Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 300 of 328
Found at i:89441432 original size:159 final size:160
Alignment explanation
Indices: 89441145--89441455 Score: 373
Period size: 159 Copynumber: 1.9 Consensus size: 160
89441135 ATTTTTAAAT
* * * *
89441145 TAAATAAAATCTGTTTAGGGATTTATTCCCGCCGTTCAGCATATTTTATTCTCTATTTTGTTTTT
1 TAAATAAAATCTATTTAGGGATTTATTCCCACCGTTCAACAGATTTTATTCTCTATTTTGTTTTT
* * * * * *
89441210 ATTTCCAAACAAATATTAAAATTAAATAAAAATTGTTTTGGGTTTTATTCTTGTCTTTTAACAGA
66 ATTTCCAAACAAATATTAAAATTAAAT-AAAATTCTTTTGGGATTTATTCCTGCCGTTCAACAGA
*
89441275 TTTTATT-CGATTTTG-TTTCAAATTAAAAG
130 TTTTATTCCAATTTTGATTTCAAATTAAAAG
* * * *
89441304 TAAATAAAATCTATTTCGGGATTTATTCTCACCGTTCAACGGATTTTATTC-C-ATTTTTTATTT
1 TAAATAAAATCTATTTAGGGATTTATTCCCACCGTTCAACAGATTTTATTCTCTATTTTGT-TTT
* *
89441367 TATTTCCAAACGGGAA-ATTAAAGTTAAAT-AAATTCCCTTTTGGGATTTATTCCTGCCGTTCAA
65 TATTTCCAAAC--AAATATTAAAATTAAATAAAATT--CTTTTGGGATTTATTCCTGCCGTTCAA
89441430 CAGATTTTATTCCAATTTTGATTTCA
126 CAGATTTTATTCCAATTTTGATTTCA
89441456 TTTCTACAAC
Statistics
Matches: 128, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
157 11 0.09
158 15 0.12
159 88 0.69
160 9 0.07
161 5 0.04
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (160 bp):
TAAATAAAATCTATTTAGGGATTTATTCCCACCGTTCAACAGATTTTATTCTCTATTTTGTTTTT
ATTTCCAAACAAATATTAAAATTAAATAAAATTCTTTTGGGATTTATTCCTGCCGTTCAACAGAT
TTTATTCCAATTTTGATTTCAAATTAAAAG
Found at i:89441474 original size:87 final size:88
Alignment explanation
Indices: 89441294--89441486 Score: 214
Period size: 87 Copynumber: 2.2 Consensus size: 88
89441284 ATTTTGTTTC
* * ** * * *
89441294 AAATTAAAAGT-AAATAAAATCTATTTCGGGATTTATTCTCACCGTTCAACGGATTTTATTCCAT
1 AAATTAAAATTAAAATAAATTCCCTTTTGGGATTTATTCTCACCGTTCAACAGATTTTATTCCAA
* * *
89441358 TTTTTATTTTATTTCCAAACGGG
66 TTTTGATTTCATTTCCAAACGAG
* *
89441381 AAATTAAAGTT-AAATAAATTCCCTTTTGGGATTTATTC-CTGCCGTTCAACAGATTTTATTCCA
1 AAATTAAAATTAAAATAAATTCCCTTTTGGGATTTATTCTC-ACCGTTCAACAGATTTTATTCCA
*
89441444 ATTTTGATTTCATTTCTACAACGAG
65 ATTTTGATTTCATTTCCA-AACGAG
*
89441469 -CATTAAAATTAAAATAAA
1 AAATTAAAATTAAAATAAA
89441487 ATTTGTTTGG
Statistics
Matches: 88, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
86 1 0.01
87 75 0.85
88 12 0.14
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (88 bp):
AAATTAAAATTAAAATAAATTCCCTTTTGGGATTTATTCTCACCGTTCAACAGATTTTATTCCAA
TTTTGATTTCATTTCCAAACGAG
Found at i:89444957 original size:11 final size:11
Alignment explanation
Indices: 89444941--89444994 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
89444931 AGGCAACCCA
89444941 ATTTTTATTTT
1 ATTTTTATTTT
89444952 ATTTTTA-TTT
1 ATTTTTATTTT
*
89444962 ATTTTT-TCTT
1 ATTTTTATTTT
*
89444972 ATTATTT-TATT
1 ATT-TTTATTTT
89444983 ATTTATTATTTT
1 ATTT-TTATTTT
89444995 CAGATATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
10 15 0.42
11 18 0.50
12 3 0.08
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:89444964 original size:15 final size:14
Alignment explanation
Indices: 89444945--89444994 Score: 66
Period size: 15 Copynumber: 3.5 Consensus size: 14
89444935 AACCCAATTT
89444945 TTATTTTATTTTTA
1 TTATTTTATTTTTA
*
89444959 TTTATTTT-TTCTTA
1 -TTATTTTATTTTTA
89444973 TTATTTTATTATTTA
1 TTATTTTATT-TTTA
89444988 TTATTTT
1 TTATTTT
89444995 CAGATATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 7 0.23
14 7 0.23
15 17 0.55
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (14 bp):
TTATTTTATTTTTA
Found at i:89445002 original size:28 final size:28
Alignment explanation
Indices: 89444945--89445003 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
89444935 AACCCAATTT
** *
89444945 TTATTTTATTTTTATTTATTTTTTCTTA
1 TTATTTTATTTTTATTTATTTTCACATA
*
89444973 TTATTTTATTATTTA-TTATTTTCAGATA
1 TTATTTTATT-TTTATTTATTTTCACATA
89445001 TTA
1 TTA
89445004 ATGAAATTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (28 bp):
TTATTTTATTTTTATTTATTTTCACATA
Found at i:89445778 original size:10 final size:10
Alignment explanation
Indices: 89445763--89445852 Score: 69
Period size: 10 Copynumber: 8.5 Consensus size: 10
89445753 CTGTCATCTC
89445763 TCTTTATTTA
1 TCTTTATTTA
89445773 TCTTTATTTA
1 TCTTTATTTA
**
89445783 GATTTAGATTTAA
1 TCTTT--ATTT-A
89445796 T-TTTAGGATTTA
1 TCTTT---ATTTA
89445808 T-TTTCATTTA
1 TCTTT-ATTTA
89445818 TCTTTATTTA
1 TCTTTATTTA
89445828 TCTTTATTTA
1 TCTTTATTTA
89445838 T-TTGTATTTA
1 TCTT-TATTTA
89445848 TCTTT
1 TCTTT
89445853 TAGAATTTCA
Statistics
Matches: 68, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
9 2 0.03
10 43 0.63
11 5 0.07
12 12 0.18
13 6 0.09
ACGTcount: A:0.22, C:0.07, G:0.06, T:0.66
Consensus pattern (10 bp):
TCTTTATTTA
Found at i:89446947 original size:540 final size:541
Alignment explanation
Indices: 89445911--89446987 Score: 2021
Period size: 540 Copynumber: 2.0 Consensus size: 541
89445901 GATGGAGTGG
*
89445911 CACATATTTGACATCTATTTTTTTTCTGTAAACACTCCCTCTCCCAAAAGCTCTCTCTTTTGTTC
1 CACATATTTGACATCTATTTTTTTTCTATAAACACTCCCTCTCCCAAAAGCTCTCTCTTTTGTTC
*
89445976 TCTCCATATTTTTTTCAATAAAAATCCCATTTATATTATATTTATTTCTTTCTCAAAAATCATGA
66 TCTCCATATTTTCTTCAATAAAAATCCCATTTATATTATATTTATTTCTTTCTCAAAAATCATGA
*
89446041 GCCACTAAACCAATCTAGCCGAAGGTTGTCAAAATTCCCTAAAAAGGTTCATGAGGCTTAGAATC
131 GCCACTAAACCAATCTAGCCGAAGGTTGTCAAAATTCCCTAAAAAGGTTCATAAGGCTTAGAATC
*
89446106 CACGCTTAGCCTTCTCAACAAGGTATTCATCGCTTCTTCGCATTACGGGACTAACGCTTCCGTCC
196 CACGCTTAGCCTTCTCAACAAGGTATTCATCGCTTCTCCGCATTACGGGACTAACGCTTCCGTCC
*
89446171 ATTGCCTTTAATAGGTGATCTTTTCAACTTGTGTAAGGAACGGCCCCTTTGTACGTTTTGGGAAG
261 ATTGCCTTTAATAGGTGATCTTTTCAACTTGTGTAAGGAACGGCCACTTTGTACGTTTTGGGAAG
89446236 GTTGCACAATCGGTTCGTTGGCTTTTTGCGTCAGAGGTTGGCCAATCTAAGAGACAAAATAGCGT
326 GTTGCACAATCGGTTCGTTGGCTTTTTGCGTCAGAGGTTGGCCAATCTAAGAGACAAAATAGCGT
*
89446301 GGTATTCACCGTTGGGAAGTGATGATCTAGCAGGAGATAATCCCACAAAAGCGATTATTGGCTAG
391 GGTATTCACCGTTGGGAAGTGATGATCTAGCAGGAGATAATCCCACAAAAGCGATTATCGGCTAG
89446366 AGACAGGCTCCGCCAAATTTTAAATCTAATCCTTGGAGCTGGTGGTCGTAGGCATCCTCTTCCAC
456 AGACAGGCTCCGCCAAATTTTAAATCTAATCCTTGGAGCTGGTGGTCGTAGGCATCCTCTTCCAC
89446431 TATAACTGGCTTATCCTCTTC
521 TATAACTGGCTTATCCTCTTC
89446452 CACATATTTGACATCTA-TTTTTTTCTATAAACACTCCCTCTCCCAAAAGCTCTCTCTTTTGTTC
1 CACATATTTGACATCTATTTTTTTTCTATAAACACTCCCTCTCCCAAAAGCTCTCTCTTTTGTTC
89446516 TCTCCATATTTTCTTCAATAAAAATCCCATTTATATTATATTTATTTCTTTCTCAAAAATCATGA
66 TCTCCATATTTTCTTCAATAAAAATCCCATTTATATTATATTTATTTCTTTCTCAAAAATCATGA
89446581 GCCACTAAACCAATCTAGCCGAAGGTTGTCAAAATTCCCTAAAAAGGTTCATAAGGCTTAGAATC
131 GCCACTAAACCAATCTAGCCGAAGGTTGTCAAAATTCCCTAAAAAGGTTCATAAGGCTTAGAATC
** *
89446646 CACGCTTAGCCTTCTCAATGAGGTATTCATCGCTTCTCCGCATTATGGGACTAACGCTTCCGTCC
196 CACGCTTAGCCTTCTCAACAAGGTATTCATCGCTTCTCCGCATTACGGGACTAACGCTTCCGTCC
89446711 ATTGCCTTTAATAGGTGATCTTTTCAACTTGTGTAAGGAACGGCCACTTTGTACGTTTTGGGAAG
261 ATTGCCTTTAATAGGTGATCTTTTCAACTTGTGTAAGGAACGGCCACTTTGTACGTTTTGGGAAG
*
89446776 GTTGCACAATTGGTTCGTTGGCTTTTTGCGTCAGAGGTTGGCCAATCTAAGAGACAAAATAGCGT
326 GTTGCACAATCGGTTCGTTGGCTTTTTGCGTCAGAGGTTGGCCAATCTAAGAGACAAAATAGCGT
* *
89446841 GGTATTCGCCGTTGGGAAGTGATGATCTAGCAGGAGATAGTCCCACAAAAGCGATTATCGGCTAG
391 GGTATTCACCGTTGGGAAGTGATGATCTAGCAGGAGATAATCCCACAAAAGCGATTATCGGCTAG
* *
89446906 AGACAGGCTCTGCCAAATTTTAAATCTAATCCTTGGAGCTGGTGGTCGTAGGCGTCCTCTTCCAC
456 AGACAGGCTCCGCCAAATTTTAAATCTAATCCTTGGAGCTGGTGGTCGTAGGCATCCTCTTCCAC
89446971 TATAACTGGCTTATCCT
521 TATAACTGGCTTATCCT
89446988 ACTCGAGAAG
Statistics
Matches: 522, Mismatches: 14, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
540 505 0.97
541 17 0.03
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (541 bp):
CACATATTTGACATCTATTTTTTTTCTATAAACACTCCCTCTCCCAAAAGCTCTCTCTTTTGTTC
TCTCCATATTTTCTTCAATAAAAATCCCATTTATATTATATTTATTTCTTTCTCAAAAATCATGA
GCCACTAAACCAATCTAGCCGAAGGTTGTCAAAATTCCCTAAAAAGGTTCATAAGGCTTAGAATC
CACGCTTAGCCTTCTCAACAAGGTATTCATCGCTTCTCCGCATTACGGGACTAACGCTTCCGTCC
ATTGCCTTTAATAGGTGATCTTTTCAACTTGTGTAAGGAACGGCCACTTTGTACGTTTTGGGAAG
GTTGCACAATCGGTTCGTTGGCTTTTTGCGTCAGAGGTTGGCCAATCTAAGAGACAAAATAGCGT
GGTATTCACCGTTGGGAAGTGATGATCTAGCAGGAGATAATCCCACAAAAGCGATTATCGGCTAG
AGACAGGCTCCGCCAAATTTTAAATCTAATCCTTGGAGCTGGTGGTCGTAGGCATCCTCTTCCAC
TATAACTGGCTTATCCTCTTC
Found at i:89447144 original size:17 final size:18
Alignment explanation
Indices: 89447113--89447147 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
89447103 ATATTCCTCA
89447113 TTTTAATTTCTGCAATTT
1 TTTTAATTTCTGCAATTT
89447131 TTTTAATTTC-GCAATTT
1 TTTTAATTTCTGCAATTT
89447148 CAATTCACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.23, C:0.11, G:0.06, T:0.60
Consensus pattern (18 bp):
TTTTAATTTCTGCAATTT
Found at i:89449114 original size:3 final size:3
Alignment explanation
Indices: 89449106--89449133 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
89449096 TTAAGTGATC
89449106 GTG GTG GTG GTG GTG GTG GTG GTG GTG G
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG G
89449134 ATAGGTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
GTG
Found at i:89450696 original size:20 final size:20
Alignment explanation
Indices: 89450666--89450709 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
89450656 CATATATCCT
89450666 AATTTATTTGATTCTAAT-A
1 AATTTATTTGATTCTAATCA
*
89450685 AATTTGATTTGATTTTAATCA
1 AATTT-ATTTGATTCTAATCA
89450706 AATT
1 AATT
89450710 AATTCAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 12 0.55
21 5 0.23
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (20 bp):
AATTTATTTGATTCTAATCA
Found at i:89462786 original size:30 final size:30
Alignment explanation
Indices: 89462750--89462809 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
89462740 CGAATGAAAC
* *
89462750 CCTCTTGCATGCTCTTAGAGACTGTCCCAT
1 CCTCTTGCATACTCTTAGAGACTGCCCCAT
89462780 CCTCTTGCATACTCTTAGAGACTGCCCCAT
1 CCTCTTGCATACTCTTAGAGACTGCCCCAT
89462810 TTCTCGTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.18, C:0.35, G:0.15, T:0.32
Consensus pattern (30 bp):
CCTCTTGCATACTCTTAGAGACTGCCCCAT
Found at i:89464909 original size:25 final size:25
Alignment explanation
Indices: 89464881--89464951 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
89464871 AAGTGTGTAC
89464881 ATAGTATTAAAAATATATACATAAT
1 ATAGTATTAAAAATATATACATAAT
** * * *
89464906 ATAGCGTTAAAATTACATGCATAAT
1 ATAGTATTAAAAATATATACATAAT
89464931 ATAGTTATTAAAAATAATATA
1 ATAG-TATTAAAAAT-ATATA
89464952 TATTCATAAG
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
25 24 0.71
26 7 0.21
27 3 0.09
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.35
Consensus pattern (25 bp):
ATAGTATTAAAAATATATACATAAT
Found at i:89465214 original size:20 final size:20
Alignment explanation
Indices: 89465145--89465214 Score: 70
Period size: 19 Copynumber: 3.4 Consensus size: 20
89465135 ACAACTATTA
* *
89465145 ATAATATTACATAAATATACAC
1 ATAATATTA-A-AAATACATAC
89465167 ATATATATTAAAAAATACATA-
1 ATA-ATATT-AAAAATACATAC
*
89465188 ATGATATTAAAAATACATAC
1 ATAATATTAAAAATACATAC
89465208 ATAATAT
1 ATAATAT
89465215 ATATATACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 11 0.27
20 11 0.27
21 2 0.05
22 10 0.24
23 6 0.15
24 1 0.02
ACGTcount: A:0.57, C:0.09, G:0.01, T:0.33
Consensus pattern (20 bp):
ATAATATTAAAAATACATAC
Found at i:89465570 original size:19 final size:19
Alignment explanation
Indices: 89465546--89465602 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
89465536 AAATATATAC
89465546 ATATACATATATAATAAAA
1 ATATACATATATAATAAAA
*
89465565 ATATACACTAT-TAATAATA
1 ATATACA-TATATAATAAAA
*
89465584 ATAATAAATATAGTAATAA
1 AT-ATACATATA-TAATAA
89465603 TATTAATAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 19 0.59
20 7 0.22
21 6 0.19
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (19 bp):
ATATACATATATAATAAAA
Found at i:89465654 original size:142 final size:145
Alignment explanation
Indices: 89465482--89465749 Score: 386
Period size: 142 Copynumber: 1.9 Consensus size: 145
89465472 ATACGTAAAC
*
89465482 ATAATATAATAAAAATATTAAAATAAAGTAAATAGAAAATAACACTATGTACAAA-A-ATATATA
1 ATAATATAATAAAAATATTAAAATAAAGTAAATA-AAAATAAAACTATGTACAAATATATATATA
* *
89465545 CATATACATATATAATAAAAATATACACT-AT-TAATA-ATAATAATAAATA-TAGTAATAATAT
65 CATATACATATATAAT-AAAACATACACTAATATAATATATAATAAT-AATACTAGAAATAATAT
89465606 TAATAACAAAAAGCAAAT
128 TAATAACAAAAAGCAAAT
* * * * *
89465624 ATAATGTAATAAATATATTAAAATAAAGTAATTAAAAATAAAACTATGTATAAATATATATATAT
1 ATAATATAATAAAAATATTAAAATAAAGTAAATAAAAATAAAACTATGTACAAATATATATATAC
*
89465689 ATATACATATATAATAAAACATACACTAATATTATATATAATAATAATACTAGAAATAATA
66 ATATACATATATAATAAAACATACACTAATATAATATATAATAATAATACTAGAAATAATA
89465750 ATAACTAGTA
Statistics
Matches: 111, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
141 18 0.16
142 43 0.39
143 24 0.22
144 8 0.07
145 18 0.16
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (145 bp):
ATAATATAATAAAAATATTAAAATAAAGTAAATAAAAATAAAACTATGTACAAATATATATATAC
ATATACATATATAATAAAACATACACTAATATAATATATAATAATAATACTAGAAATAATATTAA
TAACAAAAAGCAAAT
Found at i:89465734 original size:3 final size:3
Alignment explanation
Indices: 89465726--89465921 Score: 116
Period size: 3 Copynumber: 65.0 Consensus size: 3
89465716 AATATTATAT
* *
89465726 ATA ATA ATA ATA CTA GA-A ATA ATA ATA ACTA GTA ATA ATA ATA CATTA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA A-TA ATA ATA ATA ATA -A-TA
* * * *
89465774 AAA ATA ATA ATA ATA ATG ATA CT- ATA TTA ATA A-A ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * *
89465820 A-A AGGA ATA AAA ACA ATG TTA ATA ACA AGA ATA TTA ATA ATA GTA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
89465865 ATA ATA ACA ATA AT- ATAA ATA ATA ATA TTA ATA ATA TTA GA-A ATG
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA -ATA ATA
89465910 ATA ATA ATA ATA
1 ATA ATA ATA ATA
89465922 TTTAATAAAA
Statistics
Matches: 145, Mismatches: 35, Indels: 26
0.70 0.17 0.13
Matches are distributed among these distances:
2 9 0.06
3 126 0.87
4 8 0.06
5 2 0.01
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:89465752 original size:33 final size:32
Alignment explanation
Indices: 89465726--89465817 Score: 93
Period size: 31 Copynumber: 2.9 Consensus size: 32
89465716 AATATTATAT
*
89465726 ATAATAATAATAC-TAGAAATAATAATAACTA
1 ATAATAATAATACATAAAAATAATAATAACTA
*
89465757 GTAATAATAATACATTAAAAATAATAATAA-TA
1 ATAATAATAATACA-TAAAAATAATAATAACTA
* *
89465789 ATGATACTATATTA-AT-AAAATAATAATAA
1 ATAATA--ATAATACATAAAAATAATAATAA
89465818 TAAAAGGAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
31 25 0.48
32 7 0.13
33 15 0.29
34 5 0.10
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (32 bp):
ATAATAATAATACATAAAAATAATAATAACTA
Found at i:89465762 original size:16 final size:16
Alignment explanation
Indices: 89465727--89465768 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
89465717 ATATTATATA
89465727 TAATAATAAT-ACTAG
1 TAATAATAATAACTAG
*
89465742 AAATAATAATAACTAG
1 TAATAATAATAACTAG
89465758 TAATAATAATA
1 TAATAATAATA
89465769 CATTAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.31
Consensus pattern (16 bp):
TAATAATAATAACTAG
Found at i:89466558 original size:13 final size:13
Alignment explanation
Indices: 89466540--89466564 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89466530 CTAGGGTTTC
89466540 TTTTTTTGTTTTG
1 TTTTTTTGTTTTG
89466553 TTTTTTTGTTTT
1 TTTTTTTGTTTT
89466565 AGATATTGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTTTTTGTTTTG
Found at i:89467229 original size:88 final size:88
Alignment explanation
Indices: 89467096--89467314 Score: 264
Period size: 88 Copynumber: 2.5 Consensus size: 88
89467086 ATTAGCTCCA
* * * * * ** * *
89467096 CTCTCACAATATGAGCTGACTTTTTGGAAAACAGTCATT-AAAAACAGAACTTGAAAATACCTCA
1 CTCTCGCAATATAAGTTGATTTTTTGAAAAACAGAAATTGAAAAACAAAAATTGAAAATACCTCA
89467160 GCATATGACCCGAGGCTCAACTCAC
66 GC--ATGACCCGAGGCTCAACTCAC
*
89467185 CTCTCGCAATATAAGTTGA-TTTTT-AAAAACAGAATTTGAAAAACAAAAATTGAAAATACCTCA
1 CTCTCGCAATATAAGTTGATTTTTTGAAAAACAGAAATTGAAAAACAAAAATTGAAAATACCTCA
* * *
89467248 GCGTGTCCTGAGGCTCAACTCAC
66 GCATGACCCGAGGCTCAACTCAC
* *
89467271 CTCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAA
1 CTCTCGCAATATAAGTTGATTTTTTGAAAAACAGAAATTGAAAA
89467315 TACCTTAGCG
Statistics
Matches: 112, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
86 36 0.32
87 14 0.12
88 46 0.41
89 16 0.14
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.26
Consensus pattern (88 bp):
CTCTCGCAATATAAGTTGATTTTTTGAAAAACAGAAATTGAAAAACAAAAATTGAAAATACCTCA
GCATGACCCGAGGCTCAACTCAC
Found at i:89467410 original size:73 final size:71
Alignment explanation
Indices: 89467219--89467601 Score: 507
Period size: 73 Copynumber: 5.2 Consensus size: 71
89467209 AAAAACAGAA
* *
89467219 TTTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTTG-AAAACAGAAATTGAAAATACCTCAGCGTGTCC-GAGGCTTAACTCACCTCTCGCAATATG
*
89467284 AGTTGATTT
64 AGTT-AATT
*
89467293 TTTGAAAAGCAGAAATTGAAAATACCTTAGCGTGTCCCGAGGCTTAACTCACCTCTCGCAATATG
1 TTTGAAAA-CAGAAATTGAAAATACCTCAGCGTGT-CCGAGGCTTAACTCACCTCTCGCAATATG
89467358 AGTTAATT
64 AGTTAATT
* *
89467366 TTTGATAAACAGAAATTGAAATTACCTCAGCTTGTCTCGAGGCTTAACTCACCTCTCGCAATATG
1 TTTGA-AAACAGAAATTGAAAATACCTCAGCGTGTC-CGAGGCTTAACTCACCTCTCGCAATATG
*
89467431 AGTTGATT
64 AGTTAATT
* *
89467439 TTTAACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGG-TTCAACTCACCTCTCGCAATAT
1 TTTGA-AAACAGAAATTGAAAATACCTCAGCGTGTCC-GAGGCTT-AACTCACCTCTCGCAATAT
*
89467503 GAGTTGATTTT
63 GAGTT-A-ATT
* * *
89467514 TTTGAAAGACAGAAATTGAAAATACCTTAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATG
1 TTTGAAA-ACAGAAATTGAAAATACCTCAGCGTGTC-CGAGGCTTAACTCACCTCTCGCAATATG
*
89467579 AGTTGATT
64 AGTTAATT
89467587 TTTGAAAACAGAAAT
1 TTTGAAAACAGAAAT
89467602 AAAAACATCA
Statistics
Matches: 278, Mismatches: 20, Indels: 24
0.86 0.06 0.07
Matches are distributed among these distances:
72 12 0.04
73 140 0.50
74 63 0.23
75 61 0.22
76 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31
Consensus pattern (71 bp):
TTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCGAGGCTTAACTCACCTCTCGCAATATGAG
TTAATT
Found at i:89467515 original size:147 final size:145
Alignment explanation
Indices: 89467219--89467601 Score: 547
Period size: 147 Copynumber: 2.6 Consensus size: 145
89467209 AAAAACAGAA
* *
89467219 TTTGAAAAACAAAAATTGAAAATACCTCAGCGTGTC-CTGAGGCTCAACTCACCTCTCGCAATAT
1 TTTG-AAAACAGAAATTGAAAATACCTCAGCGTGTCTC-GAGGCTTAACTCACCTCTCGCAATAT
* *
89467283 GAGTTGATTTTTTGAAAAGCAGAAATTGAAAATACCTTAGCGTGTCCCGAGGCTTAACTCACCTC
64 GAGTTGA-TTTTT-AAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTTAACTCACCTC
89467348 TCGCAATATGAGTTA-ATT
127 TCGCAATATGAGTTATATT
* *
89467366 TTTGATAAACAGAAATTGAAATTACCTCAGCTTGTCTCGAGGCTTAACTCACCTCTCGCAATATG
1 TTTGA-AAACAGAAATTGAAAATACCTCAGCGTGTCTCGAGGCTTAACTCACCTCTCGCAATATG
* *
89467431 AGTTGATTTTTAACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGG-TTCAACTCACCTCT
65 AGTTGATTTTTAA-AAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTT-AACTCACCTCT
*
89467495 CGCAATATGAGTTGATTTT
128 CGCAATATGAGTT-ATATT
* * *
89467514 TTTGAAAGACAGAAATTGAAAATACCTTAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATG
1 TTTGAAA-ACAGAAATTGAAAATACCTCAGCGTGTCTCGAGGCTTAACTCACCTCTCGCAATATG
*
89467579 AGTTGATTTTTGAAAACAGAAAT
65 AGTTGATTTTTAAAAACAGAAAT
89467602 AAAAACATCA
Statistics
Matches: 214, Mismatches: 15, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
145 4 0.02
146 62 0.29
147 76 0.36
148 72 0.34
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31
Consensus pattern (145 bp):
TTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCTCGAGGCTTAACTCACCTCTCGCAATATGA
GTTGATTTTTAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTTAACTCACCTCTCGC
AATATGAGTTATATT
Found at i:89468431 original size:44 final size:44
Alignment explanation
Indices: 89468366--89468472 Score: 189
Period size: 44 Copynumber: 2.5 Consensus size: 44
89468356 CTTCATTAGA
89468366 ACGCCC-TTTCGGGTTTTCATCCTAATCTTTTGTGTTAATCAAG
1 ACGCCCTTTTCGGGTTTTCATCCTAATCTTTTGTGTTAATCAAG
* *
89468409 ACGCCCTTTTCAGATTTTCATCCTAATCTTTTGTGTTAATCAAG
1 ACGCCCTTTTCGGGTTTTCATCCTAATCTTTTGTGTTAATCAAG
89468453 ACGCCCTTTTCGGGTTTTCA
1 ACGCCCTTTTCGGGTTTTCA
89468473 CCTTAATTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
43 6 0.10
44 53 0.90
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (44 bp):
ACGCCCTTTTCGGGTTTTCATCCTAATCTTTTGTGTTAATCAAG
Found at i:89469598 original size:62 final size:62
Alignment explanation
Indices: 89469501--89469624 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
89469491 TCCTGGCCAT
89469501 AGTGAAATCATTGCATGCGTCCCACAAATTCCTTCATGGACATCTTCAAGTATTTTTCTAGC
1 AGTGAAATCATTGCATGCGTCCCACAAATTCCTTCATGGACATCTTCAAGTATTTTTCTAGC
89469563 AGTGAAATCATTGCATGCGTCCCACAAATTCCTTCATGGACATCTTCAAGTATTTTTCTAGC
1 AGTGAAATCATTGCATGCGTCCCACAAATTCCTTCATGGACATCTTCAAGTATTTTTCTAGC
89469625 TTCAACATCA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (62 bp):
AGTGAAATCATTGCATGCGTCCCACAAATTCCTTCATGGACATCTTCAAGTATTTTTCTAGC
Found at i:89475992 original size:22 final size:22
Alignment explanation
Indices: 89475961--89476005 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
89475951 ATGCAATGAA
*
89475961 TGAATGAATGACAAATGAATGT
1 TGAATAAATGACAAATGAATGT
*
89475983 TGAATAAATGACGAATGAATGT
1 TGAATAAATGACAAATGAATGT
89476005 T
1 T
89476006 AGTCATGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.29
Consensus pattern (22 bp):
TGAATAAATGACAAATGAATGT
Found at i:89479942 original size:25 final size:25
Alignment explanation
Indices: 89479914--89479984 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
89479904 AAGTGTGTAC
89479914 ATAGTATTAAAAATATATACATAAT
1 ATAGTATTAAAAATATATACATAAT
** * * *
89479939 ATAGCGTTAAAATTACATGCATAAT
1 ATAGTATTAAAAATATATACATAAT
89479964 ATAGTTATTAAAAATAATATA
1 ATAG-TATTAAAAAT-ATATA
89479985 TATTCATAAG
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
25 24 0.71
26 7 0.21
27 3 0.09
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.35
Consensus pattern (25 bp):
ATAGTATTAAAAATATATACATAAT
Found at i:89480250 original size:20 final size:20
Alignment explanation
Indices: 89480148--89480250 Score: 75
Period size: 19 Copynumber: 4.8 Consensus size: 20
89480138 CACATATTAG
*
89480148 AAATA-ATAATAATGTTAAA
1 AAATACATAATAATATTAAA
*
89480167 AAACAACTATTAATAATATTACATA
1 AAA-TAC-A-TAATAATATTA-A-A
*
89480192 AATATACACATATATATATTAAA
1 AA-ATACATA-ATA-ATATTAAA
*
89480215 AAATACATAATGATATT-AA
1 AAATACATAATAATATTAAA
89480234 AAATACATACATAATAT
1 AAATACATA-ATAATAT
89480251 ATATATACAT
Statistics
Matches: 67, Mismatches: 7, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
19 14 0.21
20 12 0.18
21 2 0.03
22 7 0.10
23 14 0.21
24 6 0.09
25 11 0.16
26 1 0.01
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (20 bp):
AAATACATAATAATATTAAA
Found at i:89480342 original size:15 final size:15
Alignment explanation
Indices: 89480319--89480349 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
89480309 TGCACAATAT
*
89480319 ATATGGTATTAAAAA
1 ATATAGTATTAAAAA
89480334 ATATAGTATTAAAAA
1 ATATAGTATTAAAAA
89480349 A
1 A
89480350 AACATAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (15 bp):
ATATAGTATTAAAAA
Found at i:89480602 original size:26 final size:29
Alignment explanation
Indices: 89480573--89480638 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 29
89480563 ACTATGTACA
89480573 AAAATATATACA-TA-TACAT-AT-ATAAT
1 AAAATATATACACTATTA-ATAATAATAAT
*
89480599 AAAAAATATACACTATTAATAATAATAAT
1 AAAATATATACACTATTAATAATAATAAT
89480628 AATAATATATA
1 AA-AATATATA
89480639 GTAATAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 11 0.33
27 4 0.12
28 4 0.12
29 7 0.21
30 7 0.21
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (29 bp):
AAAATATATACACTATTAATAATAATAAT
Found at i:89480604 original size:28 final size:26
Alignment explanation
Indices: 89480572--89480659 Score: 79
Period size: 28 Copynumber: 3.2 Consensus size: 26
89480562 TACTATGTAC
89480572 AAAAATATATAC-ATATACATATATAATA
1 AAAAATATATACTAT-TA-ATA-ATAATA
*
89480600 AAAAATATACACTATTAATAATAATA
1 AAAAATATATACTATTAATAATAATA
* * *
89480626 ATAATAATATATAGTAATAATATTAATA
1 A-AA-AATATATACTATTAATAATAATA
89480654 ACAAAA
1 A-AAAA
89480660 AGCAAATATA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
26 7 0.14
27 7 0.14
28 35 0.69
29 2 0.04
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.32
Consensus pattern (26 bp):
AAAAATATATACTATTAATAATAATA
Found at i:89480609 original size:20 final size:22
Alignment explanation
Indices: 89480575--89480647 Score: 73
Period size: 22 Copynumber: 3.3 Consensus size: 22
89480565 TATGTACAAA
89480575 AATATATACATATACATATATAAT
1 AATA-ATA-ATATACATATATAAT
89480599 AA-AA-AATATACACTAT-TAAT
1 AATAATAATATACA-TATATAAT
*
89480619 AATAATAATAATA-ATATATAGT
1 AATAATAAT-ATACATATATAAT
89480641 AATAATA
1 AATAATA
89480648 TTAATAACAA
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
20 13 0.30
21 9 0.21
22 15 0.35
23 4 0.09
24 2 0.05
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.34
Consensus pattern (22 bp):
AATAATAATATACATATATAAT
Found at i:89480623 original size:3 final size:3
Alignment explanation
Indices: 89480615--89480654 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
89480605 TATACACTAT
* *
89480615 TAA TAA TAA TAA TAA TAA TATA TAG TAA TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
89480655 CAAAAAGCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:89480727 original size:2 final size:2
Alignment explanation
Indices: 89480715--89480746 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
89480705 TAAAACTATG
*
89480715 TA TA AA 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
89480747 AAAACATACA
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:89480777 original size:3 final size:3
Alignment explanation
Indices: 89480769--89481002 Score: 197
Period size: 3 Copynumber: 77.0 Consensus size: 3
89480759 AATATTATAT
* *
89480769 ATA ATA ATA ATA CTA GA-A ATA ATA ATA ACTA GTA ATA ATA ATA CATTA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA A-TA ATA ATA ATA ATA -A-TA
* *
89480817 AAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
89480865 ATA ATA ATA ATA ATA ATA ATA ATA ATA AGA ATA A-A AGGA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
* * * * * * * * *
89480910 ACA ATG TTA ATA ACA AGA ATA GTA ATA ATA GTA ATA ATA ACA ACA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
89480957 ATAA AGA ATA ATA TTA ATA ATA TTA GA-A ATG ATA ATA ATA ATA ATA
1 AT-A ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
89481003 TTTAATAAAA
Statistics
Matches: 185, Mismatches: 35, Indels: 22
0.76 0.14 0.09
Matches are distributed among these distances:
2 6 0.03
3 170 0.92
4 7 0.04
5 2 0.01
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:89480838 original size:146 final size:140
Alignment explanation
Indices: 89480527--89480838 Score: 306
Period size: 146 Copynumber: 2.1 Consensus size: 140
89480517 AACATAATAT
* * *
89480527 AATAAAAATATTAA-AATAAAGTAATTAGAAAATAATACTATGTACAAAAATATATACATATACA
1 AATAATAATAATAATAATAAAGTAATTAGAAAATAAAACTATGTACAAAAATATATACATATACA
* * * * * *
89480591 TATATAATAAAAAATATACACTATTAATAATAATAATAATAATATATAGTAATAATATTAATAAC
66 TATATAATAAAAAATACACAATATTAATAATAATAATAATAAGAAATAATAATAATAGTAATAAC
89480656 AAAAAGCAAA
131 AAAAAGCAAA
* * * *
89480666 TATAATGTAATAAATATATTAAAATAAAGTAATTA-AAAATAAAACTATGTATAAATATATATAT
1 AATAA--TAAT-AATA-A-T--AATAAAGTAATTAGAAAATAAAACTATGTACAAAAATATATAC
*
89480730 ATATATATATATATATAAAAACATACACTAATATT-ATATATAATAATAATACTAGAAATAATAA
59 ATATACATATATA-ATAAAAA-ATACAC-AATATTAATA-ATAATAATAATA--AGAAATAATAA
* * **
89480794 TAACTAGTAATAATAATACATTAAA
118 TAA-TAGTAATAACAA-AAAGCAAA
89480819 AATAATAATAATAATAATAA
1 AATAATAATAATAATAATAA
89480839 TAATAATAAT
Statistics
Matches: 138, Mismatches: 19, Indels: 25
0.76 0.10 0.14
Matches are distributed among these distances:
139 4 0.03
141 3 0.02
142 3 0.02
143 1 0.01
146 42 0.30
147 20 0.14
148 9 0.07
149 18 0.13
150 4 0.03
151 15 0.11
152 10 0.07
153 9 0.07
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (140 bp):
AATAATAATAATAATAATAAAGTAATTAGAAAATAAAACTATGTACAAAAATATATACATATACA
TATATAATAAAAAATACACAATATTAATAATAATAATAATAAGAAATAATAATAATAGTAATAAC
AAAAAGCAAA
Found at i:89482509 original size:26 final size:24
Alignment explanation
Indices: 89482480--89482545 Score: 68
Period size: 26 Copynumber: 2.8 Consensus size: 24
89482470 TCCTTTCTCA
89482480 AGCCATATAACAGGAAGCTCACAAAG
1 AGCCATATAACAGGAAGCT--CAAAG
*
89482506 AGCCAT-TAATCGGGAAGCTCAAAG
1 AGCCATATAA-CAGGAAGCTCAAAG
89482530 AGCC-TAT--CAGGAAGCT
1 AGCCATATAACAGGAAGCT
89482546 TATCCGGGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
21 8 0.22
23 1 0.03
24 10 0.28
25 3 0.08
26 14 0.39
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (24 bp):
AGCCATATAACAGGAAGCTCAAAG
Found at i:89482782 original size:65 final size:65
Alignment explanation
Indices: 89482688--89482831 Score: 189
Period size: 65 Copynumber: 2.2 Consensus size: 65
89482678 ATATCGTGAA
* * * * *
89482688 GCTCACAAAAAGCTGCGTTTGTGTTTGCAACATATGCAAGATCACAACCAATCATAAAACAGGAC
1 GCTCACAAAGAGCTGCATTTCTGTCTGCAACATATACAAGATCACAACCAATCATAAAACAGGAC
* * * * * *
89482753 GCTCACAAAGAGCTGTATTTCTGTCTGCAATATATATACGATCACAACCGATCATATAACAGGAC
1 GCTCACAAAGAGCTGCATTTCTGTCTGCAACATATACAAGATCACAACCAATCATAAAACAGGAC
89482818 GCTCACAAAGAGCT
1 GCTCACAAAGAGCT
89482832 ACGGTAGTCC
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
65 68 1.00
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.23
Consensus pattern (65 bp):
GCTCACAAAGAGCTGCATTTCTGTCTGCAACATATACAAGATCACAACCAATCATAAAACAGGAC
Found at i:89485334 original size:12 final size:11
Alignment explanation
Indices: 89485306--89485339 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
89485296 ATATATATTT
89485306 TAAAATT-ATA
1 TAAAATTAATA
89485316 TAAAATTAATA
1 TAAAATTAATA
89485327 TAAAAATTAATA
1 T-AAAATTAATA
89485339 T
1 T
89485340 GGGCGGGTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 7 0.32
11 4 0.18
12 11 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAAATTAATA
Found at i:89487262 original size:32 final size:33
Alignment explanation
Indices: 89487219--89487298 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 33
89487209 TCCTTCTAAC
* *
89487219 CCCAAATACAACCTCTTAACTTTTTT-TC-GAA
1 CCCAAACACAACCTCTTAACTTTTTTCTCAAAA
*
89487250 CCCTAAACACAACC-C-TAATTTTTTTCTCAAAA
1 CCC-AAACACAACCTCTTAACTTTTTTCTCAAAA
89487282 CCCAAACACAACCTCTT
1 CCCAAACACAACCTCTT
89487299 CTCCTTCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
30 9 0.22
31 16 0.39
32 15 0.37
33 1 0.02
ACGTcount: A:0.35, C:0.34, G:0.01, T:0.30
Consensus pattern (33 bp):
CCCAAACACAACCTCTTAACTTTTTTCTCAAAA
Found at i:89487787 original size:6 final size:6
Alignment explanation
Indices: 89487776--89487801 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
89487766 CCATTTTCAG
89487776 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
89487802 AATCTTGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:89490452 original size:6 final size:6
Alignment explanation
Indices: 89490443--89490484 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
89490433 GAGAGAGACT
89490443 AGGCAC AGGCAC AGGCAC AGGCAC AGGCAC AGGCAC AGGCAC
1 AGGCAC AGGCAC AGGCAC AGGCAC AGGCAC AGGCAC AGGCAC
89490485 TATAGAGAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (6 bp):
AGGCAC
Found at i:89492862 original size:4 final size:4
Alignment explanation
Indices: 89492853--89492881 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
89492843 AAACAGGGAA
89492853 AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
89492882 TGAGAAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:89493141 original size:3 final size:3
Alignment explanation
Indices: 89493135--89493163 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
89493125 AGAAGAAGAA
89493135 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
89493164 CGAAGAAGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:89495667 original size:23 final size:24
Alignment explanation
Indices: 89495639--89495691 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
89495629 AGAATTTATA
*
89495639 TTAAAAA-GTTACTTAAT-ATATTT
1 TTAAAAATGTTA-TAAATAATATTT
*
89495662 TTAAAAATTTTATAAATAATATTT
1 TTAAAAATGTTATAAATAATATTT
89495686 TTAAAA
1 TTAAAA
89495692 TATTACTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
TTAAAAATGTTATAAATAATATTT
Found at i:89499901 original size:18 final size:18
Alignment explanation
Indices: 89499878--89499916 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
89499868 CACGGGTAGG
*
89499878 CCACATGGGCGTGTGGAC
1 CCACATGGGCATGTGGAC
*
89499896 CCACATGGGCATGTGGGC
1 CCACATGGGCATGTGGAC
89499914 CCA
1 CCA
89499917 TTATATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.31, G:0.36, T:0.15
Consensus pattern (18 bp):
CCACATGGGCATGTGGAC
Found at i:89505385 original size:35 final size:35
Alignment explanation
Indices: 89505294--89505460 Score: 183
Period size: 35 Copynumber: 4.6 Consensus size: 35
89505284 CATGGAAAAG
*
89505294 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
* *
89505329 TGTGAAATGCAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
89505364 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTA-T-T---ATCCATACTGAGT
*** * *
89505404 TAAAAAATGTAGGTATGGCATT-TCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTAT-CCATACTGAGT
**
89505439 TGAAAAATGTAGGTATGGTATT
1 TGTGAAATGTAGGTATGGTATT
89505461 TCAATGAGGA
Statistics
Matches: 114, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 81 0.71
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 28 0.25
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
Found at i:89505418 original size:75 final size:75
Alignment explanation
Indices: 89505294--89505464 Score: 203
Period size: 75 Copynumber: 2.4 Consensus size: 75
89505284 CATGGAAAAG
*** *
89505294 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGCAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAAAAATGCAGGTATGGCATT-TC
*
89505353 CCATACTGAGC
65 CCATACCGAGC
*
89505364 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAAAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAAAAATGCAGGTATGGCATTTCC
*
89505429 CATACCGAGT
66 CATACCGAGC
**
89505439 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
89505465 TGAGGAAAAC
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 59 0.69
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAAAAATGCAGGTATGGCATTTCC
CATACCGAGC
Found at i:89509154 original size:40 final size:40
Alignment explanation
Indices: 89509088--89509254 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
89509078 AAATTGAATG
* * *
89509088 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
89509127 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
89509167 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
89509207 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
89509247 ATATCCGG
1 ATATCCGG
89509255 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:89517197 original size:40 final size:40
Alignment explanation
Indices: 89517104--89517270 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
89517094 AAATTGAATG
* * *
89517104 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAAT-A-T
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--G-AGTGACT
* * *
89517144 ATATCC-GGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* *
89517183 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* * *
89517223 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT
89517263 ATATCCGG
1 ATATCCGG
89517271 TTATATTCCG
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
37 2 0.02
39 17 0.16
40 84 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:89524920 original size:18 final size:17
Alignment explanation
Indices: 89524889--89524923 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
89524879 ATGTCTAATG
89524889 TGTGATGAATTATGATA
1 TGTGATGAATTATGATA
89524906 TGTGATGATATTATGATA
1 TGTGATGA-ATTATGATA
89524924 GGTAATATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (17 bp):
TGTGATGAATTATGATA
Found at i:89528753 original size:3 final size:3
Alignment explanation
Indices: 89528745--89528779 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
89528735 GTATTGTACT
89528745 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
89528780 TATCAAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:89529471 original size:24 final size:23
Alignment explanation
Indices: 89529427--89529476 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
89529417 ATAGAAGTAA
* *
89529427 ATATAAAAAATCATAATATATAT
1 ATATAAAAAATCAAAAAATATAT
*
89529450 ATATATAAAATCTAAAAAATATAT
1 ATATAAAAAATC-AAAAAATATAT
89529474 ATA
1 ATA
89529477 AATTATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (23 bp):
ATATAAAAAATCAAAAAATATAT
Found at i:89529473 original size:20 final size:20
Alignment explanation
Indices: 89529448--89529520 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
89529438 CATAATATAT
*
89529448 ATATATATAAAATCTAAAAA
1 ATATATATAAAATATAAAAA
*
89529468 ATATATATAAATTATAAAAA
1 ATATATATAAAATATAAAAA
* * *
89529488 TATAAAAATAAAATTTAAAAA
1 -ATATATATAAAATATAAAAA
*
89529509 ATATATCTAAAA
1 ATATATATAAAA
89529521 GAAATTGTTA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
20 27 0.63
21 16 0.37
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
ATATATATAAAATATAAAAA
Found at i:89529474 original size:22 final size:22
Alignment explanation
Indices: 89529427--89529514 Score: 76
Period size: 22 Copynumber: 4.1 Consensus size: 22
89529417 ATAGAAGTAA
* * *
89529427 ATATAAAAAATCATAATATATAT
1 ATATATAAAATC-TAAAAAATAT
89529450 ATATATAAAATCT-AAAAA-AT
1 ATATATAAAATCTAAAAAATAT
89529470 ATATAT-AAAT-TATAAAAATAT
1 ATATATAAAATCTA-AAAAATAT
* * *
89529491 AAAAATAAAATTTAAAAAATAT
1 ATATATAAAATCTAAAAAATAT
89529513 AT
1 AT
89529515 CTAAAAGAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
18 1 0.02
19 4 0.07
20 13 0.24
21 9 0.17
22 14 0.26
23 13 0.24
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
ATATATAAAATCTAAAAAATAT
Found at i:89529483 original size:9 final size:10
Alignment explanation
Indices: 89529425--89529495 Score: 51
Period size: 9 Copynumber: 7.2 Consensus size: 10
89529415 AAATAGAAGT
89529425 AAATATA-AA
1 AAATATATAA
*
89529434 AAATCATAATAT
1 AAAT-AT-ATAA
*
89529446 ATATATATATA
1 AAATATATA-A
*
89529457 AAATCTA-AA
1 AAATATATAA
*
89529466 AAATATATAT
1 AAATATATAA
89529476 AAAT-TATAA
1 AAATATATAA
89529485 AAATATA-AA
1 AAATATATAA
89529494 AA
1 AA
89529496 TAAAATTTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
9 23 0.48
10 13 0.27
11 8 0.17
12 4 0.08
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (10 bp):
AAATATATAA
Found at i:89529573 original size:22 final size:21
Alignment explanation
Indices: 89529548--89529593 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
89529538 TAATATTACT
89529548 AAAAAAATGTACAA-AAATTATA
1 AAAAAAATGTA-AATAAATT-TA
*
89529570 AAAAAATTGTAAATAAATTTA
1 AAAAAAATGTAAATAAATTTA
89529591 AAA
1 AAA
89529594 TTTTTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (21 bp):
AAAAAAATGTAAATAAATTTA
Found at i:89529592 original size:21 final size:21
Alignment explanation
Indices: 89529542--89529593 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
89529532 AATTAATAAT
89529542 ATTACTAAAAAAATGTACAAAA
1 ATTA-TAAAAAAATGTACAAAA
89529564 ATTATAAAAAAATTGTA-AATAA
1 ATTATAAAAAAA-TGTACAA-AA
89529586 ATT-TAAAA
1 ATTATAAAA
89529594 TTTTTTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (21 bp):
ATTATAAAAAAATGTACAAAA
Found at i:89540854 original size:17 final size:18
Alignment explanation
Indices: 89540820--89540872 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 18
89540810 AAAAGAAAAG
89540820 AAATAATAAAT-A-AATA
1 AAATAATAAATAATAATA
*
89540836 AAATCA-AAATAATAAT-
1 AAATAATAAATAATAATA
*
89540852 AAATAATAAATAATTATA
1 AAATAATAAATAATAATA
89540870 AAA
1 AAA
89540873 ATTAACTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 4 0.13
16 11 0.37
17 12 0.40
18 3 0.10
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATAATAAATAATAATA
Found at i:89545682 original size:20 final size:21
Alignment explanation
Indices: 89545644--89545683 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
89545634 TTGTTTTTAA
89545644 TTTTAGTCCACATTATCATGG
1 TTTTAGTCCACATTATCATGG
89545665 TTTTA-TCCACAGTT-TCATG
1 TTTTAGTCCACA-TTATCATG
89545684 ATTCTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.23, C:0.20, G:0.12, T:0.45
Consensus pattern (21 bp):
TTTTAGTCCACATTATCATGG
Found at i:89546605 original size:23 final size:23
Alignment explanation
Indices: 89546572--89546615 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
89546562 GATTTAAAAA
89546572 CAATTTTTTATAAAAT-AAATAT
1 CAATTTTTTATAAAATCAAATAT
*
89546594 CAATTATTTTATTAAATCAAAT
1 CAATT-TTTTATAAAATCAAAT
89546616 TATAAATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 10 0.53
24 4 0.21
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (23 bp):
CAATTTTTTATAAAATCAAATAT
Found at i:89546784 original size:2 final size:2
Alignment explanation
Indices: 89546777--89546805 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
89546767 CTTCATGTTT
89546777 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
89546806 GTGCGCATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:89548587 original size:30 final size:30
Alignment explanation
Indices: 89548551--89548681 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
89548541 GACAAGATTG
* * * * *
89548551 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
89548581 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
89548609 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
89548639 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
89548668 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
89548682 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:89548642 original size:58 final size:58
Alignment explanation
Indices: 89548551--89548681 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
89548541 GACAAGATTG
* * * * * *
89548551 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
89548609 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
89548668 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
89548682 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:89555284 original size:30 final size:30
Alignment explanation
Indices: 89555248--89555408 Score: 222
Period size: 30 Copynumber: 5.5 Consensus size: 30
89555238 GACAAGATTG
* * * * *
89555248 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
89555278 GCACTAAGTGTGCGCGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
89555306 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
89555336 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
89555366 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
89555395 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
89555409 GATTCACTAT
Statistics
Matches: 121, Mismatches: 6, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.02
28 21 0.17
29 20 0.17
30 76 0.63
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:89555378 original size:60 final size:58
Alignment explanation
Indices: 89555248--89555408 Score: 218
Period size: 58 Copynumber: 2.8 Consensus size: 58
89555238 GACAAGATTG
* * * * * * *
89555248 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGCGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGTCTGATTATATA
89555306 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
89555366 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCG
89555409 GATTCACTAT
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
57 2 0.02
58 40 0.43
59 20 0.22
60 31 0.33
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:89559912 original size:19 final size:19
Alignment explanation
Indices: 89559888--89559924 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
89559878 TTAAAAAAAC
*
89559888 GGGCCGAGCCTCAGGTAAA
1 GGGCCGAGCCTCAAGTAAA
89559907 GGGCCGAGCCTCAAGTAA
1 GGGCCGAGCCTCAAGTAA
89559925 GGCATTCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.27, G:0.35, T:0.11
Consensus pattern (19 bp):
GGGCCGAGCCTCAAGTAAA
Found at i:89560008 original size:11 final size:11
Alignment explanation
Indices: 89559994--89560032 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
89559984 TTGTTTTTTT
89559994 TATTTTGCTAC
1 TATTTTGCTAC
* *
89560005 TATTTTACTAT
1 TATTTTGCTAC
*
89560016 TATGTTGCTAC
1 TATTTTGCTAC
89560027 TATTTT
1 TATTTT
89560033 ATTGTTATTG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.21, C:0.13, G:0.08, T:0.59
Consensus pattern (11 bp):
TATTTTGCTAC
Found at i:89560035 original size:19 final size:20
Alignment explanation
Indices: 89559987--89560032 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
89559977 TTTCTTGTTG
* *
89559987 TTTTTTTTATTTTGCTACTA
1 TTTTTATTATGTTGCTACTA
89560007 TTTTACTATTATGTTGCTACTA
1 TTTT--TATTATGTTGCTACTA
89560029 TTTT
1 TTTT
89560033 ATTGTTATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
22 18 0.82
ACGTcount: A:0.17, C:0.11, G:0.07, T:0.65
Consensus pattern (20 bp):
TTTTTATTATGTTGCTACTA
Found at i:89560221 original size:18 final size:18
Alignment explanation
Indices: 89560185--89560222 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
89560175 GAAATATTTA
*
89560185 TTTTGATGTTTTTAGTAT
1 TTTTGATGTTTATAGTAT
89560203 TTTTGATGTATTATA-TAT
1 TTTTGATGT-TTATAGTAT
89560221 TT
1 TT
89560223 AAAAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (18 bp):
TTTTGATGTTTATAGTAT
Found at i:89563970 original size:2 final size:2
Alignment explanation
Indices: 89563963--89564020 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
89563953 TGCTGCACCA
89563963 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
89564005 TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC
89564021 ACCATTGGAG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:89565155 original size:34 final size:34
Alignment explanation
Indices: 89565111--89565175 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
89565101 ACCCTAGCCG
89565111 CAGCAGGTGCTCCCCTCTGCTCCACCACCGACGC
1 CAGCAGGTGCTCCCCTCTGCTCCACCACCGACGC
* *
89565145 CAGCATGTGCTCCCCTCTGCTCCACTACCGA
1 CAGCAGGTGCTCCCCTCTGCTCCACCACCGA
89565176 TTTCTGCCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.15, C:0.48, G:0.18, T:0.18
Consensus pattern (34 bp):
CAGCAGGTGCTCCCCTCTGCTCCACCACCGACGC
Found at i:89566150 original size:3 final size:3
Alignment explanation
Indices: 89566144--89566198 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
89566134 TACTACTTTG
* * * *
89566144 TTA TTA TTA TTA TTTA TTT TTA TTA TTA TCA TTA TTA CTA TTA TCA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
89566190 TTA -TA TTA T
1 TTA TTA TTA T
89566199 ACCCATATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:89566168 original size:16 final size:16
Alignment explanation
Indices: 89566124--89566172 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
89566114 TCATTTCTTC
* *
89566124 TTATTTTCATTACTACT
1 TTATTTTTATTATTA-T
* *
89566141 TTGTTATTATTATTAT
1 TTATTTTTATTATTAT
89566157 TTATTTTTATTATTAT
1 TTATTTTTATTATTAT
89566173 CATTATTACT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 15 0.58
17 11 0.42
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.67
Consensus pattern (16 bp):
TTATTTTTATTATTAT
Found at i:89566502 original size:26 final size:24
Alignment explanation
Indices: 89566444--89566511 Score: 59
Period size: 28 Copynumber: 2.7 Consensus size: 24
89566434 TTCCTTTTTA
89566444 TATTTA-TTTACTTGTTACTTCAT
1 TATTTATTTTACTTGTTACTTCAT
*
89566467 TACTAATTATTTTAACTTGTTATTATCAT
1 TA-T--TTATTTT-ACTTGTTACT-TCAT
89566496 TATTTATTGTTA-TTGT
1 TATTTATT-TTACTTGT
89566512 AAATATATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
23 2 0.05
24 1 0.03
25 4 0.11
26 9 0.24
27 5 0.14
28 10 0.27
29 6 0.16
ACGTcount: A:0.25, C:0.09, G:0.06, T:0.60
Consensus pattern (24 bp):
TATTTATTTTACTTGTTACTTCAT
Found at i:89566572 original size:3 final size:3
Alignment explanation
Indices: 89566564--89566675 Score: 70
Period size: 3 Copynumber: 37.3 Consensus size: 3
89566554 TTTTCTTACC
* *
89566564 TTA TTA TTA TTA CTA TTA TCA TTA TTCA TTA CTCTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA -T-TA TTA TTA TTA TTA
* * * * * *
89566612 CTA CTA TTA -AA TTA GTA TTA TTA -TA TT- TTA CTA TTA TTA TCA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
89566656 TGTA TTA CTA TTA TTT TTA T
1 T-TA TTA TTA TTA TTA TTA T
89566676 CGCTTTCGTC
Statistics
Matches: 83, Mismatches: 18, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
2 6 0.07
3 69 0.83
4 6 0.07
5 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:89566581 original size:33 final size:34
Alignment explanation
Indices: 89566544--89566619 Score: 79
Period size: 33 Copynumber: 2.3 Consensus size: 34
89566534 TTTAACCTAT
*
89566544 TATTACTATTTTTTC-TTAC-CTTATTATTATTAC
1 TATTACTATTTATTCATTACTC-TATTATTATTAC
*
89566577 TATTA-TCA-TTATTCATTACTCTATTATTATTAT
1 TATTACT-ATTTATTCATTACTCTATTATTATTAC
*
89566610 TACTACTATT
1 TATTACTATT
89566620 AAATTAGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
32 6 0.17
33 26 0.74
34 3 0.09
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.58
Consensus pattern (34 bp):
TATTACTATTTATTCATTACTCTATTATTATTAC
Found at i:89569332 original size:12 final size:12
Alignment explanation
Indices: 89569315--89569344 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
89569305 CAAAATTAAC
89569315 TTATAACAACTA
1 TTATAACAACTA
89569327 TTATAACAACTA
1 TTATAACAACTA
89569339 TTATAA
1 TTATAA
89569345 TGTTATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (12 bp):
TTATAACAACTA
Found at i:89569456 original size:20 final size:20
Alignment explanation
Indices: 89569414--89569471 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
89569404 TATTTTTATG
89569414 AAAATCATAAAAA-TTATAAA
1 AAAATCATAAAAACTTAT-AA
* *
89569434 AAAATTGATATAAACTTATAA
1 AAAA-TCATAAAAACTTATAA
89569455 AAAATCATAAAAACTTA
1 AAAATCATAAAAACTTA
89569472 AATTGGACCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 15 0.47
21 13 0.41
22 4 0.12
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.28
Consensus pattern (20 bp):
AAAATCATAAAAACTTATAA
Found at i:89569975 original size:19 final size:20
Alignment explanation
Indices: 89569944--89569995 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
89569934 TACATATTTT
89569944 TCAATTTTAAATAAGTTT-TA
1 TCAATTTT-AATAAGTTTATA
*
89569964 TTAATTTTAATAAGTTTATA
1 TCAATTTTAATAAGTTTATA
*
89569984 TCAAATTTAATA
1 TCAATTTTAATA
89569996 TATTTTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 9 0.32
20 19 0.68
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (20 bp):
TCAATTTTAATAAGTTTATA
Found at i:89570019 original size:16 final size:16
Alignment explanation
Indices: 89569988--89570030 Score: 68
Period size: 16 Copynumber: 2.6 Consensus size: 16
89569978 TTTATATCAA
89569988 ATTTAATATATTTTTAT
1 ATTTAATAT-TTTTTAT
*
89570005 ATTTTATATTTTTTAT
1 ATTTAATATTTTTTAT
89570021 ATTTAATATT
1 ATTTAATATT
89570031 CTTATTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTAATATTTTTTAT
Found at i:89575947 original size:22 final size:22
Alignment explanation
Indices: 89575922--89575963 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
89575912 TAGGAAAATA
89575922 TTTGTAGAAGAG-AGAAATTGAC
1 TTTGT-GAAGAGCAGAAATTGAC
*
89575944 TTTGTTAAGAGCAGAAATTG
1 TTTGTGAAGAGCAGAAATTG
89575964 CTTCAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (22 bp):
TTTGTGAAGAGCAGAAATTGAC
Found at i:89578331 original size:11 final size:11
Alignment explanation
Indices: 89578317--89578342 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
89578307 TCTTTATATA
89578317 TTTTTTAGAAT
1 TTTTTTAGAAT
89578328 TTTTTTAGAAT
1 TTTTTTAGAAT
89578339 TTTT
1 TTTT
89578343 ATGATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (11 bp):
TTTTTTAGAAT
Found at i:89581730 original size:13 final size:13
Alignment explanation
Indices: 89581714--89581739 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89581704 ATTTTTATGT
89581714 AATCTTTTTTAAA
1 AATCTTTTTTAAA
89581727 AATCTTTTTTAAA
1 AATCTTTTTTAAA
89581740 GTTTTTAGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
AATCTTTTTTAAA
Found at i:89594974 original size:22 final size:23
Alignment explanation
Indices: 89594931--89594982 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
89594921 TGGGTTGAGT
89594931 ATATAAATATAAAAAAAGTAATA
1 ATATAAATATAAAAAAAGTAATA
*
89594954 ATATAAATAT-AAAAAATTAATA
1 ATATAAATATAAAAAAAGTAATA
*
89594976 ATCTAAA
1 ATATAAA
89594983 CAACATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (23 bp):
ATATAAATATAAAAAAAGTAATA
Found at i:89595184 original size:7 final size:7
Alignment explanation
Indices: 89595174--89595214 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
89595164 TTAATGATTT
89595174 AAAATTC
1 AAAATTC
89595181 AAAATTC
1 AAAATTC
89595188 AAAATTC
1 AAAATTC
*
89595195 AAAATTT
1 AAAATTC
89595202 AAAATTC
1 AAAATTC
89595209 AAAATT
1 AAAATT
89595215 TGAAGATTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.32
Consensus pattern (7 bp):
AAAATTC
Found at i:89595215 original size:14 final size:14
Alignment explanation
Indices: 89595170--89595215 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
89595160 TTGATTAATG
89595170 ATTTAAAATTCAAA
1 ATTTAAAATTCAAA
*
89595184 ATTCAAAATTCAAA
1 ATTTAAAATTCAAA
89595198 ATTTAAAATTCAAA
1 ATTTAAAATTCAAA
89595212 ATTT
1 ATTT
89595216 GAAGATTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (14 bp):
ATTTAAAATTCAAA
Found at i:89595248 original size:14 final size:14
Alignment explanation
Indices: 89595231--89595259 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
89595221 TTGAAGATTG
89595231 AGGATTAAAAATTT
1 AGGATTAAAAATTT
89595245 AGGATTAAAAATTT
1 AGGATTAAAAATTT
89595259 A
1 A
89595260 AAAAGGAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (14 bp):
AGGATTAAAAATTT
Found at i:89596497 original size:2 final size:2
Alignment explanation
Indices: 89596490--89596519 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
89596480 TTCCCTCATA
89596490 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
89596520 TATGGTAAAT
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:89596835 original size:18 final size:18
Alignment explanation
Indices: 89596812--89596852 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
89596802 AAAAAATTAT
*
89596812 TAAAATTTAAATATTTGA
1 TAAAATTTAAAAATTTGA
*
89596830 TAAAATTTAAAAATTTTA
1 TAAAATTTAAAAATTTGA
89596848 TAAAA
1 TAAAA
89596853 ATCAGAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
TAAAATTTAAAAATTTGA
Found at i:89597271 original size:13 final size:13
Alignment explanation
Indices: 89597253--89597279 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
89597243 TATTTTTAAA
89597253 ATTTTTAAAAAAT
1 ATTTTTAAAAAAT
89597266 ATTTTTAAAAAAT
1 ATTTTTAAAAAAT
89597279 A
1 A
89597280 ACTTTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTTTTAAAAAAT
Found at i:89597285 original size:14 final size:13
Alignment explanation
Indices: 89597255--89597288 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
89597245 TTTTTAAAAT
*
89597255 TTTTAAAAAATAT
1 TTTTAAAAAATAC
89597268 TTTTAAAAAATAAC
1 TTTTAAAAAAT-AC
89597282 TTTTAAA
1 TTTTAAA
89597289 TAATTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTTAAAAAATAC
Found at i:89598676 original size:17 final size:18
Alignment explanation
Indices: 89598641--89598682 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
89598631 AAATATTTTT
89598641 TTAAAAATTAATAGTAAA
1 TTAAAAATTAATAGTAAA
*
89598659 -TAAAAATTAA-ATTAAAA
1 TTAAAAATTAATAGT-AAA
89598676 TTAAAAA
1 TTAAAAA
89598683 AAGCATAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 2 0.10
17 13 0.62
18 6 0.29
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (18 bp):
TTAAAAATTAATAGTAAA
Found at i:89606113 original size:2 final size:2
Alignment explanation
Indices: 89606106--89606139 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
89606096 CATGGGATAC
89606106 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
89606140 GTGAATGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89608097 original size:46 final size:46
Alignment explanation
Indices: 89608037--89608128 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
89608027 AAAGAGAATA
89608037 TTACTTGGGATTTCTTCCAATCAGAGTTTAGGAAGAAATATATTAG
1 TTACTTGGGATTTCTTCCAATCAGAGTTTAGGAAGAAATATATTAG
*
89608083 TTACTTTGGATTTCTTCCAATCAGAGTTTAGGAAGAAATATATTAG
1 TTACTTGGGATTTCTTCCAATCAGAGTTTAGGAAGAAATATATTAG
89608129 CCAATGGTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (46 bp):
TTACTTGGGATTTCTTCCAATCAGAGTTTAGGAAGAAATATATTAG
Found at i:89616621 original size:23 final size:23
Alignment explanation
Indices: 89616600--89616641 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
89616590 AATAATTAAG
89616600 AATAATTA-AA-TAAAATATTTA
1 AATAATTAGAATTAAAATATTTA
89616621 AATAATTAGAATTAAAA-ATTT
1 AATAATTAGAATTAAAATATTT
89616642 TAGGTTAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 6 0.32
23 5 0.26
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
AATAATTAGAATTAAAATATTTA
Found at i:89616626 original size:21 final size:22
Alignment explanation
Indices: 89616563--89616641 Score: 65
Period size: 22 Copynumber: 3.4 Consensus size: 22
89616553 GTTAGTGAAC
89616563 TAAAAATTGT-AATAGATTAGATAAT
1 TAAAAATT-TAAATA-ATTAG--AAT
*
89616588 TAAATAATTAAGAATAATTA-AA-
1 TAAA-AATTTA-AATAATTAGAAT
89616610 TAAAATATTTAAATAATTAGAAT
1 TAAAA-ATTTAAATAATTAGAAT
89616633 TAAAAATTT
1 TAAAAATTT
89616642 TAGGTTAAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
21 9 0.20
22 14 0.30
23 7 0.15
25 4 0.09
26 8 0.17
27 4 0.09
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (22 bp):
TAAAAATTTAAATAATTAGAAT
Found at i:89624211 original size:12 final size:12
Alignment explanation
Indices: 89624194--89624226 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
89624184 TAGTTAGAAA
89624194 AAGAAATTATTG
1 AAGAAATTATTG
89624206 AAGAAATTATTG
1 AAGAAATTATTG
89624218 AAGAAATTA
1 AAGAAATTA
89624227 GGTAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.30
Consensus pattern (12 bp):
AAGAAATTATTG
Found at i:89628890 original size:40 final size:39
Alignment explanation
Indices: 89628802--89628985 Score: 140
Period size: 40 Copynumber: 4.6 Consensus size: 39
89628792 GAAATTGATG
* * * *
89628802 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGCAA-T-TG-TGCAAGTCGT
* * * *
89628842 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCG-T
* *
89628882 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTC-GT
* * *
89628922 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCGT
* * *
89628961 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
89628986 CTTGGTGCGG
Statistics
Matches: 116, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
37 4 0.03
38 2 0.02
39 5 0.04
40 103 0.89
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCGT
Found at i:89629010 original size:80 final size:81
Alignment explanation
Indices: 89628842--89629030 Score: 195
Period size: 80 Copynumber: 2.4 Consensus size: 81
89628832 GCTGGAAATT
* * * *
89628842 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTATATCCGGGCTAAGACCCGAAGGCA
*
89628907 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * *
89628923 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ATATCCGGGCTAAGACCCGAAGGC
* * * *
89628986 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
89629002 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
89629031 ATCGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
79 2 0.02
80 85 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:89636925 original size:40 final size:39
Alignment explanation
Indices: 89636760--89636943 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
89636750 AAATTGAATG
* * *
89636760 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
89636800 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
89636840 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
89636880 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
89636919 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
89636944 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:89636968 original size:80 final size:81
Alignment explanation
Indices: 89636800--89636988 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
89636790 GCTGGAAATT
* * * *
89636800 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
89636865 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
89636881 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
89636944 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
89636960 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
89636989 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:89639996 original size:40 final size:39
Alignment explanation
Indices: 89639831--89640014 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
89639821 AAATTGAATG
* * *
89639831 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
89639871 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
89639911 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
89639951 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
89639990 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
89640015 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:89640039 original size:80 final size:81
Alignment explanation
Indices: 89639871--89640059 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
89639861 GCTGGAAATT
* * * *
89639871 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
89639936 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
89639952 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
89640015 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
89640031 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
89640060 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:89647956 original size:40 final size:39
Alignment explanation
Indices: 89647791--89647974 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
89647781 AAATTGAATG
* * *
89647791 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
89647831 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
89647871 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
89647911 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
89647950 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
89647975 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:89647999 original size:80 final size:81
Alignment explanation
Indices: 89647831--89648019 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
89647821 GCTGGAAATT
* * * *
89647831 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
89647896 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
89647912 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
89647975 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
89647991 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
89648020 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:89650565 original size:39 final size:40
Alignment explanation
Indices: 89650507--89650607 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
89650497 AAATTGAATG
* *
89650507 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
89650546 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
89650586 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
89650608 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:89650600 original size:40 final size:40
Alignment explanation
Indices: 89650507--89650689 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
89650497 AAATTGAATG
* * * * *
89650507 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
89650546 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
89650586 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
89650626 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
89650666 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
89650690 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:89654779 original size:70 final size:70
Alignment explanation
Indices: 89654666--89654806 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
89654656 TATCATAGAT
89654666 AGAATTAAATCCAAACTCTCTTTGTGGAAGGCTAAGTTACTTGGACAAGGTGGAAAACTTACCTT
1 AGAATTAAATCCAAACTCTCTTTGTGGAAGGCTAAGTTACTTGGACAAGGTGGAAAACTTACCTT
89654731 GATTA
66 GATTA
89654736 AGAATTAAATCCAAACTCTCTTTGTGGAAGGCTAAGTTACTTGGACAAGGTGGAAAACTTACCTT
1 AGAATTAAATCCAAACTCTCTTTGTGGAAGGCTAAGTTACTTGGACAAGGTGGAAAACTTACCTT
89654801 GATTA
66 GATTA
89654806 A
1 A
89654807 AGCAGTATTG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.30
Consensus pattern (70 bp):
AGAATTAAATCCAAACTCTCTTTGTGGAAGGCTAAGTTACTTGGACAAGGTGGAAAACTTACCTT
GATTA
Found at i:89664381 original size:18 final size:18
Alignment explanation
Indices: 89664360--89664417 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
89664350 TTAAAATTTT
89664360 AAAATTTAAAGAAATATA
1 AAAATTTAAAGAAATATA
89664378 AAAA-TTAAA-AAATATA
1 AAAATTTAAAGAAATATA
* * *
89664394 AGAAGTTATAAG-ATTATA
1 AAAATTTA-AAGAAATATA
89664412 AAAATT
1 AAAATT
89664418 ATTTAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 10 0.30
17 8 0.24
18 15 0.45
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (18 bp):
AAAATTTAAAGAAATATA
Found at i:89665053 original size:18 final size:18
Alignment explanation
Indices: 89665030--89665069 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
89665020 TATAAGGGTA
*
89665030 AAGGTTGCTTTAATACTT
1 AAGGTTGCTTCAATACTT
89665048 AAGGTTGCTTCAATACTT
1 AAGGTTGCTTCAATACTT
89665066 AAGG
1 AAGG
89665070 CACTTAAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (18 bp):
AAGGTTGCTTCAATACTT
Found at i:89673539 original size:2 final size:2
Alignment explanation
Indices: 89673485--89673525 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
89673475 TAAAGTAATA
89673485 AT AT AT AT AT 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 AT AT AT AT AT A
89673526 AAACTACATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:89674453 original size:2 final size:2
Alignment explanation
Indices: 89674448--89674490 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
89674438 AGTTTTTTTT
*
89674448 TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA -A 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
89674488 TA T
1 TA T
89674491 GCGTTAGTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:89674472 original size:19 final size:19
Alignment explanation
Indices: 89674448--89674490 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
89674438 AGTTTTTTTT
*
89674448 TATATATATATTATATATA
1 TATATATATATAATATATA
*
89674467 TATATATATATAATATGTA
1 TATATATATATAATATATA
89674486 TATAT
1 TATAT
89674491 GCGTTAGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TATATATATATAATATATA
Found at i:89676588 original size:2 final size:2
Alignment explanation
Indices: 89676581--89676622 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
89676571 TATTTATACA
*
89676581 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT 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
89676623 GCATAAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89679201 original size:2 final size:2
Alignment explanation
Indices: 89679194--89679228 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
89679184 CGATGCTACA
89679194 AT AT 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 AT AT A
89679229 CTAGTTCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:89679937 original size:15 final size:15
Alignment explanation
Indices: 89679889--89679935 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 15
89679879 TATTTACTTT
*
89679889 ATTTTATTTATTAATTA
1 ATTTAATTTATTAA--A
89679906 ATTTAATTTATTAAA
1 ATTTAATTTATTAAA
89679921 ATTTAATTT-TTAAA
1 ATTTAATTTATTAAA
89679935 A
1 A
89679936 ATGGGACTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 6 0.21
15 10 0.34
17 13 0.45
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTAATTTATTAAA
Found at i:89686819 original size:5 final size:5
Alignment explanation
Indices: 89686809--89686863 Score: 64
Period size: 5 Copynumber: 11.6 Consensus size: 5
89686799 CAATTTGAGA
*
89686809 AAAAT AAAAT AAAAT AAAA- AATA- AAAAT AAAAT AAAA- AATAA- AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AAAAT
89686856 AAAAT AAA
1 AAAAT AAA
89686864 GAACACACAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
4 10 0.22
5 35 0.78
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:89686831 original size:7 final size:7
Alignment explanation
Indices: 89686819--89686859 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
89686809 AAAATAAAAT
89686819 AAAATAA
1 AAAATAA
89686826 AAAAT-A
1 AAAATAA
89686832 AAAAT--
1 AAAATAA
89686837 AAAATAA
1 AAAATAA
89686844 AAAATAA
1 AAAATAA
89686851 AAAATAA
1 AAAATAA
89686858 AA
1 AA
89686860 TAAAGAACAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.16
6 6 0.19
7 21 0.66
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:89686831 original size:12 final size:12
Alignment explanation
Indices: 89686814--89686863 Score: 75
Period size: 12 Copynumber: 4.1 Consensus size: 12
89686804 TGAGAAAAAT
89686814 AAAATAAAATAA
1 AAAATAAAATAA
89686826 AAAATAAAAATAA
1 AAAAT-AAAATAA
89686839 AATAA-AAAATAA
1 AA-AATAAAATAA
89686851 AAAATAAAATAA
1 AAAATAAAATAA
89686863 A
1 A
89686864 GAACACACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
11 2 0.06
12 22 0.63
13 9 0.26
14 2 0.06
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:89686835 original size:18 final size:18
Alignment explanation
Indices: 89686808--89686863 Score: 96
Period size: 18 Copynumber: 3.1 Consensus size: 18
89686798 CCAATTTGAG
89686808 AAAAAT-AAAATAAAATA
1 AAAAATAAAAATAAAATA
89686825 AAAAATAAAAATAAAATA
1 AAAAATAAAAATAAAATA
89686843 AAAAATAAAAAATAAAATA
1 AAAAAT-AAAAATAAAATA
89686862 AA
1 AA
89686864 GAACACACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.16
18 17 0.46
19 14 0.38
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (18 bp):
AAAAATAAAAATAAAATA
Done.