCAA
6503928 AAAAACAAAAA
1 AAAAA-AAAAA
6503939 AAGAGCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 20 0.80
16 5 0.20
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAGGCAA
Found at i:6503937 original size:20 final size:20
Alignment explanation
Indices: 6503914--6503952 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6503904 AAAAGGCAAA
*
6503914 AAAAAAAAAGGCAAAAAAAC
1 AAAAAAAAAGCCAAAAAAAC
*
6503934 AAAAAAAGAGCCAAAAAAA
1 AAAAAAAAAGCCAAAAAAA
6503953 GCCAAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.79, C:0.10, G:0.10, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGCCAAAAAAAC
Found at i:6503949 original size:9 final size:10
Alignment explanation
Indices: 6503916--6503959 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
6503906 AAGGCAAAAA
*
6503916 AAAAAAAGGC
1 AAAAAAAGCC
*
6503926 AAAAAAA-CA
1 AAAAAAAGCC
6503935 AAAAAAGAGCC
1 AAAAAA-AGCC
6503946 AAAAAAAGCC
1 AAAAAAAGCC
6503956 AAAA
1 AAAA
6503960 TTTCAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 6 0.21
10 16 0.55
11 7 0.24
ACGTcount: A:0.75, C:0.14, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAAAGCC
Found at i:6511184 original size:8 final size:8
Alignment explanation
Indices: 6511171--6511233 Score: 76
Period size: 8 Copynumber: 7.9 Consensus size: 8
6511161 TTTCTGGCTC
6511171 TTTTTTTG
1 TTTTTTTG
6511179 TTTTTTTG
1 TTTTTTTG
**
6511187 CCTTTTT-
1 TTTTTTTG
6511194 TTTTTTTG
1 TTTTTTTG
6511202 CCTTTTTTTG
1 --TTTTTTTG
6511212 -TTTTTTG
1 TTTTTTTG
6511219 TTTTTTTG
1 TTTTTTTG
6511227 TTTTTTT
1 TTTTTTT
6511234 TTGAAATAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
7 12 0.26
8 27 0.57
10 8 0.17
ACGTcount: A:0.00, C:0.06, G:0.10, T:0.84
Consensus pattern (8 bp):
TTTTTTTG
Found at i:6511222 original size:15 final size:16
Alignment explanation
Indices: 6511170--6511232 Score: 85
Period size: 15 Copynumber: 3.9 Consensus size: 16
6511160 TTTTCTGGCT
6511170 CTTTTTTTGTTTTTTTG
1 CTTTTTTTG-TTTTTTG
*
6511187 CCTTTTTT-TTTTTTG
1 CTTTTTTTGTTTTTTG
6511202 CCTTTTTTTGTTTTTTG
1 -CTTTTTTTGTTTTTTG
6511219 -TTTTTTTGTTTTTT
1 CTTTTTTTGTTTTTT
6511233 TTTGAAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
15 21 0.50
16 7 0.17
17 14 0.33
ACGTcount: A:0.00, C:0.08, G:0.10, T:0.83
Consensus pattern (16 bp):
CTTTTTTTGTTTTTTG
Found at i:6519524 original size:41 final size:41
Alignment explanation
Indices: 6519424--6519524 Score: 166
Period size: 41 Copynumber: 2.5 Consensus size: 41
6519414 GTTTTCAACA
* * *
6519424 ATATACAGCTCGCAAACAACTTAGTGGAGCATTTGGAAGAC
1 ATATACAGCTCACAAACAGCTTAGTGGAGCACTTGGAAGAC
6519465 ATATACAGCTCACAAACAGCTTAGTGGAGCACTTGGAAGAC
1 ATATACAGCTCACAAACAGCTTAGTGGAGCACTTGGAAGAC
*
6519506 ATATACAACTCACAAACAG
1 ATATACAGCTCACAAACAG
6519525 ATGACACACG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.20
Consensus pattern (41 bp):
ATATACAGCTCACAAACAGCTTAGTGGAGCACTTGGAAGAC
Found at i:6529222 original size:15 final size:15
Alignment explanation
Indices: 6529211--6529239 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6529201 ACTCAAAAAG
6529211 AAGAAAAGCAAAGAA
1 AAGAAAAGCAAAGAA
6529226 AAGAAAAG-AAAGAA
1 AAGAAAAGCAAAGAA
6529240 GTTGAAGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (15 bp):
AAGAAAAGCAAAGAA
Found at i:6534548 original size:30 final size:29
Alignment explanation
Indices: 6534514--6534602 Score: 94
Period size: 29 Copynumber: 3.0 Consensus size: 29
6534504 ACACATTGGG
*
6534514 ACAACTTGATGAAGCATTTGGAAGACACA
1 ACAACTTGATGGAGCATTTGGAAGACACA
6534543 TACAACTT-AGTGGAGCATTTTGGAAGACA-A
1 -ACAACTTGA-TGGAGCA-TTTGGAAGACACA
* *
6534573 ACAGCTTGGTGGAGCATTTAGG-AGACACA
1 ACAACTTGATGGAGCATTT-GGAAGACACA
6534602 A
1 A
6534603 ACAGTTCACA
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
28 8 0.16
29 18 0.35
30 14 0.27
31 11 0.22
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (29 bp):
ACAACTTGATGGAGCATTTGGAAGACACA
Found at i:6534568 original size:31 final size:30
Alignment explanation
Indices: 6534526--6534602 Score: 97
Period size: 29 Copynumber: 2.6 Consensus size: 30
6534516 AACTTGATGA
6534526 AGCA-TTTGGAAGACACATACAACTTAGTGG
1 AGCATTTTGGAAGACACA-ACAACTTAGTGG
* *
6534556 AGCATTTTGGAAGACA-AACAGCTTGGTGG
1 AGCATTTTGGAAGACACAACAACTTAGTGG
*
6534585 AGCATTTAGG-AGACACAA
1 AGCATTTTGGAAGACACAA
6534603 ACAGTTCACA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 5 0.12
29 21 0.50
30 5 0.12
31 11 0.26
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (30 bp):
AGCATTTTGGAAGACACAACAACTTAGTGG
Found at i:6542646 original size:30 final size:29
Alignment explanation
Indices: 6542612--6542704 Score: 102
Period size: 29 Copynumber: 3.1 Consensus size: 29
6542602 ACGTTGGGAA
*
6542612 AGCTTGATGAAGCATTTGGAAGACACATAC
1 AGCTTGATGGAGCATTTGGAAGACACA-AC
6542642 AGCTT-AGTGGAGCATTTTGGAAGACA-AAC
1 AGCTTGA-TGGAGCA-TTTGGAAGACACAAC
*
6542671 AGCTTGGTGGAGCATTTGGGAA-ACACAAAC
1 AGCTTGATGGAGCATTT-GGAAGACAC-AAC
6542701 AGCT
1 AGCT
6542705 CACAAAGAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
28 6 0.11
29 19 0.35
30 19 0.35
31 11 0.20
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (29 bp):
AGCTTGATGGAGCATTTGGAAGACACAAC
Found at i:6542680 original size:29 final size:29
Alignment explanation
Indices: 6542612--6542704 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 29
6542602 ACGTTGGGAA
* *
6542612 AGCTTGATGAAGCA-TTTGGAAGACACATAC
1 AGCTTGGTGGAGCATTTTGGAAGACA-A-AC
*
6542642 AGCTTAGTGGAGCATTTTGGAAGACAAAC
1 AGCTTGGTGGAGCATTTTGGAAGACAAAC
* *
6542671 AGCTTGGTGGAGCATTTGGGAAACACAAAC
1 AGCTTGGTGGAGCATTTTGG-AAGACAAAC
6542701 AGCT
1 AGCT
6542705 CACAAAGAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
29 20 0.36
30 24 0.44
31 11 0.20
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (29 bp):
AGCTTGGTGGAGCATTTTGGAAGACAAAC
Found at i:6544716 original size:33 final size:33
Alignment explanation
Indices: 6544637--6544740 Score: 95
Period size: 33 Copynumber: 3.1 Consensus size: 33
6544627 ATACAATCTG
* *
6544637 TCCATCACCATTATCACGCCTATATCATCA-CCATAT
1 TCCATCACCA-TATCACGCCAATAACATCATCC---T
6544673 TCCATCACCATATCACGCCAATAACATCATCCT
1 TCCATCACCATATCACGCCAATAACATCATCCT
* * * *
6544706 TCCATTACCATTTCATCACCATTAA-ATCATCCT
1 TCCATCACCATATCA-CGCCAATAACATCATCCT
6544739 TC
1 TC
6544741 ATTGATCAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
33 24 0.40
34 7 0.12
35 17 0.28
36 12 0.20
ACGTcount: A:0.31, C:0.37, G:0.02, T:0.31
Consensus pattern (33 bp):
TCCATCACCATATCACGCCAATAACATCATCCT
Found at i:6549131 original size:33 final size:33
Alignment explanation
Indices: 6549052--6549155 Score: 95
Period size: 33 Copynumber: 3.1 Consensus size: 33
6549042 ATACAATCTG
* *
6549052 TCCATCACCATTATCACGCCTATATCATCA-CCATAT
1 TCCATCACCA-TATCACGCCAATAACATCATCC---T
6549088 TCCATCACCATATCACGCCAATAACATCATCCT
1 TCCATCACCATATCACGCCAATAACATCATCCT
* * * *
6549121 TCCATTACCATTTCATCACCATTAA-ATCATCCT
1 TCCATCACCATATCA-CGCCAATAACATCATCCT
6549154 TC
1 TC
6549156 ATTCATCAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
33 24 0.40
34 7 0.12
35 17 0.28
36 12 0.20
ACGTcount: A:0.31, C:0.37, G:0.02, T:0.31
Consensus pattern (33 bp):
TCCATCACCATATCACGCCAATAACATCATCCT
Found at i:6561431 original size:187 final size:188
Alignment explanation
Indices: 6561116--6561490 Score: 743
Period size: 187 Copynumber: 2.0 Consensus size: 188
6561106 GTCATGCCTC
6561116 ATGGATTATATATGCCTTTGCCAATACCGACCATGCCATGGACAGATATCTCAATGGACTTTGTT
1 ATGGATTATATATGCCTTTGCCAATACCGACCATGCCATGGACAGATATCTCAATGGACTTTGTT
6561181 TTAGGCTTACCAAAGACAAAGAGTGGAAAGGATTCAATATTTGTGGTGGTTGATCGATTCTCCAA
66 TTAGGCTTACCAAAGACAAAGAGTGGAAAGGATTCAATATTTGTGGTGGTTGATCGATTCTCCAA
6561246 GATGGCTCACTTTATTCCATG-CACAAGACCGATGATGCTATTCATGTTGCTAACCTA
131 GATGGCTCACTTTATTCCATGCCACAAGACCGATGATGCTATTCATGTTGCTAACCTA
6561303 ATGGATTATATATGCCTTTGCCAATACCGACCATGCCATGGACAGATATCTCAATGGACTTTGTT
1 ATGGATTATATATGCCTTTGCCAATACCGACCATGCCATGGACAGATATCTCAATGGACTTTGTT
6561368 TTAGGCTTACCAAAGACAAAGAGTGGAAAGGATTCAATATTTGTGGTGGTTGATCGATTCTCCAA
66 TTAGGCTTACCAAAGACAAAGAGTGGAAAGGATTCAATATTTGTGGTGGTTGATCGATTCTCCAA
6561433 GATGGCTCACTTTATTCCATGCCACAAGACCGATGATGCTATTCATGTTGCTAACCTA
131 GATGGCTCACTTTATTCCATGCCACAAGACCGATGATGCTATTCATGTTGCTAACCTA
6561491 TTTTTTCGAG
Statistics
Matches: 187, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
187 151 0.81
188 36 0.19
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (188 bp):
ATGGATTATATATGCCTTTGCCAATACCGACCATGCCATGGACAGATATCTCAATGGACTTTGTT
TTAGGCTTACCAAAGACAAAGAGTGGAAAGGATTCAATATTTGTGGTGGTTGATCGATTCTCCAA
GATGGCTCACTTTATTCCATGCCACAAGACCGATGATGCTATTCATGTTGCTAACCTA
Found at i:6562759 original size:10 final size:10
Alignment explanation
Indices: 6562744--6562771 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
6562734 GATGTCAAAG
6562744 GTAGCTGAAT
1 GTAGCTGAAT
6562754 GTAGCTGAAT
1 GTAGCTGAAT
6562764 GTAGCTGA
1 GTAGCTGA
6562772 TTATGCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.29
Consensus pattern (10 bp):
GTAGCTGAAT
Found at i:6564655 original size:25 final size:24
Alignment explanation
Indices: 6564626--6564677 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
6564616 ATCAAAAAAG
*
6564626 AAATTGAAGCACTCCAAAAGAAATA
1 AAATTGAAGCACTCAAAAAG-AATA
**
6564651 AAATTTCAGCACTCAAAAAGAATA
1 AAATTGAAGCACTCAAAAAGAATA
6564675 AAA
1 AAA
6564678 AAACAAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.58, C:0.15, G:0.10, T:0.17
Consensus pattern (24 bp):
AAATTGAAGCACTCAAAAAGAATA
Found at i:6567971 original size:10 final size:11
Alignment explanation
Indices: 6567941--6567973 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
6567931 TTATATTTTA
6567941 TTTATCTTGTT
1 TTTATCTTGTT
*
6567952 TTAATCTTGTT
1 TTTATCTTGTT
6567963 TTTAT-TTGTT
1 TTTATCTTGTT
6567973 T
1 T
6567974 CCGCACCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 6 0.30
11 14 0.70
ACGTcount: A:0.12, C:0.06, G:0.09, T:0.73
Consensus pattern (11 bp):
TTTATCTTGTT
Found at i:6571827 original size:12 final size:12
Alignment explanation
Indices: 6571797--6571832 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
6571787 TATATTTTAT
6571797 TTATCTTGTTT-
1 TTATCTTGTTTC
*
6571808 TAATCTTGTTTC
1 TTATCTTGTTTC
6571820 TTATCTTGTTTC
1 TTATCTTGTTTC
6571832 T
1 T
6571833 AGCACCTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.11, C:0.14, G:0.08, T:0.67
Consensus pattern (12 bp):
TTATCTTGTTTC
Found at i:6579161 original size:14 final size:14
Alignment explanation
Indices: 6579142--6579174 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6579132 GTGCTTCCAA
6579142 CTTTTCTTTCTT-TT
1 CTTTTCTTT-TTCTT
6579156 CTTTTCTTTTTCTT
1 CTTTTCTTTTTCTT
6579170 CTTTT
1 CTTTT
6579175 TGAGTGCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 16 0.89
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
CTTTTCTTTTTCTT
Found at i:6587617 original size:24 final size:21
Alignment explanation
Indices: 6587582--6587624 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
6587572 GGCTAATTCT
*
6587582 TTTGAATTTCAAGAGGTACATCC
1 TTTGAATGTCAA-AGG-ACATCC
6587605 TTTGAAATGTCAAAGGACAT
1 TTTG-AATGTCAAAGGACAT
6587625 ATCTTGTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTGAATGTCAAAGGACATCC
Found at i:6593328 original size:201 final size:201
Alignment explanation
Indices: 6592977--6593377 Score: 757
Period size: 201 Copynumber: 2.0 Consensus size: 201
6592967 CAAGAAACCA
* *
6592977 AACTTCTTCGTAGAGATACATGATGGTTCAATACTGGAAAATGAAGGGACACCTACGAAAAGTGG
1 AACTTCTTCATAGAGATACATGATGGTTCAATACTAGAAAATGAAGGGACACCTACGAAAAGTGG
*
6593042 TGATGTTTGGGACTTAAAGTCACAACTCTTCGCCAATGATTTTAATCTACAAAATGTAAGTACCC
66 TGATGTTTGGGACTTAAAGTCACAACTCTTCGCCAATGATTTTAATCTACAAAAGGTAAGTACCC
6593107 CTTCATATGAAACCTTTTCTCTCCTCACTTTTCAGGACAAATCACGTGAAAGGTCACTTCCAAAA
131 CTTCATATGAAACCTTTTCTCTCCTCACTTTTCAGGACAAATCACGTGAAAGGTCACTTCCAAAA
6593172 GGGATT
196 GGGATT
6593178 AACTTCTTCATAGAGATACATGATGGTTCAATACTAGAAAATGAAGGGACACCTACGAAAAGTGG
1 AACTTCTTCATAGAGATACATGATGGTTCAATACTAGAAAATGAAGGGACACCTACGAAAAGTGG
6593243 TGATGTTTGGGACTTAAAGTCACAACTCTTCGCCAATGATTTTAATCTACAAAAGGTAAGTACCC
66 TGATGTTTGGGACTTAAAGTCACAACTCTTCGCCAATGATTTTAATCTACAAAAGGTAAGTACCC
* *
6593308 CTTCATATGAAACTTTTTCTCTCCTCACTTTTCAGGACAAATCACGTGAAATGTCACTTCCAAAA
131 CTTCATATGAAACCTTTTCTCTCCTCACTTTTCAGGACAAATCACGTGAAAGGTCACTTCCAAAA
6593373 GGGAT
196 GGGAT
6593378 ATCCCTAGAT
Statistics
Matches: 195, Mismatches: 5, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
201 195 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (201 bp):
AACTTCTTCATAGAGATACATGATGGTTCAATACTAGAAAATGAAGGGACACCTACGAAAAGTGG
TGATGTTTGGGACTTAAAGTCACAACTCTTCGCCAATGATTTTAATCTACAAAAGGTAAGTACCC
CTTCATATGAAACCTTTTCTCTCCTCACTTTTCAGGACAAATCACGTGAAAGGTCACTTCCAAAA
GGGATT
Found at i:6601441 original size:33 final size:33
Alignment explanation
Indices: 6601399--6601467 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
6601389 GTTGATGAAT
*
6601399 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
6601432 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
6601465 GAA
1 GAA
6601468 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:6605464 original size:14 final size:13
Alignment explanation
Indices: 6605442--6605479 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
6605432 TTGCTTTGAA
6605442 TTTTCTTCTTTTC
1 TTTTCTTCTTTTC
*
6605455 TTTTCTTTCTTTTG
1 TTTTC-TTCTTTTC
6605469 TTTTCTTCTTT
1 TTTTCTTCTTT
6605480 CTTGTTGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTTCTTCTTTTC
Found at i:6605878 original size:34 final size:33
Alignment explanation
Indices: 6605835--6605904 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 33
6605825 GTTGATGAAT
* *
6605835 GAAGGATGATTTTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
6605869 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
6605902 GAA
1 GAA
6605905 TATGGTGATG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
33 14 0.45
34 17 0.55
ACGTcount: A:0.31, C:0.01, G:0.36, T:0.31
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:6613139 original size:12 final size:12
Alignment explanation
Indices: 6613097--6613138 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 12
6613087 AAATTTTGGC
6613097 TTTTTTTGCTCTT
1 TTTTTTTG-TCTT
*
6613110 TTTTTTTG-CCT
1 TTTTTTTGTCTT
6613121 TTTTTTTGT-TT
1 TTTTTTTGTCTT
6613132 TTTTTTT
1 TTTTTTT
6613139 TAAAATAGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 18 0.69
13 8 0.31
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (12 bp):
TTTTTTTGTCTT
Found at i:6625437 original size:19 final size:21
Alignment explanation
Indices: 6625387--6625438 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
6625377 GAAACCCCTT
6625387 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
*
6625408 TGAAAAAACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
6625427 TGAAGATACATG
1 TGAAAATACATG
6625439 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.43
20 4 0.14
21 12 0.43
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.33
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:6628821 original size:5 final size:5
Alignment explanation
Indices: 6628811--6628839 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
6628801 GAACTTCTCT
6628811 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
6628840 TCTGATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:6628850 original size:19 final size:16
Alignment explanation
Indices: 6628808--6628858 Score: 59
Period size: 15 Copynumber: 3.1 Consensus size: 16
6628798 TTTGAACTTC
6628808 TCTTTTTCTTTTCTTT
1 TCTTTTTCTTTTCTTT
6628824 TC-TTTTCTTTTCTTTT
1 TCTTTTTCTTTTC-TTT
*
6628840 TCTGATTTTCTCTTCTTT
1 TCT--TTTTCTTTTCTTT
6628858 T
1 T
6628859 TGCACTCCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 10 0.33
16 7 0.23
18 4 0.13
19 9 0.30
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (16 bp):
TCTTTTTCTTTTCTTT
Found at i:6629604 original size:19 final size:20
Alignment explanation
Indices: 6629555--6629605 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
6629545 GAAACCCCTT
6629555 TGAAAATACATGATTTTAAA
1 TGAAAATACATGATTTTAAA
*
6629575 TGAAAAAACATGATTTT-AA
1 TGAAAATACATGATTTTAAA
*
6629594 TGAAGATACATG
1 TGAAAATACATG
6629606 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:6630547 original size:30 final size:30
Alignment explanation
Indices: 6630512--6630568 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
6630502 CTGCCATGAT
**
6630512 ATCTAAATGAAATGAAAACATAATAAATTA
1 ATCTAAAACAAATGAAAACATAATAAATTA
* *
6630542 ATCTAAAACATATGTAAACATAATAAA
1 ATCTAAAACAAATGAAAACATAATAAA
6630569 GCTAAGTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.60, C:0.09, G:0.05, T:0.26
Consensus pattern (30 bp):
ATCTAAAACAAATGAAAACATAATAAATTA
Found at i:6631862 original size:26 final size:25
Alignment explanation
Indices: 6631829--6631881 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 25
6631819 ATTTCTCATC
6631829 ACTCCCG-TCATCATTTTCAACTCCA
1 ACTCCCGTTCATCATTTTC-ACTCCA
6631854 ACTCTCCGTTCATCATTTTCACTCCA
1 ACTC-CCGTTCATCATTTTCACTCCA
6631880 AC
1 AC
6631882 ATTTGTTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 4 0.15
26 11 0.42
27 11 0.42
ACGTcount: A:0.23, C:0.40, G:0.04, T:0.34
Consensus pattern (25 bp):
ACTCCCGTTCATCATTTTCACTCCA
Found at i:6632518 original size:205 final size:205
Alignment explanation
Indices: 6632168--6632578 Score: 756
Period size: 205 Copynumber: 2.0 Consensus size: 205
6632158 CACTTTACCA
6632168 TTTACATGGCAACGAGTGTGAAATGTGTTTGTTCTTTGTTGTTCGTTCTCCATTGTTGGAAAGAT
1 TTTACATGGCAACGAGTGTGAAATGTGTTTGTTCTTTGTTGTTCGTTCTCCATTGTTGGAAAGAT
*
6632233 GAAGATCATAAGACATTGTTAGTCGAAAGAAAAAAAAATTAAAACTTACCAGCACGCTCTCAAAG
66 GAAGATCATAAGACATTGTTAGTAGAAAGAAAAAAAAATTAAAACTTACCAGCACGCTCTCAAAG
6632298 CCTCACAATCTTCACTCCAAAGAAAATTAAGAGATCACTCACTC-AC-CTTGTGTTTACTCTCGG
131 CCTCACAATCTTCACTCCAAAGAAAATTAAGAGATCACTCACTCAACACTTGTGTTTACTCTCGG
*
6632361 GGATATAATT
196 GAATATAATT
6632371 TTTACATGGCAACGAGTGTGAAATGTGTTTGTTCTTTGTTGTTCGTTCTCCATTGTTTGGAAAGA
1 TTTACATGGCAACGAGTGTGAAATGTGTTTGTTCTTTGTTGTTCGTTCTCCATTG-TTGGAAAGA
6632436 TGAAAGATCATAAGACATTGTTAGTAGAAAG-AAAAAAAATTAAAACCTTACCAGCACGCTCTCA
65 TG-AAGATCATAAGACATTGTTAGTAGAAAGAAAAAAAAATTAAAA-CTTACCAGCACGCTCTCA
6632500 AAGCCTCACAATCTTCACTCCAAAGAAAATTAAGAGATCACTCACTCAACACTTGTGTTTACTCT
128 AAGCCTCACAATCTTCACTCCAAAGAAAATTAAGAGATCACTCACTCAACACTTGTGTTTACTCT
6632565 CGGGAATATAATT
193 CGGGAATATAATT
6632578 T
1 T
6632579 GGCTTTTAAC
Statistics
Matches: 201, Mismatches: 2, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
203 55 0.27
204 25 0.12
205 92 0.46
206 2 0.01
207 27 0.13
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (205 bp):
TTTACATGGCAACGAGTGTGAAATGTGTTTGTTCTTTGTTGTTCGTTCTCCATTGTTGGAAAGAT
GAAGATCATAAGACATTGTTAGTAGAAAGAAAAAAAAATTAAAACTTACCAGCACGCTCTCAAAG
CCTCACAATCTTCACTCCAAAGAAAATTAAGAGATCACTCACTCAACACTTGTGTTTACTCTCGG
GAATATAATT
Found at i:6633627 original size:19 final size:20
Alignment explanation
Indices: 6633581--6633628 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
6633571 ACCCCTTTGA
6633581 AAATACATGATTTTTAAATG
1 AAATACATGATTTTTAAATG
*
6633601 AAAAACATGA-TTTT-AATG
1 AAATACATGATTTTTAAATG
6633619 AAGATACATG
1 AA-ATACATG
6633629 CTCTTGGCCG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 6 0.24
19 10 0.40
20 9 0.36
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.33
Consensus pattern (20 bp):
AAATACATGATTTTTAAATG
Found at i:6651317 original size:11 final size:13
Alignment explanation
Indices: 6651285--6651314 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6651275 TGGCCAAAGA
6651285 TGAAAAGGTATGT
1 TGAAAAGGTATGT
6651298 TGAAAAGGTATG-
1 TGAAAAGGTATGT
6651310 TGAAA
1 TGAAA
6651315 GGTGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:6654182 original size:36 final size:36
Alignment explanation
Indices: 6654130--6654242 Score: 174
Period size: 36 Copynumber: 3.2 Consensus size: 36
6654120 GATACTATTT
*
6654130 TCATCACCATAATCCATCTCCATTATCACGCCTATA
1 TCATCACCATAATCCATCACCATTATCACGCCTATA
*
6654166 TCATCACCATAGTCCATCACCATTATCACGCCTATA
1 TCATCACCATAATCCATCACCATTATCACGCCTATA
* *
6654202 TCATCACCATATTCCATCACCA-TATCACGCCAATA
1 TCATCACCATAATCCATCACCATTATCACGCCTATA
*
6654237 ACATCA
1 TCATCA
6654243 TCCTTCCATT
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
35 17 0.24
36 55 0.76
ACGTcount: A:0.33, C:0.36, G:0.04, T:0.27
Consensus pattern (36 bp):
TCATCACCATAATCCATCACCATTATCACGCCTATA
Found at i:6654185 original size:13 final size:11
Alignment explanation
Indices: 6654130--6654228 Score: 67
Period size: 13 Copynumber: 8.3 Consensus size: 11
6654120 GATACTATTT
6654130 TCATCACCATAA
1 TCATCACCAT-A
*
6654142 TCCATCTCCATTA
1 T-CATCACCA-TA
*
6654155 TCA-CGCCTATA
1 TCATCACC-ATA
6654166 TCATCACCATA
1 TCATCACCATA
6654177 GTCCATCACCATTA
1 -T-CATCACCA-TA
*
6654191 TCA-CGCCTATA
1 TCATCACC-ATA
6654202 TCATCACCATA
1 TCATCACCATA
6654213 TTCCATCACCATA
1 -T-CATCACCATA
6654226 TCA
1 TCA
6654229 CGCCAATAAC
Statistics
Matches: 71, Mismatches: 5, Indels: 23
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.34
12 16 0.23
13 28 0.39
14 3 0.04
ACGTcount: A:0.31, C:0.36, G:0.03, T:0.29
Consensus pattern (11 bp):
TCATCACCATA
Found at i:6654257 original size:33 final size:33
Alignment explanation
Indices: 6654142--6654281 Score: 97
Period size: 36 Copynumber: 4.1 Consensus size: 33
6654132 ATCACCATAA
* * *
6654142 TCCATCTCCATTATCACGCCTATATCATCA-CCAT
1 TCCATCACCA-TATCACGCCAATAACATCATCC-T
* *
6654176 AGTCCATCACCATTATCACGCCTATATCATCA-CCATAT
1 --TCCATCACCA-TATCACGCCAATAACATCATCC---T
6654214 TCCATCACCATATCACGCCAATAACATCATCCT
1 TCCATCACCATATCACGCCAATAACATCATCCT
* * * *
6654247 TCCATTACCATTTCATCACCATTAA-ATCATCCT
1 TCCATCACCATATCA-CGCCAATAACATCATCCT
6654280 TC
1 TC
6654282 ATTCATCAAC
Statistics
Matches: 93, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
33 24 0.26
34 7 0.08
35 17 0.18
36 43 0.46
38 2 0.02
ACGTcount: A:0.30, C:0.36, G:0.03, T:0.31
Consensus pattern (33 bp):
TCCATCACCATATCACGCCAATAACATCATCCT
Found at i:6657162 original size:23 final size:23
Alignment explanation
Indices: 6657119--6657163 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
6657109 TGTCTTTAGA
* *
6657119 AGAACCAATGGACGTGACCTATG
1 AGAACCAATGAACATGACCTATG
6657142 AGAATCCAATGAACATG-CCTAT
1 AGAA-CCAATGAACATGACCTAT
6657164 TGGAGTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (23 bp):
AGAACCAATGAACATGACCTATG
Found at i:6658708 original size:36 final size:36
Alignment explanation
Indices: 6658656--6658768 Score: 174
Period size: 36 Copynumber: 3.2 Consensus size: 36
6658646 GATACTATTT
*
6658656 TCATCACCATAATCCATCTCCATTATCACGCCTATA
1 TCATCACCATAATCCATCACCATTATCACGCCTATA
*
6658692 TCATCACCATAGTCCATCACCATTATCACGCCTATA
1 TCATCACCATAATCCATCACCATTATCACGCCTATA
* *
6658728 TCATCACCATATTCCATCACCA-TATCACGCCAATA
1 TCATCACCATAATCCATCACCATTATCACGCCTATA
*
6658763 ACATCA
1 TCATCA
6658769 TCCTTCCATT
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
35 17 0.24
36 55 0.76
ACGTcount: A:0.33, C:0.36, G:0.04, T:0.27
Consensus pattern (36 bp):
TCATCACCATAATCCATCACCATTATCACGCCTATA
Found at i:6658711 original size:13 final size:11
Alignment explanation
Indices: 6658656--6658754 Score: 67
Period size: 13 Copynumber: 8.3 Consensus size: 11
6658646 GATACTATTT
6658656 TCATCACCATAA
1 TCATCACCAT-A
*
6658668 TCCATCTCCATTA
1 T-CATCACCA-TA
*
6658681 TCA-CGCCTATA
1 TCATCACC-ATA
6658692 TCATCACCATA
1 TCATCACCATA
6658703 GTCCATCACCATTA
1 -T-CATCACCA-TA
*
6658717 TCA-CGCCTATA
1 TCATCACC-ATA
6658728 TCATCACCATA
1 TCATCACCATA
6658739 TTCCATCACCATA
1 -T-CATCACCATA
6658752 TCA
1 TCA
6658755 CGCCAATAAC
Statistics
Matches: 71, Mismatches: 5, Indels: 23
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.34
12 16 0.23
13 28 0.39
14 3 0.04
ACGTcount: A:0.31, C:0.36, G:0.03, T:0.29
Consensus pattern (11 bp):
TCATCACCATA
Found at i:6658783 original size:33 final size:33
Alignment explanation
Indices: 6658668--6658807 Score: 97
Period size: 36 Copynumber: 4.1 Consensus size: 33
6658658 ATCACCATAA
* * *
6658668 TCCATCTCCATTATCACGCCTATATCATCA-CCAT
1 TCCATCACCA-TATCACGCCAATAACATCATCC-T
* *
6658702 AGTCCATCACCATTATCACGCCTATATCATCA-CCATAT
1 --TCCATCACCA-TATCACGCCAATAACATCATCC---T
6658740 TCCATCACCATATCACGCCAATAACATCATCCT
1 TCCATCACCATATCACGCCAATAACATCATCCT
* * * *
6658773 TCCATTACCATTTCATCACCATTAA-ATCATCCT
1 TCCATCACCATATCA-CGCCAATAACATCATCCT
6658806 TC
1 TC
6658808 ATTCATCAAC
Statistics
Matches: 93, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
33 24 0.26
34 7 0.08
35 17 0.18
36 43 0.46
38 2 0.02
ACGTcount: A:0.30, C:0.36, G:0.03, T:0.31
Consensus pattern (33 bp):
TCCATCACCATATCACGCCAATAACATCATCCT
Found at i:6661466 original size:14 final size:14
Alignment explanation
Indices: 6661436--6661490 Score: 85
Period size: 14 Copynumber: 4.0 Consensus size: 14
6661426 TTGGCGTGAA
*
6661436 GGTGATGG-AATAT
1 GGTGATGGAAAGAT
6661449 GGTGATGGAAAGAT
1 GGTGATGGAAAGAT
*
6661463 GGTGATGGAAATAT
1 GGTGATGGAAAGAT
6661477 GGTGATGGAAAGAT
1 GGTGATGGAAAGAT
6661491 AGTATCTTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
13 8 0.21
14 30 0.79
ACGTcount: A:0.35, C:0.00, G:0.40, T:0.25
Consensus pattern (14 bp):
GGTGATGGAAAGAT
Found at i:6661481 original size:28 final size:27
Alignment explanation
Indices: 6661436--6661490 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 27
6661426 TTGGCGTGAA
6661436 GGTGATGGAATATGGTGATGGAAAGAT
1 GGTGATGGAATATGGTGATGGAAAGAT
6661463 GGTGATGGAAATATGGTGATGGAAAGAT
1 GGTGATGG-AATATGGTGATGGAAAGAT
6661491 AGTATCTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.35, C:0.00, G:0.40, T:0.25
Consensus pattern (27 bp):
GGTGATGGAATATGGTGATGGAAAGAT
Found at i:6666611 original size:10 final size:10
Alignment explanation
Indices: 6666596--6666631 Score: 72
Period size: 10 Copynumber: 3.6 Consensus size: 10
6666586 TTCAACTTTC
6666596 TTTCTTTCCT
1 TTTCTTTCCT
6666606 TTTCTTTCCT
1 TTTCTTTCCT
6666616 TTTCTTTCCT
1 TTTCTTTCCT
6666626 TTTCTT
1 TTTCTT
6666632 CTTTTTGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTCTTTCCT
Found at i:6670615 original size:11 final size:11
Alignment explanation
Indices: 6670599--6670636 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
6670589 AATTTGGTGA
6670599 TGATATAGGCG
1 TGATATAGGCG
*
6670610 TGATAT-GGTG
1 TGATATAGGCG
6670620 ATGATATAGGCG
1 -TGATATAGGCG
6670632 TGATA
1 TGATA
6670637 ATGGCGATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 3 0.13
11 17 0.74
12 3 0.13
ACGTcount: A:0.29, C:0.05, G:0.34, T:0.32
Consensus pattern (11 bp):
TGATATAGGCG
Found at i:6670621 original size:22 final size:23
Alignment explanation
Indices: 6670593--6670645 Score: 90
Period size: 22 Copynumber: 2.3 Consensus size: 23
6670583 AAATGGAATT
6670593 TGGTGATGATATAGGCGTGAT-A
1 TGGTGATGATATAGGCGTGATAA
6670615 TGGTGATGATATAGGCGTGATAA
1 TGGTGATGATATAGGCGTGATAA
*
6670638 TGGCGATG
1 TGGTGATG
6670646 GAAGATGGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.26, C:0.06, G:0.38, T:0.30
Consensus pattern (23 bp):
TGGTGATGATATAGGCGTGATAA
Found at i:6674219 original size:20 final size:20
Alignment explanation
Indices: 6674194--6674233 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
6674184 AATGAAAATG
6674194 AAATGGAAAAAGGAAAGAAT
1 AAATGGAAAAAGGAAAGAAT
*
6674214 AAATGGAAAAATGAAAGAAT
1 AAATGGAAAAAGGAAAGAAT
6674234 TGAAATGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.23, T:0.12
Consensus pattern (20 bp):
AAATGGAAAAAGGAAAGAAT
Found at i:6674464 original size:36 final size:35
Alignment explanation
Indices: 6674390--6674490 Score: 139
Period size: 36 Copynumber: 2.8 Consensus size: 35
6674380 AAATGGAATT
* * **
6674390 TGGTGATGATATAGCCATGATATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATATGGTGATGGAAGA
6674425 TGGTGATGATATAGGCGTGATAATGGTGATGGAAGA
1 TGGTGATGATATAGGCGTGAT-ATGGTGATGGAAGA
*
6674461 TGGTGAAGATATAGGCGTGATGATGGTGAT
1 TGGTGATGATATAGGCGTGAT-ATGGTGAT
6674491 AGACAGATTG
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
35 19 0.32
36 40 0.68
ACGTcount: A:0.29, C:0.05, G:0.37, T:0.30
Consensus pattern (35 bp):
TGGTGATGATATAGGCGTGATATGGTGATGGAAGA
Found at i:6676170 original size:19 final size:20
Alignment explanation
Indices: 6676123--6676173 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
6676113 GAAAACCCTT
**
6676123 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
6676143 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
6676162 TGAAGATACATG
1 TGAAAATACATG
6676174 CTCTTGGCTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:6678035 original size:24 final size:24
Alignment explanation
Indices: 6677961--6678035 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 24
6677951 TTTGAAATGT
* *
6677961 AAAAGGACATGTCT-TGTGGATCACC
1 AAAA-GACATGTCTAT-TGAATCATC
* * *
6677986 AAAAGTCATGTCTATTGATTCTTC
1 AAAAGACATGTCTATTGAATCATC
* *
6678010 AAAAGACATGTTTCTTGAATCATC
1 AAAAGACATGTCTATTGAATCATC
6678034 AA
1 AA
6678036 CTTGAAGAGA
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
24 34 0.87
25 5 0.13
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (24 bp):
AAAAGACATGTCTATTGAATCATC
Found at i:6679386 original size:13 final size:11
Alignment explanation
Indices: 6679366--6679464 Score: 67
Period size: 13 Copynumber: 8.3 Consensus size: 11
6679356 AATATAGGCG
6679366 TGATATGGTGA
1 TGATATGGTGA
6679377 TGGAATATGGTGA
1 T-G-ATATGGTGA
*
6679390 TGATATAGGCG-
1 TGATAT-GGTGA
6679401 TGATAATGGTGA
1 TGAT-ATGGTGA
6679413 TGGACTATGGTGA
1 T-GA-TATGGTGA
*
6679426 TGATATAGGCG-
1 TGATAT-GGTGA
6679437 TGATAATGGTGA
1 TGAT-ATGGTGA
*
6679449 TGGAAGATGGTGA
1 T-G-ATATGGTGA
6679462 TGA
1 TGA
6679465 ACAGATTGTA
Statistics
Matches: 71, Mismatches: 5, Indels: 24
0.71 0.05 0.24
Matches are distributed among these distances:
11 23 0.32
12 17 0.24
13 29 0.41
14 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.30
Consensus pattern (11 bp):
TGATATGGTGA
Found at i:6679422 original size:36 final size:36
Alignment explanation
Indices: 6679349--6679464 Score: 198
Period size: 36 Copynumber: 3.2 Consensus size: 36
6679339 ATTTAGAAGT
*
6679349 TGGTGATAATATAGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
*
6679384 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
*
6679420 TGGTGATGATATAGGCGTGATAATGGTGATGGAAGA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
6679456 TGGTGATGA
1 TGGTGATGA
6679465 ACAGATTGTA
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
35 20 0.26
36 56 0.74
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.30
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
Found at i:6679844 original size:19 final size:20
Alignment explanation
Indices: 6679806--6679848 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
6679796 GAAATCCCTT
*
6679806 TGAAAACACATGATTTTTAA
1 TGAAAACACATGAATTTTAA
*
6679826 TGAAAATACAT-AATTTTAA
1 TGAAAACACATGAATTTTAA
6679845 TGAA
1 TGAA
6679849 GATAAATGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (20 bp):
TGAAAACACATGAATTTTAA
Found at i:6683195 original size:15 final size:15
Alignment explanation
Indices: 6683171--6683206 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
6683161 TTCTTCAATT
*
6683171 AAGAAATGAAATGGA
1 AAGAATTGAAATGGA
6683186 AAGAATTGAAATGGA
1 AAGAATTGAAATGGA
*
6683201 TAGAAT
1 AAGAAT
6683207 AGTTATCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.25, T:0.19
Consensus pattern (15 bp):
AAGAATTGAAATGGA
Found at i:6683385 original size:13 final size:11
Alignment explanation
Indices: 6683365--6683463 Score: 67
Period size: 13 Copynumber: 8.3 Consensus size: 11
6683355 AATATAGGCG
6683365 TGATATGGTGA
1 TGATATGGTGA
6683376 TGGAATATGGTGA
1 T-G-ATATGGTGA
*
6683389 TGATATAGGCG-
1 TGATAT-GGTGA
6683400 TGATAATGGTGA
1 TGAT-ATGGTGA
6683412 TGGACTATGGTGA
1 T-GA-TATGGTGA
*
6683425 TGATATAGGCG-
1 TGATAT-GGTGA
6683436 TGATAATGGTGA
1 TGAT-ATGGTGA
*
6683448 TGGAAGATGGTGA
1 T-G-ATATGGTGA
6683461 TGA
1 TGA
6683464 ACAGGTTGTA
Statistics
Matches: 71, Mismatches: 5, Indels: 24
0.71 0.05 0.24
Matches are distributed among these distances:
11 23 0.32
12 17 0.24
13 29 0.41
14 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.30
Consensus pattern (11 bp):
TGATATGGTGA
Found at i:6683421 original size:36 final size:36
Alignment explanation
Indices: 6683348--6683463 Score: 198
Period size: 36 Copynumber: 3.2 Consensus size: 36
6683338 ATTTAGAAGT
*
6683348 TGGTGATAATATAGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
*
6683383 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
*
6683419 TGGTGATGATATAGGCGTGATAATGGTGATGGAAGA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
6683455 TGGTGATGA
1 TGGTGATGA
6683464 ACAGGTTGTA
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
35 20 0.26
36 56 0.74
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.30
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
Found at i:6683843 original size:19 final size:20
Alignment explanation
Indices: 6683805--6683847 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
6683795 GAAAACCCTT
*
6683805 TGAAAACACATGATTTTTAA
1 TGAAAACACATGAATTTTAA
*
6683825 TGAAAATACAT-AATTTTAA
1 TGAAAACACATGAATTTTAA
6683844 TGAA
1 TGAA
6683848 GATAAATGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (20 bp):
TGAAAACACATGAATTTTAA
Found at i:6685579 original size:16 final size:17
Alignment explanation
Indices: 6685541--6685581 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
6685531 TAAGATTAGA
6685541 ATAAAATAAACCAAAAG
1 ATAAAATAAACCAAAAG
**
6685558 AT-AAATAAA-CGGAAG
1 ATAAAATAAACCAAAAG
6685573 ATAAAATAA
1 ATAAAATAA
6685582 GATAATAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 6 0.29
16 13 0.62
17 2 0.10
ACGTcount: A:0.68, C:0.07, G:0.10, T:0.15
Consensus pattern (17 bp):
ATAAAATAAACCAAAAG
Found at i:6689882 original size:21 final size:19
Alignment explanation
Indices: 6689852--6689902 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
6689842 TTTTTTGAAA
* *
6689852 TTTTGGTTTTTTTGGCTCTT
1 TTTTTGTTTTTTTTGC-CTT
6689872 TTTTTGTTTTTTTTGCCTT
1 TTTTTGTTTTTTTTGCCTT
6689891 TTTTT-TTTTTTT
1 TTTTTGTTTTTTT
6689903 GAAAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 7 0.24
19 8 0.28
20 14 0.48
ACGTcount: A:0.00, C:0.08, G:0.12, T:0.80
Consensus pattern (19 bp):
TTTTTGTTTTTTTTGCCTT
Found at i:6694087 original size:9 final size:9
Alignment explanation
Indices: 6694073--6694160 Score: 86
Period size: 9 Copynumber: 9.3 Consensus size: 9
6694063 CTGCCAGAAA
6694073 ACCGGTTTG
1 ACCGGTTTG
*
6694082 ACCGGTTCG
1 ACCGGTTTG
6694091 AACCGGTTTG
1 -ACCGGTTTG
*
6694101 ACCGGTTCG
1 ACCGGTTTG
6694110 AACCGGTTTG
1 -ACCGGTTTG
**
6694120 ACCGGTTCAA
1 ACCGGTT-TG
6694130 ACCGGTTTG
1 ACCGGTTTG
*
6694139 ACCGGTCTTA
1 ACCGGT-TTG
*
6694149 ACCGGGTTG
1 ACCGGTTTG
6694158 ACC
1 ACC
6694161 CGACCTGACT
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
9 34 0.53
10 30 0.47
ACGTcount: A:0.17, C:0.27, G:0.30, T:0.26
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:6694152 original size:10 final size:9
Alignment explanation
Indices: 6694072--6694153 Score: 65
Period size: 10 Copynumber: 8.7 Consensus size: 9
6694062 GCTGCCAGAA
6694072 AACCGGTTT
1 AACCGGTTT
* *
6694081 GACCGGTTCG
1 AACCGGTT-T
6694091 AACCGGTTT
1 AACCGGTTT
* *
6694100 GACCGGTTCG
1 AACCGGTT-T
6694110 AACCGGTTT
1 AACCGGTTT
* *
6694119 GACCGGTTCA
1 AACCGGTT-T
6694129 AACCGGTTT
1 AACCGGTTT
*
6694138 GACCGGTCTT
1 AACCGGT-TT
6694148 AACCGG
1 AACCGG
6694154 GTTGACCCGA
Statistics
Matches: 55, Mismatches: 14, Indels: 7
0.72 0.18 0.09
Matches are distributed among these distances:
9 27 0.49
10 28 0.51
ACGTcount: A:0.18, C:0.27, G:0.29, T:0.26
Consensus pattern (9 bp):
AACCGGTTT
Found at i:6694160 original size:19 final size:19
Alignment explanation
Indices: 6694072--6694144 Score: 137
Period size: 19 Copynumber: 3.8 Consensus size: 19
6694062 GCTGCCAGAA
6694072 AACCGGTTTGACCGGTTCG
1 AACCGGTTTGACCGGTTCG
6694091 AACCGGTTTGACCGGTTCG
1 AACCGGTTTGACCGGTTCG
*
6694110 AACCGGTTTGACCGGTTCA
1 AACCGGTTTGACCGGTTCG
6694129 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
6694145 CTTAACCGGG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 53 1.00
ACGTcount: A:0.18, C:0.26, G:0.30, T:0.26
Consensus pattern (19 bp):
AACCGGTTTGACCGGTTCG
Found at i:6694176 original size:17 final size:17
Alignment explanation
Indices: 6694154--6694194 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
6694144 TCTTAACCGG
* *
6694154 GTTGACCCGACCTGACT
1 GTTGACCCGACCCGACC
6694171 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
6694188 GTTGACC
1 GTTGACC
6694195 GTTGACCGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.17, C:0.39, G:0.24, T:0.20
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:6694194 original size:7 final size:7
Alignment explanation
Indices: 6694184--6694214 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
6694174 GACCCGACCC
6694184 GACCGTT
1 GACCGTT
6694191 GACCGTT
1 GACCGTT
6694198 GACCGTT
1 GACCGTT
*
6694205 GATCGTT
1 GACCGTT
6694212 GAC
1 GAC
6694215 TTTCTTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.29
Consensus pattern (7 bp):
GACCGTT
Found at i:6701419 original size:10 final size:10
Alignment explanation
Indices: 6701406--6701458 Score: 65
Period size: 10 Copynumber: 5.5 Consensus size: 10
6701396 TTTGACCAGT
6701406 TTTGAACCGG
1 TTTGAACCGG
6701416 TTTG-ACCGG
1 TTTGAACCGG
*
6701425 TCTGAACCGG
1 TTTGAACCGG
6701435 TTTG-ACCGG
1 TTTGAACCGG
*
6701444 TCTGAACCGG
1 TTTGAACCGG
*
6701454 GTTGA
1 TTTGA
6701459 CCCGACCCGA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 16 0.44
10 20 0.56
ACGTcount: A:0.17, C:0.23, G:0.32, T:0.28
Consensus pattern (10 bp):
TTTGAACCGG
Found at i:6701423 original size:9 final size:9
Alignment explanation
Indices: 6701394--6701460 Score: 62
Period size: 10 Copynumber: 7.0 Consensus size: 9
6701384 CTGGAAAACT
6701394 GGTTTGACC
1 GGTTTGACC
*
6701403 AGTTTTGAACC
1 -GGTTTG-ACC
6701414 GGTTTGACC
1 GGTTTGACC
*
6701423 GGTCTGAACC
1 GGTTTG-ACC
6701433 GGTTTGACC
1 GGTTTGACC
*
6701442 GGTCTGAACC
1 GGTTTG-ACC
*
6701452 GGGTTGACC
1 GGTTTGACC
6701461 CGACCCGACT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
9 19 0.40
10 25 0.53
11 3 0.06
ACGTcount: A:0.16, C:0.24, G:0.31, T:0.28
Consensus pattern (9 bp):
GGTTTGACC
Found at i:6701432 original size:19 final size:19
Alignment explanation
Indices: 6701394--6701460 Score: 98
Period size: 19 Copynumber: 3.5 Consensus size: 19
6701384 CTGGAAAACT
* *
6701394 GGTTTGACCAGTTTTGAACC
1 GGTTTGACC-GGTCTGAACC
6701414 GGTTTGACCGGTCTGAACC
1 GGTTTGACCGGTCTGAACC
6701433 GGTTTGACCGGTCTGAACC
1 GGTTTGACCGGTCTGAACC
*
6701452 GGGTTGACC
1 GGTTTGACC
6701461 CGACCCGACT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 35 0.80
20 9 0.20
ACGTcount: A:0.16, C:0.24, G:0.31, T:0.28
Consensus pattern (19 bp):
GGTTTGACCGGTCTGAACC
Found at i:6701476 original size:17 final size:17
Alignment explanation
Indices: 6701454--6701494 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
6701444 TCTGAACCGG
*
6701454 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
*
6701471 GTTGACCCGACTCGACC
1 GTTGACCCGACCCGACC
6701488 GTTGACC
1 GTTGACC
6701495 GTGACCGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.17, C:0.39, G:0.24, T:0.20
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:6705690 original size:19 final size:20
Alignment explanation
Indices: 6705661--6705701 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
6705651 CATCTCTATC
6705661 TTTTTATTTATTTCA-TTTCA
1 TTTTTATTTATTT-ATTTTCA
6705681 TTTTTA-TTATTTATTTTCA
1 TTTTTATTTATTTATTTTCA
6705700 TT
1 TT
6705702 ACTTATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 1 0.05
19 13 0.65
20 6 0.30
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTTATTTATTTATTTTCA
Found at i:6705935 original size:2 final size:2
Alignment explanation
Indices: 6705928--6705980 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
6705918 ATGGTAGCGG
6705928 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6705970 AT AT AT AT AT A
1 AT AT AT AT AT A
6705981 AGTTGGTGAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6707629 original size:25 final size:23
Alignment explanation
Indices: 6707589--6707635 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
6707579 TTGGCTTGCT
6707589 TTCTTTTTTGACTTTTCTTCTTC
1 TTCTTTTTTGACTTTTCTTCTTC
*
6707612 TTCTTCTTTTGAATTTTTCTTCTT
1 TTCTT-TTTTG-ACTTTTCTTCTT
6707636 TTTGTCTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 5 0.24
25 11 0.52
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.70
Consensus pattern (23 bp):
TTCTTTTTTGACTTTTCTTCTTC
Found at i:6715738 original size:172 final size:174
Alignment explanation
Indices: 6715451--6715797 Score: 680
Period size: 172 Copynumber: 2.0 Consensus size: 174
6715441 TGAATGCCAA
6715451 AGCCTATTTATAGATTTGTAAAGGTTTGGCCGAATAAATACATGCCTTTTCGGCAAAGTACATGT
1 AGCCTATTTATAGATTTGTAAAGGTTTGGCCGAATAAATACATGCCTTTTCGGCAAAGTACATGT
6715516 CTTAAAACAAAAATAAATGATGCTTGGATGAGGGGAGATGTCTTTGGCCGAATGGTTCCCATATC
66 CTTAAAACAAAAATAAATGATGCTTGGATGAGGGGAGATGTCTTTGGCCGAATGGTTCCCATATC
6715581 TCTTCATCTTGGCACCAAC-TGAAACATGATGATGTTTAGGCCG
131 TCTTCATCTTGGCACCAACTTGAAACATGATGATGTTTAGGCCG
6715624 AGCCTATTTATAGATTTGTAAAGGTTTGGCCG-ATAAATACATGCCTTTTCGGCAAAGTACATGT
1 AGCCTATTTATAGATTTGTAAAGGTTTGGCCGAATAAATACATGCCTTTTCGGCAAAGTACATGT
6715688 CTTAAAACAAAAATAAATGATGCTTGGATGAGGGGAGATGTCTTTGGCCGAATGGTTCCCATATC
66 CTTAAAACAAAAATAAATGATGCTTGGATGAGGGGAGATGTCTTTGGCCGAATGGTTCCCATATC
6715753 TCTTCATCTTGGCACCAACTTGAAACATGATGATGTTTAGGCCG
131 TCTTCATCTTGGCACCAACTTGAAACATGATGATGTTTAGGCCG
6715797 A
1 A
6715798 ATAGAGAGAA
Statistics
Matches: 173, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
172 116 0.67
173 57 0.33
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (174 bp):
AGCCTATTTATAGATTTGTAAAGGTTTGGCCGAATAAATACATGCCTTTTCGGCAAAGTACATGT
CTTAAAACAAAAATAAATGATGCTTGGATGAGGGGAGATGTCTTTGGCCGAATGGTTCCCATATC
TCTTCATCTTGGCACCAACTTGAAACATGATGATGTTTAGGCCG
Found at i:6719280 original size:23 final size:24
Alignment explanation
Indices: 6719253--6719301 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
6719243 GTATTTGCAA
6719253 TTTTGATTC-ACTTTTTCTTTGCT
1 TTTTGATTCTACTTTTTCTTTGCT
* *
6719276 TTTTGATTCTTCTTTTTCTTTTCT
1 TTTTGATTCTACTTTTTCTTTGCT
6719300 TT
1 TT
6719302 CTTTTGCACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.06, C:0.16, G:0.06, T:0.71
Consensus pattern (24 bp):
TTTTGATTCTACTTTTTCTTTGCT
Found at i:6719359 original size:7 final size:6
Alignment explanation
Indices: 6719330--6719379 Score: 66
Period size: 6 Copynumber: 8.2 Consensus size: 6
6719320 AATGTAGGAG
*
6719330 TCTTTT TC-TTT TCTTTT TCTTTT TCTTTT TCTTCTT TCTTGTT GCTTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTT-TT TCTT-TT TCTTTT
6719379 T
1 T
6719380 GTTGTAGCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
5 5 0.13
6 23 0.59
7 11 0.28
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.78
Consensus pattern (6 bp):
TCTTTT
Found at i:6723942 original size:28 final size:27
Alignment explanation
Indices: 6723888--6723945 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
6723878 TTTCTTTGCT
* * *
6723888 TTTCTTCTTTTTGAGTGCTGGATTTTC
1 TTTCTTCTTTTGGAGTGCTGCAATTTC
*
6723915 TTTCTTTCTTTTGGAGTGCTTCAATTTC
1 TTTC-TTCTTTTGGAGTGCTGCAATTTC
6723943 TTT
1 TTT
6723946 TTTGATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.09, C:0.16, G:0.16, T:0.60
Consensus pattern (27 bp):
TTTCTTCTTTTGGAGTGCTGCAATTTC
Found at i:6726181 original size:201 final size:201
Alignment explanation
Indices: 6725836--6726215 Score: 733
Period size: 201 Copynumber: 1.9 Consensus size: 201
6725826 CCTTTTGGAA
*
6725836 TCACGTGATTTGTCCTGAAAAGTGAGGAGAGAAAAGGTTTCATATGAAGGGGTACTTACCTTTTG
1 TCACGTGATTTGTCCTGAAAAGTGAGGAGAGAAAAGGTTTCATATGAAGGGGTACTTACATTTTG
6725901 TAGATTAAAATCATTGGCGAAGAGTTGTGACTTTAAGTCCCAAACATCACCACTTTTCGTAGGTG
66 TAGATTAAAATCATTGGCGAAGAGTTGTGACTTTAAGTCCCAAACATCACCACTTTTCGTAGGTG
*
6725966 TCCCTTCATTTTCCAGTATTGAACCATCATGTATCTCTATGAATAAGTTAATCCCTTTTGGAAGT
131 TCCCTTCATTTTCCAGTATTGAACCATCATGTATCTCTATGAAGAAGTTAATCCCTTTTGGAAGT
6726031 GACCTT
196 GACCTT
*
6726037 TCACGTGATTTGTCCTGAAAAGTGAGGAGAGAAAATGTTTCATATGAAGGGGTACTTACATTTTG
1 TCACGTGATTTGTCCTGAAAAGTGAGGAGAGAAAAGGTTTCATATGAAGGGGTACTTACATTTTG
6726102 TAGATTAAAATCATTGGCGAAGAGTTGTGACTTTAAGTCCCAAACATCACCACTTTTCGTAGGTG
66 TAGATTAAAATCATTGGCGAAGAGTTGTGACTTTAAGTCCCAAACATCACCACTTTTCGTAGGTG
6726167 TCCCTTCATTTTCCAGTATTGAACCATCATGTATCTCTATGAAGAAGTT
131 TCCCTTCATTTTCCAGTATTGAACCATCATGTATCTCTATGAAGAAGTT
6726216 TGGTTTCTTG
Statistics
Matches: 176, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
201 176 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (201 bp):
TCACGTGATTTGTCCTGAAAAGTGAGGAGAGAAAAGGTTTCATATGAAGGGGTACTTACATTTTG
TAGATTAAAATCATTGGCGAAGAGTTGTGACTTTAAGTCCCAAACATCACCACTTTTCGTAGGTG
TCCCTTCATTTTCCAGTATTGAACCATCATGTATCTCTATGAAGAAGTTAATCCCTTTTGGAAGT
GACCTT
Found at i:6728351 original size:24 final size:24
Alignment explanation
Indices: 6728324--6728378 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
6728314 CCAACTTTTC
6728324 TTTCTTTTTTCTTC-TTTTGAGTG
1 TTTCTTTTTTCTTCTTTTTGAGTG
**
6728347 TTT-TCAATTTCTTCTTTTTGAGTG
1 TTTCT-TTTTTCTTCTTTTTGAGTG
*
6728371 CTTCTTTT
1 TTTCTTTT
6728379 CTGATTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 5
0.71 0.15 0.15
Matches are distributed among these distances:
22 1 0.04
23 10 0.42
24 12 0.50
25 1 0.04
ACGTcount: A:0.07, C:0.15, G:0.11, T:0.67
Consensus pattern (24 bp):
TTTCTTTTTTCTTCTTTTTGAGTG
Found at i:6740793 original size:24 final size:24
Alignment explanation
Indices: 6740748--6740793 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
6740738 GATTTCCATT
* *
6740748 GGCACATTCTTTTGAATTTCAAGG
1 GGCACATTCCTTTGAATGTCAAGG
6740772 GGCACA-TCCTTTGAAATGTCAA
1 GGCACATTCCTTTG-AATGTCAA
6740794 AGGACTGTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (24 bp):
GGCACATTCCTTTGAATGTCAAGG
Found at i:6741133 original size:30 final size:31
Alignment explanation
Indices: 6741088--6741147 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
6741078 CTTAGCTTTA
**
6741088 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
* *
6741118 TATTTTGTTTGCATATCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
6741148 GGCAGCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.55
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:6742040 original size:19 final size:20
Alignment explanation
Indices: 6742001--6742051 Score: 95
Period size: 19 Copynumber: 2.6 Consensus size: 20
6741991 TGGCCAAGAG
6742001 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
6742021 CATGTATTTTCATC-AAAAT
1 CATGTATTTTCATCAAAAAT
6742040 CATGTATTTTCA
1 CATGTATTTTCA
6742052 AAGGGGTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:6743687 original size:332 final size:336
Alignment explanation
Indices: 6743077--6743744 Score: 1308
Period size: 332 Copynumber: 2.0 Consensus size: 336
6743067 CTATTTGCAG
6743077 CCGACGCACACAAGGAAAGAATTAACTTGTTCTAATCTTGAGTAAGTTTTTCAAAGGACATAACA
1 CCGACGCACACAAGGAAAGAATTAACTTGTTCTAATCTTGAGTAAGTTTTTCAAAGGACATAACA
6743142 AGAGAAATTGAGTGGAAAAAGGCTGATTGAGAGAGTGAGATCAGAAGGGGAATTGTTAAAAGCCA
66 AGAGAAATTGAGTGGAAAAAGGCTGATTGAGAGAGTGAGATCAGAAGGGGAATTGTTAAAAGCCA
6743207 AATTATATTCCCAAGAGTAAACACGAGTGTTGAGTGGAGTGATCTCTTAATTTTCTTTTGAGTGA
131 AATTATATTCCCAAGAGTAAACACGAGTGTTGAGTGGAGTGATCTCTTAATTTTCTTTTGAGTGA
6743272 AGATTGTGAGGCTTTGAGAGCGTGCTGGTAAGGTTTTAATTTTTTTTTTCTACTAACAATGTTTT
196 AGATTGTGAGGCTTTGAGAGCGTGCTGGTAAGGTTTTAATTTTTTTTTTCTACTAACAATGTTTT
6743337 ATGATCTTTCATCTTTCCAAACAATGGAGAACGAACAACAAAGAACAAACATATTTCACACTCGA
261 ATGATCTTTCATCTTTCCAAACAATGGAGAACGAACAACAAAGAACAAACATATTTCACACTCGA
6743402 TGCCATGTAAA
326 TGCCATGTAAA
6743413 CCGACGCACACAAGGAAAGAATTAACTTGTTCTAATCTTGAGTAAG-TTTTC-AAGGACATAACA
1 CCGACGCACACAAGGAAAGAATTAACTTGTTCTAATCTTGAGTAAGTTTTTCAAAGGACATAACA
6743476 AGAGAAATTGAGTGGAAAAAGGCTGATTGAGAGAGTGAGATCAGAAGGGGAATTGTTAAAAGCCA
66 AGAGAAATTGAGTGGAAAAAGGCTGATTGAGAGAGTGAGATCAGAAGGGGAATTGTTAAAAGCCA
6743541 AA-T-TATTCCCAAGAGTAAACACGAGTGTTGAGTGGAGTGATCTCTTAATTTTCTTTTGAGTGA
131 AATTATATTCCCAAGAGTAAACACGAGTGTTGAGTGGAGTGATCTCTTAATTTTCTTTTGAGTGA
6743604 AGATTGTGAGGCTTTGAGAGCGTGCTGGTAAGGTTTTAATTTTTTTTTTCTACTAACAATGTTTT
196 AGATTGTGAGGCTTTGAGAGCGTGCTGGTAAGGTTTTAATTTTTTTTTTCTACTAACAATGTTTT
6743669 ATGATCTTTCATCTTTCCAAACAATGGAGAACGAACAACAAAGAACAAACATATTTCACACTCGA
261 ATGATCTTTCATCTTTCCAAACAATGGAGAACGAACAACAAAGAACAAACATATTTCACACTCGA
6743734 TGCCATGTAAA
326 TGCCATGTAAA
6743745 TGGTAAAGTG
Statistics
Matches: 332, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
332 201 0.61
333 1 0.00
334 79 0.24
335 5 0.02
336 46 0.14
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (336 bp):
CCGACGCACACAAGGAAAGAATTAACTTGTTCTAATCTTGAGTAAGTTTTTCAAAGGACATAACA
AGAGAAATTGAGTGGAAAAAGGCTGATTGAGAGAGTGAGATCAGAAGGGGAATTGTTAAAAGCCA
AATTATATTCCCAAGAGTAAACACGAGTGTTGAGTGGAGTGATCTCTTAATTTTCTTTTGAGTGA
AGATTGTGAGGCTTTGAGAGCGTGCTGGTAAGGTTTTAATTTTTTTTTTCTACTAACAATGTTTT
ATGATCTTTCATCTTTCCAAACAATGGAGAACGAACAACAAAGAACAAACATATTTCACACTCGA
TGCCATGTAAA
Found at i:6745507 original size:30 final size:31
Alignment explanation
Indices: 6745462--6745521 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
6745452 CTTAGCTTTA
**
6745462 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
* *
6745492 TATTTTGTTTGCATATCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
6745522 GGCAGCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.55
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:6745993 original size:237 final size:237
Alignment explanation
Indices: 6745578--6746059 Score: 921
Period size: 237 Copynumber: 2.0 Consensus size: 237
6745568 TCTAGCTCAT
*
6745578 GTTATGTTTACATTAGCTCACTAGCTTTAAATCCATGATTCTTTAGCTCATTTGCATGCATGCAT
1 GTTATGTTTACATTAGCTAACTAGCTTTAAATCCATGATTCTTTAGCTCATTTGCATGCATGCAT
*
6745643 ATATTTTCTAGCTCATATATGTTTTATTAAAGCTCATGAACGTCCTATGCCTTTTATCTAGCTTA
66 ATATTTTCTAGCTCATATATGTTTTATTAAAGCCCATGAACGTCCTATGCCTTTTATCTAGCTTA
6745708 CATTCATGTTATCTTAGCTTCTAGATGATCATTCATAGCTTATATCACTCAAACACCTCACGACA
131 CATTCATGTTATCTTAGCTTCTAGATGATCATTCATAGCTTATATCACTCAAACACCTCACGACA
6745773 ACATGCATTTTACCTTAAATGAGCTCACACATATCTTACTTG
196 ACATGCATTTTACCTTAAATGAGCTCACACATATCTTACTTG
6745815 GTTATGTTTACATTAGCTAACTAGCTTTAAATCCATGATTCTTTAGCTCATTTGCATGCATGCAT
1 GTTATGTTTACATTAGCTAACTAGCTTTAAATCCATGATTCTTTAGCTCATTTGCATGCATGCAT
* *
6745880 CTATTTTCTAGCTCATATATGTTTTATTAAAGCCCATGGACGTCCTATGCCTTTTATCTAGCTTA
66 ATATTTTCTAGCTCATATATGTTTTATTAAAGCCCATGAACGTCCTATGCCTTTTATCTAGCTTA
6745945 CATTCATGTTATCTTAGCTTCTAGATGATCATTCATAGCTTATATCACTCAAACACCTCACGACA
131 CATTCATGTTATCTTAGCTTCTAGATGATCATTCATAGCTTATATCACTCAAACACCTCACGACA
6746010 ACATGCATTTTACCTTAAATGAGCTCACACATATCTTACTTG
196 ACATGCATTTTACCTTAAATGAGCTCACACATATCTTACTTG
6746052 GTT-TGTTT
1 GTTATGTTT
6746060 GTTAATTCCT
Statistics
Matches: 241, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
236 5 0.02
237 236 0.98
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (237 bp):
GTTATGTTTACATTAGCTAACTAGCTTTAAATCCATGATTCTTTAGCTCATTTGCATGCATGCAT
ATATTTTCTAGCTCATATATGTTTTATTAAAGCCCATGAACGTCCTATGCCTTTTATCTAGCTTA
CATTCATGTTATCTTAGCTTCTAGATGATCATTCATAGCTTATATCACTCAAACACCTCACGACA
ACATGCATTTTACCTTAAATGAGCTCACACATATCTTACTTG
Found at i:6746676 original size:19 final size:20
Alignment explanation
Indices: 6746652--6746702 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
6746642 CGGCCAAGAG
* *
6746652 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
6746671 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
6746691 CATGTATTTTCA
1 CATGTATTTTCA
6746703 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:6746890 original size:88 final size:88
Alignment explanation
Indices: 6746741--6746916 Score: 352
Period size: 88 Copynumber: 2.0 Consensus size: 88
6746731 ATGTGTCTAT
6746741 TCGGCCTAAACCCTTTGAAAAACTATAAATAGGCTAGTGCATTTCATTTGTAATCATCTCATCTC
1 TCGGCCTAAACCCTTTGAAAAACTATAAATAGGCTAGTGCATTTCATTTGTAATCATCTCATCTC
6746806 TTATATAAAATATACTCTTGTGA
66 TTATATAAAATATACTCTTGTGA
6746829 TCGGCCTAAACCCTTTGAAAAACTATAAATAGGCTAGTGCATTTCATTTGTAATCATCTCATCTC
1 TCGGCCTAAACCCTTTGAAAAACTATAAATAGGCTAGTGCATTTCATTTGTAATCATCTCATCTC
6746894 TTATATAAAATATACTCTTGTGA
66 TTATATAAAATATACTCTTGTGA
6746917 GTTATTTCTC
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.36
Consensus pattern (88 bp):
TCGGCCTAAACCCTTTGAAAAACTATAAATAGGCTAGTGCATTTCATTTGTAATCATCTCATCTC
TTATATAAAATATACTCTTGTGA
Found at i:6748639 original size:23 final size:26
Alignment explanation
Indices: 6748582--6748641 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 26
6748572 TTTCTTTTCT
6748582 TTTC-ATTTTCTTCCTTTTTGAGTCC
1 TTTCAATTTTCTTCCTTTTTGAGTCC
*
6748607 TTTCAA-TTTCTT-C-TTTTGAGTGC
1 TTTCAATTTTCTTCCTTTTTGAGTCC
6748630 TTT-AATTTTCTT
1 TTTCAATTTTCTT
6748642 TGCTGGATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 2 0.06
23 18 0.56
24 1 0.03
25 10 0.31
26 1 0.03
ACGTcount: A:0.12, C:0.18, G:0.08, T:0.62
Consensus pattern (26 bp):
TTTCAATTTTCTTCCTTTTTGAGTCC
Done.