Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 200 of 253
Found at i:65627525 original size:20 final size:20
Alignment explanation
Indices: 65627460--65627526 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
65627450 TTATGAGTAC
65627460 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
65627480 TTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
65627500 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
65627520 ACCATGT
1 ATCATGT
65627527 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:65634645 original size:46 final size:45
Alignment explanation
Indices: 65634526--65634690 Score: 151
Period size: 46 Copynumber: 3.6 Consensus size: 45
65634516 GTAACCGTGC
* *
65634526 CGATGCATGTCCCAAACATGTCTTACACT--A-GCACATCTCGTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGATG-ACATCTCG-AGG
* * *
65634570 CGACGCATGTCCTAGACATGT-TTGGCACTGGATGACATCTCGAGG
1 CGATGCATGTCCCAGACATGTCTT-ACACTGGATGACATCTCGAGG
* ** *
65634615 TCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATACT-GTGG
1 -CGATGCATGTCCCAGACATGTCTTACACTGGATGACAT-CTCGAGG
*
65634661 CTGATGCATGTCCTAGACATGTCTTACACT
1 C-GATGCATGTCCCAGACATGTCTTACACT
65634691 AGCCCTCGTC
Statistics
Matches: 100, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
43 2 0.02
44 22 0.22
45 3 0.03
46 68 0.68
47 5 0.05
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGATGACATCTCGAGG
Found at i:65635716 original size:46 final size:46
Alignment explanation
Indices: 65635649--65635737 Score: 169
Period size: 46 Copynumber: 1.9 Consensus size: 46
65635639 TAGAAAATCT
65635649 CTTACATCAAGGCTTCATACGCCCGTGTGGGTATAGAGCACACACC
1 CTTACATCAAGGCTTCATACGCCCGTGTGGGTATAGAGCACACACC
*
65635695 CTTACATCAAGGCTTCATACGCCTGTGTGGGTATAGAGCACAC
1 CTTACATCAAGGCTTCATACGCCCGTGTGGGTATAGAGCACAC
65635738 GCCCGTGTGC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (46 bp):
CTTACATCAAGGCTTCATACGCCCGTGTGGGTATAGAGCACACACC
Found at i:65635758 original size:19 final size:19
Alignment explanation
Indices: 65635734--65635783 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
65635724 GGTATAGAGC
*
65635734 ACACGCCCGTGTGCTTGGG
1 ACACGCCCATGTGCTTGGG
65635753 ACACGCCCATGTGCTTGGG
1 ACACGCCCATGTGCTTGGG
65635772 ACACGCCCATGT
1 ACACGCCCATGT
65635784 CCCGAACCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.16, C:0.34, G:0.30, T:0.20
Consensus pattern (19 bp):
ACACGCCCATGTGCTTGGG
Found at i:65651524 original size:56 final size:56
Alignment explanation
Indices: 65651461--65651729 Score: 344
Period size: 56 Copynumber: 4.8 Consensus size: 56
65651451 ACATTCTTGA
** *
65651461 GTTGGCATCGATATGTGATTCTGATATGTGTGTGCGAGTAAGAATACATTCAATAC
1 GTTGGCATCGATATGTGATTCTGATATGTGTGTGCGAGTAAGACCACATTTAATAC
* **
65651517 ATTGGCATCGATATGTGATT-TCGATATGTGTGTGCGAGTAAGACCATGTTTAATAC
1 GTTGGCATCGATATGTGATTCT-GATATGTGTGTGCGAGTAAGACCACATTTAATAC
* * * * *
65651573 GTTAGCACCGATATGTGATTCCGATATGTGTGTGTGAGTAAGACCACGTTTAATAC
1 GTTGGCATCGATATGTGATTCTGATATGTGTGTGCGAGTAAGACCACATTTAATAC
* ** *
65651629 GTTGGCATCGACATGTGATTCCAATATGTGTGTGCGAGTAAGACCAAATTTAATAC
1 GTTGGCATCGATATGTGATTCTGATATGTGTGTGCGAGTAAGACCACATTTAATAC
* * *
65651685 GTTGGCATCAATATGTGATTCCT-ATATGTGTTTACGAGTAAGACC
1 GTTGGCATCGATATGTGATT-CTGATATGTGTGTGCGAGTAAGACC
65651730 CTGTCTGGGA
Statistics
Matches: 186, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
55 1 0.01
56 184 0.99
57 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.33
Consensus pattern (56 bp):
GTTGGCATCGATATGTGATTCTGATATGTGTGTGCGAGTAAGACCACATTTAATAC
Found at i:65654494 original size:27 final size:28
Alignment explanation
Indices: 65654435--65654496 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 28
65654425 TTACTTAGAC
65654435 CCCCTATATATGATAAAATGACTATTTT
1 CCCCTATATATGATAAAATGACTATTTT
* **
65654463 TCCCT-TATATG-TAAGGTGACTATTTT
1 CCCCTATATATGATAAAATGACTATTTT
65654489 GCCCCTAT
1 -CCCCTAT
65654497 GTGATGTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 13 0.46
27 10 0.36
28 5 0.18
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.40
Consensus pattern (28 bp):
CCCCTATATATGATAAAATGACTATTTT
Found at i:65654845 original size:18 final size:18
Alignment explanation
Indices: 65654820--65654870 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
65654810 CACTGTTTGA
65654820 ACTGTTACTGCAATGATT
1 ACTGTTACTGCAATGATT
* * *
65654838 ATTGTTACTGCATTGTTT
1 ACTGTTACTGCAATGATT
*
65654856 ACTGTTACTGTAATG
1 ACTGTTACTGCAATG
65654871 GGCTAAGGCC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.45
Consensus pattern (18 bp):
ACTGTTACTGCAATGATT
Found at i:65668467 original size:108 final size:109
Alignment explanation
Indices: 65668312--65668512 Score: 316
Period size: 108 Copynumber: 1.8 Consensus size: 109
65668302 ATCCTTTTGA
* * *
65668312 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA-TCACCAA-
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCATTGCCTTA-GAAACTCACCAAT
65668375 TGCCATGCCTTGGCATGGTCTTACATGGGACTTTCGCCTTATAGT
65 TGCCATGCCTTGGCATGGTCTTACATGGGACTTTCGCCTTATAGT
* * *
65668420 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCATTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCATTGCCTTAGAAA-CTCACCAAT
65668485 TGCCATGCCTTGGCATGGTCTTACATGG
65 TGCCATGCCTTGGCATGGTCTTACATGG
65668513 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 4 0.05
108 46 0.55
109 6 0.07
110 28 0.33
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.34
Consensus pattern (109 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCATTGCCTTAGAAACTCACCAATT
GCCATGCCTTGGCATGGTCTTACATGGGACTTTCGCCTTATAGT
Found at i:65668469 original size:55 final size:53
Alignment explanation
Indices: 65668312--65668511 Score: 201
Period size: 55 Copynumber: 3.7 Consensus size: 53
65668302 ATCCTTTTGA
* * * *
65668312 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGAT-TTCTTGCCTTATAG
* * *
65668365 AAATCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACTTTC--GCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACAT--GA-TTTCTTGCCTTATAG
* * *
65668419 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCATTGCCTTAGA-
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGATTTC-TTGCCTTATAG
*
65668473 AACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATG
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATG
65668512 GTATCCTTAA
Statistics
Matches: 121, Mismatches: 16, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
52 4 0.03
53 42 0.35
54 8 0.07
55 66 0.55
56 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.34
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGATTTCTTGCCTTATAG
Found at i:65671206 original size:40 final size:41
Alignment explanation
Indices: 65671161--65671256 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
65671151 GGTATTTGGT
* *
65671161 ACTAAGTGTGTGAT-TCAAAATAGCTTCGATTATTTGAGGC
1 ACTAAGTGTGCGATATCAAAATAGCTTCGATTAATTGAGGC
* * * *
65671201 ACTAAGTGTGCGATATCGAGATAGCTTCGGTTAATTGAAATGAC
1 ACTAAGTGTGCGATATCAAAATAGCTTCGATTAATTG--A-GGC
65671245 ACTAAGTGTGCG
1 ACTAAGTGTGCG
65671257 GAATCGTTCT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 13 0.28
41 18 0.39
43 1 0.02
44 14 0.30
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (41 bp):
ACTAAGTGTGCGATATCAAAATAGCTTCGATTAATTGAGGC
Found at i:65673081 original size:43 final size:42
Alignment explanation
Indices: 65673020--65673612 Score: 594
Period size: 43 Copynumber: 13.8 Consensus size: 42
65673010 TACAATGCTA
* * **
65673020 ACGTCCCAAATGTGGTCTTACATATAATCACATATCGATGCC
1 ACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCC
*
65673062 ACTGTCCCAGACAG-AGTCTTACACGTAATCACATATCGATGCC
1 AC-GTCCCAGAC-GTGGTCTTACACGTAATCACATATCGATGCC
* ** * * *
65673105 AATGTCTTAGATGTGGTCTTACACATAATCACATATCAATGCC
1 -ACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCC
* * **
65673148 AGCGTCCCATACGTGGTCTTACATGTAATCACATATTAATGCC
1 A-CGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCC
* * *
65673191 AACGTCCCAGACGTGGTCATACACATATTCACATATCGATGCC
1 -ACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCC
65673234 AACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCC
1 -ACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCC
* * * * ** *
65673277 AGTGTTCCAAATGTTATCTTACACGTAATCACATATCGATTCC
1 A-CGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCC
* ** * * *
65673320 AATGTCTTAGATGTGGTCTTACACATAATCACATATCAATGCC
1 -ACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCC
* * **
65673363 AGCGTCCCATACGTGGTCTTACATGTAATCACATATTAATGCC
1 A-CGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCC
* * *
65673406 AACGTCCCAGACGTGGTCATACACATATTCACATATCGATGCC
1 -ACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCC
65673449 AACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCC
1 -ACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCC
* * * * ** *
65673492 AGTGTTCCAAATGTTATCTTACACGTAATCACATATCGATTCC
1 A-CGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCC
* * * *
65673535 AATGTCCCAGATGTGGTCTTACACATATTCACATATCGATGCC
1 -ACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCC
* *
65673578 AACATCCCAGATGTGGTCTTACACGTAATCACATA
1 -ACGTCCCAGACGTGGTCTTACACGTAATCACATA
65673613 ATGGAATCAC
Statistics
Matches: 457, Mismatches: 82, Indels: 23
0.81 0.15 0.04
Matches are distributed among these distances:
42 7 0.02
43 444 0.97
44 6 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (42 bp):
ACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCC
Found at i:65673390 original size:215 final size:215
Alignment explanation
Indices: 65673014--65673612 Score: 997
Period size: 215 Copynumber: 2.8 Consensus size: 215
65673004 ATATCGTACA
* * * ** * *
65673014 ATGCTAACGTCCCAAATGTGGTCTTACATATAATCACATATCGATGCCACTGTCCCAGACA-G--
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAGTGTTCCA-A-ATGTT
*
65673076 AGTCTTACACGTAATCACATATCGATGCCAATGTCTTAGATGTGGTCTTACACATAATCACATAT
64 A-TCTTACACGTAATCACATATCGATTCCAATGTCTTAGATGTGGTCTTACACATAATCACATAT
65673141 CAATGCCAGCGTCCCATACGTGGTCTTACATGTAATCACATATTAATGCCAACGTCCCAGACGTG
128 CAATGCCAGCGTCCCATACGTGGTCTTACATGTAATCACATATTAATGCCAACGTCCCAGACGTG
65673206 GTCATACACATATTCACATATCG
193 GTCATACACATATTCACATATCG
65673229 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAGTGTTCCAAATGTTAT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAGTGTTCCAAATGTTAT
65673294 CTTACACGTAATCACATATCGATTCCAATGTCTTAGATGTGGTCTTACACATAATCACATATCAA
66 CTTACACGTAATCACATATCGATTCCAATGTCTTAGATGTGGTCTTACACATAATCACATATCAA
65673359 TGCCAGCGTCCCATACGTGGTCTTACATGTAATCACATATTAATGCCAACGTCCCAGACGTGGTC
131 TGCCAGCGTCCCATACGTGGTCTTACATGTAATCACATATTAATGCCAACGTCCCAGACGTGGTC
65673424 ATACACATATTCACATATCG
196 ATACACATATTCACATATCG
65673444 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAGTGTTCCAAATGTTAT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAGTGTTCCAAATGTTAT
** * *
65673509 CTTACACGTAATCACATATCGATTCCAATGTCCCAGATGTGGTCTTACACATATTCACATATCGA
66 CTTACACGTAATCACATATCGATTCCAATGTCTTAGATGTGGTCTTACACATAATCACATATCAA
* * * * *
65673574 TGCCAACATCCCAGATGTGGTCTTACACGTAATCACATA
131 TGCCAGCGTCCCATACGTGGTCTTACATGTAATCACATA
65673613 ATGGAATCAC
Statistics
Matches: 364, Mismatches: 17, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
213 1 0.00
214 2 0.01
215 360 0.99
216 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (215 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAGTGTTCCAAATGTTAT
CTTACACGTAATCACATATCGATTCCAATGTCTTAGATGTGGTCTTACACATAATCACATATCAA
TGCCAGCGTCCCATACGTGGTCTTACATGTAATCACATATTAATGCCAACGTCCCAGACGTGGTC
ATACACATATTCACATATCG
Found at i:65674937 original size:55 final size:55
Alignment explanation
Indices: 65674872--65675014 Score: 162
Period size: 55 Copynumber: 2.6 Consensus size: 55
65674862 AGCATGGCTG
* * *
65674872 CCAGATACAGA-AAATGTGACAAAGTCACCAGATACAGATATTTTGTGGCAGTGCCA
1 CCAGA-ACAGATAAATGTGACAAAGCCACCAGA-ACAGATAATTTGTGGCAGGGCCA
* * **
65674928 CCAGAACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCAGGGCCA
1 CCAGAACAGATAAATGTGACAAAGCCACCAGAACAGATAATTTGTGGCAGGGCCA
* * *
65674983 CCAGAACAGATAATTTGTGGCATAGCCACCAG
1 CCAGAACAGATAA-ATGTGACAAAGCCACCAG
65675015 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
55 38 0.51
56 36 0.49
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (55 bp):
CCAGAACAGATAAATGTGACAAAGCCACCAGAACAGATAATTTGTGGCAGGGCCA
Found at i:65674982 original size:28 final size:28
Alignment explanation
Indices: 65674897--65675014 Score: 175
Period size: 28 Copynumber: 4.2 Consensus size: 28
65674887 GTGACAAAGT
* *
65674897 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGGGC
*
65674926 CACCAGAACAGAT-ATATGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGGGC
65674953 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGGGC
**
65674981 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAGGGC
65675009 CACCAG
1 CACCAG
65675015 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.29
28 51 0.62
29 7 0.09
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.19
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGGGC
Found at i:65675011 original size:56 final size:56
Alignment explanation
Indices: 65674897--65675014 Score: 175
Period size: 55 Copynumber: 2.1 Consensus size: 56
65674887 GTGACAAAGT
* * *
65674897 CACCAGATACAGATATTTTGTGGCAGTGCCACCAGAACAGATATATGTGGCAGGGC
1 CACCAGATACAGATAATTTGTGGCAGGGCCACCAGAACAGATATATGTGGCAGAGC
* *
65674953 CACCAGA-ACAGATAATTTGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGATACAGATAATTTGTGGCAGGGCCACCAGAACAGAT-ATATGTGGCAGAGC
65675009 CACCAG
1 CACCAG
65675015 GACGCTTCCT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
55 32 0.57
56 24 0.43
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.19
Consensus pattern (56 bp):
CACCAGATACAGATAATTTGTGGCAGGGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:65675167 original size:28 final size:28
Alignment explanation
Indices: 65675120--65675211 Score: 166
Period size: 28 Copynumber: 3.3 Consensus size: 28
65675110 AAATTAACCC
* *
65675120 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
65675148 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
65675176 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
65675204 TAGGGGTA
1 TAGGGGTA
65675212 CTCTAGTACA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 62 1.00
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:65699359 original size:11 final size:11
Alignment explanation
Indices: 65699343--65699375 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
65699333 GGTGCCTATT
65699343 TCTTCTTCCTC
1 TCTTCTTCCTC
65699354 TCTTCTTCCTC
1 TCTTCTTCCTC
*
65699365 TCTTTTTCCTC
1 TCTTCTTCCTC
65699376 CATTTTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (11 bp):
TCTTCTTCCTC
Found at i:65700822 original size:65 final size:65
Alignment explanation
Indices: 65700702--65700824 Score: 221
Period size: 65 Copynumber: 1.9 Consensus size: 65
65700692 CCCCTAGGGT
*
65700702 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCTATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCTATATTATTATTATCTGA
65700767 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGGC-ATATTATTAT
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCAT-GCTATATTATTAT
65700825 CTGATGCATG
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
65 54 0.96
66 2 0.04
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (65 bp):
TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCTATATTATTATTATCTGA
Found at i:65701990 original size:43 final size:44
Alignment explanation
Indices: 65701935--65702322 Score: 454
Period size: 43 Copynumber: 9.0 Consensus size: 44
65701925 CATATCGTAT
* *
65701935 AATGCCAA-TGTCCCAGACGTGGTGTTACATGTAATCACATATC
1 AATGCCAACTGTCCCAGACGTGGTCTTACACGTAATCACATATC
65701978 AATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAATCACATATC
1 AATGCCAACTGTCCCAGAC-GTGGTCTTACACGTAATCACATATC
* * *
65702021 GATGCCAAC-GTCCCAGACATGGTTTTACACGTAATCACATATC
1 AATGCCAACTGTCCCAGACGTGGTCTTACACGTAATCACATATC
* ** * *
65702064 GATGCCAA-TGTTTCAGATGTGGTCTTACACATAATCACATATC
1 AATGCCAACTGTCCCAGACGTGGTCTTACACGTAATCACATATC
* *
65702107 AATGCCAAC-GTCCTAGACGTGGTCTTACACGTATTCACATATC
1 AATGCCAACTGTCCCAGACGTGGTCTTACACGTAATCACATATC
* * *
65702150 AATGCCAA-TGTCCTAGACGTGGTCTTACACATATTCACATATC
1 AATGCCAACTGTCCCAGACGTGGTCTTACACGTAATCACATATC
* * * *
65702193 GATGCCAAC-GTCCCAGACATTGTCTTACACATAATCACATATC
1 AATGCCAACTGTCCCAGACGTGGTCTTACACGTAATCACATATC
* *
65702236 AATGCCAAC-GTGCCAGACGTGGTCTTACACGTATTCACATATC
1 AATGCCAACTGTCCCAGACGTGGTCTTACACGTAATCACATATC
* * * * **
65702279 GATTCCAACT-TCCCAAATGTGGTCTTACACGTCGTCACATATC
1 AATGCCAACTGTCCCAGACGTGGTCTTACACGTAATCACATATC
65702322 A
1 A
65702323 GAATCACATA
Statistics
Matches: 298, Mismatches: 38, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.00
43 294 0.99
44 3 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (44 bp):
AATGCCAACTGTCCCAGACGTGGTCTTACACGTAATCACATATC
Found at i:65702108 original size:129 final size:129
Alignment explanation
Indices: 65701936--65702321 Score: 515
Period size: 129 Copynumber: 3.0 Consensus size: 129
65701926 ATATCGTATA
* **
65701936 ATGCCAATGTCCCAGACGTGGTGTTACATGTAATCACATATCAATGCC-ACTGTCCCAGACAG-G
1 ATGCCAATGTCCCAGACGTGGTCTTACACATAATCACATATCAATGCCAAC-GTCCCAGAC-GTG
* * *
65701999 GTCTTACACGTAATCACATATCGATGCCAACGTCCCAGACATGGTTTTACACGTAATCACATATC
64 GTCTTACACGTATTCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATC
65702064 G
129 G
** * *
65702065 ATGCCAATGTTTCAGATGTGGTCTTACACATAATCACATATCAATGCCAACGTCCTAGACGTGGT
1 ATGCCAATGTCCCAGACGTGGTCTTACACATAATCACATATCAATGCCAACGTCCCAGACGTGGT
* * * * *
65702130 CTTACACGTATTCACATATCAATGCCAATGTCCTAGACGTGGTCTTACACATATTCACATATCG
66 CTTACACGTATTCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * * *
65702194 ATGCCAACGTCCCAGACATTGTCTTACACATAATCACATATCAATGCCAACGTGCCAGACGTGGT
1 ATGCCAATGTCCCAGACGTGGTCTTACACATAATCACATATCAATGCCAACGTCCCAGACGTGGT
* * * * **
65702259 CTTACACGTATTCACATATCGATTCCAACTTCCCAAATGTGGTCTTACACGTCGTCACATATC
66 CTTACACGTATTCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATC
65702322 AGAATCACAT
Statistics
Matches: 222, Mismatches: 33, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
128 1 0.00
129 219 0.99
130 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (129 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACATAATCACATATCAATGCCAACGTCCCAGACGTGGT
CTTACACGTATTCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:65707120 original size:8 final size:8
Alignment explanation
Indices: 65707107--65707137 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
65707097 ATCGGCAAAA
65707107 GCCGAAAT
1 GCCGAAAT
65707115 GCCGAAAT
1 GCCGAAAT
65707123 GCCGAAAT
1 GCCGAAAT
65707131 GCCGAAA
1 GCCGAAA
65707138 AACCGGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.26, G:0.26, T:0.10
Consensus pattern (8 bp):
GCCGAAAT
Found at i:65707429 original size:28 final size:28
Alignment explanation
Indices: 65707389--65707453 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
65707379 ATGTACTAGA
*
65707389 ATACCCCTATGTATGCAAAATTACCCTT
1 ATACCCCTATGTATGCAAAATGACCCTT
*
65707417 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCCTT
65707445 ATACCCCTA
1 ATACCCCTA
65707454 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.32, C:0.29, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCCTT
Found at i:65707617 original size:27 final size:27
Alignment explanation
Indices: 65707559--65707640 Score: 112
Period size: 28 Copynumber: 3.0 Consensus size: 27
65707549 AGGAAGCGTC
65707559 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
65707587 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
65707614 CTGGTGGCACTGCCACAAAATATCTGT
1 CTGGTGGCACTGCCAC-AAATATCTGT
65707641 ATATGGTGAC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.48
28 25 0.52
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:65707659 original size:29 final size:28
Alignment explanation
Indices: 65707569--65707659 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
65707559 CTGGTGGCTA
* * * *
65707569 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTATGGTGACAC
* * *
65707597 TGCCAC-ATATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTATGGTGACAC
*
65707624 TGCCACAAAATATCTGTATATGGTGACTC
1 TGCCACAAAATATCTGT-TATGGTGACAC
*
65707653 TGTCACA
1 TGCCACA
65707660 TTTTCTGTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 24 0.45
28 15 0.28
29 14 0.26
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTATGGTGACAC
Found at i:65707667 original size:55 final size:56
Alignment explanation
Indices: 65707559--65707673 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
65707549 AGGAAGCGTC
* * *
65707559 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTATGGTGACCCTGCCACATATATCTGTAT
* * *
65707614 CTGGTGGC-ACTGCCACAAAATATCTGTATATGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TATGGTGACCCTGCCACATATATCTGTAT
65707670 CTGG
1 CTGG
65707674 CAGCCATGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTATGGTGACCCTGCCACATATATCTGTAT
Found at i:65712595 original size:46 final size:45
Alignment explanation
Indices: 65712414--65712626 Score: 141
Period size: 46 Copynumber: 4.6 Consensus size: 45
65712404 CACTTGTGTG
* * * * *
65712414 AGCTAGTGAAAGACATGTTTGGGACATGCATCAGCCAC-ATTATGA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GACGA
* * *
65712459 GAGCCAGTGTAAGACCATGTCTGGGACATGGCGTCAGC-ATTGAGAC-A
1 -AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTA-CGAGACGA
* * ** *
65712506 AGTGCTATTGTAAGACATGTCTAGGACATGCGGCGGCCT-CGAGACGTA
1 A--GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CTACGAGACG-A
* *
65712554 AGCTAGTGTAAGACATGTCTGAGACATGCATCAGCTACGAGATG-
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGACGA
*
65712598 TG-TCAGTGTAAGACCATGTCTGGGACATG
1 AGCT-AGTGTAAGA-CATGTCTGGGACATG
65712627 GCACCGGCAC
Statistics
Matches: 132, Mismatches: 22, Indels: 27
0.73 0.12 0.15
Matches are distributed among these distances:
43 1 0.01
44 10 0.08
45 16 0.12
46 55 0.42
47 29 0.22
48 20 0.15
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGACGA
Found at i:65714650 original size:47 final size:47
Alignment explanation
Indices: 65714585--65714710 Score: 153
Period size: 47 Copynumber: 2.7 Consensus size: 47
65714575 GAATAATACA
* * * ** *
65714585 TTGATTTGGATACCGGCCATGGTATAGGTATTTTGAGAGGAGTTACC
1 TTGATTTGGCTACGGGCCATGGTATAGGTACTACGAGAGAAGTTACC
* *
65714632 TTGATTTGGCTACGGGCCATGGTATAGGTACTACGGGATAAGTTACC
1 TTGATTTGGCTACGGGCCATGGTATAGGTACTACGAGAGAAGTTACC
* * *
65714679 TTGATTTGGCTACGGTCCTTGCTATAGGTACT
1 TTGATTTGGCTACGGGCCATGGTATAGGTACT
65714711 TATCGATTAT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (47 bp):
TTGATTTGGCTACGGGCCATGGTATAGGTACTACGAGAGAAGTTACC
Found at i:65717309 original size:29 final size:29
Alignment explanation
Indices: 65717277--65717332 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
65717267 GCGAGATATA
*
65717277 CTGA-TTTAGCTTTGGGCCATGCATATTGG
1 CTGATTTTAGCTTCGGGCCATG-ATATTGG
*
65717306 CTGATTTTGGCTTCGGGCCATGATATT
1 CTGATTTTAGCTTCGGGCCATGATATT
65717333 AGAACTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.16, C:0.18, G:0.27, T:0.39
Consensus pattern (29 bp):
CTGATTTTAGCTTCGGGCCATGATATTGG
Found at i:65719724 original size:18 final size:18
Alignment explanation
Indices: 65719703--65719754 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
65719693 AGGAAATTGA
*
65719703 TGTTGTAGAAGAAGAAGT
1 TGTTATAGAAGAAGAAGT
* * *
65719721 TGTTATCGAACAGGAAGT
1 TGTTATAGAAGAAGAAGT
*
65719739 TGTTATTGAAGAAGAA
1 TGTTATAGAAGAAGAA
65719755 AAAGTTGCTG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.38, C:0.04, G:0.29, T:0.29
Consensus pattern (18 bp):
TGTTATAGAAGAAGAAGT
Found at i:65725523 original size:38 final size:39
Alignment explanation
Indices: 65725412--65725535 Score: 178
Period size: 39 Copynumber: 3.2 Consensus size: 39
65725402 GACTTAATGT
*
65725412 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTAGAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
* *
65725451 CTAGCAGGCCTCGTGCCAGTGATAAATTCCGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
* * **
65725490 CTAGCA-GCCTCGTGCCGGTGTTAAGTTTGGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
65725528 CTAGCAGG
1 CTAGCAGG
65725536 AAAATTGCAG
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
38 33 0.43
39 43 0.57
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.28
Consensus pattern (39 bp):
CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
Found at i:65728048 original size:35 final size:34
Alignment explanation
Indices: 65728008--65728098 Score: 114
Period size: 35 Copynumber: 2.6 Consensus size: 34
65727998 TAGCACAGTG
65728008 GCATGCTTAACATGTGAATCAAAATCAGAA-ACATTA
1 GCATGCTTAACATG-GAATCAAAATCAGAATA-A-TA
*
65728044 -CATGCTTAACATAGGAGTCAAAATCAGAATAATA
1 GCATGCTTAACAT-GGAATCAAAATCAGAATAATA
65728078 GCATGCTTAACATGGGAATCA
1 GCATGCTTAACAT-GGAATCA
65728099 GAATAATAGA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
34 2 0.04
35 45 0.92
36 2 0.04
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.24
Consensus pattern (34 bp):
GCATGCTTAACATGGAATCAAAATCAGAATAATA
Found at i:65733700 original size:46 final size:47
Alignment explanation
Indices: 65733628--65733754 Score: 154
Period size: 46 Copynumber: 2.7 Consensus size: 47
65733618 TGATATGTGT
* *
65733628 GCTACTGTAAGACATGTCTGGGACATGCATCGGCCACATT-A-TGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTGAGCGAGA
*
65733674 GCTAGTGTAAGACATGTTTGGGACATGCATCGG--CATTGAGGCGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTGA-GCGAGA
* * *
65733720 GCCAGTGTGAGACATGTCTGGGAAATGCATCGGCC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
65733755 TCGAGATATG
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.06
44 1 0.01
46 64 0.93
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTGAGCGAGA
Found at i:65733826 original size:49 final size:49
Alignment explanation
Indices: 65733751--65733844 Score: 134
Period size: 49 Copynumber: 1.9 Consensus size: 49
65733741 GAAATGCATC
* * *
65733751 GGCCTCGAGATATGCAAGCCAGTGTAAGACCTGTCTGGGGCATGGTACT
1 GGCCTCGAGATATGCAAGCCAATGTAAGACCTATCTGGGACATGGTACT
* * *
65733800 GGCCTCGATATATGGAAGTCAATGTAAGACCTATCTGGGACATGG
1 GGCCTCGAGATATGCAAGCCAATGTAAGACCTATCTGGGACATGG
65733845 CATCGACTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (49 bp):
GGCCTCGAGATATGCAAGCCAATGTAAGACCTATCTGGGACATGGTACT
Found at i:65736597 original size:41 final size:43
Alignment explanation
Indices: 65736506--65736622 Score: 123
Period size: 44 Copynumber: 2.8 Consensus size: 43
65736496 AAATGATTAG
**
65736506 CGAAGCTATAACGATATTGCACACTTAGTGCCATCACATTAAA
1 CGAAGCTATCTCGATATTGCACACTTAGTGCCATCACATTAAA
* * **
65736549 CTGAAGCTATCTCGGTATTGCACACTTAGTGCCA-CATA-TAGT
1 C-GAAGCTATCTCGATATTGCACACTTAGTGCCATCACATTAAA
** *
65736591 CGAAGCTATCTCGA-AACGCACACTAAGTGCCA
1 CGAAGCTATCTCGATATTGCACACTTAGTGCCA
65736623 AACATAGTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
40 15 0.24
41 12 0.19
42 3 0.05
43 4 0.06
44 29 0.46
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
CGAAGCTATCTCGATATTGCACACTTAGTGCCATCACATTAAA
Found at i:65745436 original size:13 final size:13
Alignment explanation
Indices: 65745418--65745446 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
65745408 TTTAGTTTAA
65745418 TTAGTTAATTAGT
1 TTAGTTAATTAGT
65745431 TTAGTTAATTAGT
1 TTAGTTAATTAGT
65745444 TTA
1 TTA
65745447 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:65745599 original size:13 final size:13
Alignment explanation
Indices: 65745581--65745607 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
65745571 TGCCTTTTCG
65745581 TCGTGATAATAGT
1 TCGTGATAATAGT
65745594 TCGTGATAATAGT
1 TCGTGATAATAGT
65745607 T
1 T
65745608 AGTCTAGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (13 bp):
TCGTGATAATAGT
Found at i:65750909 original size:6 final size:6
Alignment explanation
Indices: 65750898--65750936 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
65750888 TCCTCCTATC
*
65750898 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
65750937 CAATTTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:65750942 original size:18 final size:18
Alignment explanation
Indices: 65750903--65750943 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
65750893 CTATCTTTTT
* **
65750903 ATTTTTATTTTTATTTTT
1 ATTTTTATTTTCATTTCA
65750921 ATTTTTATTTTCATTTCA
1 ATTTTTATTTTCATTTCA
65750939 ATTTT
1 ATTTT
65750944 ATTATTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (18 bp):
ATTTTTATTTTCATTTCA
Found at i:65772774 original size:39 final size:39
Alignment explanation
Indices: 65772720--65772794 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
65772710 AGCTCTGTTA
*
65772720 ACAGAAGCTTTGGTGTTGGTACAACCTGAGTCGGGTTTT
1 ACAGAAGCTCTGGTGTTGGTACAACCTGAGTCGGGTTTT
65772759 ACAGAAGCTCTGGTGTTGGTACAACCTGAGTCGGGT
1 ACAGAAGCTCTGGTGTTGGTACAACCTGAGTCGGGT
65772795 AAAGAATTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.29
Consensus pattern (39 bp):
ACAGAAGCTCTGGTGTTGGTACAACCTGAGTCGGGTTTT
Found at i:65775869 original size:29 final size:29
Alignment explanation
Indices: 65775827--65775882 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
65775817 ATCGGAAGTT
65775827 TTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTGGCACTAAGTGTGCGATTTAAACTAGC
*
65775856 TTGGCACTAAGTGTGTGATTTAAACTA
1 TTGGCACTAAGTGTGCGATTTAAACTA
65775883 ACTTCGGCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (29 bp):
TTGGCACTAAGTGTGCGATTTAAACTAGC
Found at i:65784644 original size:48 final size:48
Alignment explanation
Indices: 65784494--65784765 Score: 256
Period size: 48 Copynumber: 5.7 Consensus size: 48
65784484 TGATATGTGT
* * *
65784494 GCTAGTGTAAGACCATGTCTGGG-CATGGTATCGGCTACGATA-TGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACT-CGAGACTGAGA
* * * * *
65784541 GCCAGTGTTAGACCATGTTTGGAACATGGCATCGA-T-GATGTTA-TGAGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGA-G--ACTGAGA
* *
65784589 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACT-AGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TCGAGACTGAGA
* *
65784637 GTTAGTGTAAGACCATGTCTGGGACATGGCATC-AGC-CGCGACATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTCGAGAC-TGAGA
* * *
65784685 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACA-TGTGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGAGACTGAGA
* *
65784733 GCCAGTGTAAGACCATGTTTGGGACATGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
65784766 AGCAAATTAA
Statistics
Matches: 188, Mismatches: 23, Indels: 27
0.79 0.10 0.11
Matches are distributed among these distances:
45 2 0.01
46 4 0.02
47 22 0.12
48 151 0.80
49 2 0.01
50 5 0.03
51 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGACTGAGA
Found at i:65784664 original size:96 final size:95
Alignment explanation
Indices: 65784485--65784767 Score: 329
Period size: 96 Copynumber: 3.0 Consensus size: 95
65784475 ACATTTGGGT
* * *
65784485 GATATGTGTGCTAGTGTAAGACCATGTCTGGG-CATGGTATCGGCTACGATATGAGAGCCAGTGT
1 GATATGAGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGACATGAGAGCCAGTGT
* * * *
65784549 TAGACCATGTTTGGAACATGGCATC-GATGAT
65 AAGACCATGTTTGGGACATGGCATCAGACG-C
* * * * * **
65784580 GTTATGAGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACT-AGAGTTAGTG
1 GATATGAGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TCGACA-TGAGAGCCAGTG
* *
65784644 TAAGACCATGTCTGGGACATGGCATCAGCCGC
64 TAAGACCATGTTTGGGACATGGCATCAGACGC
* * *
65784676 GACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAGTGT
1 GATATGAGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGACATGAGAGCCAGTGT
65784741 AAGACCATGTTTGGGACATGGCATCAG
65 AAGACCATGTTTGGGACATGGCATCAG
65784768 CAAATTAACC
Statistics
Matches: 156, Mismatches: 26, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
95 30 0.19
96 121 0.78
97 5 0.03
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.25
Consensus pattern (95 bp):
GATATGAGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGACATGAGAGCCAGTGTA
AGACCATGTTTGGGACATGGCATCAGACGC
Found at i:65784756 original size:144 final size:142
Alignment explanation
Indices: 65784496--65784765 Score: 362
Period size: 144 Copynumber: 1.9 Consensus size: 142
65784486 ATATGTGTGC
* * * * * *
65784496 TAGTGTAAGACCATGTCTGGGCATGGTATCGGCTACGATATGAGAGCCAGTGTTAGACCATGTTT
1 TAGTGTAAGACCATGTCTGGGCATGGCATCAGCCACGACATGAGAGCCAGTGTAAGACCATGTCT
** *
65784561 GGAACATGGCATCGATGATGTTATGAGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACA
66 GGAACATGGCATCGA-GATGACATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACA
65784626 TTGAGACTAGAGT
130 TTGAGACTAGAGT
* *
65784639 TAGTGTAAGACCATGTCTGGGACATGGCATCAGCCGCGACATGAGAGCTAGTGTAAGACCATGTC
1 TAGTGTAAGACCATGTCTGGG-CATGGCATCAGCCACGACATGAGAGCCAGTGTAAGACCATGTC
* * * *
65784704 TGGGACATGGCATCG-GCCTCGACATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATC
65 TGGAACATGGCATCGAG-AT-GACATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
65784766 AGCAAATTAA
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
142 1 0.01
143 22 0.20
144 86 0.79
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (142 bp):
TAGTGTAAGACCATGTCTGGGCATGGCATCAGCCACGACATGAGAGCCAGTGTAAGACCATGTCT
GGAACATGGCATCGAGATGACATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACAT
TGAGACTAGAGT
Found at i:65800742 original size:46 final size:46
Alignment explanation
Indices: 65800622--65800744 Score: 183
Period size: 46 Copynumber: 2.7 Consensus size: 46
65800612 AACCCACCCC
* * *
65800622 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
65800668 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGTATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
65800714 TAGGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
65800745 AGATGCTCAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:65801202 original size:29 final size:30
Alignment explanation
Indices: 65801170--65801228 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
65801160 ATTTAATACG
65801170 AACTTTGGAAAAATTACAC-TTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
65801199 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
65801229 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:65808429 original size:40 final size:40
Alignment explanation
Indices: 65808374--65808640 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
65808364 AACATTGGAT
65808374 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
65808414 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
65808454 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
65808494 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
65808534 TATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
65808574 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
65808614 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
65808641 ATGTGTTTGC
Statistics
Matches: 217, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:65817239 original size:40 final size:40
Alignment explanation
Indices: 65817184--65817450 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
65817174 AACATTGGAT
65817184 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
65817224 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
65817264 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
65817304 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
65817344 TATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
65817384 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
65817424 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
65817451 ATGTGTTTGC
Statistics
Matches: 217, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:65843230 original size:13 final size:13
Alignment explanation
Indices: 65843212--65843238 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
65843202 ACCATCAGCA
65843212 CCGTGATTCCAGG
1 CCGTGATTCCAGG
65843225 CCGTGATTCCAGG
1 CCGTGATTCCAGG
65843238 C
1 C
65843239 TTCGAATCAT
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:0.15, C:0.33, G:0.30, T:0.22
Consensus pattern (13 bp):
CCGTGATTCCAGG
Found at i:65844223 original size:14 final size:13
Alignment explanation
Indices: 65844200--65844309 Score: 72
Period size: 13 Copynumber: 8.6 Consensus size: 13
65844190 ATGTTTATTT
65844200 TTATTATTATATA
1 TTATTATTATATA
*
65844213 TATATTTTTATATA
1 T-TATTATTATATA
*
65844227 TTATTAATTGT-T-
1 TTATT-ATTATATA
* **
65844239 TTATTTTTATACC
1 TTATTATTATATA
65844252 TTATT-TT-TATA
1 TTATTATTATATA
*
65844263 TTATATATTATAAAA
1 TTAT-TATTAT-ATA
65844278 TTATT-TTAT-TA
1 TTATTATTATATA
65844289 TATATTATT-TATA
1 T-TATTATTATATA
65844302 TTATTATT
1 TTATTATT
65844310 TATTATGTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 23
0.70 0.09 0.21
Matches are distributed among these distances:
11 11 0.14
12 20 0.26
13 22 0.29
14 17 0.22
15 6 0.08
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.64
Consensus pattern (13 bp):
TTATTATTATATA
Found at i:65844241 original size:39 final size:39
Alignment explanation
Indices: 65844198--65844325 Score: 113
Period size: 39 Copynumber: 3.2 Consensus size: 39
65844188 ATATGTTTAT
65844198 TTTTATTATTATATATATATTTTTATA-TATTATTAATTG
1 TTTTATT-TTATATATATATTTTTATATTATTATTAATTG
**
65844237 TTTTATTTT-TATACCT-TATTTTTATATTATATATT-ATAA
1 TTTTATTTTATATA--TATATTTTTATATTAT-TATTAATTG
** *
65844276 AATTATTTTAT-TATATATTATTTATATTATTATTTATTATG
1 TTTTATTTTATATATATATT-TTTATATTATTA-TTAAT-TG
65844317 TTTTATTTT
1 TTTTATTTT
65844326 TCACAAATTA
Statistics
Matches: 70, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
37 5 0.07
38 18 0.26
39 34 0.49
40 6 0.09
41 7 0.10
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (39 bp):
TTTTATTTTATATATATATTTTTATATTATTATTAATTG
Found at i:65844289 original size:16 final size:16
Alignment explanation
Indices: 65844261--65844305 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
65844251 CTTATTTTTA
65844261 TATTATATATTATAAAAT
1 TATT-TATATTAT-AAAT
*
65844279 TATTT-TATTATATAT
1 TATTTATATTATAAAT
65844294 TATTTATATTAT
1 TATTTATATTAT
65844306 TATTTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 8 0.32
16 12 0.48
17 1 0.04
18 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTTATATTATAAAT
Found at i:65844355 original size:20 final size:19
Alignment explanation
Indices: 65844332--65844395 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 19
65844322 TTTTTCACAA
65844332 ATTATTATTATCATTTTTAC
1 ATTATTATTAT-ATTTTTAC
65844352 ATTATTATTATATTTTTAC
1 ATTATTATTATATTTTTAC
*
65844371 TTGTATTA-TATATTTATTA-
1 AT-TATTATTATATTT-TTAC
65844390 ATTATT
1 ATTATT
65844396 TATATACATT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
18 4 0.10
19 17 0.43
20 19 0.47
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (19 bp):
ATTATTATTATATTTTTAC
Found at i:65844377 original size:17 final size:19
Alignment explanation
Indices: 65844332--65844386 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
65844322 TTTTTCACAA
*
65844332 ATTATTATTATCATTTTTAC
1 ATTAGTATTAT-ATTTTTAC
*
65844352 ATTATTATTATATTTTTAC
1 ATTAGTATTATATTTTTAC
*
65844371 -TT-GTATTATATATTTA
1 ATTAGTATTATATTTTTA
65844387 TTAATTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 12 0.36
18 2 0.06
19 8 0.24
20 11 0.33
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (19 bp):
ATTAGTATTATATTTTTAC
Found at i:65844526 original size:31 final size:30
Alignment explanation
Indices: 65844490--65844550 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
65844480 TTAAAATATA
65844490 TTTTATTATATAACATTTATTATATTTTTAT
1 TTTTATTATATAACATTTATTAT-TTTTTAT
* ** *
65844521 TTTTATTCTATATTATTTTTTATTTTTTAT
1 TTTTATTATATAACATTTATTATTTTTTAT
65844551 AGGTTATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.70
Consensus pattern (30 bp):
TTTTATTATATAACATTTATTATTTTTTAT
Found at i:65852121 original size:44 final size:44
Alignment explanation
Indices: 65852084--65852584 Score: 369
Period size: 44 Copynumber: 11.4 Consensus size: 44
65852074 CAAAGAAACA
*
65852084 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * * * ***
65852128 AGATCTGACATTCCTGTGCTTACAGGAAAGCAGATCAAAGATTTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* *
65852173 AGCA--TGGCATCCCTATGTTTATAGGGAACA-AGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
65852216 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * * **
65852260 AGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* * * *
65852305 AGCA--TGGCATCCCTATGTTTATAGGGAACA-AGTTGAAGATTGA
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* * *
65852348 AGATTTGGCATCCATGTGTTTATAGGAAACA-AGTTGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* *
65852392 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAAATAAC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * * **
65852436 AGATCTGACA-CTCCTGTGCTTACAGCGAAGCAGATCGAGGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* * *
65852481 AGCA--TGGTATCCCTGTGTTTATAGGGAACA-AGTTGAAGATACC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* * * * * * *
65852524 ATATTTGGCATCTCTGTATTGT-CAGAGAGCAGATCGAAGATACC
1 AGATTTGGCATCCCTGTGTT-TATAGGGAACAGATCGAAGATAGC
*
65852568 AGATTTGGCATCTCTGT
1 AGATTTGGCATCCCTGT
65852585 ATTGGCGGAG
Statistics
Matches: 360, Mismatches: 76, Indels: 42
0.75 0.16 0.09
Matches are distributed among these distances:
42 6 0.02
43 33 0.09
44 271 0.75
45 47 0.13
46 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
Found at i:65852321 original size:132 final size:131
Alignment explanation
Indices: 65852083--65852429 Score: 527
Period size: 132 Copynumber: 2.6 Consensus size: 131
65852073 TCAAAGAAAC
*
65852083 AAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACATTCCTGTGCT
1 AAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCT
* *
65852148 TACAGGAAAGCAGATCAAAGATTTTAGCATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGAT
66 TACAGG-AAGCAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGAT
65852213 AG
130 AG
*
65852215 CAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCT
1 AAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCT
65852280 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGAT
66 TACAG-GAAGCAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGAT
*
65852345 TG
130 AG
* * * * * * *
65852347 AAGATTTGGCATCCATGTGTTTATAGGAAACA-AGTTGAAGATAGCAGATTTGGCATCCCTGTGT
1 AAGATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATTCCTGTGC
*
65852411 TTATAGGGAA-CAGATCGAA
65 TTACA-GGAAGCAGATCGAA
65852430 AATAACAGAT
Statistics
Matches: 198, Mismatches: 14, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
131 10 0.05
132 186 0.94
133 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (131 bp):
AAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCT
TACAGGAAGCAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATA
G
Found at i:65852471 original size:176 final size:176
Alignment explanation
Indices: 65852177--65852520 Score: 598
Period size: 176 Copynumber: 2.0 Consensus size: 176
65852167 GATTTTAGCA
* *
65852177 TGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGG
1 TGGCATCCATATGTTTATAGGAAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGG
* * * *
65852242 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
66 GAACAGATCGAAAATAACAGATCTGACACTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAG
65852307 CATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATTGAAGATT
131 CATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATTGAAGATT
*
65852353 TGGCATCCATGTGTTTATAGGAAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGG
1 TGGCATCCATATGTTTATAGGAAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGG
*
65852418 GAACAGATCGAAAATAACAGATCTGACACTCCTGTGCTTACAGCGAAGCAGATCGAGGATTTCAG
66 GAACAGATCGAAAATAACAGATCTGACACTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAG
* *
65852483 CATGGTATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
131 CATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGAT
65852521 ACCATATTTG
Statistics
Matches: 158, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
176 158 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (176 bp):
TGGCATCCATATGTTTATAGGAAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGG
GAACAGATCGAAAATAACAGATCTGACACTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAG
CATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATTGAAGATT
Found at i:65852565 original size:176 final size:176
Alignment explanation
Indices: 65852190--65852584 Score: 546
Period size: 176 Copynumber: 2.2 Consensus size: 176
65852180 CATCCCTATG
* * * *
65852190 TTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAG
1 TTTAGAGGAAACAAGTCGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAA
* * *
65852255 ATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTA
66 ATAACAGATCTGACACTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTA
** *
65852320 TGTTTATAGGGAACAAGTTGAAGATTGAAGATTTGGCATCCATGTG
131 TGTTTATAGGGAACAAGTTGAAGATACAAGATTTGGCATCCATGTA
* *
65852366 TTTATAGGAAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAA
1 TTTAGAGGAAACAAGTCGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAA
* * *
65852431 ATAACAGATCTGACACTCCTGTGCTTACAGCGAAGCAGATCGAGGATTTCAGCATGGTATCCCTG
66 ATAACAGATCTGACACTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTA
* *
65852496 TGTTTATAGGGAACAAGTTGAAGATACCATATTTGGCATCTC-TGTA
131 TGTTTATAGGGAACAAGTTGAAGATACAAGATTTGGCATC-CATGTA
* * *
65852542 TTGTCAGA-G-AGC-AGATCGAAGATACCAGATTTGGCATCTCTGT
1 TT-T-AGAGGAAACAAG-TCGAAGATAGCAGATTTGGCATCCCTGT
65852585 ATTGGCGGAG
Statistics
Matches: 197, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
175 2 0.01
176 190 0.96
177 3 0.02
178 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (176 bp):
TTTAGAGGAAACAAGTCGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAA
ATAACAGATCTGACACTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTA
TGTTTATAGGGAACAAGTTGAAGATACAAGATTTGGCATCCATGTA
Found at i:65852585 original size:44 final size:44
Alignment explanation
Indices: 65852515--65852607 Score: 150
Period size: 44 Copynumber: 2.1 Consensus size: 44
65852505 GGAACAAGTT
* *
65852515 GAAGATACCATATTTGGCATCTCTGTATTGTCAGAGAGCAGATC
1 GAAGATACCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
* *
65852559 GAAGATACCAGATTTGGCATCTCTGTATTGGCGGAGAGTAGATC
1 GAAGATACCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
65852603 GAAGA
1 GAAGA
65852608 CATAGCTGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (44 bp):
GAAGATACCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
Found at i:65852937 original size:205 final size:205
Alignment explanation
Indices: 65852600--65853103 Score: 710
Period size: 205 Copynumber: 2.5 Consensus size: 205
65852590 CGGAGAGTAG
*
65852600 ATCGAAGACATAGCTGATTTGGCTTTCACATGTTTACGTTGAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCA
* * * * *
65852665 TCCCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGACTCATA
66 TCTCTGTATTGTCAGAGAGCAAATCGAAGTATGGCATCTCCACTTCAACGGAGAGCAGACTCATA
* * * * * **
65852730 GCAGATC-CAAACTTCAGAT-GTCTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTGTGCT
131 GCAGATCTC-AACTTCAGATGGT-TATACTAAAGCAGATCCAACACGATTTAACATCCTTGTGCT
65852793 TACAAGGAGCAA
194 TACAAGGAGCAA
* *
65852805 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTCGAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCA
* * *
65852870 TATCTGTATTGTCAGAGAGCAAATCGAAGTATGGCATCTCCACTTCAATGTG-GAGTAGA-TACA
66 TCTCTGTATTGTCAGAGAGCAAATCGAAGTATGGCATCTCCACTTCAACG-GAGAGCAGACT-CA
* *
65852933 TAGCAGATCTCACCTTCAGGTGGTTATACTAAAGCAGATCCAACACGATTTAACATCCTTGTGCT
129 TAGCAGATCTCAACTTCAGATGGTTATACTAAAGCAGATCCAACACGATTTAACATCCTTGTGCT
65852998 TACAAGGAGCAA
194 TACAAGGAGCAA
* * *
65853010 ATCGAAGACACAGCTGATTTGGCTTTCATGTGTTTACGTTAAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCA
* * *
65853075 TCTCTGTATTGGCAGGGAGCAGATCGAAG
66 TCTCTGTATTGTCAGAGAGCAAATCGAAG
65853104 ACATAGCTGA
Statistics
Matches: 266, Mismatches: 29, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
204 1 0.00
205 261 0.98
206 4 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (205 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCA
TCTCTGTATTGTCAGAGAGCAAATCGAAGTATGGCATCTCCACTTCAACGGAGAGCAGACTCATA
GCAGATCTCAACTTCAGATGGTTATACTAAAGCAGATCCAACACGATTTAACATCCTTGTGCTTA
CAAGGAGCAA
Found at i:65853112 original size:87 final size:87
Alignment explanation
Indices: 65853003--65853165 Score: 263
Period size: 87 Copynumber: 1.9 Consensus size: 87
65852993 GTGCTTACAA
* *
65853003 GGAGCAAATCGAAGACACAGCTGATTTGGCTTTCATGTGTTTACGTTAAAGCAAATCTAAGATGA
1 GGAGCAAATCGAAGACACAGCTGATTGGGCTTTCACGTGTTTACGTTAAAGCAAATCTAAGATGA
65853068 TTTGGCATCTCTGTATTGGCAG
66 TTTGGCATCTCTGTATTGGCAG
* * * * *
65853090 GGAGCAGATCGAAGACATAGCTGATTGGGCTTTTACGTGTTTATGTTGAAGCAAATCTAAGATGA
1 GGAGCAAATCGAAGACACAGCTGATTGGGCTTTCACGTGTTTACGTTAAAGCAAATCTAAGATGA
65853155 TTTGGCATCTC
66 TTTGGCATCTC
65853166 CGGGTTTGAC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (87 bp):
GGAGCAAATCGAAGACACAGCTGATTGGGCTTTCACGTGTTTACGTTAAAGCAAATCTAAGATGA
TTTGGCATCTCTGTATTGGCAG
Found at i:65854804 original size:18 final size:18
Alignment explanation
Indices: 65854729--65854852 Score: 51
Period size: 18 Copynumber: 6.6 Consensus size: 18
65854719 CCCTATATGT
65854729 TTATTTTTAT-TATATATA
1 TTATTTTTATAT-TATATA
*
65854747 TT-TTTTATATATTGT-TAA
1 TTATTTT-TATATTATAT-A
* *
65854765 TT-GTTTTAT-TTTTATA
1 TTATTTTTATATTATATA
65854781 CCTTATTTTTATATTATATA
1 --TTATTTTTATATTATATA
*
65854801 TTATAAAATTATTTTATTATATA
1 TTAT----TT-TTATATTATATA
* * *
65854824 TTATTTATATTTTATTTA
1 TTATTTTTATATTATATA
65854842 TTATGTTTTAT
1 TTAT-TTTTAT
65854853 TTTTCACAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 27
0.68 0.09 0.23
Matches are distributed among these distances:
16 4 0.05
17 9 0.11
18 31 0.38
19 14 0.17
20 6 0.07
22 2 0.02
23 15 0.19
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
TTATTTTTATATTATATA
Found at i:65854820 original size:16 final size:16
Alignment explanation
Indices: 65854792--65854834 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
65854782 CTTATTTTTA
65854792 TATTATATATTATAAAAT
1 TATT-TATATTAT-AAAT
*
65854810 TATTT-TATTATATAT
1 TATTTATATTATAAAT
65854825 TATTTATATT
1 TATTTATATT
65854835 TTATTTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 8 0.35
16 10 0.43
17 1 0.04
18 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTTATATTATAAAT
Found at i:65854852 original size:21 final size:21
Alignment explanation
Indices: 65854722--65854839 Score: 64
Period size: 21 Copynumber: 5.5 Consensus size: 21
65854712 AATTTAACCC
* *
65854722 TATATGTTTATT-TTTATTATA
1 TATAT-TTTATTATATATTATT
*
65854743 TATATTTT-TTATATATTGTT
1 TATATTTTATTATATATTATT
* * * *
65854763 AATTGTTTTATT-TTTA-TACCT
1 TA-TATTTTATTATATATTA-TT
* *
65854784 TATTTTTATATTATATATTATAA
1 TATATTT-TATTATATATTAT-T
*
65854807 AATTATTTTATTATATATTATT
1 TA-TATTTTATTATATATTATT
65854829 TATATTTTATT
1 TATATTTTATT
65854840 TATTATGTTT
Statistics
Matches: 71, Mismatches: 17, Indels: 18
0.67 0.16 0.17
Matches are distributed among these distances:
19 2 0.03
20 15 0.21
21 28 0.39
22 6 0.08
23 16 0.23
24 4 0.06
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (21 bp):
TATATTTTATTATATATTATT
Found at i:65854854 original size:14 final size:14
Alignment explanation
Indices: 65854768--65854854 Score: 51
Period size: 13 Copynumber: 6.6 Consensus size: 14
65854758 TTGTTAATTG
65854768 TTTTATTT-TTATA
1 TTTTATTTATTATA
**
65854781 CCTTATTT-TTATA
1 TTTTATTTATTATA
* * *
65854794 TTATATATTATAAAA
1 TTTTAT-TTATTATA
*
65854809 TTAT-TTTATTATA
1 TTTTATTTATTATA
*
65854822 TATTA--T-TTATA
1 TTTTATTTATTATA
*
65854833 TTTTATTTATTATG
1 TTTTATTTATTATA
65854847 TTTTATTT
1 TTTTATTT
65854855 TTCACAAATT
Statistics
Matches: 55, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
11 9 0.16
12 1 0.02
13 23 0.42
14 15 0.27
15 7 0.13
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (14 bp):
TTTTATTTATTATA
Found at i:65856594 original size:23 final size:25
Alignment explanation
Indices: 65856543--65856598 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
65856533 AAGATAATGT
* *
65856543 TATAAAAACACAAAATAACTTACAT
1 TATAAAAACACAAAATAAATTACAA
*
65856568 TATAAAAATA-AAAATAAATTA-AA
1 TATAAAAACACAAAATAAATTACAA
65856591 TATAAAAA
1 TATAAAAA
65856599 ACATTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 9 0.32
24 10 0.36
25 9 0.32
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (25 bp):
TATAAAAACACAAAATAAATTACAA
Found at i:65856606 original size:17 final size:18
Alignment explanation
Indices: 65856563--65856609 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
65856553 CAAAATAACT
65856563 TACATTATAAAAATAAAAA
1 TACATT-TAAAAATAAAAA
* *
65856582 TA-AATTAAATATAAAAA
1 TACATTTAAAAATAAAAA
65856599 -ACATTTAAAAA
1 TACATTTAAAAA
65856610 AATTCGATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
16 1 0.04
17 18 0.78
18 2 0.09
19 2 0.09
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (18 bp):
TACATTTAAAAATAAAAA
Found at i:65858166 original size:51 final size:50
Alignment explanation
Indices: 65858038--65858281 Score: 341
Period size: 51 Copynumber: 4.9 Consensus size: 50
65858028 TATTGTGAGG
* * * *
65858038 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATT-GG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTCGA
* * *
65858087 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TTCGA
* *
65858138 TCACGTGTGTAGTACTAAGTGCAGGCTACTAGGCGTACCCGATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TTCGA
* *
65858189 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTCGT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTCGA
65858239 TGCA--TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 T-CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
65858282 GCTTTGGCTA
Statistics
Matches: 177, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
49 77 0.44
50 7 0.04
51 93 0.53
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTCGA
Found at i:65858314 original size:100 final size:101
Alignment explanation
Indices: 65858038--65858281 Score: 298
Period size: 100 Copynumber: 2.4 Consensus size: 101
65858028 TATTGTGAGG
* * * * * * *
65858038 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTA-TT-GGTCGCATGTGTAGTA
1 TCAC-TGTGTAGTACTAAGTGCAGGCTACTAGGCGTACCAGATAACTTCGATCACGTGTGTAGAA
* *
65858101 CTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
65 ATAAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
* *
65858138 TCACGTGTGTAGTACTAAGTGCAGGCTACTAGGCGTACCCGATAACTTCGATCACGTGTGTAGTA
1 TCAC-TGTGTAGTACTAAGTGCAGGCTACTAGGCGTACCAGATAACTTCGATCACGTGTGTAGAA
* * *
65858203 CTAAGTGCAGGCTACTATGTGTACCAGATAA-TTCGT
65 ATAAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
*
65858239 TGCA-TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 T-CACTGTGTAGTACTAAGTGCAGGCTACTAGGCGTACCAGATA
65858282 GCTTTGGCTA
Statistics
Matches: 129, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
100 78 0.60
101 7 0.05
102 44 0.34
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (101 bp):
TCACTGTGTAGTACTAAGTGCAGGCTACTAGGCGTACCAGATAACTTCGATCACGTGTGTAGAAA
TAAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
Found at i:65861434 original size:31 final size:31
Alignment explanation
Indices: 65861399--65861462 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
65861389 CTTTTTCATA
*
65861399 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
65861430 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
65861461 TT
1 TT
65861463 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:65861720 original size:24 final size:24
Alignment explanation
Indices: 65861675--65861844 Score: 220
Period size: 24 Copynumber: 7.2 Consensus size: 24
65861665 GGCCTTTCCT
* *
65861675 CTTTTAATAACTGTGG-AAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
65861698 TTTTTTATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
65861722 C-TTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
65861745 CTTTTGATAATTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
65861769 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* * *
65861793 ATTTTGATAACTAGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
65861817 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
65861840 CTTTT
1 CTTTT
65861845 TCACTTCCTC
Statistics
Matches: 128, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
23 55 0.43
24 73 0.57
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.32
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:65861782 original size:48 final size:47
Alignment explanation
Indices: 65861677--65861844 Score: 239
Period size: 47 Copynumber: 3.6 Consensus size: 47
65861667 CCTTTCCTCT
* * * *
65861677 TTTAATAACTGTGG-AAAAGCCTTTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
* *
65861723 TTTAATAACTGGGGCGTAAGCCCTTTTGATAATTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
* * *
65861770 TTTTGATAACTGGGGCATAAGCCATTTTGATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
65861818 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
65861845 TCACTTCCTC
Statistics
Matches: 107, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
46 13 0.12
47 52 0.49
48 42 0.39
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
Found at i:65861920 original size:20 final size:20
Alignment explanation
Indices: 65861895--65861933 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
65861885 TATGAATACA
65861895 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
65861915 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
65861934 ACCATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:65861939 original size:20 final size:20
Alignment explanation
Indices: 65861896--65861940 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
65861886 ATGAATACAT
**
65861896 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
65861916 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
65861936 CATGT
1 CATGT
65861941 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:65862009 original size:25 final size:25
Alignment explanation
Indices: 65861977--65862024 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
65861967 ATACATAAAC
* *
65861977 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGTAAAAAGGTCATTTTTA
65862002 CCTAGGGGTAAAAAGGTCATTTT
1 CCTAGGGGTAAAAAGGTCATTTT
65862025 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGTAAAAAGGTCATTTTTA
Found at i:65863128 original size:44 final size:44
Alignment explanation
Indices: 65863027--65863117 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
65863017 CATTGATGTG
*
65863027 TACAACACATAAATCAACATAATCTCATATTGATATAGGAAGTT
1 TACAACACATAAATCAACATAATCTCATATTGAGATAGGAAGTT
65863071 TACAACACATAAATCAACATAATCTCATATTGAGATAGGAAGTT
1 TACAACACATAAATCAACATAATCTCATATTGAGATAGGAAGTT
65863115 TAC
1 TAC
65863118 TTATCATAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (44 bp):
TACAACACATAAATCAACATAATCTCATATTGAGATAGGAAGTT
Found at i:65872393 original size:10 final size:10
Alignment explanation
Indices: 65872378--65872421 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
65872368 AGTAAGTTAA
65872378 AAAGATAAAT
1 AAAGATAAAT
65872388 AAAGATAAAAAT
1 AAAGAT--AAAT
*
65872400 AAAAATAAAT
1 AAAGATAAAT
65872410 AAAGGATAAAT
1 AAA-GATAAAT
65872421 A
1 A
65872422 GTAGGGGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
10 13 0.45
11 7 0.24
12 9 0.31
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:65878327 original size:19 final size:17
Alignment explanation
Indices: 65878296--65878338 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
65878286 TACCAGAAGT
*
65878296 AAATAAAAGA-AAATTTA
1 AAATAAAA-ACAAAATTA
65878313 ACAATAAAAACAAAATTA
1 A-AATAAAAACAAAATTA
65878331 AAATAAAA
1 AAATAAAA
65878339 TTTAACTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (17 bp):
AAATAAAAACAAAATTA
Found at i:65879605 original size:20 final size:20
Alignment explanation
Indices: 65879569--65879606 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
65879559 CCCACGTTGA
*
65879569 CCCATTTTCTCTGCTTTTGG
1 CCCATTTTCGCTGCTTTTGG
65879589 CCCATTTCTCGCT-CTTTT
1 CCCATTT-TCGCTGCTTTT
65879607 TATTCTCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.05, C:0.34, G:0.11, T:0.50
Consensus pattern (20 bp):
CCCATTTTCGCTGCTTTTGG
Found at i:65881186 original size:19 final size:19
Alignment explanation
Indices: 65881162--65881203 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
65881152 AACAATAGGT
65881162 GCATTTGCTAGTCCTAAAG
1 GCATTTGCTAGTCCTAAAG
* *
65881181 GCATTTGTTAGTCCTAATG
1 GCATTTGCTAGTCCTAAAG
65881200 GCAT
1 GCAT
65881204 AACAAGGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (19 bp):
GCATTTGCTAGTCCTAAAG
Found at i:65883378 original size:43 final size:42
Alignment explanation
Indices: 65883328--65883426 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
65883318 TCCCAGACGT
* *
65883328 GGTCTTACATGTAATCAAATATTGATG-CTACTGTCCCAAACAG
1 GGTCTTACATGTAATCAAATA-CGATGTCGA-TGTCCCAAACAG
*** * *
65883371 GGTCTTACACAAAATCAAATACGATGTCGATGTCCCAGACAT
1 GGTCTTACATGTAATCAAATACGATGTCGATGTCCCAAACAG
65883413 GGTCTTACATGTAA
1 GGTCTTACATGTAA
65883427 ATCATAAGTC
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
42 25 0.56
43 20 0.44
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATACGATGTCGATGTCCCAAACAG
Found at i:65883429 original size:43 final size:42
Alignment explanation
Indices: 65883303--65883465 Score: 125
Period size: 43 Copynumber: 3.8 Consensus size: 42
65883293 TCGAAAAACT
* * *
65883303 AATACAATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCA
1 AATACGATG-CAATGTCCCAGACATGGTCTTACATGTAAATCA
* * * * **
65883345 AATATTGATGCTACTGTCCCAAACAGGGTCTTACA-CAAAATCA
1 AATA-CGATGC-AATGTCCCAGACATGGTCTTACATGTAAATCA
*
65883388 AATACGATGTCGATGTCCCAGACATGGTCTTACATGTAAATCA
1 AATACGATG-CAATGTCCCAGACATGGTCTTACATGTAAATCA
* * *
65883431 TAAGT-CGATGCCAACGTCCCAGACGTGGTTTTACA
1 -AA-TACGATG-CAATGTCCCAGACATGGTCTTACA
65883466 CGAAAACACA
Statistics
Matches: 93, Mismatches: 21, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
42 28 0.30
43 37 0.40
44 27 0.29
45 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.26
Consensus pattern (42 bp):
AATACGATGCAATGTCCCAGACATGGTCTTACATGTAAATCA
Found at i:65892088 original size:40 final size:40
Alignment explanation
Indices: 65892043--65892234 Score: 181
Period size: 40 Copynumber: 4.8 Consensus size: 40
65892033 ATAACCACAA
* *
65892043 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
65892083 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * * *
65892123 GCACAAATGCCTTCGGGTCTTATCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * ** * * * *
65892163 GCATAAATGCCTTCAGAACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * *
65892203 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT
65892235 CATTCAAATG
Statistics
Matches: 136, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 131 0.96
41 4 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:65892128 original size:80 final size:80
Alignment explanation
Indices: 65892042--65892233 Score: 217
Period size: 80 Copynumber: 2.4 Consensus size: 80
65892032 TATAACCACA
* * * * * **
65892042 AGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAG
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAAGC-ACTAGCACAAATGCCTTCAGAACTTAG
*
65892106 CCCGGAT-ATATCAACT
65 CCCGGATAAAATC-ACT
* * * *
65892122 CGCACAAATGCCTTCGGGTCTTATCCCGGATAAAATCACTAGCATAAATGCCTTCAGAACTTAGC
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAAGCACTAGCACAAATGCCTTCAGAACTTAGC
65892187 CCGGATAAAATCACT
66 CCGGATAAAATCACT
* * *
65892202 AGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATA
65892234 TCATTCAAAT
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 87 0.93
81 7 0.07
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAAGCACTAGCACAAATGCCTTCAGAACTTAGC
CCGGATAAAATCACT
Found at i:65903040 original size:40 final size:40
Alignment explanation
Indices: 65902985--65903202 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
65902975 CGGATGATAA
* * *
65902985 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
65903025 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
65903065 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
65903105 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
65903145 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
65903185 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
65903203 TACTGGCTTG
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 147 0.90
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:65911110 original size:40 final size:40
Alignment explanation
Indices: 65911055--65911272 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
65911045 CGGATGATAA
* * *
65911055 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
65911095 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
65911135 CCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
65911175 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
65911215 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
65911255 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
65911273 TACCTGGCTT
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 16 0.10
40 145 0.90
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:65913059 original size:18 final size:18
Alignment explanation
Indices: 65913036--65913075 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
65913026 ACGCTTAGCT
65913036 GGCAGACTAACCTGCCTA
1 GGCAGACTAACCTGCCTA
65913054 GGCAGACTAACCTGCCTA
1 GGCAGACTAACCTGCCTA
65913072 GGCA
1 GGCA
65913076 AAATTGGACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.28, C:0.33, G:0.25, T:0.15
Consensus pattern (18 bp):
GGCAGACTAACCTGCCTA
Found at i:65922303 original size:11 final size:11
Alignment explanation
Indices: 65922287--65922311 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
65922277 AAAATTATAA
65922287 AAACTAAAATT
1 AAACTAAAATT
65922298 AAACTAAAATT
1 AAACTAAAATT
65922309 AAA
1 AAA
65922312 GGAAAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (11 bp):
AAACTAAAATT
Found at i:65922355 original size:6 final size:6
Alignment explanation
Indices: 65922344--65922384 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
65922334 TAAAGAAGAT
* *
65922344 AAATAA AAATAA AAGTGA AAATAA AAATAA TAAATAA AAAT
1 AAATAA AAATAA AAATAA AAATAA AAATAA -AAATAA AAAT
65922385 TTTTTAAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:65930026 original size:27 final size:27
Alignment explanation
Indices: 65929995--65930529 Score: 571
Period size: 27 Copynumber: 19.8 Consensus size: 27
65929985 TTAATTTACC
*
65929995 AATTACTGTTTTACCCTCGATTTATAG
1 AATTACTGTTTTACCCTCGATTTACAG
* *
65930022 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACTGTTTTACCCTCGATTTACAG
* * ** *
65930049 AATTACCGTTTTCCCCTCGATTTGTAA
1 AATTACTGTTTTACCCTCGATTTACAG
*
65930076 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACTGTTTTACCCTCGATTTACAG
**
65930103 AATTACCATTTTACCCTC-AGTTTACAG
1 AATTACTGTTTTACCCTCGA-TTTACAG
*
65930130 AATTACTGTTTTACCCTCGATTTATAG
1 AATTACTGTTTTACCCTCGATTTACAG
* ** *
65930157 AATTATTGTTTTACCCTCGATTTGTAA
1 AATTACTGTTTTACCCTCGATTTACAG
** *
65930184 AATTACCATTTTACCCTCGATTTATAG
1 AATTACTGTTTTACCCTCGATTTACAG
*
65930211 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACTGTTTTACCCTCGA-TTTACAG
* *
65930238 AATTACTATTTTACCCTCGATTTACAC
1 AATTACTGTTTTACCCTCGATTTACAG
* * *
65930265 AATTACCGTTTTACCCTC-AGCTTATAG
1 AATTACTGTTTTACCCTCGA-TTTACAG
*
65930292 AATTACTATTTTACCCTCGATTTACAG
1 AATTACTGTTTTACCCTCGATTTACAG
** ** *
65930319 AATTACCATTTTACCCTCGATTTGTAA
1 AATTACTGTTTTACCCTCGATTTACAG
*
65930346 AATTACTGTTTTACCCTTGATTTACAG
1 AATTACTGTTTTACCCTCGATTTACAG
* *
65930373 AATTACTGGTTTACCCTC-AGTTTACAA
1 AATTACTGTTTTACCCTCGA-TTTACAG
** *
65930400 AATTA-TCGTTTTACCCTCGATTTGTAA
1 AATTACT-GTTTTACCCTCGATTTACAG
*
65930427 AATTACTGTTTTACCCTTGATTTACAG
1 AATTACTGTTTTACCCTCGATTTACAG
* *
65930454 AATTACTGGTTTACCCTC-AGTTTACAA
1 AATTACTGTTTTACCCTCGA-TTTACAG
65930481 AATTA-TCGTTTTACCCTCGATTTACAG
1 AATTACT-GTTTTACCCTCGATTTACAG
* * *
65930508 AATTACCGTTGTACCCTTGATT
1 AATTACTGTTTTACCCTCGATT
65930530 GTGAAATTAC
Statistics
Matches: 432, Mismatches: 62, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
26 7 0.02
27 419 0.97
28 6 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
AATTACTGTTTTACCCTCGATTTACAG
Found at i:65930575 original size:27 final size:27
Alignment explanation
Indices: 65930534--65930729 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
65930524 TTGATTGTGA
*
65930534 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
65930561 AGTTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
65930588 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
65930615 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
65930642 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
65930669 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
65930696 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
65930723 AATTACC
1 AATTACC
65930730 ATTTTGCCCC
Statistics
Matches: 143, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:65930598 original size:54 final size:54
Alignment explanation
Indices: 65930534--65930729 Score: 277
Period size: 54 Copynumber: 3.6 Consensus size: 54
65930524 TTGATTGTGA
* * *
65930534 AATTACTGAAATACCCTTGTAGGGTAGAGTTTCCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
65930588 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
65930642 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
65930696 AATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACC
65930730 ATTTTGCCCC
Statistics
Matches: 125, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.01
54 124 0.99
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:65930950 original size:27 final size:26
Alignment explanation
Indices: 65930912--65930994 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
65930902 CGGAGGAAGC
*
65930912 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
65930939 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
65930965 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
65930992 GTT
1 GTT
65930995 GACTGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:65931117 original size:22 final size:22
Alignment explanation
Indices: 65931082--65931140 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 22
65931072 CCCGTTATTA
* *
65931082 ATGGCTCTGGGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
65931104 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
65931126 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
65931141 ACGTATTTAC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:65931327 original size:27 final size:27
Alignment explanation
Indices: 65931305--65931373 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
65931295 TAGGTGGGTT
*
65931305 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
65931332 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
** *
65931359 TATCACGATATCTGT
1 TGCCACAATATCTGT
65931374 TCTAGCAGCC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
27 35 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:65931530 original size:6 final size:6
Alignment explanation
Indices: 65931521--65931682 Score: 147
Period size: 6 Copynumber: 26.8 Consensus size: 6
65931511 CTGTCACGTA
* * *
65931521 ATTCTG ATTCTA ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* * *
65931569 ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTA
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
65931618 ATTCTG ATTTTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG
1 ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG
65931666 ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
65931683 CATTTTGGTT
Statistics
Matches: 127, Mismatches: 16, Indels: 26
0.75 0.09 0.15
Matches are distributed among these distances:
5 10 0.08
6 107 0.84
7 8 0.06
8 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:65931536 original size:12 final size:12
Alignment explanation
Indices: 65931519--65931703 Score: 92
Period size: 12 Copynumber: 14.8 Consensus size: 12
65931509 TTCTGTCACG
65931519 TAATTCTGATTC
1 TAATTCTGATTC
65931531 TAATTCTGATTC
1 TAATTCTGATTC
* * *
65931543 T-GTTACTAATAC
1 TAATT-CTGATTC
*
65931555 TGATTCTGATTC
1 TAATTCTGATTC
*
65931567 TGATTCTG-TTAC
1 TAATTCTGATT-C
*
65931579 TGATTCTGATTC
1 TAATTCTGATTC
* *
65931591 TGATTCTG-TCACC
1 TAATTCTGAT--TC
65931604 TAATTCTGATTC
1 TAATTCTGATTC
65931616 TAATTCTGATTTTGTTAC
1 TAATTCTGA-----TT-C
65931634 TAATAT-TGATTC
1 TAAT-TCTGATTC
*
65931646 TGATTCTGATTC
1 TAATTCTGATTC
*
65931658 T-GTTACTGATTC
1 TAATT-CTGATTC
*
65931670 TGATTCTGATTC
1 TAATTCTGATTC
* * *
65931682 TCATTTTGGTTC
1 TAATTCTGATTC
*
65931694 CAATTCTGAT
1 TAATTCTGAT
65931704 AATGTTTCTT
Statistics
Matches: 137, Mismatches: 19, Indels: 34
0.72 0.10 0.18
Matches are distributed among these distances:
11 8 0.06
12 101 0.74
13 16 0.12
14 1 0.01
17 2 0.01
18 8 0.06
19 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (12 bp):
TAATTCTGATTC
Found at i:65931644 original size:85 final size:85
Alignment explanation
Indices: 65931496--65931682 Score: 338
Period size: 85 Copynumber: 2.2 Consensus size: 85
65931486 TTGCATTCAC
* *
65931496 ATTCTAATTCTGATTCTGTCACGTAATTCTGATTCTAATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTGATTCTGTTACTAATACTGATTC
65931561 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
* *
65931581 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTGATTTTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTGATTCTGTTACTAATACTGATTC
65931646 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
65931666 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
65931683 CATTTTGGTT
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 98 1.00
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTGATTCTGTTACTAATACTGATTC
TGATTCTGATTCTGTTACTG
Found at i:65931700 original size:30 final size:30
Alignment explanation
Indices: 65931496--65931703 Score: 198
Period size: 30 Copynumber: 7.1 Consensus size: 30
65931486 TTGCATTCAC
* * *
65931496 ATTCTAATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-CAATTCTG
* * *
65931527 ATTCTAATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
65931557 ATTCTGATTCTGATTCTGTT----A--CTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
*
65931581 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACC-AATTCTG
* * *
65931612 ATTCTAATTCTGATTTTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACCAAT-TCTG
**
65931642 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
* *
65931672 ATTCTGATTCTCATTTTGGTT-CCAATTCTG
1 ATTCTGATTCTGATTCT-GTTACCAATTCTG
65931702 AT
1 AT
65931704 AATGTTTCTT
Statistics
Matches: 152, Mismatches: 15, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
24 22 0.14
26 1 0.01
29 2 0.01
30 80 0.53
31 47 0.31
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACCAATTCTG
Found at i:65932593 original size:22 final size:23
Alignment explanation
Indices: 65932571--65932622 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
65932561 ATGTTTTTAC
65932571 TTTTATTCTACTTTAAGACTACT
1 TTTTATTCTACTTTAAGACTACT
* *
65932594 TTTTATTTTTCTTTAAG-CTTA-T
1 TTTTATTCTACTTTAAGAC-TACT
65932616 TTTTATT
1 TTTTATT
65932623 AGGTTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.21, C:0.12, G:0.04, T:0.63
Consensus pattern (23 bp):
TTTTATTCTACTTTAAGACTACT
Found at i:65935771 original size:49 final size:48
Alignment explanation
Indices: 65935709--65935883 Score: 156
Period size: 49 Copynumber: 3.6 Consensus size: 48
65935699 TTTTGTGTGT
* * *
65935709 CAGTGTAAAACCTGTCTAGGACATGGCATTGACACCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTAGGACACGGCATTGAC-CCGATAGATGAAAGC
* * * * *
65935758 CAGTGTAAGACCTGTATGGGACACGGCATTGACCTCGAGACATGAAAGT
1 CAGTGTAAGACCTGTCTAGGACACGGCATTGACC-CGATAGATGAAAGC
* * * * ** **
65935807 CAGTGTAAGACCTGTCTGGGACATGGTATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTGTCTAGGACACGGCATTGAC-CCGATAGATGAAAGC
65935854 CAGTGTAAGACCATGTCTAGGACACGGCAT
1 CAGTGTAAGACC-TGTCTAGGACACGGCAT
65935884 CAACATCTTT
Statistics
Matches: 101, Mismatches: 22, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
47 16 0.16
48 15 0.15
49 70 0.69
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (48 bp):
CAGTGTAAGACCTGTCTAGGACACGGCATTGACCCGATAGATGAAAGC
Found at i:65957042 original size:47 final size:47
Alignment explanation
Indices: 65956974--65957272 Score: 176
Period size: 48 Copynumber: 6.3 Consensus size: 47
65956964 GAAGTGTGCT
*
65956974 AGTGTAAGACATGTATGGGACATGCATCGGCCACATT-G-TGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTAGATGAGAGCC
*
65957020 AGTGTAAGACCATGTCTGGGACATGGCATCGG--CATTACGATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATTA-GATGAGAGCC
* *
65957068 AGTGTAAGACATGTCTGGGACATGTATCGG-CC-TTGAGAT-ATGCAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCCATT-AGATGA-G--AGCC
* * * * * * *
65957116 AGTTTAAGACCTATCTGGGACATGGCATCTG--C-TTGACAT-A-TGTC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCCATT-AGATGAGAGCC
* * * *
65957160 AGTGTAAGACTTCTCTGGGACATGGCATCGACATCGA-TAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGC--CCATTAGATGAGAGCC
* * *
65957209 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGA-TATATGAAAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCC-C-ATTAGATGAGAGCC
*
65957258 AATGTAAGACCATGT
1 AGTGTAAGA-CATGT
65957273 TTGTAACATG
Statistics
Matches: 203, Mismatches: 29, Indels: 38
0.75 0.11 0.14
Matches are distributed among these distances:
44 27 0.13
45 5 0.02
46 21 0.10
47 34 0.17
48 57 0.28
49 55 0.27
50 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTAGATGAGAGCC
Found at i:65957065 original size:48 final size:46
Alignment explanation
Indices: 65956974--65957240 Score: 217
Period size: 48 Copynumber: 5.7 Consensus size: 46
65956964 GAAGTGTGCT
*
65956974 AGTGTAAGACATGTATGGGACAT-GCATCGGCCACATT-G-TGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGG---CATTAGATGAGAGCC
*
65957020 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTACGATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTA-GATGAGAGCC
* * *
65957068 AGTGTAAGACATGTCTGGGACAT-GTATCGGCCTTGAGAT-ATGCAAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCATT-AGATGA-G--AGCC
* * * * * * *
65957116 AGTTTAAGACCTATCTGGGACATGGCATCTGC-TTGACAT-A-TGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCATT-AGATGAGAGCC
* * *
65957160 AGTGTAAGACTTCTCTGGGACATGGCATCGACATCGATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCAT---TAGATGAGAGCC
*
65957209 AGTGTAAGACCTGTCTGGGACATGGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGC
65957241 CTCGATATAT
Statistics
Matches: 181, Mismatches: 24, Indels: 29
0.77 0.10 0.12
Matches are distributed among these distances:
44 28 0.15
45 6 0.03
46 22 0.12
47 32 0.18
48 56 0.31
49 37 0.20
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCATTAGATGAGAGCC
Found at i:65957226 original size:49 final size:49
Alignment explanation
Indices: 65956974--65957294 Score: 238
Period size: 49 Copynumber: 6.7 Consensus size: 49
65956964 GAAGTGTGCT
* * *
65956974 AGTGTAAGACATGTATGGGACAT-GCATCGGCCA-C-ATTG-TGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGG-CATCGATAGATGAGAGCC
*
65957020 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT---TACGATGAGAGCT
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGGCATCGATA-GATGAGAGCC
* * * * * * *
65957068 AGTGTAAGACATGTCTGGGACAT-GTATCGGCCTTGAGATATGCA-AGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCATCGATAGATG-AGAGCC
* * * * * * *
65957116 AGTTTAAGACCTATCTGGGACATGGCATCTGC-TTG--ACAT-A-TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCATCGATAGATGAGAGCC
* * *
65957160 AGTGTAAGACTTCTCTGGGACATGGCATCGACATCGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCATCGATAGATGAGAGCC
* * *
65957209 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCATCGATAGATGAGAGCC
* * ** *
65957258 AATGTAAGACCATGTTTGTAACATGGCATTGGCATCG
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGGCATCG
65957295 TACCCTATGT
Statistics
Matches: 220, Mismatches: 39, Indels: 28
0.77 0.14 0.10
Matches are distributed among these distances:
44 29 0.13
45 2 0.01
46 22 0.10
47 29 0.13
48 55 0.25
49 63 0.29
50 20 0.09
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCATCGATAGATGAGAGCC
Found at i:65957234 original size:93 final size:95
Alignment explanation
Indices: 65956971--65957240 Score: 261
Period size: 93 Copynumber: 2.9 Consensus size: 95
65956961 ATGGAAGTGT
* * * **
65956971 GCTAGTGTAAGACATGTATGGGACATGCATCGGCCA-C-ATTG-TGAGAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGACATCTCTGGGACATGCATC-GACATCGAGAGATGAGAGCCAGTGTAAGACC-T
65957033 GTCTGGGACATGGCATCGGCATTACGATGAGA
64 GTCTGGGACATGGCATCGGCATTACGATGAGA
* * * * * * * * *
65957065 GCTAGTGTAAGACATGTCTGGGACATGTATCGGCCTTGAGATATGCA-AGCTAGTTTAAGACCTA
1 GCTAGTGTAAGACATCTCTGGGACATGCATCGACATCGAGAGATG-AGAGCCAGTGTAAGACCTG
* *
65957129 TCTGGGACATGGCATCTGC-TTGAC-AT-A-T
65 TCTGGGACATGGCATCGGCATT-ACGATGAGA
* *
65957157 G-TCAGTGTAAGACTTCTCTGGGACATGGCATCGACATCGATAGATGAGAGCCAGTGTAAGACCT
1 GCT-AGTGTAAGACATCTCTGGGACAT-GCATCGACATCGAGAGATGAGAGCCAGTGTAAGACCT
65957221 GTCTGGGACATGGCATCGGC
64 GTCTGGGACATGGCATCGGC
65957241 CTCGATATAT
Statistics
Matches: 143, Mismatches: 25, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
91 1 0.01
92 23 0.16
93 48 0.34
94 33 0.23
95 22 0.15
96 15 0.10
97 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (95 bp):
GCTAGTGTAAGACATCTCTGGGACATGCATCGACATCGAGAGATGAGAGCCAGTGTAAGACCTGT
CTGGGACATGGCATCGGCATTACGATGAGA
Found at i:65959535 original size:43 final size:42
Alignment explanation
Indices: 65959484--65959582 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 42
65959474 TCCCAGACGT
* * * *
65959484 GGTCTTACATGTAATAAAATATCAGTGCCACTGTCCCAGATAG
1 GGTCTTACACGTAATAAAATATCA-TGCCAATGTCCCAAACAG
* * * *
65959527 GGTCTTACACGAAATCAAATATGATGCCAATGTCCCAAACAT
1 GGTCTTACACGTAATAAAATATCATGCCAATGTCCCAAACAG
65959569 GGTCTTACACGTAA
1 GGTCTTACACGTAA
65959583 ATCATAAGTC
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 27 0.57
43 20 0.43
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGTAATAAAATATCATGCCAATGTCCCAAACAG
Found at i:65959573 original size:42 final size:42
Alignment explanation
Indices: 65959474--65959625 Score: 146
Period size: 43 Copynumber: 3.6 Consensus size: 42
65959464 GGGTGTTACA
* * * * * *
65959474 TCCCAGACGTGGTCTTACATGTAATAAAATATCAGTGCCACTG
1 TCCCAGACATGGTCTTACACGAAATCAAATATGA-TGCCAATG
* *
65959517 TCCCAGATAGGGTCTTACACGAAATCAAATATGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAATCAAATATGATGCCAATG
* * *
65959559 TCCCAAACATGGTCTTACACGTAAATCATAAGT-CGATGCCAACG
1 TCCCAGACATGGTCTTACACG-AAATCA-AA-TATGATGCCAATG
*
65959603 TCTCAGACAT-GTCTTACACGAAA
1 TCCCAGACATGGTCTTACACGAAA
65959626 ACACATATCG
Statistics
Matches: 91, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
42 28 0.31
43 43 0.47
44 19 0.21
45 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAATCAAATATGATGCCAATG
Found at i:65959613 original size:44 final size:42
Alignment explanation
Indices: 65959527--65959625 Score: 121
Period size: 44 Copynumber: 2.3 Consensus size: 42
65959517 TCCCAGATAG
* *
65959527 GGTCTTACACGAAATCAAATATGATGCCAATGTCCCAAACAT
1 GGTCTTACACGAAATCAAATACGATGCCAACGTCCCAAACAT
* *
65959569 GGTCTTACACGTAAATCATAAGT-CGATGCCAACGTCTCAGACAT
1 GGTCTTACACG-AAATCA-AA-TACGATGCCAACGTCCCAAACAT
65959613 -GTCTTACACGAAA
1 GGTCTTACACGAAA
65959626 ACACATATCG
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
42 14 0.28
43 16 0.32
44 19 0.38
45 1 0.02
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATACGATGCCAACGTCCCAAACAT
Found at i:65960668 original size:18 final size:18
Alignment explanation
Indices: 65960641--65960675 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
65960631 ACAAATAGGC
65960641 ACTTTAACAAACAGCAGT
1 ACTTTAACAAACAGCAGT
*
65960659 ACTTTGACAAACAGCAG
1 ACTTTAACAAACAGCAG
65960676 GCAACTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.23, G:0.14, T:0.20
Consensus pattern (18 bp):
ACTTTAACAAACAGCAGT
Found at i:65966616 original size:16 final size:16
Alignment explanation
Indices: 65966595--65966632 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
65966585 TTTATCTTAA
65966595 AATTTATTTGCAATCC
1 AATTTATTTGCAATCC
65966611 AATTTATTTGCAATCC
1 AATTTATTTGCAATCC
*
65966627 TATTTA
1 AATTTA
65966633 ATTATTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.47
Consensus pattern (16 bp):
AATTTATTTGCAATCC
Found at i:65980023 original size:12 final size:13
Alignment explanation
Indices: 65980001--65980034 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
65979991 GTGCACTTAA
65980001 CTTTTTCTTTTA-T
1 CTTTTT-TTTTATT
65980014 CTTTTTTTTTATT
1 CTTTTTTTTTATT
65980027 CTTTTTTT
1 CTTTTTTT
65980035 GGTATTCCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (13 bp):
CTTTTTTTTTATT
Found at i:65981508 original size:22 final size:21
Alignment explanation
Indices: 65981480--65981520 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
65981470 TATAATGAAT
*
65981480 AATAAATAGAATATTTAAAATA
1 AATAAATAAAAT-TTTAAAATA
65981502 AATAAATAAAATTTTAAAA
1 AATAAATAAAATTTTAAAA
65981521 GGTATGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
AATAAATAAAATTTTAAAATA
Found at i:65982961 original size:14 final size:14
Alignment explanation
Indices: 65982942--65982968 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
65982932 TGTTGTAAAT
65982942 GGACATTTATTTTG
1 GGACATTTATTTTG
65982956 GGACATTTATTTT
1 GGACATTTATTTT
65982969 AGTTTGTTTT
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:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (14 bp):
GGACATTTATTTTG
Found at i:65983622 original size:44 final size:42
Alignment explanation
Indices: 65983563--65983677 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 42
65983553 GCTATCTTTG
* * *
65983563 ATCTATTCCATTGCAACTTCAGGGAGAT-GATATCTATAACTCCA
1 ATCTACTCCACTGCAACTTCAGGGAGATAG-GA-CT-TAACTCCA
* ** **
65983607 ATCTACTCCACTGCAACTTCAGGAAGATAGGACTTGGCTTTA
1 ATCTACTCCACTGCAACTTCAGGGAGATAGGACTTAACTCCA
*
65983649 ATCTGCTCCACTGCAACTTCAGGGAGATA
1 ATCTACTCCACTGCAACTTCAGGGAGATA
65983678 AGATTTGCCA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 31 0.52
43 2 0.03
44 26 0.43
45 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (42 bp):
ATCTACTCCACTGCAACTTCAGGGAGATAGGACTTAACTCCA
Found at i:65987941 original size:29 final size:29
Alignment explanation
Indices: 65987908--65987963 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
65987898 TCTGAGGTAG
65987908 GATTTGTTTCTCCTCTTGTTCTACCATAA
1 GATTTGTTTCTCCTCTTGTTCTACCATAA
65987937 GATTTGTTTCTCCTCTTGTTCTACCAT
1 GATTTGTTTCTCCTCTTGTTCTACCAT
65987964 CCTTAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.14, C:0.25, G:0.11, T:0.50
Consensus pattern (29 bp):
GATTTGTTTCTCCTCTTGTTCTACCATAA
Found at i:65995794 original size:22 final size:21
Alignment explanation
Indices: 65995766--65995806 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
65995756 TATAATGAAT
*
65995766 AATAAATAGAATATTTAAAATA
1 AATAAATAAAAT-TTTAAAATA
65995788 AATAAATAAAATTTTAAAA
1 AATAAATAAAATTTTAAAA
65995807 GGTATGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
AATAAATAAAATTTTAAAATA
Found at i:65997249 original size:14 final size:14
Alignment explanation
Indices: 65997232--65997258 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
65997222 TTTTGTAAAT
65997232 GGACTTTTATTTTG
1 GGACTTTTATTTTG
65997246 GGACTTTTATTTT
1 GGACTTTTATTTT
65997259 AGTTTGTTTG
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:0.15, C:0.07, G:0.19, T:0.59
Consensus pattern (14 bp):
GGACTTTTATTTTG
Found at i:65998281 original size:21 final size:22
Alignment explanation
Indices: 65998241--65998282 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
65998231 TATTTTCACG
65998241 TTTATATATTTAATAAAAGAAC
1 TTTATATATTTAATAAAAGAAC
65998263 TTTATATATTTAA-AAAAGAA
1 TTTATATATTTAATAAAAGAA
65998283 AGTCACTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.40
Consensus pattern (22 bp):
TTTATATATTTAATAAAAGAAC
Found at i:65998989 original size:32 final size:35
Alignment explanation
Indices: 65998932--65999051 Score: 110
Period size: 36 Copynumber: 3.5 Consensus size: 35
65998922 ATTTATTTGT
*
65998932 TTATTATTGGTTTTATAATATTTTAAATGT-TTTAT-AA
1 TTATTATT--TTTTA-AA-ATTTTAAATATATTTATAAA
*
65998969 -TATTATTTTTTAAAATTTTAAATATATTTTTAAA
1 TTATTATTTTTTAAAATTTTAAATATATTTATAAA
*
65999003 TTATTATTTTTTAAAATTTTTAAA-ATTATTTTTAAA
1 TTATTATTTTTTAAAA-TTTTAAATA-TATTTATAAA
65999039 --ATT-TTTTTTAAAA
1 TTATTATTTTTTAAAA
65999052 AAATTTAATA
Statistics
Matches: 76, Mismatches: 2, Indels: 14
0.83 0.02 0.15
Matches are distributed among these distances:
32 10 0.13
33 16 0.21
34 10 0.13
35 16 0.21
36 24 0.32
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (35 bp):
TTATTATTTTTTAAAATTTTAAATATATTTATAAA
Found at i:65998992 original size:22 final size:23
Alignment explanation
Indices: 65998952--65999003 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 23
65998942 TTTTATAATA
*
65998952 TTTTAAATGTTTTATAATATTATT
1 TTTTAAATATTTTATAATA-TATT
65998976 TTTTAAA-ATTTTA-AATATA-T
1 TTTTAAATATTTTATAATATATT
65998996 TTTTAAAT
1 TTTTAAAT
65999004 TATTATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 8 0.31
21 2 0.08
22 4 0.15
23 5 0.19
24 7 0.27
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTAAATATTTTATAATATATT
Done.