Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_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: 9952466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 34 of 43
Found at i:7223509 original size:44 final size:43
Alignment explanation
Indices: 7223449--7223596 Score: 123
Period size: 44 Copynumber: 3.4 Consensus size: 43
7223439 CACACATACT
7223449 TATACT-TATACTTTATATGTACATATACTT-TATATTATTATA-TA
1 TATACTATATACTTTATAT-T-CA-ATACTTATATATT-TTATATTA
* *
7223493 TGTA-TATATACTTTATATTTAATACTTATATATTTTATATTA
1 TATACTATATACTTTATATTCAATACTTATATATTTTATATTA
* *
7223535 TATACTTATATACTTTATATT--ATACGCTTATATACTTTAT-TCTT
1 TATAC-TATATACTTTATATTCAATA--CTTATATATTTTATAT-TA
*
7223579 TATAAT-TATACTTTATAT
1 TATACTATATACTTTATAT
7223597 ATACACTTTA
Statistics
Matches: 90, Mismatches: 6, Indels: 18
0.79 0.05 0.16
Matches are distributed among these distances:
41 11 0.12
42 27 0.30
43 4 0.04
44 48 0.53
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (43 bp):
TATACTATATACTTTATATTCAATACTTATATATTTTATATTA
Found at i:7223558 original size:20 final size:21
Alignment explanation
Indices: 7223471--7223778 Score: 126
Period size: 20 Copynumber: 15.2 Consensus size: 21
7223461 TTATATGTAC
*
7223471 ATATACTT-TATATTATTATAT
1 ATATACTTATATACT-TTATAT
* *
7223492 ATGTA--TATATACTTTATATTT
1 ATATACTTATATAC-TT-TATAT
*
7223513 A-ATACTTATATATTTTATATT
1 ATATACTTATATACTTTATA-T
7223534 ATATACTTATATACTTTATAT
1 ATATACTTATATACTTTATAT
7223555 -TATACGCTTATATACTTTAT-T
1 ATATA--CTTATATACTTTATAT
* * *
7223576 CTTTA-TAATTATACTTTATAT
1 ATATACTTA-TATACTTTATAT
* *
7223597 ATACACTT-TATAGTTTATAT
1 ATATACTTATATACTTTATAT
*
7223617 ATATACTT-T-TAATTTATAGTCT
1 ATATACTTATATACTTTATA---T
* * ** *
7223639 ATATACATACATAC-GAACAT
1 ATATACTTATATACTTTATAT
*
7223659 ATATA--TATATA-TATATAT
1 ATATACTTATATACTTTATAT
*
7223677 ATATA--TATATA-TATATAT
1 ATATACTTATATACTTTATAT
*
7223695 AT-TAATTATATAC-TT-TAT
1 ATATACTTATATACTTTATAT
*
7223713 ATGTA--TATATACTTTATAT
1 ATATACTTATATACTTTATAT
*
7223732 ATATA-TAATATAC-TTATACT
1 ATATACTTATATACTTTATA-T
* *
7223752 TTATA-TTATTATACATGTATAT
1 ATATACTTA-TATAC-TTTATAT
7223774 ATATA
1 ATATA
7223779 TATGTTAGGA
Statistics
Matches: 224, Mismatches: 33, Indels: 59
0.71 0.10 0.19
Matches are distributed among these distances:
17 9 0.04
18 35 0.16
19 32 0.14
20 62 0.28
21 24 0.11
22 54 0.24
23 6 0.03
24 2 0.01
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.51
Consensus pattern (21 bp):
ATATACTTATATACTTTATAT
Found at i:7223587 original size:22 final size:22
Alignment explanation
Indices: 7223497--7223596 Score: 107
Period size: 22 Copynumber: 4.6 Consensus size: 22
7223487 TATATATGTA
*
7223497 TATATACTTTATATTTAATACT
1 TATATACTTTATATTTTATACT
* *
7223519 TATATATTTTATATTATATACT
1 TATATACTTTATATTTTATACT
* **
7223541 TATATACTTTATATTATACGCT
1 TATATACTTTATATTTTATACT
*
7223563 TATATACTTTAT-TCTTTATA-A
1 TATATACTTTATAT-TTTATACT
7223584 T-TATACTTTATAT
1 TATATACTTTATAT
7223597 ATACACTTTA
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
20 10 0.15
21 3 0.05
22 53 0.80
ACGTcount: A:0.34, C:0.09, G:0.01, T:0.56
Consensus pattern (22 bp):
TATATACTTTATATTTTATACT
Found at i:7223662 original size:2 final size:2
Alignment explanation
Indices: 7223657--7223781 Score: 111
Period size: 2 Copynumber: 64.0 Consensus size: 2
7223647 ACATACGAAC
7223657 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
7223698 A- AT -T AT AT ACT TT AT AT GT AT AT AT ACT TT AT AT AT AT AT A-
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* * *
7223739 AT AT ACT -T AT ACT TT AT AT -T AT -T AT AC AT GT AT AT AT AT AT
1 AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7223780 AT
1 AT
7223782 GTTAGGACCG
Statistics
Matches: 100, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
1 7 0.07
2 89 0.89
3 4 0.04
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:7223763 original size:15 final size:15
Alignment explanation
Indices: 7223699--7223765 Score: 56
Period size: 15 Copynumber: 4.7 Consensus size: 15
7223689 ATATATATTA
7223699 ATTA-TATACTTTAT
1 ATTATTATACTTTAT
7223713 ATGTATATATACTTTAT
1 AT-TAT-TATACTTTAT
*
7223730 A-TA-TATA--TAAT
1 ATTATTATACTTTAT
7223741 A-TACTTATACTTTAT
1 ATTA-TTATACTTTAT
7223756 ATTATTATAC
1 ATTATTATAC
7223766 ATGTATATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
11 6 0.14
13 8 0.19
14 2 0.05
15 14 0.33
16 2 0.05
17 11 0.26
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.52
Consensus pattern (15 bp):
ATTATTATACTTTAT
Found at i:7227197 original size:27 final size:27
Alignment explanation
Indices: 7227145--7227197 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
7227135 ATCAATTTTA
*
7227145 TGAAAAATATAAAATTAAGAACTAAAT
1 TGAAAAATATAAAATTAACAACTAAAT
* *
7227172 TGAACAAATATGAAATT-ACAAGTAAA
1 TGAA-AAATATAAAATTAACAACTAAA
7227198 AATTTAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.60, C:0.06, G:0.09, T:0.25
Consensus pattern (27 bp):
TGAAAAATATAAAATTAACAACTAAAT
Found at i:7227541 original size:2 final size:2
Alignment explanation
Indices: 7227532--7227751 Score: 104
Period size: 2 Copynumber: 110.5 Consensus size: 2
7227522 TTAAAACAAT
*
7227532 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * * *
7227574 TA GTT TA TA TT TA TA T- TA T- TT TA TA CTA TA TA TA AA CA -A TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * * *
7227615 TA TA T- TA TG TA TA AA CTA TA TA GTT TA TA TT TA TA T- TA TA -A
1 TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * *
7227656 TA TA -A TA TA TA TA AA CTA TA TA TA T- TA TG TA TA CTA TA TA GTT
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA -TA
* * *
7227699 TA T- TA -A TA TA AA CTA TA TA GTG TA TA TA TA TA T- TA TG TA TA
1 TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
*
7227740 AA CTA TA TA TA T
1 TA -TA TA TA TA T
7227752 CATGCATAAA
Statistics
Matches: 164, Mismatches: 31, Indels: 46
0.68 0.13 0.19
Matches are distributed among these distances:
1 12 0.07
2 139 0.85
3 13 0.08
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:7227628 original size:61 final size:61
Alignment explanation
Indices: 7227530--7227701 Score: 249
Period size: 61 Copynumber: 2.8 Consensus size: 61
7227520 TTTTAAAACA
* * *
7227530 ATTATAATATATATATATATATATATATATATATATAAACTATATAGTTTATATTTATATTAT
1 ATTATAATATATATAAACA-ATATATAT-TATGTATAAACTATATAGTTTATATTTATATTAT
* *
7227593 TTTATACTATATATAAACAATATATATTATGTATAAACTATATAGTTTATATTTATATTAT
1 ATTATAATATATATAAACAATATATATTATGTATAAACTATATAGTTTATATTTATATTAT
* *
7227654 AATATAATATATATAAACTATATATATTATGTAT--ACTATATAGTTTAT
1 ATTATAATATATATAAACAATATATATTATGTATAAACTATATAGTTTAT
7227702 TAATATAAAC
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
59 14 0.14
61 63 0.63
62 8 0.08
63 15 0.15
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (61 bp):
ATTATAATATATATAAACAATATATATTATGTATAAACTATATAGTTTATATTTATATTAT
Found at i:7227760 original size:20 final size:20
Alignment explanation
Indices: 7227723--7227766 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
7227713 ATATAGTGTA
* *
7227723 TATATATATTATGTATAAAC
1 TATATATATCATGCATAAAC
7227743 TATATATATCATGCATAAAC
1 TATATATATCATGCATAAAC
7227763 TATA
1 TATA
7227767 GAGTTTCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (20 bp):
TATATATATCATGCATAAAC
Found at i:7227784 original size:71 final size:70
Alignment explanation
Indices: 7227651--7227785 Score: 166
Period size: 71 Copynumber: 1.9 Consensus size: 70
7227641 ATATTTATAT
* * * *
7227651 TATAATATAATATATATAAACTATATATATTATGTATACTATATAGTTTATTAATATAAACTATA
1 TATAATATAATATATATAAACTATATATATCATGTAAACTATAGAGTTTACTAATATAAACTATA
7227716 TAGTG
66 TAGTG
* * *
7227721 TATATATATATTATGTATAAACTATATATATCATGCATAAACTATAGAGTTT-CT-ATATGAACT
1 TATA-ATATAATATATATAAACTATATATATCATG--TAAACTATAGAGTTTACTAATATAAACT
7227784 AT
63 AT
7227786 TGAACAATAT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
70 4 0.07
71 37 0.67
72 1 0.02
73 13 0.24
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.43
Consensus pattern (70 bp):
TATAATATAATATATATAAACTATATATATCATGTAAACTATAGAGTTTACTAATATAAACTATA
TAGTG
Found at i:7241975 original size:2 final size:2
Alignment explanation
Indices: 7241968--7242192 Score: 123
Period size: 2 Copynumber: 113.0 Consensus size: 2
7241958 TTCATGCATG
* * *
7241968 AT AT AT AT AGT TT AT AC AT A- AT AT AT AT AT AC ACT AT AT AGT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T
* * *
7242010 TT AT AT -T A- AT AA ACT AT AT AGT AT AC AT A- AT AT AT AT AGT
1 AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT A-T
* * *
7242050 TT AT AT AT AT -T AT AT -T AT A- AT AT AA AT AT AA ACT AT AT AGT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T
* * * *
7242091 TT AT AC AT A- AT AT AT AT -T GT TT AT AT AT AGT AT AT A- AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* * *
7242130 AT AT AA AT AT AA ACT AT AGT TT AT AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT A-T AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
7242173 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
7242193 TAATTGTTTA
Statistics
Matches: 170, Mismatches: 30, Indels: 46
0.69 0.12 0.19
Matches are distributed among these distances:
1 12 0.07
2 145 0.85
3 13 0.08
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (2 bp):
AT
Found at i:7242028 original size:31 final size:31
Alignment explanation
Indices: 7241971--7242029 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
7241961 ATGCATGATA
*
7241971 TATATAGTTTATACATAATATATATATACAC
1 TATATAGTTTATACATAATAAATATATACAC
*
7242002 TATATAGTTTATA-TTAATAAACTATATA
1 TATATAGTTTATACATAATAAA-TATATA
7242030 GTATACATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 6 0.24
31 19 0.76
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (31 bp):
TATATAGTTTATACATAATAAATATATACAC
Found at i:7242113 original size:61 final size:61
Alignment explanation
Indices: 7242018--7242189 Score: 226
Period size: 61 Copynumber: 2.8 Consensus size: 61
7242008 GTTTATATTA
* *
7242018 ATAAACTATATAG--TATACATAATATATATAGTTTATATATATTATATTATAATATAAAT
1 ATAAACTATATAGTTTATACATAATATATATTGTTTATATATATTATATAATAATATAAAT
*
7242077 ATAAACTATATAGTTTATACATAATATATATTGTTTATATATAGTATATAATAATATAAAT
1 ATAAACTATATAGTTTATACATAATATATATTGTTTATATATATTATATAATAATATAAAT
* * *
7242138 ATAAAC--TATAGTTTATATATATATAATATATATATATATATATATATATATA
1 ATAAACTATATAGTTTATACATA-AT-ATATAT-TGTTTATATATAT-TATATA
7242190 TATTAATTGT
Statistics
Matches: 100, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
59 27 0.27
60 2 0.02
61 55 0.55
62 10 0.10
63 6 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (61 bp):
ATAAACTATATAGTTTATACATAATATATATTGTTTATATATATTATATAATAATATAAAT
Found at i:7243108 original size:23 final size:23
Alignment explanation
Indices: 7243022--7243096 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
7243012 GTGCCATATA
*
7243022 TTTGTCCCGAAGGACCACGTAGG
1 TTTGTCCCAAAGGACCACGTAGG
*
7243045 TTTGTCCCAAAGGACCACATAGG
1 TTTGTCCCAAAGGACCACGTAGG
*
7243068 TTTGTCCCAAAGGACCACGTATG
1 TTTGTCCCAAAGGACCACGTAGG
7243091 TTTGTC
1 TTTGTC
7243097 TCGAGGGACC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (23 bp):
TTTGTCCCAAAGGACCACGTAGG
Found at i:7244346 original size:21 final size:19
Alignment explanation
Indices: 7244322--7244364 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
7244312 CTTACCAATT
*
7244322 TTTCAAACATGTTCTCAATCC
1 TTTCAAACAT-TTC-AAATCC
*
7244343 TTTCTAACATTTCAAATCC
1 TTTCAAACATTTCAAATCC
7244362 TTT
1 TTT
7244365 AATTATACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
20 3 0.15
21 9 0.45
ACGTcount: A:0.28, C:0.26, G:0.02, T:0.44
Consensus pattern (19 bp):
TTTCAAACATTTCAAATCC
Found at i:7249217 original size:20 final size:20
Alignment explanation
Indices: 7249189--7249226 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7249179 TAAGGAATTA
*
7249189 AACATCATACAAAAACAAAC
1 AACAACATACAAAAACAAAC
7249209 AACAACATACAAAAACAA
1 AACAACATACAAAAACAA
7249227 CCATCCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (20 bp):
AACAACATACAAAAACAAAC
Found at i:7260946 original size:23 final size:23
Alignment explanation
Indices: 7260916--7260979 Score: 119
Period size: 23 Copynumber: 2.8 Consensus size: 23
7260906 CAAATATTTT
7260916 TCCCGAAGGACCACATAGGTTTA
1 TCCCGAAGGACCACATAGGTTTA
*
7260939 TCCCGAAGGACCACATAGGTTTG
1 TCCCGAAGGACCACATAGGTTTA
7260962 TCCCGAAGGACCACATAG
1 TCCCGAAGGACCACATAG
7260980 AATCCTCTAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (23 bp):
TCCCGAAGGACCACATAGGTTTA
Found at i:7262218 original size:21 final size:19
Alignment explanation
Indices: 7262189--7262231 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
7262179 CATACTAATT
*
7262189 TTTCAAACATGTTCTCAATCC
1 TTTCAAACAT-TTC-AAATCC
*
7262210 TTTCTAACATTTCAAATCC
1 TTTCAAACATTTCAAATCC
7262229 TTT
1 TTT
7262232 AATTATACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
20 3 0.15
21 9 0.45
ACGTcount: A:0.28, C:0.26, G:0.02, T:0.44
Consensus pattern (19 bp):
TTTCAAACATTTCAAATCC
Found at i:7263056 original size:17 final size:17
Alignment explanation
Indices: 7263036--7263071 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
7263026 ATCAAAGAGT
*
7263036 TAGTTTAATTAACGAAC
1 TAGTTTAATTAAAGAAC
7263053 TAGTTTAATTAAAGAAC
1 TAGTTTAATTAAAGAAC
7263070 TA
1 TA
7263072 ACTTTATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.36
Consensus pattern (17 bp):
TAGTTTAATTAAAGAAC
Found at i:7266214 original size:18 final size:20
Alignment explanation
Indices: 7266172--7266215 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
7266162 GATCACATTG
7266172 AGATAATGTTACTTCATGGTAA
1 AGATAATGTTAC-TCAT-GTAA
7266194 AGATAATGTTAC-CAT-TAA
1 AGATAATGTTACTCATGTAA
7266212 AGAT
1 AGAT
7266216 GTAACTACTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 7 0.32
20 3 0.14
22 12 0.55
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (20 bp):
AGATAATGTTACTCATGTAA
Found at i:7272113 original size:21 final size:19
Alignment explanation
Indices: 7272084--7272126 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
7272074 CATACTAATT
*
7272084 TTTCAAACATGTTCTCAATCC
1 TTTCAAACAT-TTC-AAATCC
*
7272105 TTTCTAACATTTCAAATCC
1 TTTCAAACATTTCAAATCC
7272124 TTT
1 TTT
7272127 AATTATACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
20 3 0.15
21 9 0.45
ACGTcount: A:0.28, C:0.26, G:0.02, T:0.44
Consensus pattern (19 bp):
TTTCAAACATTTCAAATCC
Found at i:7272951 original size:17 final size:17
Alignment explanation
Indices: 7272931--7272966 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
7272921 ATCAAAGAGT
*
7272931 TAGTTTAATTAACGAAC
1 TAGTTTAATTAAAGAAC
7272948 TAGTTTAATTAAAGAAC
1 TAGTTTAATTAAAGAAC
7272965 TA
1 TA
7272967 ACTTTATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.36
Consensus pattern (17 bp):
TAGTTTAATTAAAGAAC
Found at i:7276107 original size:18 final size:20
Alignment explanation
Indices: 7276065--7276108 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
7276055 GATCACATTG
7276065 AGATAATGTTACTTCATGGTAA
1 AGATAATGTTAC-TCAT-GTAA
7276087 AGATAATGTTAC-CAT-TAA
1 AGATAATGTTACTCATGTAA
7276105 AGAT
1 AGAT
7276109 GTAACTACTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 7 0.32
20 3 0.14
22 12 0.55
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (20 bp):
AGATAATGTTACTCATGTAA
Found at i:7281106 original size:22 final size:22
Alignment explanation
Indices: 7281080--7281125 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
7281070 AAAAATTTAG
7281080 CAAAACCAAAATCAACCAAAAC
1 CAAAACCAAAATCAACCAAAAC
* * *
7281102 CAAAACCGAAATTAACCCAAAC
1 CAAAACCAAAATCAACCAAAAC
7281124 CA
1 CA
7281126 TAAGCCACCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.59, C:0.33, G:0.02, T:0.07
Consensus pattern (22 bp):
CAAAACCAAAATCAACCAAAAC
Found at i:7282032 original size:12 final size:12
Alignment explanation
Indices: 7282012--7282071 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
7282002 AATAAAACTT
7282012 AAAAT-AAAATG
1 AAAATGAAAATG
*
7282023 AATATGAAAATG
1 AAAATGAAAATG
7282035 AAAATGAAAACTTG
1 AAAATGAAAA--TG
7282049 AAAA-GAAAA-G
1 AAAATGAAAATG
7282059 AAAA-GAAAA-G
1 AAAATGAAAATG
7282069 AAA
1 AAA
7282072 GAACTTTATA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
10 14 0.32
11 4 0.09
12 15 0.34
13 5 0.11
14 6 0.14
ACGTcount: A:0.70, C:0.02, G:0.15, T:0.13
Consensus pattern (12 bp):
AAAATGAAAATG
Found at i:7282035 original size:6 final size:6
Alignment explanation
Indices: 7282012--7282071 Score: 58
Period size: 5 Copynumber: 10.5 Consensus size: 6
7282002 AATAAAACTT
*
7282012 AAAAT- AAAATG AATATG AAAATG AAAATG AAAACTTG AAAA-G AAAA-G
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAA--TG AAAATG AAAATG
7282059 AAAA-G AAAA-G AAA
1 AAAATG AAAATG AAA
7282072 GAACTTTATA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
5 24 0.48
6 20 0.40
8 6 0.12
ACGTcount: A:0.70, C:0.02, G:0.15, T:0.13
Consensus pattern (6 bp):
AAAATG
Found at i:7284425 original size:53 final size:53
Alignment explanation
Indices: 7284340--7284451 Score: 152
Period size: 53 Copynumber: 2.1 Consensus size: 53
7284330 GTTGCACCTA
* * * *
7284340 AGTGCCAAAATGGTAATTCATAGACTCATTATGAATTCCAAGGATGCATACAT
1 AGTGCCAAAATGGTAATTCACAAACTCATTATGAATACCAAGGATGCACACAT
* * * *
7284393 AGTGTCAAAATGGTAATTTACAAACTCATTATGAATACCATGGGTGCACACAT
1 AGTGCCAAAATGGTAATTCACAAACTCATTATGAATACCAAGGATGCACACAT
7284446 AGTGCC
1 AGTGCC
7284452 GAAAGTACAC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (53 bp):
AGTGCCAAAATGGTAATTCACAAACTCATTATGAATACCAAGGATGCACACAT
Found at i:7290875 original size:13 final size:13
Alignment explanation
Indices: 7290857--7290905 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 13
7290847 CTTAGCATGT
7290857 TTAAAAATAAAAC
1 TTAAAAATAAAAC
7290870 TT-AAAATAAAA-
1 TTAAAAATAAAAC
7290881 -TAAAAATGAAAAC
1 TTAAAAAT-AAAAC
* *
7290894 TTGAAAAGAAAA
1 TTAAAAATAAAA
7290906 GAAAAGAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
10 1 0.03
11 5 0.17
12 13 0.43
13 6 0.20
14 5 0.17
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.20
Consensus pattern (13 bp):
TTAAAAATAAAAC
Found at i:7290892 original size:24 final size:24
Alignment explanation
Indices: 7290858--7290910 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
7290848 TTAGCATGTT
*
7290858 TAAAAATAAAACTT-AAAATAAAA
1 TAAAAATAAAACTTGAAAAGAAAA
7290881 TAAAAATGAAAACTTGAAAAGAAAA
1 TAAAAAT-AAAACTTGAAAAGAAAA
*
7290906 GAAAA
1 TAAAA
7290911 GAAAGAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 7 0.27
24 7 0.27
25 12 0.46
ACGTcount: A:0.72, C:0.04, G:0.08, T:0.17
Consensus pattern (24 bp):
TAAAAATAAAACTTGAAAAGAAAA
Found at i:7291517 original size:18 final size:19
Alignment explanation
Indices: 7291478--7291533 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 19
7291468 TATTAAATTA
*
7291478 ATTTA-AATAAAATTGATA-
1 ATTTATAATAAAA-TAATAG
* *
7291496 ATTTATTA-AAAATATTAG
1 ATTTATAATAAAATAATAG
7291514 ATTTATAATAAAATAATAG
1 ATTTATAATAAAATAATAG
7291533 A
1 A
7291534 AAGTTTAAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
17 3 0.10
18 16 0.53
19 11 0.37
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
ATTTATAATAAAATAATAG
Found at i:7292042 original size:32 final size:31
Alignment explanation
Indices: 7291952--7292044 Score: 98
Period size: 32 Copynumber: 2.9 Consensus size: 31
7291942 AAACCGAAAG
*
7291952 TCAACTGATCCGATATTAACCCGA-CCAGAAA
1 TCAACTGATCCG-TATTAACCCGACCCAAAAA
* *
7291983 TCTAACTGATCTGGTATTAATCCGACCCAAAAA
1 TC-AACTGATC-CGTATTAACCCGACCCAAAAA
* *
7292016 TCAACCGATCCAGTATTGACCCGACCCAA
1 TCAACTGATCC-GTATTAACCCGACCCAA
7292045 TCCAAAAATC
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
31 2 0.04
32 40 0.78
33 9 0.18
ACGTcount: A:0.35, C:0.30, G:0.13, T:0.22
Consensus pattern (31 bp):
TCAACTGATCCGTATTAACCCGACCCAAAAA
Found at i:7301198 original size:23 final size:23
Alignment explanation
Indices: 7301168--7301219 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
7301158 TATGATTAAG
7301168 ATAGGATTTGTCCTTCCTACATA
1 ATAGGATTTGTCCTTCCTACATA
7301191 ATAGGATTTGTCCTTCCTACATA
1 ATAGGATTTGTCCTTCCTACATA
7301214 ATAGGA
1 ATAGGA
7301220 AATATATCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (23 bp):
ATAGGATTTGTCCTTCCTACATA
Found at i:7303127 original size:23 final size:21
Alignment explanation
Indices: 7303101--7303147 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
7303091 GAGAAAAAGT
7303101 AAAAGTTTAAAAAATGAAAGAGA
1 AAAAG-TT-AAAAATGAAAGAGA
* *
7303124 AAAAGTTAATAATGAAATAGA
1 AAAAGTTAAAAATGAAAGAGA
7303145 AAA
1 AAA
7303148 GAAAAAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 15 0.68
22 2 0.09
23 5 0.23
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.19
Consensus pattern (21 bp):
AAAAGTTAAAAATGAAAGAGA
Found at i:7311524 original size:20 final size:21
Alignment explanation
Indices: 7311488--7311526 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7311478 CCATGTTTGA
7311488 ATTTAAATAAGTGCACATGCC
1 ATTTAAATAAGTGCACATGCC
*
7311509 ATTTAAATTA-TGCACATG
1 ATTTAAATAAGTGCACATG
7311527 GAAGAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (21 bp):
ATTTAAATAAGTGCACATGCC
Found at i:7315068 original size:2 final size:2
Alignment explanation
Indices: 7315055--7315086 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7315045 ATAACATAGC
*
7315055 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7315087 CATCTATAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:7316993 original size:17 final size:18
Alignment explanation
Indices: 7316971--7317004 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
7316961 TTCCTTAAAT
7316971 CATTTCTT-TTTTCTTTC
1 CATTTCTTCTTTTCTTTC
7316988 CATTTCTTCTTTTCTTT
1 CATTTCTTCTTTTCTTT
7317005 TTCACCTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.71
Consensus pattern (18 bp):
CATTTCTTCTTTTCTTTC
Found at i:7320454 original size:50 final size:51
Alignment explanation
Indices: 7320371--7320468 Score: 128
Period size: 50 Copynumber: 1.9 Consensus size: 51
7320361 ACATGAAGAC
**
7320371 TTTGGCGCCAAGATGAACCAACACATCGTCATTCGACC-AAGGAAGATAAG
1 TTTGGCGCCAAGATGAACCAACACATCACCATTCGACCAAAGGAAGATAAG
* * *
7320421 TTTGGCGCCAAGATGAA-TAAGCATATCACCATTCGGCCAAAGGAAGAT
1 TTTGGCGCCAAGATGAACCAA-CACATCACCATTCGACCAAAGGAAGAT
7320469 GTATATTCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
49 2 0.05
50 30 0.73
51 9 0.22
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (51 bp):
TTTGGCGCCAAGATGAACCAACACATCACCATTCGACCAAAGGAAGATAAG
Found at i:7320584 original size:19 final size:20
Alignment explanation
Indices: 7320546--7320585 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
7320536 GGAATCATCC
7320546 TTTTAATTAAAGCATTATGTA
1 TTTTAATTAAAG-ATTATGTA
*
7320567 TTTTCATTAAAG-TTATGTA
1 TTTTAATTAAAGATTATGTA
7320586 CTTAGCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTTAATTAAAGATTATGTA
Found at i:7324897 original size:47 final size:47
Alignment explanation
Indices: 7324843--7324949 Score: 214
Period size: 47 Copynumber: 2.3 Consensus size: 47
7324833 TATAACTACG
7324843 TTGATTCATTCATAAATTTATTTACTTAAATTCACTTCCAAAAACCC
1 TTGATTCATTCATAAATTTATTTACTTAAATTCACTTCCAAAAACCC
7324890 TTGATTCATTCATAAATTTATTTACTTAAATTCACTTCCAAAAACCC
1 TTGATTCATTCATAAATTTATTTACTTAAATTCACTTCCAAAAACCC
7324937 TTGATTCATTCAT
1 TTGATTCATTCAT
7324950 TTGTTATCTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 60 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.42
Consensus pattern (47 bp):
TTGATTCATTCATAAATTTATTTACTTAAATTCACTTCCAAAAACCC
Found at i:7325993 original size:30 final size:30
Alignment explanation
Indices: 7325957--7326013 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
7325947 TTTGCTTATG
7325957 GATGAGTAGAGCTATCTCATTGTCCAAAGA
1 GATGAGTAGAGCTATCTCATTGTCCAAAGA
* *
7325987 GATGAGTGGAGTTATCTCATTGTCCAA
1 GATGAGTAGAGCTATCTCATTGTCCAA
7326014 TGAAAGGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (30 bp):
GATGAGTAGAGCTATCTCATTGTCCAAAGA
Found at i:7326024 original size:30 final size:30
Alignment explanation
Indices: 7325960--7326040 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
7325950 GCTTATGGAT
* * *
7325960 GAGTAGAGCTATCTCATTGTCCAAAGAGAT
1 GAGTGGAGCTATCTCATTGTCCAAAGAAAG
* *
7325990 GAGTGGAGTTATCTCATTGTCCAATGAAAG
1 GAGTGGAGCTATCTCATTGTCCAAAGAAAG
* * *
7326020 GAGTGGATCGATCTCGTTGTC
1 GAGTGGAGCTATCTCATTGTC
7326041 TCATATTTGT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (30 bp):
GAGTGGAGCTATCTCATTGTCCAAAGAAAG
Found at i:7348653 original size:24 final size:24
Alignment explanation
Indices: 7348608--7348653 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
7348598 TTTAGTCCAT
*
7348608 TTTTATATTAATATCAGCTTCACA
1 TTTTATATTAATATCAACTTCACA
*
7348632 TTTTATAATTAAT-TCAATTTCA
1 TTTTAT-ATTAATATCAACTTCA
7348654 TCCCTCATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.35, C:0.13, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTTATATTAATATCAACTTCACA
Found at i:7348842 original size:2 final size:2
Alignment explanation
Indices: 7348826--7348861 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
7348816 TAACTTTCAT
*
7348826 TA TA CA TA T- 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 TA T
7348862 TAGAATCTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7349963 original size:12 final size:12
Alignment explanation
Indices: 7349948--7349975 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
7349938 AAAAATAATA
7349948 AAAATATCTATC
1 AAAATATCTATC
7349960 AAAATATCTATC
1 AAAATATCTATC
7349972 AAAA
1 AAAA
7349976 ACTGAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAATATCTATC
Found at i:7350185 original size:14 final size:15
Alignment explanation
Indices: 7350164--7350206 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
7350154 GGCAAAGTAT
*
7350164 TAAAGTATATAGATA
1 TAAAGTATATAAATA
7350179 T-AAGTAT-TAAATA
1 TAAAGTATATAAATA
*
7350192 TAAAGTATATTAATA
1 TAAAGTATATAAATA
7350207 ATCATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 6 0.25
14 12 0.50
15 6 0.25
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.37
Consensus pattern (15 bp):
TAAAGTATATAAATA
Found at i:7350201 original size:22 final size:22
Alignment explanation
Indices: 7350158--7350201 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
7350148 GGATATGGCA
*
7350158 AAGTATTAAAGTATATAGATAT
1 AAGTATTAAAGTATAAAGATAT
7350180 AAGTATTAAA-TATAAAGTATAT
1 AAGTATTAAAGTATAAAG-ATAT
7350202 TAATAATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.36
Consensus pattern (22 bp):
AAGTATTAAAGTATAAAGATAT
Found at i:7351484 original size:90 final size:89
Alignment explanation
Indices: 7351379--7351544 Score: 278
Period size: 90 Copynumber: 1.9 Consensus size: 89
7351369 ATTTAATTCA
* * *
7351379 AATTAATTAATTATAGATTTAATTAATTTGAAATAATAAAATCCTTAATATGATTAGGGAAACTT
1 AATTAATTAAATATAGATTTAACTAATTTGAAATAATAAAA-CCCTAATATGATTAGGGAAACTT
7351444 GGATATAAAAGGATTATTAAATTTC
65 GGATATAAAAGGATTATTAAATTTC
*
7351469 AATTAATTAAATATAGATTTAACTAATTTGAAATAATAAAACCCTAATATGATTAGGGTAACTTG
1 AATTAATTAAATATAGATTTAACTAATTTGAAATAATAAAACCCTAATATGATTAGGGAAACTTG
*
7351534 GCTATAAAAGG
66 GATATAAAAGG
7351545 GTGTGTTAGG
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
89 32 0.45
90 39 0.55
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (89 bp):
AATTAATTAAATATAGATTTAACTAATTTGAAATAATAAAACCCTAATATGATTAGGGAAACTTG
GATATAAAAGGATTATTAAATTTC
Found at i:7353195 original size:20 final size:20
Alignment explanation
Indices: 7353158--7353200 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
7353148 AAATGAAGAT
*
7353158 TTTCAAAGTTTTGGG-TTTA
1 TTTCAAAATTTTGGGTTTTA
*
7353177 TTTCAAAATTTATGTGTTTTA
1 TTTCAAAATTT-TGGGTTTTA
7353198 TTT
1 TTT
7353201 TTAAAAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 3 0.15
21 7 0.35
ACGTcount: A:0.23, C:0.05, G:0.14, T:0.58
Consensus pattern (20 bp):
TTTCAAAATTTTGGGTTTTA
Found at i:7355034 original size:162 final size:156
Alignment explanation
Indices: 7354421--7355140 Score: 753
Period size: 162 Copynumber: 4.6 Consensus size: 156
7354411 TTTTTAAAAA
* ** * * *
7354421 ATATGTATTTTATGATGGTTTATGAGCATATGGTTCAAATTTGGTAAAAAATGGACTTAAAATAA
1 ATATGTATTCTACAATGGTTTAGGAGCATGTGGTTCAAATTTGGTAAAAAAAGGACTTAAAATAA
* * * *
7354486 AGGATGAATTGAAGAAATAAGGAAATTATAAAAAAATGGAGGGAATAAATTGAAAATTAGAGGTT
66 AGGATGAATTGAAGAAATAAGGAAATTATAAAAAAATTGAGGGAATAAATTGAAAA--AAAAGAT
*
7354551 TTTCTAATC-AAAAGAGGAAATT-AAAGTAC
129 TTT-T-ATCAAAAAG-GGGAATTGAAAGTAC
* * * *
7354580 ATTTGTATTCTACAATGGTTTAGGAGTATGTGGTTCAAATTTGGTAAAAAAAATGAACTTAAATT
1 ATATGTATTCTACAATGGTTTAGGAGCATGTGGTTCAAATTTGGT-AAAAAAA-GGACTTAAAAT
* * * * * ******
7354645 ATAGGATGGATTGAATAAATGAGGAAATTAT--AAAAA---A--GACTAAATTGAAAATTTTTTT
64 AAAGGATGAATTGAAGAAATAAGGAAATTATAAAAAAATTGAGGGAATAAATTGAAAAAAAAGAT
*
7354703 TTTTATCAAAAAGAGGAATTGAAAGTAC
129 TTTTATCAAAAAGGGGAATTGAAAGTAC
* **
7354731 ATATGTATTATATGATGGTTTAGGAGCATGTGGTTCAAATTTGGT-AAAAAAGGACTTAAAATAA
1 ATATGTATTCTACAATGGTTTAGGAGCATGTGGTTCAAATTTGGTAAAAAAAGGACTTAAAATAA
* *
7354795 AGGATGAACTGAAGAAATACGGAAATTATAAAAAAATTGAGGGAATAAATTGAAAAATAGAAGAT
66 AGGATGAATTGAAGAAATAAGGAAATTATAAAAAAATTGAGGGAATAAATTGAAAAA-A-AAGAT
* *
7354860 TTGTTATCAAAAAGGGGAATTAAAAGTAT
129 TT-TTATCAAAAAGGGGAATTGAAAGTAC
* ** *
7354889 ATATGTATTCTACAATTGTTTAGGAGTGTGTGGTTCAGATTTGGTAAAAAAAAAGGGACTTAAAA
1 ATATGTATTCTACAATGGTTTAGGAGCATGTGGTTCAAATTTGGT--AAAAAAA-GGACTTAAAA
*
7354954 TAAAGGATGAATTGAAGAAATAAGGAAATTAT-AAAAAATTGAGGGACTAAATTGAAAAAACAAA
63 TAAAGGATGAATTGAAGAAATAAGGAAATTATAAAAAAATTGAGGGAATAAATTG-AAAAA-AAA
* * *
7355018 GAATTTATTGTCAAAAAGGCGAACTGAAAGTAC
126 G-ATTT-TTATCAAAAAGGGGAATTGAAAGTAC
* * * * * *
7355051 ATATGTATTCTACGATGGTTTAGAAACATGAGGTTCAAATTTGGTAAAAACA-TACTTAAAATAA
1 ATATGTATTCTACAATGGTTTAGGAGCATGTGGTTCAAATTTGGTAAAAAAAGGACTTAAAATAA
* *
7355115 AGGATGAATTGAATAAATAATGAAAT
66 AGGATGAATTGAAGAAATAAGGAAAT
7355141 CAGTGACGAA
Statistics
Matches: 467, Mismatches: 74, Indels: 41
0.80 0.13 0.07
Matches are distributed among these distances:
148 34 0.07
149 6 0.01
150 13 0.03
151 53 0.11
152 5 0.01
153 1 0.00
154 13 0.03
155 13 0.03
156 1 0.00
157 3 0.01
158 96 0.21
159 43 0.09
160 12 0.03
161 66 0.14
162 108 0.23
ACGTcount: A:0.46, C:0.05, G:0.20, T:0.30
Consensus pattern (156 bp):
ATATGTATTCTACAATGGTTTAGGAGCATGTGGTTCAAATTTGGTAAAAAAAGGACTTAAAATAA
AGGATGAATTGAAGAAATAAGGAAATTATAAAAAAATTGAGGGAATAAATTGAAAAAAAAGATTT
TTATCAAAAAGGGGAATTGAAAGTAC
Found at i:7356673 original size:26 final size:26
Alignment explanation
Indices: 7356644--7356700 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
7356634 GTTCTGGAAG
* *
7356644 CCTGGGGAGTCGTTTGAGCCGAGCCT
1 CCTGGGGAGCCGTTTGAGCCGAGCCA
7356670 CCTGGGGAGCCGTTTGAGCCGAGCCA
1 CCTGGGGAGCCGTTTGAGCCGAGCCA
7356696 CCTGG
1 CCTGG
7356701 ACTGAGCCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.12, C:0.30, G:0.39, T:0.19
Consensus pattern (26 bp):
CCTGGGGAGCCGTTTGAGCCGAGCCA
Found at i:7359051 original size:24 final size:24
Alignment explanation
Indices: 7359024--7359110 Score: 104
Period size: 24 Copynumber: 3.7 Consensus size: 24
7359014 TGAATTTTGT
*
7359024 TATGATACCTGACCTGGATTCTAA
1 TATGATACCTGACCTGGATTCTGA
**
7359048 TATGATA-CTGATATGGATTCTGA
1 TATGATACCTGACCTGGATTCTGA
* * *
7359071 TCTGATACATGACCTAGATTCTGA
1 TATGATACCTGACCTGGATTCTGA
*
7359095 TATGATACTTGACCTG
1 TATGATACCTGACCTG
7359111 AATTATGTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
23 19 0.37
24 32 0.63
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (24 bp):
TATGATACCTGACCTGGATTCTGA
Found at i:7361153 original size:17 final size:17
Alignment explanation
Indices: 7361131--7361193 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 17
7361121 TAAAAAAATT
*
7361131 TAGTTCATTGATTAAAC
1 TAGTTCATTAATTAAAC
* *
7361148 TAGTTCACTCATTAAAC
1 TAGTTCATTAATTAAAC
*
7361165 TAGTTCATTAATCAAAC
1 TAGTTCATTAATTAAAC
*
7361182 TAGCTC-TTAATT
1 TAGTTCATTAATT
7361194 GTTTCATGCA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
16 5 0.13
17 34 0.87
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:7368598 original size:2 final size:2
Alignment explanation
Indices: 7368591--7368634 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
7368581 CATGTGAATA
7368591 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
7368633 TG
1 TG
7368635 CCAAGATCCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:7369027 original size:22 final size:21
Alignment explanation
Indices: 7368996--7369040 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
7368986 TTTTTATTCT
7368996 AATCCCAAA-TCTCAAACCCTA
1 AATCCCAAATTCT-AAACCCTA
7369017 AATCCCAAAATTCTAAACCCTA
1 AATCCC-AAATTCTAAACCCTA
7369039 AA
1 AA
7369041 ACCTTTATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.27
22 13 0.59
23 3 0.14
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (21 bp):
AATCCCAAATTCTAAACCCTA
Found at i:7369986 original size:15 final size:16
Alignment explanation
Indices: 7369961--7370008 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
7369951 AAAACAAATT
7369961 TGTTATTTTAATAAAA
1 TGTTATTTTAATAAAA
*
7369977 TGTT-TTTTAATACAA
1 TGTTATTTTAATAAAA
*
7369992 TTTTAATTTTAATAAAA
1 TGTT-ATTTTAATAAAA
7370009 AAATTAACAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 13 0.48
16 4 0.15
17 10 0.37
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (16 bp):
TGTTATTTTAATAAAA
Found at i:7370644 original size:18 final size:18
Alignment explanation
Indices: 7370621--7370663 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
7370611 TTCGTTTGCG
*
7370621 TTTTTTGGATTTTTTTTA
1 TTTTTTGGATTTTTCTTA
*
7370639 TTTTTTGGCTTTTTCTTA
1 TTTTTTGGATTTTTCTTA
7370657 TTTTTTG
1 TTTTTTG
7370664 TCTTCTTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.07, C:0.05, G:0.12, T:0.77
Consensus pattern (18 bp):
TTTTTTGGATTTTTCTTA
Found at i:7371510 original size:20 final size:20
Alignment explanation
Indices: 7371446--7371510 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
7371436 CATAATTTTT
*
7371446 TATGAATAGTATTG-TACTG
1 TATGAATAGTACTGATACTG
* *
7371465 TATAAATAGTACCGATACTG
1 TATGAATAGTACTGATACTG
7371485 TATGAATAGTACTGATACTG
1 TATGAATAGTACTGATACTG
*
7371505 TGTGAA
1 TATGAA
7371511 CAGAAATGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 11 0.28
20 28 0.72
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.35
Consensus pattern (20 bp):
TATGAATAGTACTGATACTG
Found at i:7371601 original size:20 final size:20
Alignment explanation
Indices: 7371561--7371601 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
7371551 AAATGGGTAC
*
7371561 CGATACTGCTACAGTAGTAT
1 CGATACTGCTACAGTAATAT
* *
7371581 CGATATTGCTACATTAATAT
1 CGATACTGCTACAGTAATAT
7371601 C
1 C
7371602 AAGCCCAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (20 bp):
CGATACTGCTACAGTAATAT
Found at i:7373513 original size:2 final size:2
Alignment explanation
Indices: 7373506--7373535 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7373496 ATTCTAAGTC
7373506 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
7373536 GAACCACCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7373960 original size:30 final size:31
Alignment explanation
Indices: 7373917--7373980 Score: 121
Period size: 30 Copynumber: 2.1 Consensus size: 31
7373907 TCATCTTCAA
7373917 ATTTGATTTTTTTTAATTAATTAATTATTTT
1 ATTTGATTTTTTTTAATTAATTAATTATTTT
7373948 ATTTGA-TTTTTTTAATTAATTAATTATTTT
1 ATTTGATTTTTTTTAATTAATTAATTATTTT
7373978 ATT
1 ATT
7373981 GGTTGTATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 27 0.82
31 6 0.18
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (31 bp):
ATTTGATTTTTTTTAATTAATTAATTATTTT
Found at i:7376197 original size:14 final size:14
Alignment explanation
Indices: 7376178--7376204 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7376168 TAATTAATTT
7376178 AATAAATAAATATA
1 AATAAATAAATATA
7376192 AATAAATAAATAT
1 AATAAATAAATAT
7376205 TATATGAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAAATAAATATA
Found at i:7380228 original size:2 final size:2
Alignment explanation
Indices: 7380221--7380252 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7380211 CAATTAAATC
7380221 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
7380253 CTTTCTCGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7383294 original size:3 final size:3
Alignment explanation
Indices: 7383286--7383314 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
7383276 CACAATATAG
7383286 AAT AAT AAT AAT AAT AAT AAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7383315 TCAGAGTGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7383867 original size:3 final size:3
Alignment explanation
Indices: 7383859--7383903 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
7383849 TGACATGGAA
7383859 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
7383904 ATATATAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:7384508 original size:31 final size:32
Alignment explanation
Indices: 7384470--7384546 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 32
7384460 TCAAAATACA
7384470 TAAGATATGATCATC-TTCATTTTTATTTAAT
1 TAAGATATGATCATCTTTCATTTTTATTTAAT
* * *
7384501 TAAGATATAAACA-CTTTCGTTTTTATTTAAT
1 TAAGATATGATCATCTTTCATTTTTATTTAAT
* *
7384532 TAAGACATGGTCATC
1 TAAGATATGATCATC
7384547 ACGGGTTAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
30 1 0.03
31 35 0.95
32 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (32 bp):
TAAGATATGATCATCTTTCATTTTTATTTAAT
Found at i:7386084 original size:81 final size:81
Alignment explanation
Indices: 7385949--7386863 Score: 1169
Period size: 81 Copynumber: 11.3 Consensus size: 81
7385939 TGCTTTAAAA
* * * *
7385949 TAAAAGATTAATTGCCTAACTGTGCATTTGACATAAAAGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTTCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
7386014 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * *
7386030 TAAAAGATTAATTTCCTAGTTGTGCATTTGACAAAAAGGTGCCAATTATGCCAGTTATATGAAAA
1 TAAAAGATTAATTTCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
7386095 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * * * * *
7386111 TAAAAGATTAATTGCCTAGCTATACACTTGATAGAAAGGTATCAATTATGACAGTTAGATGACAG
1 TAAAAGATTAATTTCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
7386176 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * *
7386192 TAAAAGATCAATTGCCTAGCTATGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATAAAAG
1 TAAAAGATTAATTTCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
7386257 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * ** * *
7386273 TAAAATATTAATTGCCTATATGTGCATTAGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTTCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
7386338 GTTAAATACATTTGAG
66 GTTAAATACCTTTGAG
* * *
7386354 TAAAAGATT-ATTTGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCACTTAGATGAGA
1 TAAAAGATTAATTT-CCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
7386418 GGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* * * * * *
7386435 TAAAAGATTAATTGT-CTAGCTATACTTTTGA-ATGAAATGTGTCAATTATG-AACTTAGATGAA
1 TAAAAGATTAATT-TCCTAGCTGTGCATTTGACA-GAAAGGTGTCAATTATGCCAGTTAGATGAA
7386497 AGGTTAAATACCTTTGAG
64 AGGTTAAATACCTTTGAG
* *
7386515 TAAAAGATTAATTGT-CTAGCTGTGCATTTGACATAAAAGTGTCAATTATGCCAGTTAGATGAAA
1 TAAAAGATTAATT-TCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
**
7386579 GAATAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* ** * * *
7386596 TAAAAGATTAATTGTTC-AGCTGTGCATTTGACAGAAATTTGTCAACTGTGACAGTTAGATGAAA
1 TAAAAGATTAATT-TCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
*
7386660 GGTTAAATACCTTTGAT
65 GGTTAAATACCTTTGAG
* * * * * * *
7386677 TAAAATATTAATTGCCTAGCTGTGCATTTGATAGAAAGGTGTCAATTGTGCTAGTTAGACGAAAT
1 TAAAAGATTAATTTCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
7386742 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
** * * *
7386758 TAAATTATTAATTGT-CTAGCTATGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATAAAA
1 TAAAAGATTAATT-TCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
*
7386822 TGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
7386839 TAAAAGATTAATTTCCTAGCTGTGC
1 TAAAAGATTAATTTCCTAGCTGTGC
7386864 TGTCAGCATC
Statistics
Matches: 728, Mismatches: 96, Indels: 20
0.86 0.11 0.02
Matches are distributed among these distances:
80 77 0.11
81 646 0.89
82 4 0.01
83 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (81 bp):
TAAAAGATTAATTTCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:7389988 original size:10 final size:10
Alignment explanation
Indices: 7389975--7390004 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
7389965 ATCATATCAT
*
7389975 ATCATAAATG
1 ATCACAAATG
7389985 ATCACAAATG
1 ATCACAAATG
7389995 ATCACAAATG
1 ATCACAAATG
7390005 TCAATCTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.17, G:0.10, T:0.23
Consensus pattern (10 bp):
ATCACAAATG
Found at i:7390834 original size:6 final size:6
Alignment explanation
Indices: 7390823--7390857 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
7390813 ATCGATACCT
7390823 TTTGCA TTTGCA TTTGCA TTTGCA TCTATGCA TTT
1 TTTGCA TTTGCA TTTGCA TTTGCA T-T-TGCA TTT
7390858 TTACGTTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.74
7 2 0.07
8 5 0.19
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.51
Consensus pattern (6 bp):
TTTGCA
Found at i:7394732 original size:41 final size:42
Alignment explanation
Indices: 7394687--7394788 Score: 118
Period size: 44 Copynumber: 2.4 Consensus size: 42
7394677 AGGTTGGGAT
* *
7394687 ATTTTGAAGGTTCATTTCA-ACCAAAAATAGA-ATGTTGGGGC
1 ATTTTGAAGGTTCATTTCAGACAAAAAAT-GATATGTGGGGGC
**
7394728 ATTTTGAAGGCCCATTTCAGACAAAAAATGATTCATGTGGGGGC
1 ATTTTGAAGGTTCATTTCAGACAAAAAATGA-T-ATGTGGGGGC
*
7394772 ATTTTGAAAGTTCATTT
1 ATTTTGAAGGTTCATTT
7394789 TGAAGGCTCA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
41 19 0.38
42 8 0.16
44 23 0.46
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (42 bp):
ATTTTGAAGGTTCATTTCAGACAAAAAATGATATGTGGGGGC
Found at i:7395963 original size:36 final size:36
Alignment explanation
Indices: 7395917--7395990 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
7395907 TTTATCTCAT
* * *
7395917 TCAAGATTGTTTTTTCTTGAAACAGAATATTTTATC
1 TCAAGATTGTTTTTCCTTGAAACAAAAGATTTTATC
*
7395953 TCAAGATTGTTTTTCCTTGAAATAAAAGATTTTATC
1 TCAAGATTGTTTTTCCTTGAAACAAAAGATTTTATC
7395989 TC
1 TC
7395991 GCTTGAGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (36 bp):
TCAAGATTGTTTTTCCTTGAAACAAAAGATTTTATC
Found at i:7396024 original size:39 final size:39
Alignment explanation
Indices: 7395967--7396127 Score: 127
Period size: 36 Copynumber: 4.3 Consensus size: 39
7395957 GATTGTTTTT
* * *
7395967 CCTTGAAATAAAAGATTTTATCTCGCTTGAGATAGTTTC
1 CCTTGAAACAGAAGATTTTGTCTCGCTTGAGATAGTTTC
* * *
7396006 CCTCGAAACAAAAGATTTTATCTCGCTTGAGATAGTTTC
1 CCTTGAAACAGAAGATTTTGTCTCGCTTGAGATAGTTTC
* * * **
7396045 TCTCGAAAC--AA-ATTTTGTCTCCCTTGAGACGGTTTC
1 CCTTGAAACAGAAGATTTTGTCTCGCTTGAGATAGTTTC
* * * **
7396081 CCATGAAAC--AA-ATTTTGTCTCCCTTGAGACAGACTC
1 CCTTGAAACAGAAGATTTTGTCTCGCTTGAGATAGTTTC
*
7396117 CCTTGAGACAG
1 CCTTGAAACAG
7396128 TTTCCCTTGA
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
36 58 0.55
37 2 0.02
39 45 0.43
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (39 bp):
CCTTGAAACAGAAGATTTTGTCTCGCTTGAGATAGTTTC
Found at i:7396071 original size:36 final size:36
Alignment explanation
Indices: 7395981--7396109 Score: 152
Period size: 36 Copynumber: 3.5 Consensus size: 36
7395971 GAAATAAAAG
*
7395981 ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAAAA
1 ATTTTATCTCCCTTGAGATAGTTTCCCTCGAAAC--AA
* *
7396019 GATTTTATCTCGCTTGAGATAGTTTCTCTCGAAACAA
1 -ATTTTATCTCCCTTGAGATAGTTTCCCTCGAAACAA
* **
7396056 ATTTTGTCTCCCTTGAGACGGTTTCCCAT-GAAACAA
1 ATTTTATCTCCCTTGAGATAGTTTCCC-TCGAAACAA
*
7396092 ATTTTGTCTCCCTTGAGA
1 ATTTTATCTCCCTTGAGA
7396110 CAGACTCCCT
Statistics
Matches: 83, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
36 47 0.57
37 3 0.04
39 33 0.40
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (36 bp):
ATTTTATCTCCCTTGAGATAGTTTCCCTCGAAACAA
Found at i:7396119 original size:15 final size:15
Alignment explanation
Indices: 7396099--7396137 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
7396089 CAAATTTTGT
7396099 CTCCCTTGAGACAGA
1 CTCCCTTGAGACAGA
*
7396114 CTCCCTTGAGACAGT
1 CTCCCTTGAGACAGA
*
7396129 TTCCCTTGA
1 CTCCCTTGA
7396138 AACAAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.33, G:0.18, T:0.28
Consensus pattern (15 bp):
CTCCCTTGAGACAGA
Found at i:7396139 original size:51 final size:51
Alignment explanation
Indices: 7396063--7396163 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
7396053 CAAATTTTGT
* *
7396063 CTCCCTTGAGACGGTTTCCCATGAAACAAATTTTGTCTCCCTTGAGACAGA
1 CTCCCTTGAGACAGTTTCCCATGAAACAAATTTAGTCTCCCTTGAGACAGA
* *
7396114 CTCCCTTGAGACAGTTTCCCTTGAAACAAATTTAGTCTTCCTTGAGACAG
1 CTCCCTTGAGACAGTTTCCCATGAAACAAATTTAGTCTCCCTTGAGACAG
7396164 TTTCCTTTGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (51 bp):
CTCCCTTGAGACAGTTTCCCATGAAACAAATTTAGTCTCCCTTGAGACAGA
Found at i:7396177 original size:87 final size:87
Alignment explanation
Indices: 7396031--7396214 Score: 260
Period size: 87 Copynumber: 2.1 Consensus size: 87
7396021 TTTTATCTCG
* * * *
7396031 CTTGAGATAGTTTCTCTCGAAACAAATTTTGTCTCCCTTGAGACGGTTTCCCATGAAACAAATTT
1 CTTGAGACAGTTTCCCTCGAAACAAATTTAGTCTCCCTTGAGACAGTTTCCCATGAAACAAATTT
7396096 TGTCTCCCTTGAGACAGACTCC
66 TGTCTCCCTTGAGACAGACTCC
* * **
7396118 CTTGAGACAGTTTCCCTTGAAACAAATTTAGTCTTCCTTGAGACAGTTTCCTTTGAAACAAATTT
1 CTTGAGACAGTTTCCCTCGAAACAAATTTAGTCTCCCTTGAGACAGTTTCCCATGAAACAAATTT
* **
7396183 TGTCTCCCTTGAGATAGTTTCC
66 TGTCTCCCTTGAGACAGACTCC
*
7396205 CTTGAAACAG
1 CTTGAGACAG
7396215 AAGATTTGTC
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (87 bp):
CTTGAGACAGTTTCCCTCGAAACAAATTTAGTCTCCCTTGAGACAGTTTCCCATGAAACAAATTT
TGTCTCCCTTGAGACAGACTCC
Found at i:7396273 original size:39 final size:39
Alignment explanation
Indices: 7396118--7396573 Score: 568
Period size: 39 Copynumber: 11.8 Consensus size: 39
7396108 GACAGACTCC
* *
7396118 CTTGAGACAGTTTCCCTTGAAAC--AA-ATTTAGTCTTC-
1 CTTGAGATAGTTTCCCTTGAAACAGAAGATTTTGTC-TCG
* * *
7396154 CTTGAGACAGTTTCCTTTGAAAC--AA-ATTTTGTCTCC
1 CTTGAGATAGTTTCCCTTGAAACAGAAGATTTTGTCTCG
7396190 CTTGAGATAGTTTCCCTTGAAACAGAAGA-TTTGTCTCG
1 CTTGAGATAGTTTCCCTTGAAACAGAAGATTTTGTCTCG
* *
7396228 CTTGAGATAGTTTCCCTTGAAACTGAATATTTTGTCTCG
1 CTTGAGATAGTTTCCCTTGAAACAGAAGATTTTGTCTCG
* * *
7396267 CTTGAGATAGTTTCCTTTGAAACATAATATTTTGTCTCG
1 CTTGAGATAGTTTCCCTTGAAACAGAAGATTTTGTCTCG
* *
7396306 CTTGAGACAGTTTCCCTTGAAACAGAAGATTTTGTCTCT
1 CTTGAGATAGTTTCCCTTGAAACAGAAGATTTTGTCTCG
*
7396345 CTTGAGATAGTTTCCCTTGAAACAGAAGATTTTGTCTAG
1 CTTGAGATAGTTTCCCTTGAAACAGAAGATTTTGTCTCG
* * *
7396384 CTTGAGATAGTTTCCCTCGAAACAGATGATTTTATCTCG
1 CTTGAGATAGTTTCCCTTGAAACAGAAGATTTTGTCTCG
*
7396423 CTTGAGATAGTTTCCCTCGAAACAGAAAGATTTTGTCTCG
1 CTTGAGATAGTTTCCCTTGAAACAG-AAGATTTTGTCTCG
* * * *
7396463 CTTGAAATAGTTTCCCTCGAAACAAAAGATTTTGTCTCT
1 CTTGAGATAGTTTCCCTTGAAACAGAAGATTTTGTCTCG
* * * *
7396502 CTTGAGATAGTTTCCATTGAAATAGAAGATATTATCTCG
1 CTTGAGATAGTTTCCCTTGAAACAGAAGATTTTGTCTCG
* * * * *
7396541 CTTGAAATAGTTTCGCTCGAAACACAATATTTT
1 CTTGAGATAGTTTCCCTTGAAACAGAAGATTTT
7396574 TAGAAACTAA
Statistics
Matches: 371, Mismatches: 43, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
35 2 0.01
36 52 0.14
38 37 0.10
39 245 0.66
40 35 0.09
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.37
Consensus pattern (39 bp):
CTTGAGATAGTTTCCCTTGAAACAGAAGATTTTGTCTCG
Found at i:7396522 original size:157 final size:156
Alignment explanation
Indices: 7396118--7396573 Score: 588
Period size: 157 Copynumber: 3.0 Consensus size: 156
7396108 GACAGACTCC
* * * * * *
7396118 CTTGAGACAGTTTCCCTTGAAAC--AA-ATTTAGTCTTC-CTTGAGACAGTTTCCTTTGAAAC--
1 CTTGAGATAGTTTCCCTCGAAACAAAAGATTTTGTC-TCGCTTGAAACAGTTTCCCTCGAAACAA
*
7396177 AA-ATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAGAAGA-TTTGTCTCGCTTGAGATAGTT
65 AAGATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTGTCTCGCTTGAGATAGTT
* * *
7396240 TCCCTTGAAACTGAATATTTTGTCTCG
130 TCCCTCGAAACAGAATATTTTATCTCG
* * * * * * *
7396267 CTTGAGATAGTTTCCTTTGAAACATAATATTTTGTCTCGCTTGAGACAGTTTCCCTTGAAACAGA
1 CTTGAGATAGTTTCCCTCGAAACAAAAGATTTTGTCTCGCTTGAAACAGTTTCCCTCGAAACAAA
*
7396332 AGATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTGTCTAGCTTGAGATAGTTT
66 AGATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTGTCTCGCTTGAGATAGTTT
7396397 CCCTCGAAACAG-ATGATTTTATCTCG
131 CCCTCGAAACAGAAT-ATTTTATCTCG
*
7396423 CTTGAGATAGTTTCCCTCGAAACAGAAAGATTTTGTCTCGCTTGAAATAGTTTCCCTCGAAACAA
1 CTTGAGATAGTTTCCCTCGAAACA-AAAGATTTTGTCTCGCTTGAAACAGTTTCCCTCGAAACAA
* * * * *
7396488 AAGATTTTGTCTCTCTTGAGATAGTTTCCATTGAAATAGAAGATATTATCTCGCTTGAAATAGTT
65 AAGATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTGTCTCGCTTGAGATAGTT
* *
7396553 TCGCTCGAAACACAATATTTT
130 TCCCTCGAAACAGAATATTTT
7396574 TAGAAACTAA
Statistics
Matches: 271, Mismatches: 25, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
149 21 0.08
151 4 0.01
152 29 0.11
154 2 0.01
155 41 0.15
156 63 0.23
157 109 0.40
158 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.37
Consensus pattern (156 bp):
CTTGAGATAGTTTCCCTCGAAACAAAAGATTTTGTCTCGCTTGAAACAGTTTCCCTCGAAACAAA
AGATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTGTCTCGCTTGAGATAGTTT
CCCTCGAAACAGAATATTTTATCTCG
Found at i:7396669 original size:43 final size:43
Alignment explanation
Indices: 7396595--7397116 Score: 498
Period size: 43 Copynumber: 11.6 Consensus size: 43
7396585 CCTGCTTTTC
* *
7396595 AGGGGTTTCTTGAAGAAAAGCTTGAGAGACCATCGTGATATGC
1 AGGGGTTTCTTGATGAAAAGCTTGAGAGACCATCGTGATATGT
* * *
7396638 AGGGGTTTCTTGAGGACAAGTTTGA-AGGACCATCGTGATATGT
1 AGGGGTTTCTTGATGAAAAGCTTGAGA-GACCATCGTGATATGT
*
7396681 AGGGGTTAT-TTGATGAATAA-CTTGAGAAACCATCGTGATATGT
1 AGGGGTT-TCTTGATGAA-AAGCTTGAGAGACCATCGTGATATGT
* * * *
7396724 AAGGGTTTCCTGATGATAAGCTTGAAAGACCATCGTGATATGT
1 AGGGGTTTCTTGATGAAAAGCTTGAGAGACCATCGTGATATGT
* **
7396767 AGGGGTTCCTTGATGACTAGCTTGA-AGGACCATCGTGATATGT
1 AGGGGTTTCTTGATGAAAAGCTTGAGA-GACCATCGTGATATGT
* *
7396810 AGGGG-TTCTTTGATGAAAAGCTTGAGAAACCATCATGATATGT
1 AGGGGTTTC-TTGATGAAAAGCTTGAGAGACCATCGTGATATGT
7396853 AGGGGTTTCTTGATGAAAAGCTTGAGAGACCATCGTGATATGT
1 AGGGGTTTCTTGATGAAAAGCTTGAGAGACCATCGTGATATGT
* * * *
7396896 AAGGGTTCCTTGATGACAAATTTGATGACAAGCTTGAGAAACCATCATGATATGT
1 -AGGG---GTT--T--C----TTGATGAAAAGCTTGAGAGACCATCGTGATATGT
* *
7396951 AGGAGTTTCTTGATGAAAAGCTTGAGGGACCATCGTGATATGT
1 AGGGGTTTCTTGATGAAAAGCTTGAGAGACCATCGTGATATGT
* *
7396994 AGGGGTTCCTTGATGAAAAATTTGATGACAAACTTGAGAAACCATCGTGATATGT
1 AGGGGTTTCTTGATG--AAA----A-G-----CTTGAGAGACCATCGTGATATGT
* *
7397049 AGGGGTTTCTTGATGAAAATCTTGAGGGACCATCGTGATATGT
1 AGGGGTTTCTTGATGAAAAGCTTGAGAGACCATCGTGATATGT
*
7397092 AGGGGTTCCTTGATGACAAA-CTTGA
1 AGGGGTTTCTTGATGA-AAAGCTTGA
7397117 TGAACACTTG
Statistics
Matches: 400, Mismatches: 44, Indels: 70
0.78 0.09 0.14
Matches are distributed among these distances:
42 7 0.02
43 292 0.73
44 15 0.04
45 3 0.01
47 3 0.01
49 4 0.01
50 1 0.00
51 3 0.01
53 3 0.01
54 3 0.01
55 66 0.17
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.30
Consensus pattern (43 bp):
AGGGGTTTCTTGATGAAAAGCTTGAGAGACCATCGTGATATGT
Found at i:7396947 original size:55 final size:55
Alignment explanation
Indices: 7396862--7397164 Score: 228
Period size: 55 Copynumber: 6.0 Consensus size: 55
7396852 TAGGGGTTTC
*
7396862 TTGATGAAAAGCTTGAGAGACCATCGTGATATGTAAGGGTTCCTTGATGACAAAT
1 TTGATGAAAAGCTTGAGAAACCATCGTGATATGTAAGGGTTCCTTGATGACAAAT
* *
7396917 TTGATGACAAGCTTGAGAAACCATCATGATATGT-AGGAG----TT--T--C----
1 TTGATGAAAAGCTTGAGAAACCATCGTGATATGTAAGG-GTTCCTTGATGACAAAT
** * *
7396960 TTGATGAAAAGCTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGAAAAAT
1 TTGATGAAAAGCTTGAGAAACCATCGTGATATGTAAGGGTTCCTTGATGACAAAT
* *
7397015 TTGATGACAAA-CTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGA-AAAT
1 TTGATGA-AAAGCTTGAGAAACCATCGTGATATGTAAGGGTTCCTTGATGACAAAT
* * *
7397069 CT--TG---AG---G-G--ACCATCGTGATATGTAGGGGTTCCTTGATGACAAAC
1 TTGATGAAAAGCTTGAGAAACCATCGTGATATGTAAGGGTTCCTTGATGACAAAT
* ** * * * *
7397113 TTGATGAACA-CTTGAGGGATCAACGTGATATGTAGGGGTTCCTTGGTGACAA
1 TTGATGAAAAGCTTGAGAAACCATCGTGATATGTAAGGGTTCCTTGATGACAA
7397165 TTAAGAAACT
Statistics
Matches: 201, Mismatches: 19, Indels: 57
0.73 0.07 0.21
Matches are distributed among these distances:
43 61 0.30
44 6 0.03
45 1 0.00
46 3 0.01
47 3 0.01
48 1 0.00
49 3 0.01
51 3 0.01
52 3 0.01
54 39 0.19
55 75 0.37
56 3 0.01
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.29
Consensus pattern (55 bp):
TTGATGAAAAGCTTGAGAAACCATCGTGATATGTAAGGGTTCCTTGATGACAAAT
Found at i:7396949 original size:98 final size:98
Alignment explanation
Indices: 7396818--7397119 Score: 523
Period size: 98 Copynumber: 3.1 Consensus size: 98
7396808 GTAGGGGTTC
* *
7396818 TTTGATGAAAAGCTTGAGAAACCATCATGATATGTAGGGGTTTCTTGATGAAAAGCTTGAGAGAC
1 TTTGATGACAAGCTTGAGAAACCATCATGATATGTAGGGGTTTCTTGATGAAAAGCTTGAGGGAC
*
7396883 CATCGTGATATGTAAGGGTTCCTTGATGACAAA
66 CATCGTGATATGTAGGGGTTCCTTGATGACAAA
*
7396916 TTTGATGACAAGCTTGAGAAACCATCATGATATGTAGGAGTTTCTTGATGAAAAGCTTGAGGGAC
1 TTTGATGACAAGCTTGAGAAACCATCATGATATGTAGGGGTTTCTTGATGAAAAGCTTGAGGGAC
*
7396981 CATCGTGATATGTAGGGGTTCCTTGATGAAAAA
66 CATCGTGATATGTAGGGGTTCCTTGATGACAAA
* * *
7397014 TTTGATGACAAACTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGAAAATCTTGAGGGAC
1 TTTGATGACAAGCTTGAGAAACCATCATGATATGTAGGGGTTTCTTGATGAAAAGCTTGAGGGAC
7397079 CATCGTGATATGTAGGGGTTCCTTGATGACAAA
66 CATCGTGATATGTAGGGGTTCCTTGATGACAAA
*
7397112 CTTGATGA
1 TTTGATGA
7397120 ACACTTGAGG
Statistics
Matches: 193, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 193 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (98 bp):
TTTGATGACAAGCTTGAGAAACCATCATGATATGTAGGGGTTTCTTGATGAAAAGCTTGAGGGAC
CATCGTGATATGTAGGGGTTCCTTGATGACAAA
Found at i:7397140 original size:54 final size:55
Alignment explanation
Indices: 7397057--7397164 Score: 173
Period size: 54 Copynumber: 2.0 Consensus size: 55
7397047 GTAGGGGTTT
*
7397057 CTTGATGAAAATCTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACAAA
1 CTTGATGAAAATCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGACAAA
* * *
7397112 CTTGATGAACA-CTTGAGGGATCAACGTGATATGTAGGGGTTCCTTGGTGACAA
1 CTTGATGAAAATCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGACAA
7397165 TTAAGAAACT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
54 39 0.80
55 10 0.20
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (55 bp):
CTTGATGAAAATCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGACAAA
Found at i:7397271 original size:90 final size:90
Alignment explanation
Indices: 7397159--7397389 Score: 383
Period size: 90 Copynumber: 2.6 Consensus size: 90
7397149 GGTTCCTTGG
*
7397159 TGACAATTAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAG
1 TGACAATTAAGAAACTAAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAG
*
7397224 ACCTTCAGTGCGGGATGTTTTCAAA
66 ACCTTCAGTGCAGGATGTTTTCAAA
*
7397249 TGACAATTAAGAAACTAAGCCTTCAGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAG
1 TGACAATTAAGAAACTAAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAG
*
7397314 ACCTTCAGTGCATGATGTTTTCAAA
66 ACCTTCAGTGCAGGATGTTTTCAAA
* *
7397339 TGA-AATTTTAAGAAACTAAGTCTTCGGGGGTTTCTTGATTTTTAAATCCTT
1 TGACAA--TTAAGAAACTAAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTT
7397390 TTGGTCATCT
Statistics
Matches: 132, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
89 2 0.02
90 89 0.67
91 41 0.31
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (90 bp):
TGACAATTAAGAAACTAAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAG
ACCTTCAGTGCAGGATGTTTTCAAA
Found at i:7398958 original size:28 final size:26
Alignment explanation
Indices: 7398901--7398972 Score: 94
Period size: 26 Copynumber: 2.7 Consensus size: 26
7398891 TGCACATATG
*
7398901 TATATATTATATTTTATTTACTCGTG
1 TATATATTATATTTTATTTACTCGTA
7398927 TATATATTATATTTTATTTACTCATGTA
1 TATATATTATATTTTATTTACTC--GTA
7398955 TATAT-TTA-ATGTTTATTT
1 TATATATTATAT-TTTATTT
7398973 CTTTTGTATG
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
26 25 0.60
27 10 0.24
28 7 0.17
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (26 bp):
TATATATTATATTTTATTTACTCGTA
Found at i:7398981 original size:26 final size:26
Alignment explanation
Indices: 7398898--7398960 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
7398888 TATTGCACAT
7398898 ATGTATATATTATATTTTATTTACTC
1 ATGTATATATTATATTTTATTTACTC
*
7398924 GTGTATATATTATATTTTATTTACTC
1 ATGTATATATTATATTTTATTTACTC
7398950 ATGTATATATT
1 ATGTATATATT
7398961 TAATGTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.57
Consensus pattern (26 bp):
ATGTATATATTATATTTTATTTACTC
Found at i:7400060 original size:81 final size:81
Alignment explanation
Indices: 7399925--7400239 Score: 369
Period size: 81 Copynumber: 3.9 Consensus size: 81
7399915 ACGACATGTA
* * * * * *
7399925 CATTTGACATAAACGTGTTAATTATGCCATTTAGATGAATGGTTAAATACCTTTGAGTAAAAGAT
1 CATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATGCCTTTGAGTAAAAGAT
* **
7399990 TAATTTTCTAGCTGTG
66 TAAATGCCTAGCTGTG
* * *
7400006 CATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAACTGCCTTTGAATAAAAGAT
1 CATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATGCCTTTGAGTAAAAGAT
*
7400071 TAACTGCCTAGCTGTG
66 TAAATGCCTAGCTGTG
* * * * * *
7400087 GATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAAGATAAATGCATTTGAGTTAAAGAT
1 CATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATGCCTTTGAGTAAAAGAT
*
7400152 TAAATGCCTAGCTATG
66 TAAATGCCTAGCTGTG
** * * * ** * *
7400168 CATTTGGTAGAAAGGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATGTGTTTGGGTAAAAGAC
1 CATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATGCCTTTGAGTAAAAGAT
7400233 TAAATGC
66 TAAATGC
7400240 ATAACGGTGC
Statistics
Matches: 200, Mismatches: 34, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 200 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (81 bp):
CATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATGCCTTTGAGTAAAAGAT
TAAATGCCTAGCTGTG
Found at i:7400301 original size:46 final size:46
Alignment explanation
Indices: 7400234--7400331 Score: 135
Period size: 46 Copynumber: 2.1 Consensus size: 46
7400224 GTAAAAGACT
* * * *
7400234 AAATGCATAACGGTGCATTATAGACATTAAAGGATGGA-ATAAATGA
1 AAATGCATAAAGGTACATTATAGACATGAAAAGAT-GACATAAATGA
*
7400280 AAATGCATAAAGGTACATTATAGGCATGAAAAGATGACATAAATGA
1 AAATGCATAAAGGTACATTATAGACATGAAAAGATGACATAAATGA
7400326 AAATGC
1 AAATGC
7400332 TTAATGGTGC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 2 0.04
46 44 0.96
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.22
Consensus pattern (46 bp):
AAATGCATAAAGGTACATTATAGACATGAAAAGATGACATAAATGA
Found at i:7400355 original size:46 final size:46
Alignment explanation
Indices: 7400272--7400386 Score: 131
Period size: 46 Copynumber: 2.5 Consensus size: 46
7400262 AAAGGATGGA
* * *
7400272 ATAAATGAAAATGCATAAAGGTACATTATAGGCATGAAAAGATGAC
1 ATAAATGAAAATGCATAATGGTACATAATAGGAATGAAAAGATGAC
* * * * *
7400318 ATAAATGAAAATGCTTAATGGTGCATAATTGGAATGAAAGGATGCC
1 ATAAATGAAAATGCATAATGGTACATAATAGGAATGAAAAGATGAC
** *
7400364 ACCAATGAAAATACATAATGGTA
1 ATAAATGAAAATGCATAATGGTA
7400387 TATTAACGAC
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (46 bp):
ATAAATGAAAATGCATAATGGTACATAATAGGAATGAAAAGATGAC
Found at i:7405275 original size:3 final size:3
Alignment explanation
Indices: 7405267--7405321 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
7405257 CTGCACAAAT
7405267 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7405315 TAA TAA T
1 TAA TAA T
7405322 GTCGGGGCGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:7405763 original size:133 final size:133
Alignment explanation
Indices: 7405544--7405857 Score: 459
Period size: 133 Copynumber: 2.4 Consensus size: 133
7405534 GTTAGATCAG
* * * * *
7405544 ATCTGGAAACGTTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCA
1 ATCTGGAGACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCAAAGCAGACTTATTCCA
* * *
7405609 CTGCTACTCAGGGAAGTTCAAATTTGGAAAGAGGGGATTTGTTCCGCTGTTTCTCTATGGAAAAT
66 CTGCTACTCAGGGAAGTTCAAATATGGAAAGAGGGGATCTGTTCCGCTGTTTCTCTAGGGAAAAT
7405674 AAA
131 AAA
* * * *
7405677 ATCTGGAGACATTGATTTATTCCACTGTTCTTCAGGGAATATTAAATCAAAGCAGACTTATTCCA
1 ATCTGGAGACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCAAAGCAGACTTATTCCA
* *
7405742 CTGCTACTCATGGAA-TGTCAAATATGGAAAGAGGGGATCTGTTTCGCTGTTTCTCTAGGGAAAA
66 CTGCTACTCAGGGAAGT-TCAAATATGGAAAGAGGGGATCTGTTCCGCTGTTTCTCTAGGGAAAA
* *
7405806 TCAG
130 TAAA
*
7405810 ATCTGGAGACGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATC
1 ATCTGGAGACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATC
7405858 GTGTTCGATT
Statistics
Matches: 159, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
132 1 0.01
133 158 0.99
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (133 bp):
ATCTGGAGACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCAAAGCAGACTTATTCCA
CTGCTACTCAGGGAAGTTCAAATATGGAAAGAGGGGATCTGTTCCGCTGTTTCTCTAGGGAAAAT
AAA
Found at i:7407140 original size:22 final size:22
Alignment explanation
Indices: 7407105--7407151 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 22
7407095 ACTATTTTTA
*
7407105 TTTATTCTCTTTTATTTTTATTT
1 TTTATTCTCTTTTA-TTTCATTT
7407128 TTTATT-TCTTTTATTTCATTT
1 TTTATTCTCTTTTATTTCATTT
7407149 TTT
1 TTT
7407152 TAATTTTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.43
22 7 0.30
23 6 0.26
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTATTCTCTTTTATTTCATTT
Found at i:7407148 original size:27 final size:27
Alignment explanation
Indices: 7407099--7407150 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
7407089 TGAACCACTA
* *
7407099 TTTTTATTTATTCTCTTTTATTTTTAT
1 TTTTTATTTATTCTATTTCATTTTTAT
* *
7407126 TTTTTATTTCTTTTATTTCATTTTT
1 TTTTTATTTATTCTATTTCATTTTT
7407151 TTAATTTTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (27 bp):
TTTTTATTTATTCTATTTCATTTTTAT
Found at i:7407152 original size:22 final size:22
Alignment explanation
Indices: 7407100--7407153 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
7407090 GAACCACTAT
*
7407100 TTTTATTTATTCTCTTTTATTTT
1 TTTT-TTTATTCTCTTTTATTTA
7407123 TATTTTTTATT-TCTTTTATTTCA
1 T-TTTTTTATTCTCTTTTATTT-A
7407146 TTTTTTTA
1 TTTTTTTA
7407154 ATTTTTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 17 0.61
23 8 0.29
24 3 0.11
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTTTTATTCTCTTTTATTTA
Found at i:7417013 original size:131 final size:131
Alignment explanation
Indices: 7416770--7417139 Score: 544
Period size: 131 Copynumber: 2.8 Consensus size: 131
7416760 ATCATTTTAA
* * * *
7416770 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCGTGCCTTAAAGTA
1 GAGAGAAAACGATAATTTTTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
* * * *
7416835 GTCATTTATTACTCCAATCGAAATGAAGAGGTATCACTATTTCGTCTTAAAATTCAATATTGATT
66 GTCATTTATTACTCCAATCGAAATGAAGAGATATCATTATTTTGTCTTAAAAATCAATATTGATT
7416900 C
131 C
* * * *
7416901 GAGTGAAAATGATAATTTTTAATGATTTCCAATTGAGAATAAATGACCTCTCATGCCTTAAAGCA
1 GAGAGAAAACGATAATTTTTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
*
7416966 GTCATTTATTACTCCAATCGAAATGAAGAGATACCATTATTTTGTCTTAAAAATCAATATTGATT
66 GTCATTTATTACTCCAATCGAAATGAAGAGATATCATTATTTTGTCTTAAAAATCAATATTGATT
7417031 C
131 C
* * *
7417032 GAGAGAAAACGATAATATCTT-ATTATTTTCAACCGAGAATAAATGACCTCTCATGCCTTAAAGC
1 GAGAGAAAACGATAAT-TTTTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGC
* * * *
7417096 AATCATTTATTACTCCAATCGAAATTAAAAGATATTATTATTTT
65 AGTCATTTATTACTCCAATCGAAATGAAGAGATATCATTATTTT
7417140 CAATATTGAG
Statistics
Matches: 213, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
131 210 0.99
132 3 0.01
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (131 bp):
GAGAGAAAACGATAATTTTTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
GTCATTTATTACTCCAATCGAAATGAAGAGATATCATTATTTTGTCTTAAAAATCAATATTGATT
C
Found at i:7427437 original size:21 final size:21
Alignment explanation
Indices: 7427413--7427456 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
7427403 GAGCCGGAGG
* *
7427413 AGGAGGAGCACGAGAGGAGCT
1 AGGAGCAGCACGAGAGGAACT
* *
7427434 AGGAGCAGCTCGTGAGGAACT
1 AGGAGCAGCACGAGAGGAACT
7427455 AG
1 AG
7427457 CTCCCAGAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.43, T:0.09
Consensus pattern (21 bp):
AGGAGCAGCACGAGAGGAACT
Found at i:7435073 original size:65 final size:63
Alignment explanation
Indices: 7434875--7435084 Score: 198
Period size: 65 Copynumber: 3.3 Consensus size: 63
7434865 TGCACTAAGA
* * * *
7434875 GTGCATCAATGCATCAAGTGCATTCGATGATTT-A-AAATAGC-CAGAGTGCATCGATGCATGGC
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAA-ATCTC--AGTGCATCGATGCATGGT
7434937 TG
62 TG
*
7434939 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGGTGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGT-T
7435004 -
63 G
* **
7435004 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGG-T
7435067 TG
62 TG
*
7435069 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
7435085 CTCTGAAAAA
Statistics
Matches: 124, Mismatches: 12, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
62 3 0.02
63 3 0.02
64 51 0.41
65 61 0.49
66 5 0.04
67 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGTTG
Found at i:7437415 original size:20 final size:20
Alignment explanation
Indices: 7437372--7437422 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
7437362 TAAATATAGT
* *
7437372 AGTATCGATACTGCTATAAT
1 AGTATCGATACTGCTAAAAA
* *
7437392 AGTATCGATATTGTTAAAAA
1 AGTATCGATACTGCTAAAAA
*
7437412 AGTATTGATAC
1 AGTATCGATAC
7437423 ATATATCGAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (20 bp):
AGTATCGATACTGCTAAAAA
Found at i:7437548 original size:21 final size:21
Alignment explanation
Indices: 7437532--7437584 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
7437522 TAGAGTAGTA
7437532 GTACCGATACTCTGAGTTATG
1 GTACCGATACTCTGAGTTATG
*
7437553 GTACCGATACTTTGAGTTATG
1 GTACCGATACTCTGAGTTATG
7437574 GTACCGATACT
1 GTACCGATACT
7437585 ACTCCTTCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.34
Consensus pattern (21 bp):
GTACCGATACTCTGAGTTATG
Found at i:7438790 original size:2 final size:2
Alignment explanation
Indices: 7438778--7438808 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7438768 ATATTACATC
*
7438778 TA TA CA 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 T
7438809 TACAAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:7446589 original size:550 final size:552
Alignment explanation
Indices: 7445539--7446639 Score: 1701
Period size: 550 Copynumber: 2.0 Consensus size: 552
7445529 ATAGTATGTC
* *
7445539 ATTTTGTTATATTAATTATGTTGGCATGTAATTGAAGTTTAAATCACATATGCTTTGATAGATAT
1 ATTTTGTTATATTAATTATGTTGGCATGCAATTGAAGTTTAAATCACATATGCTCTGATAGATAT
7445604 TGTAAATATATTTTTATTATACTTATGTAAATTATTTCACTTTTATTTTAATGAAAGTTTAAATT
66 TGTAAATATATTTTTATTATACTTATGTAAATTATTTCACTTTTATTTTAATGAAAGTTTAAATT
* * *
7445669 TTCCATGATTTATTAAGAGTAACGTTTTGAAAAGTCAATGTGGCACCTCAGATTCGTATTCGGGT
131 TTCCATGATTTATTAAGAGTAACGTTTTAAAAAGTCAATGTGACACCTCAGATTCGTATCCGGGT
* * *
7445734 CGTGTACGAGTTAGGGGTGTTATATTTAATGGTATCAGAGCTATGATTTAGCCGATTCTAGGCAT
196 CGAGTACGAGTTA-GGGTGTTACATTTAATAGTATCAGAGCTATGATTTAGCCGATTCTAGGCAT
* * * *
7445799 AAACCTAAGTCCAGAGTGTCTTTAAAAGTATACATACCAGAAAAATAGTGAGAACTTCTGATCTG
260 AAACCGAAGTCCAGAGTCTCTTTAAAAGTATACATACCAAAAAAATAGTGAGAACATCTGATCTG
* * * *
7445864 ATAGAGTAATGAGTATGTTGTCTTGCTAATAGATTTATATGGTTATGTCTTATTAGATGTCTGAA
325 ATAGAGTAATGAGTATGTTATCTTGCTAATAGAGTTATATGGTTATGTCATATTAGATGTCTAAA
* *
7445929 CACGAGAGCTCCCGAAGTGAAGAGGAAGATGATAAACCAGAAGTGAGTAGTAATTCACCTGTACT
390 CACGAGAGCTCCCGAAGTGAAGAGGAAGATGATAAACCAAAAGTGAGTAGTAATTCACCTGCACT
* * *
7445994 GGCCAGGCAATGTGAAGAACAGACACTTTCGGGAGTGCTTGTACAAGACCAAGACGTGTTCTTCA
455 GGCCAGACAAAGTGAAGAACAGACACTTTCGGGAGTGCCTGTACAAGACCAAGACGTGTTCTTCA
7446059 GGACGTTGGACGCTATTCTAACGCGTTTCCACG
520 GGACGTTGGACGCTATTCTAACGCGTTTCCACG
* *
7446092 ATTTTGTTATATTAATTATGTTGGCATGCAATT-AATGTTTAAATCACATATGCTCTGATCGATT
1 ATTTTGTTATATTAATTATGTTGGCATGCAATTGAA-GTTTAAATCACATATGCTCTGATAGATA
*
7446156 TTGTAAATAT-TTTTTATTATGCTTATGTAAATTATTTCACTTTTATTTTAATGAAAGTTTAAAT
65 TTGTAAATATATTTTTATTATACTTATGTAAATTATTTCACTTTTATTTTAATGAAAGTTTAAAT
*
7446220 TTTCCATGATTT-TGTAAGAGTAAACGTTTTAAAAAGTCAATGTGACAGCTCAGATTCGTATCCG
130 TTTCCATGATTTAT-TAAGAGT-AACGTTTTAAAAAGTCAATGTGACACCTCAGATTCGTATCCG
* * *
7446284 GGTTGAGTACGGGTT-GGGTGTTACATTTAATAGTATCAGAGCTATGGTTTAGCCGATTCTAGGC
193 GGTCGAGTACGAGTTAGGGTGTTACATTTAATAGTATCAGAGCTATGATTTAGCCGATTCTAGGC
** * *
7446348 ATAAGTCGAAGT-CAGAGTCTTTTTAAAAGTATACAT-GCAAACAAAATAGTGAGAACATCTGAT
258 ATAAACCGAAGTCCAGAGTCTCTTTAAAAGTATACATACCAAA-AAAATAGTGAGAACATCTGAT
7446411 CTGATAGAGTAATGAGTATGTTATCTTGCTAATAGAGTTATATGGTTATGTCATATTAGATGTCT
322 CTGATAGAGTAATGAGTATGTTATCTTGCTAATAGAGTTATATGGTTATGTCATATTAGATGTCT
** * * *
7446476 AAACACGAGAGCTCTTGAATTGAAGAGGGAGATGATAGACCAAAAGTGAGTAGTAATTCACCTGC
387 AAACACGAGAGCTCCCGAAGTGAAGAGGAAGATGATAAACCAAAAGTGAGTAGTAATTCACCTGC
* * * *
7446541 CCTGGCCAGACAAAGTGAAGAACGGACACTTTTGGGAGTGCCTGTACAAGACCAAGATGTGTTCT
452 ACTGGCCAGACAAAGTGAAGAACAGACACTTTCGGGAGTGCCTGTACAAGACCAAGACGTGTTCT
* ** * *
7446606 TTAGGGTGTTGGATGCTATTTTAACGCGTTTCCA
517 TCAGGACGTTGGACGCTATTCTAACGCGTTTCCA
7446640 GCCTCCTGCT
Statistics
Matches: 498, Mismatches: 46, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
549 3 0.01
550 248 0.50
551 56 0.11
552 74 0.15
553 117 0.23
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (552 bp):
ATTTTGTTATATTAATTATGTTGGCATGCAATTGAAGTTTAAATCACATATGCTCTGATAGATAT
TGTAAATATATTTTTATTATACTTATGTAAATTATTTCACTTTTATTTTAATGAAAGTTTAAATT
TTCCATGATTTATTAAGAGTAACGTTTTAAAAAGTCAATGTGACACCTCAGATTCGTATCCGGGT
CGAGTACGAGTTAGGGTGTTACATTTAATAGTATCAGAGCTATGATTTAGCCGATTCTAGGCATA
AACCGAAGTCCAGAGTCTCTTTAAAAGTATACATACCAAAAAAATAGTGAGAACATCTGATCTGA
TAGAGTAATGAGTATGTTATCTTGCTAATAGAGTTATATGGTTATGTCATATTAGATGTCTAAAC
ACGAGAGCTCCCGAAGTGAAGAGGAAGATGATAAACCAAAAGTGAGTAGTAATTCACCTGCACTG
GCCAGACAAAGTGAAGAACAGACACTTTCGGGAGTGCCTGTACAAGACCAAGACGTGTTCTTCAG
GACGTTGGACGCTATTCTAACGCGTTTCCACG
Found at i:7453789 original size:44 final size:44
Alignment explanation
Indices: 7453721--7453869 Score: 192
Period size: 44 Copynumber: 3.4 Consensus size: 44
7453711 ACTTAAAGGA
*
7453721 AGTATCGGTACCAGTATCGATACTTCAGTGTATTTTTACACACT
1 AGTATCGGTACCAGTATCGGTACTTCAGTGTATTTTTACACACT
*
7453765 AGTATCGGTACCTGTATCGGTACTTCAGTGTATTTTTACACACT
1 AGTATCGGTACCAGTATCGGTACTTCAGTGTATTTTTACACACT
* * * * * * *
7453809 AATATCGTTACCAGTATCAGTACTGT-AATGTTTTTTTACATATT
1 AGTATCGGTACCAGTATCGGTACT-TCAGTGTATTTTTACACACT
*
7453853 AGTATTGGTACCAGTAT
1 AGTATCGGTACCAGTAT
7453870 TAATACCACA
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
44 90 0.99
45 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (44 bp):
AGTATCGGTACCAGTATCGGTACTTCAGTGTATTTTTACACACT
Found at i:7453889 original size:20 final size:20
Alignment explanation
Indices: 7453864--7453910 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
7453854 GTATTGGTAC
*
7453864 CAGTATTAATACCACATGAA
1 CAGTATCAATACCACATGAA
*
7453884 CAGTATCGATACCACATGAA
1 CAGTATCAATACCACATGAA
7453904 CAGTATC
1 CAGTATC
7453911 GGTACTGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGTATCAATACCACATGAA
Found at i:7453911 original size:20 final size:20
Alignment explanation
Indices: 7453872--7453911 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
7453862 ACCAGTATTA
7453872 ATACCACATGAACAGTATCG
1 ATACCACATGAACAGTATCG
7453892 ATACCACATGAACAGTATCG
1 ATACCACATGAACAGTATCG
7453912 GTACTGTTCT
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:0.40, C:0.25, G:0.15, T:0.20
Consensus pattern (20 bp):
ATACCACATGAACAGTATCG
Found at i:7455130 original size:34 final size:34
Alignment explanation
Indices: 7455082--7455165 Score: 107
Period size: 34 Copynumber: 2.5 Consensus size: 34
7455072 TGCATTTAAA
*
7455082 GCATCTAGTTCATTTAGGGAAACAATTT-ATTTAT
1 GCATCTAGTTCATTTA-GGAAACAATTTCATTCAT
* * * *
7455116 GCATTTAGTTCATTTAGTAAGCTATTTCATTCAT
1 GCATCTAGTTCATTTAGGAAACAATTTCATTCAT
7455150 GCATCTAGTTCATTTA
1 GCATCTAGTTCATTTA
7455166 ATAAAAGTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
33 8 0.19
34 35 0.81
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (34 bp):
GCATCTAGTTCATTTAGGAAACAATTTCATTCAT
Found at i:7455196 original size:17 final size:17
Alignment explanation
Indices: 7455154--7455226 Score: 83
Period size: 17 Copynumber: 4.2 Consensus size: 17
7455144 ATTCATGCAT
*
7455154 CTAGTTCATTTAATAAAA
1 CTAGTTCA-TTAATTAAA
*
7455172 GTTAGTTCATTAATTAAA
1 -CTAGTTCATTAATTAAA
* *
7455190 CTAGTTCATTCATCAAA
1 CTAGTTCATTAATTAAA
*
7455207 CTAGTTCATTTATTAAA
1 CTAGTTCATTAATTAAA
7455224 CTA
1 CTA
7455227 ACTATTAATT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
17 32 0.68
18 8 0.17
19 7 0.15
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (17 bp):
CTAGTTCATTAATTAAA
Found at i:7455198 original size:53 final size:53
Alignment explanation
Indices: 7455120--7455223 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 53
7455110 ATTTATGCAT
* * * *
7455120 TTAGTTCATTTAGTAAGCTATTTCATTCATGC-ATCTAGTTCATTTAATAAAAG
1 TTAGTTCATTAAGTAAACTAGTTCATTCAT-CAAACTAGTTCATTTAATAAAAG
* *
7455173 TTAGTTCATTAATTAAACTAGTTCATTCATCAAACTAGTTCATTTATTAAA
1 TTAGTTCATTAAGTAAACTAGTTCATTCATCAAACTAGTTCATTTAATAAA
7455224 CTAACTATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
52 1 0.02
53 43 0.98
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (53 bp):
TTAGTTCATTAAGTAAACTAGTTCATTCATCAAACTAGTTCATTTAATAAAAG
Found at i:7457802 original size:13 final size:13
Alignment explanation
Indices: 7457756--7457835 Score: 62
Period size: 14 Copynumber: 6.2 Consensus size: 13
7457746 TTTTTAGATT
*
7457756 TAAAATTTAAATA
1 TAAAAATTAAATA
7457769 TATAAATATTAAA-A
1 TA-AAA-ATTAAATA
7457783 T---AATTAAATA
1 TAAAAATTAAATA
7457793 TAAAAATT-AATAA
1 TAAAAATTAAAT-A
7457806 TAAAAATTAAATTA
1 TAAAAATTAAA-TA
*
7457820 CAAAAATTAATATA
1 TAAAAATTAA-ATA
7457834 TA
1 TA
7457836 TATATATATA
Statistics
Matches: 54, Mismatches: 3, Indels: 19
0.71 0.04 0.25
Matches are distributed among these distances:
9 6 0.11
10 3 0.06
12 3 0.06
13 15 0.28
14 20 0.37
15 7 0.13
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (13 bp):
TAAAAATTAAATA
Found at i:7457962 original size:2 final size:2
Alignment explanation
Indices: 7457913--7457943 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7457903 ACACGCACGC
7457913 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7457944 ACACTTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7458486 original size:20 final size:20
Alignment explanation
Indices: 7458461--7458502 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
7458451 TTCTCAAGAA
7458461 TTAAATAAGAAC-ATCTATTT
1 TTAAATAAG-ACTATCTATTT
7458481 TTAAATAAGACTATCTATTT
1 TTAAATAAGACTATCTATTT
7458501 TT
1 TT
7458503 TTACTAGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (20 bp):
TTAAATAAGACTATCTATTT
Found at i:7470090 original size:14 final size:14
Alignment explanation
Indices: 7470026--7470090 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 14
7470016 AACGGACGTA
7470026 AACGAACATAAATG
1 AACGAACATAAATG
*
7470040 AAC-ACGCATAAAT-
1 AACGA-ACATAAATG
*
7470053 ---GAACATAAACG
1 AACGAACATAAATG
*
7470064 AACGAATATAAATG
1 AACGAACATAAATG
7470078 AACGAACATAAAT
1 AACGAACATAAAT
7470091 AAACATATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
10 6 0.15
11 1 0.03
13 1 0.03
14 31 0.79
ACGTcount: A:0.57, C:0.15, G:0.12, T:0.15
Consensus pattern (14 bp):
AACGAACATAAATG
Found at i:7474631 original size:22 final size:22
Alignment explanation
Indices: 7474606--7474681 Score: 116
Period size: 22 Copynumber: 3.5 Consensus size: 22
7474596 GAGATTTTAC
*
7474606 ATTTCACAACACGAATTTGCCA
1 ATTTCGCAACACGAATTTGCCA
*
7474628 ATTTTGCAACACGAATTTGCCA
1 ATTTCGCAACACGAATTTGCCA
*
7474650 ATTTCGCAACACGAATTTTCCA
1 ATTTCGCAACACGAATTTGCCA
*
7474672 AATTCGCAAC
1 ATTTCGCAAC
7474682 TCAGTTTTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (22 bp):
ATTTCGCAACACGAATTTGCCA
Found at i:7477902 original size:13 final size:12
Alignment explanation
Indices: 7477870--7477912 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
7477860 AACGGTCAAC
*
7477870 GGTCAACGGTCAAC
1 GGTCAACGGTC--G
7477884 GGTCAACGGGTCG
1 GGTCAAC-GGTCG
7477897 GGTCAACGGTCG
1 GGTCAACGGTCG
7477909 GGTC
1 GGTC
7477913 GGGTAAACTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 9 0.33
13 7 0.26
14 7 0.26
15 4 0.15
ACGTcount: A:0.19, C:0.26, G:0.40, T:0.16
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:7477907 original size:7 final size:7
Alignment explanation
Indices: 7477859--7477892 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
7477849 CCCAGAATAG
7477859 CAACGGT
1 CAACGGT
7477866 CAACGGT
1 CAACGGT
7477873 CAACGGT
1 CAACGGT
7477880 CAACGGT
1 CAACGGT
7477887 CAACGG
1 CAACGG
7477893 GTCGGGTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.12
Consensus pattern (7 bp):
CAACGGT
Found at i:7477927 original size:18 final size:17
Alignment explanation
Indices: 7477890--7477940 Score: 84
Period size: 18 Copynumber: 2.9 Consensus size: 17
7477880 CAACGGTCAA
*
7477890 CGGGTCGGGTCAACGGT
1 CGGGTCGGGTAAACGGT
7477907 CGGGTCGGGTAAACTGGT
1 CGGGTCGGGTAAAC-GGT
7477925 CGGGTCGGGTAAACGG
1 CGGGTCGGGTAAACGG
7477941 GTAAACGGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 15 0.47
18 17 0.53
ACGTcount: A:0.16, C:0.20, G:0.47, T:0.18
Consensus pattern (17 bp):
CGGGTCGGGTAAACGGT
Found at i:7477970 original size:19 final size:19
Alignment explanation
Indices: 7477955--7477995 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
7477945 ACGGGTCGTG
7477955 ACCGGTCAAACCGGTCAAA
1 ACCGGTCAAACCGGTCAAA
*
7477974 ACCGGTTAAACCGGTCAAA
1 ACCGGTCAAACCGGTCAAA
7477993 ACC
1 ACC
7477996 AGTTTCCAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.37, C:0.32, G:0.20, T:0.12
Consensus pattern (19 bp):
ACCGGTCAAACCGGTCAAA
Found at i:7477975 original size:10 final size:10
Alignment explanation
Indices: 7477955--7477995 Score: 59
Period size: 9 Copynumber: 4.3 Consensus size: 10
7477945 ACGGGTCGTG
7477955 ACCGGTC-AA
1 ACCGGTCAAA
7477964 ACCGGTCAAA
1 ACCGGTCAAA
*
7477974 ACCGGT-TAA
1 ACCGGTCAAA
7477983 ACCGGTCAAA
1 ACCGGTCAAA
7477993 ACC
1 ACC
7477996 AGTTTCCAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 15 0.54
10 13 0.46
ACGTcount: A:0.37, C:0.32, G:0.20, T:0.12
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:7485141 original size:13 final size:12
Alignment explanation
Indices: 7485109--7485151 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
7485099 GAATAGCAAC
*
7485109 GGTCAACGGTCAAC
1 GGTCAACGGTC--G
7485123 GGTCAACGGGTCG
1 GGTCAAC-GGTCG
7485136 GGTCAACGGTCG
1 GGTCAACGGTCG
7485148 GGTC
1 GGTC
7485152 GGGTAAACTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 9 0.33
13 7 0.26
14 7 0.26
15 4 0.15
ACGTcount: A:0.19, C:0.26, G:0.40, T:0.16
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:7485146 original size:7 final size:7
Alignment explanation
Indices: 7485105--7485131 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
7485095 CCCAGAATAG
7485105 CAACGGT
1 CAACGGT
7485112 CAACGGT
1 CAACGGT
7485119 CAACGGT
1 CAACGGT
7485126 CAACGG
1 CAACGG
7485132 GTCGGGTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.30, T:0.11
Consensus pattern (7 bp):
CAACGGT
Found at i:7485166 original size:18 final size:17
Alignment explanation
Indices: 7485129--7485179 Score: 84
Period size: 18 Copynumber: 2.9 Consensus size: 17
7485119 CAACGGTCAA
*
7485129 CGGGTCGGGTCAACGGT
1 CGGGTCGGGTAAACGGT
7485146 CGGGTCGGGTAAACTGGT
1 CGGGTCGGGTAAAC-GGT
7485164 CGGGTCGGGTAAACGG
1 CGGGTCGGGTAAACGG
7485180 GTAAACGGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 15 0.47
18 17 0.53
ACGTcount: A:0.16, C:0.20, G:0.47, T:0.18
Consensus pattern (17 bp):
CGGGTCGGGTAAACGGT
Found at i:7485224 original size:11 final size:10
Alignment explanation
Indices: 7485194--7485245 Score: 72
Period size: 9 Copynumber: 5.3 Consensus size: 10
7485184 ACGGGTCGTG
7485194 ACCGGTC-AA
1 ACCGGTCAAA
7485203 ACCGGTCAAA
1 ACCGGTCAAA
7485213 ACCGGTTCAAA
1 ACCGG-TCAAA
*
7485224 ACCGGT-TAA
1 ACCGGTCAAA
7485233 ACCGGTCAAA
1 ACCGGTCAAA
7485243 ACC
1 ACC
7485246 AGTTTCCAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
9 15 0.39
10 13 0.34
11 10 0.26
ACGTcount: A:0.37, C:0.31, G:0.19, T:0.13
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:7492399 original size:13 final size:12
Alignment explanation
Indices: 7492367--7492409 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
7492357 AACGGTCAAC
*
7492367 GGTCAACGGTCAAC
1 GGTCAACGGTC--G
7492381 GGTCAACGGGTCG
1 GGTCAAC-GGTCG
7492394 GGTCAACGGTCG
1 GGTCAACGGTCG
7492406 GGTC
1 GGTC
7492410 GGGTAAACTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 9 0.33
13 7 0.26
14 7 0.26
15 4 0.15
ACGTcount: A:0.19, C:0.26, G:0.40, T:0.16
Consensus pattern (12 bp):
GGTCAACGGTCG
Done.