Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 144 of 189
Found at i:43907044 original size:12 final size:12
Alignment explanation
Indices: 43907023--43907066 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
43907013 AGACCACTGA
* *
43907023 TTTTATTTTTAT
1 TTTTAGTTTTAC
*
43907035 TTTTAGTTTTAG
1 TTTTAGTTTTAC
*
43907047 TTTTAATTTTAC
1 TTTTAGTTTTAC
43907059 TTTTAGTT
1 TTTTAGTT
43907067 GTTTTAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.18, C:0.02, G:0.07, T:0.73
Consensus pattern (12 bp):
TTTTAGTTTTAC
Found at i:43907050 original size:18 final size:18
Alignment explanation
Indices: 43907023--43907066 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
43907013 AGACCACTGA
* * *
43907023 TTTTATTTTTATTTTTAG
1 TTTTAGTTTTAATTTTAC
43907041 TTTTAGTTTTAATTTTAC
1 TTTTAGTTTTAATTTTAC
43907059 TTTTAGTT
1 TTTTAGTT
43907067 GTTTTAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.02, G:0.07, T:0.73
Consensus pattern (18 bp):
TTTTAGTTTTAATTTTAC
Found at i:43907493 original size:21 final size:21
Alignment explanation
Indices: 43907464--43907513 Score: 84
Period size: 20 Copynumber: 2.4 Consensus size: 21
43907454 ATTTTGTCGA
43907464 TTTGAGATTTTTGTTGATGTGT
1 TTTG-GATTTTTGTTGATGTGT
43907486 TTTGGA-TTTTGTTGATGTGT
1 TTTGGATTTTTGTTGATGTGT
43907506 TTTGGATT
1 TTTGGATT
43907514 AATTTGTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 20 0.74
21 3 0.11
22 4 0.15
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (21 bp):
TTTGGATTTTTGTTGATGTGT
Found at i:43920542 original size:38 final size:37
Alignment explanation
Indices: 43920492--43920675 Score: 131
Period size: 38 Copynumber: 4.7 Consensus size: 37
43920482 ATAGTATTAT
*
43920492 ATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
**** *
43920529 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATT
1 ATATTAAGAATTTTATTAAATTATATAAGAATATT---TA
* * * *
43920569 ATATTTAATAATAATTATGTTAAATTATATTA-TATAGTATTA
1 ATA-TTAAGAAT--TT-TATTAAATTATATAAGAATA-T-TTA
*
43920611 TATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 -ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
*
43920649 TTATTAAGAATTTTATTAAATTATATA
1 ATATTAAGAATTTTATTAAATTATATA
43920676 TTTTTATTAA
Statistics
Matches: 114, Mismatches: 19, Indels: 28
0.71 0.12 0.17
Matches are distributed among these distances:
37 27 0.24
38 37 0.32
39 8 0.07
40 7 0.06
41 9 0.08
42 4 0.04
43 8 0.07
44 13 0.11
45 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (37 bp):
ATATTAAGAATTTTATTAAATTATATAAGAATATTTA
Found at i:43920562 original size:56 final size:55
Alignment explanation
Indices: 43920501--43920692 Score: 199
Period size: 56 Copynumber: 3.3 Consensus size: 55
43920491 TATATTATGA
43920501 TTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
1 TTTTATTAAATT-ATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
* * * * *
43920557 TTTTATTAAATTATATTTAATAATAATT-ATGTTAA-ATTATATTATATAGTATTATATATTAT
1 TTTTATTAAATTATA--TAAGAATATTTAATATTAAGA--ATTTTAT-TA--AAT-TATA-TAT
*
43920619 GATTTTATTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATTATATAT
1 --TTTTATTAAATT-ATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
43920677 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
43920693 TTAATAATAA
Statistics
Matches: 111, Mismatches: 11, Indels: 29
0.74 0.07 0.19
Matches are distributed among these distances:
55 8 0.07
56 30 0.27
57 15 0.14
58 5 0.05
59 4 0.04
60 4 0.04
61 4 0.04
62 5 0.05
63 15 0.14
64 17 0.15
65 4 0.04
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (55 bp):
TTTTATTAAATTATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
Found at i:43920613 original size:120 final size:120
Alignment explanation
Indices: 43920474--43920721 Score: 469
Period size: 120 Copynumber: 2.1 Consensus size: 120
43920464 ATTATTAATC
43920474 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
*
43920539 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAA
*
43920594 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTATTATTAAGAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
43920659 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAA
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAA
43920714 TATGATTA
1 TAT-ATTA
43920722 AATTATTTAT
Statistics
Matches: 125, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
120 121 0.97
121 4 0.03
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (120 bp):
TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAA
Found at i:43920665 original size:15 final size:16
Alignment explanation
Indices: 43920637--43920666 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
43920627 TAAATTCATA
43920637 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
43920653 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
43920667 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:43920949 original size:16 final size:16
Alignment explanation
Indices: 43920925--43920957 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
43920915 TTGATTTGCT
*
43920925 ATTATGCCTCTATTCC
1 ATTACGCCTCTATTCC
43920941 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
43920957 A
1 A
43920958 ATACAGCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.33, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:43924654 original size:17 final size:16
Alignment explanation
Indices: 43924632--43924665 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
43924622 GAGGATGGCG
43924632 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
43924649 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
43924665 T
1 T
43924666 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:43932036 original size:30 final size:29
Alignment explanation
Indices: 43931995--43932112 Score: 103
Period size: 30 Copynumber: 4.0 Consensus size: 29
43931985 TCAAAGCGGG
*
43931995 TTAAACGATGGTCGAAATCATCCCTTTTC
1 TTAAACGATGGTCGAAACCATCCCTTTTC
* * *
43932024 TTTAATCGATGGTC-ATCACCATCCTTTTTC
1 -TTAAACGATGGTCGA-AACCATCCCTTTTC
* **
43932054 ATATTCGATGGTCGAAACCATCCCTTTTC
1 TTAAACGATGGTCGAAACCATCCCTTTTC
** **
43932083 ATTAAACGATGACCGTCACCATCCCTTTTC
1 -TTAAACGATGGTCGAAACCATCCCTTTTC
43932113 ATATTCGATA
Statistics
Matches: 70, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
29 24 0.34
30 46 0.66
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.36
Consensus pattern (29 bp):
TTAAACGATGGTCGAAACCATCCCTTTTC
Found at i:43932076 original size:59 final size:58
Alignment explanation
Indices: 43932000--43932208 Score: 226
Period size: 59 Copynumber: 3.6 Consensus size: 58
43931990 GCGGGTTAAA
* * * *
43932000 CGATGGTCGAAATCATCCCTTTTCTTTAATCGATGGTCATCACCATCCTTTTTCATATT
1 CGATAGTCGAAACCATCCCTTTTC-TTAATCGATGGTCGTCACCATCCCTTTTCATATT
* * **
43932059 CGATGGTCGAAACCATCCCTTTTCATTAAACGATGACCGTCACCATCCCTTTTCATATT
1 CGATAGTCGAAACCATCCCTTTTC-TTAATCGATGGTCGTCACCATCCCTTTTCATATT
* * * * *
43932118 CGATAGTTGAAACTAT--C-TTTCATATTCGATGGTCGTCACCATCCCTTTTCATAGT
1 CGATAGTCGAAACCATCCCTTTTCTTAATCGATGGTCGTCACCATCCCTTTTCATATT
* * * *
43932173 CGATAGTTGAAACTATCCCTTTTCATATTCGATGGT
1 CGATAGTCGAAACCATCCCTTTTCTTAATCGATGGT
43932209 TGTCGATTCG
Statistics
Matches: 131, Mismatches: 16, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
55 44 0.34
56 4 0.03
57 2 0.02
58 16 0.12
59 65 0.50
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.37
Consensus pattern (58 bp):
CGATAGTCGAAACCATCCCTTTTCTTAATCGATGGTCGTCACCATCCCTTTTCATATT
Found at i:43932165 original size:55 final size:57
Alignment explanation
Indices: 43932029--43932208 Score: 229
Period size: 55 Copynumber: 3.1 Consensus size: 57
43932019 TTTTCTTTAA
* * * * * *
43932029 TCGATGGTCATCACCATCCTTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATTAA
1 TCGATGGTCGTCACCATCCCTTTTCATATTCGATAGTTGAAACTAT-CCTTTTCA-TAT
* **
43932088 ACGATGACCGTCACCATCCCTTTTCATATTCGATAGTTGAAACTAT-C-TTTCATAT
1 TCGATGGTCGTCACCATCCCTTTTCATATTCGATAGTTGAAACTATCCTTTTCATAT
*
43932143 TCGATGGTCGTCACCATCCCTTTTCATAGTCGATAGTTGAAACTATCCCTTTTCATAT
1 TCGATGGTCGTCACCATCCCTTTTCATATTCGATAGTTGAAACTAT-CCTTTTCATAT
43932201 TCGATGGT
1 TCGATGGT
43932209 TGTCGATTCG
Statistics
Matches: 105, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
55 44 0.42
56 5 0.05
57 2 0.02
58 16 0.15
59 38 0.36
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (57 bp):
TCGATGGTCGTCACCATCCCTTTTCATATTCGATAGTTGAAACTATCCTTTTCATAT
Found at i:43932210 original size:29 final size:29
Alignment explanation
Indices: 43932000--43932208 Score: 183
Period size: 29 Copynumber: 7.2 Consensus size: 29
43931990 GCGGGTTAAA
* * *
43932000 CGATGGTCGAAATCATCCCTTTTCTTTAAT
1 CGATGGTCGAAACCATCCCTTTTC-ATATT
* *
43932030 CGATGGTC-ATCACCATCCTTTTTCATATT
1 CGATGGTCGA-AACCATCCCTTTTCATATT
**
43932059 CGATGGTCGAAACCATCCCTTTTCATTAAA
1 CGATGGTCGAAACCATCCCTTTTCA-TATT
** **
43932089 CGATGACCGTCACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* * *
43932118 CGATAGTTGAAACTAT--C-TTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
** *
43932144 CGATGGTCGTCACCATCCCTTTTCATAGT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* * *
43932173 CGATAGTTGAAACTATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
43932202 CGATGGT
1 CGATGGT
43932209 TGTCGATTCG
Statistics
Matches: 138, Mismatches: 35, Indels: 13
0.74 0.19 0.07
Matches are distributed among these distances:
26 20 0.14
27 1 0.01
28 1 0.01
29 73 0.53
30 43 0.31
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.37
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATATT
Found at i:43940481 original size:29 final size:29
Alignment explanation
Indices: 43940409--43940697 Score: 215
Period size: 29 Copynumber: 9.9 Consensus size: 29
43940399 TGTGCTAAAC
** * *
43940409 GATGGTCGAAATAATCCCTTTTCTTTAATT
1 GATGGTCGAAACCATCCCTTTTC-ATAGTT
* ** * *
43940439 GATGGTTGTCACCATCCCATTTCATATTT
1 GATGGTCGAAACCATCCCTTTTCATAGTT
*
43940468 GATGGTCGAAACCATCCCTTTTCATTAATT
1 GATGGTCGAAACCATCCCTTTTCA-TAGTT
** ** ** * *
43940498 GATGACCGTCACCATCTATTTTCTTATTT
1 GATGGTCGAAACCATCCCTTTTCATAGTT
* *
43940527 GATGGTCGAAACCATCCCTTTTCATTAATC
1 GATGGTCGAAACCATCCCTTTTCA-TAGTT
* **
43940557 GATGGTTGTCACCATCCCTTTTCATAGTT
1 GATGGTCGAAACCATCCCTTTTCATAGTT
* * ** *
43940586 CATGGTTGTCACCAT-CCTTTTCATAGCT
1 GATGGTCGAAACCATCCCTTTTCATAGTT
* * *
43940614 GATAGTCGAAACTATCCCTTTTCATATTT
1 GATGGTCGAAACCATCCCTTTTCATAGTT
*
43940643 GATGGTC-ATCACCATCCCTTTTCATAGTT
1 GATGGTCGA-AACCATCCCTTTTCATAGTT
*
43940672 GATGGTCGAAACTA-CCCTTTTTCATA
1 GATGGTCGAAACCATCCC-TTTTCATA
43940698 TTCAATGGTC
Statistics
Matches: 202, Mismatches: 51, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
28 25 0.12
29 114 0.56
30 63 0.31
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.39
Consensus pattern (29 bp):
GATGGTCGAAACCATCCCTTTTCATAGTT
Found at i:43940501 original size:59 final size:59
Alignment explanation
Indices: 43940409--43940679 Score: 264
Period size: 59 Copynumber: 4.6 Consensus size: 59
43940399 TGTGCTAAAC
** * *
43940409 GATGGTCGAAATAATCCCTTTTCTTTAATTGATGGTTGTCACCATCCCATTTCATATTT
1 GATGGTCGAAACCATCCCTTTTCATTAATTGATGGTCGTCACCATCCCATTTCATATTT
** * *
43940468 GATGGTCGAAACCATCCCTTTTCATTAATTGATGACCGTCACCAT-CTATTTTCTTATTT
1 GATGGTCGAAACCATCCCTTTTCATTAATTGATGGTCGTCACCATCCCA-TTTCATATTT
* * * *
43940527 GATGGTCGAAACCATCCCTTTTCATTAATCGATGGTTGTCACCATCCCTTTTCATAGTT
1 GATGGTCGAAACCATCCCTTTTCATTAATTGATGGTCGTCACCATCCCATTTCATATTT
* * ** ** * ** * *
43940586 CATGGTTGTCACCAT-CCTTTTCA-TAGCTGATAGTCGAAACTATCCCTTTTCATATTT
1 GATGGTCGAAACCATCCCTTTTCATTAATTGATGGTCGTCACCATCCCATTTCATATTT
* *
43940643 GATGGTC-ATCACCATCCCTTTTCA-TAGTTGATGGTCG
1 GATGGTCGA-AACCATCCCTTTTCATTAATTGATGGTCG
43940680 AAACTACCCT
Statistics
Matches: 174, Mismatches: 34, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
57 36 0.21
58 29 0.17
59 108 0.62
60 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (59 bp):
GATGGTCGAAACCATCCCTTTTCATTAATTGATGGTCGTCACCATCCCATTTCATATTT
Found at i:43940691 original size:86 final size:88
Alignment explanation
Indices: 43940526--43940697 Score: 222
Period size: 86 Copynumber: 2.0 Consensus size: 88
43940516 TTTTCTTATT
* **
43940526 TGATGGTCGAAACCATCCCTTTTCATTAATCGATGGTTGTCACCATCCCTTTTCATAGTTCATGG
1 TGATAGTCGAAACCATCCCTTTTCATTAATCGATGGTCATCACCATCCCTTTTCATAGTTCATGG
* ** *
43940591 TTGTCACCATCC-TTTTCATAGC
66 TCGAAACCACCCTTTTTCATAGC
* * * *
43940613 TGATAGTCGAAACTATCCCTTTTCA-TATTTGATGGTCATCACCATCCCTTTTCATAGTTGATGG
1 TGATAGTCGAAACCATCCCTTTTCATTAATCGATGGTCATCACCATCCCTTTTCATAGTTCATGG
*
43940677 TCGAAACTACCCTTTTTCATA
66 TCGAAACCACCCTTTTTCATA
43940698 TTCAATGGTC
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
86 41 0.57
87 31 0.43
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (88 bp):
TGATAGTCGAAACCATCCCTTTTCATTAATCGATGGTCATCACCATCCCTTTTCATAGTTCATGG
TCGAAACCACCCTTTTTCATAGC
Found at i:43944687 original size:43 final size:43
Alignment explanation
Indices: 43944626--43944820 Score: 198
Period size: 43 Copynumber: 4.6 Consensus size: 43
43944616 GTGTTTATGT
* *
43944626 GAAAAACGTCGCTAAAGAACATGACCTTTAGCAGCACTTTACC
1 GAAAAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTTACC
* *
43944669 GAAAAACACCGCTAAAGAACATGACCTTTAGCAGTGCTTTACC
1 GAAAAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTTACC
* * * * *
43944712 CAAAAACGCTGCTAAAG-ACATGATCTTTAGCGGCGCTTTTATC
1 GAAAAACGCCGCTAAAGAACATGACCTTTAGCAGCGC-TTTACC
* * * * *
43944755 -ACAAACGCCGCTAAAGATCATGACCTTTAGCGGCGTTTTTATC
1 GAAAAACGCCGCTAAAGAACATGACCTTTAGCAGCG-CTTTACC
* * *
43944798 -ACAAACGCCGATATAGAACATGA
1 GAAAAACGCCGCTAAAGAACATGA
43944821 TCTATAGTGG
Statistics
Matches: 130, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
42 30 0.23
43 100 0.77
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (43 bp):
GAAAAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTTACC
Found at i:43944804 original size:85 final size:86
Alignment explanation
Indices: 43944627--43944855 Score: 230
Period size: 85 Copynumber: 2.7 Consensus size: 86
43944617 TGTTTATGTG
* * * * * * *
43944627 AAAAACGTCGCTAAAGAACATGACCTTTAGCAGCAC-TTTACCGAAAAACACCGCTAAAGAACAT
1 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTATC-ACAAACGCCGCTAAAGAACAT
*
43944691 GACCTTTAGCAGTGCTTTACCC
65 GACCTTTAGCAGCGCTTTACCC
* *
43944713 AAAAACGCTGCTAAAG-ACATGATCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGATCATG
1 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACATG
* * *
43944777 ACCTTTAGCGGCGTTTTTA-TC
66 ACCTTTAGCAGCG-CTTTACCC
* * * * * * * *
43944798 ACAAACGCCGATATAGAACATGATCTATAGTGGCGTTTTTATCACAAATGCCACTAAA
1 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAA
43944856 AGTACCATTC
Statistics
Matches: 118, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
85 59 0.50
86 59 0.50
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (86 bp):
AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACATG
ACCTTTAGCAGCGCTTTACCC
Found at i:43944833 original size:43 final size:43
Alignment explanation
Indices: 43944715--43944878 Score: 174
Period size: 43 Copynumber: 3.8 Consensus size: 43
43944705 CTTTACCCAA
* * *
43944715 AAACGCTGCTAAAG-ACATGATCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGATAAAGAACATGATCTTTAGCGGCGTTTTTATCAC
* * *
43944757 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGTTTTTATCAC
1 AAACGCCGATAAAGAACATGATCTTTAGCGGCGTTTTTATCAC
* * *
43944800 AAACGCCGATATAGAACATGATCTATAGTGGCGTTTTTATCAC
1 AAACGCCGATAAAGAACATGATCTTTAGCGGCGTTTTTATCAC
* *
43944843 AAATGCC-ACTAAAAGTACCAT--TCTTTAGCGGCGTTT
1 AAACGCCGA-T-AAAG-AACATGATCTTTAGCGGCGTTT
43944879 ATGAAAAAAC
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
42 14 0.14
43 82 0.80
44 3 0.03
45 4 0.04
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (43 bp):
AAACGCCGATAAAGAACATGATCTTTAGCGGCGTTTTTATCAC
Found at i:43946746 original size:278 final size:278
Alignment explanation
Indices: 43946249--43946807 Score: 1118
Period size: 278 Copynumber: 2.0 Consensus size: 278
43946239 TTTTTCTTTT
43946249 CGAGGGAACAATATACAAATGATTTGAGAACCCCATAAATTATTCACCTTGTTGCCTAACCTCAC
1 CGAGGGAACAATATACAAATGATTTGAGAACCCCATAAATTATTCACCTTGTTGCCTAACCTCAC
43946314 ATAATAATCAAAATAAATAATTTGCTAACATATTAAAATTACGTTTAAAAACCTTAAGCACGGAA
66 ATAATAATCAAAATAAATAATTTGCTAACATATTAAAATTACGTTTAAAAACCTTAAGCACGGAA
43946379 AATGAGGGATGGAAATTTCATAGCCTAACCCTAAACATATCAATCGTCTAATAATTCCACTGGAC
131 AATGAGGGATGGAAATTTCATAGCCTAACCCTAAACATATCAATCGTCTAATAATTCCACTGGAC
43946444 AGACAATTTCAGTCCTCTGCTAAACAATTCAACTAGGATATCATGATTCATGAAAGTATGACCAG
196 AGACAATTTCAGTCCTCTGCTAAACAATTCAACTAGGATATCATGATTCATGAAAGTATGACCAG
43946509 GGATTTAAATTGTGGTCG
261 GGATTTAAATTGTGGTCG
43946527 CGAGGGAACAATATACAAATGATTTGAGAACCCCATAAATTATTCACCTTGTTGCCTAACCTCAC
1 CGAGGGAACAATATACAAATGATTTGAGAACCCCATAAATTATTCACCTTGTTGCCTAACCTCAC
43946592 ATAATAATCAAAATAAATAATTTGCTAACATATTAAAATTACGTTTAAAAACCTTAAGCACGGAA
66 ATAATAATCAAAATAAATAATTTGCTAACATATTAAAATTACGTTTAAAAACCTTAAGCACGGAA
43946657 AATGAGGGATGGAAATTTCATAGCCTAACCCTAAACATATCAATCGTCTAATAATTCCACTGGAC
131 AATGAGGGATGGAAATTTCATAGCCTAACCCTAAACATATCAATCGTCTAATAATTCCACTGGAC
43946722 AGACAATTTCAGTCCTCTGCTAAACAATTCAACTAGGATATCATGATTCATGAAAGTATGACCAG
196 AGACAATTTCAGTCCTCTGCTAAACAATTCAACTAGGATATCATGATTCATGAAAGTATGACCAG
43946787 GGATTTAAATTGTGGTCG
261 GGATTTAAATTGTGGTCG
43946805 CGA
1 CGA
43946808 CCGCGTTTTC
Statistics
Matches: 281, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
278 281 1.00
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (278 bp):
CGAGGGAACAATATACAAATGATTTGAGAACCCCATAAATTATTCACCTTGTTGCCTAACCTCAC
ATAATAATCAAAATAAATAATTTGCTAACATATTAAAATTACGTTTAAAAACCTTAAGCACGGAA
AATGAGGGATGGAAATTTCATAGCCTAACCCTAAACATATCAATCGTCTAATAATTCCACTGGAC
AGACAATTTCAGTCCTCTGCTAAACAATTCAACTAGGATATCATGATTCATGAAAGTATGACCAG
GGATTTAAATTGTGGTCG
Found at i:43949586 original size:19 final size:20
Alignment explanation
Indices: 43949552--43949591 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
43949542 AGATTTTATC
*
43949552 TGTTAAAAATCGTTTTCTTT
1 TGTTAAAAATCGTTTTATTT
43949572 TGTTAAAAATC-TTTTATTT
1 TGTTAAAAATCGTTTTATTT
43949591 T
1 T
43949592 ATCTGCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.57
Consensus pattern (20 bp):
TGTTAAAAATCGTTTTATTT
Found at i:43949602 original size:23 final size:23
Alignment explanation
Indices: 43949511--43949604 Score: 77
Period size: 23 Copynumber: 4.2 Consensus size: 23
43949501 TATTTTGAAC
*
43949511 AAAATTTTTTATTTTATCTGCTA
1 AAAATCTTTTATTTTATCTGCTA
***** *
43949534 AAAATAAAAGATTTTATCTGTTA
1 AAAATCTTTTATTTTATCTGCTA
* * *
43949557 AAAATCGTTT-TCTT-T-TGTTA
1 AAAATCTTTTATTTTATCTGCTA
43949577 AAAATCTTTTATTTTATCTGCTA
1 AAAATCTTTTATTTTATCTGCTA
43949600 AAAAT
1 AAAAT
43949605 TATTAGTTAA
Statistics
Matches: 53, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
20 14 0.26
21 4 0.08
22 4 0.08
23 31 0.58
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (23 bp):
AAAATCTTTTATTTTATCTGCTA
Found at i:43949917 original size:7 final size:7
Alignment explanation
Indices: 43949905--43950044 Score: 59
Period size: 7 Copynumber: 19.7 Consensus size: 7
43949895 ACTAATTAAT
43949905 CTAAACC
1 CTAAACC
43949912 CTAAACCC
1 CTAAA-CC
**
43949920 CTATCCC
1 CTAAACC
**
43949927 CTATCCC
1 CTAAACC
**
43949934 CTATCCC
1 CTAAACC
*
43949941 CTAAACT
1 CTAAACC
43949948 CTAAACC
1 CTAAACC
**
43949955 CTAAAAT
1 CTAAACC
* **
43949962 ATAAATA
1 CTAAACC
*
43949969 ATAAACC
1 CTAAACC
43949976 CTAAACC
1 CTAAACC
*
43949983 CTTAACAC
1 CTAAAC-C
* *
43949991 TTAACCC
1 CTAAACC
43949998 CT-AACTC
1 CTAAAC-C
*
43950005 CTAACCC
1 CTAAACC
*
43950012 CTAACCC
1 CTAAACC
43950019 CTAAACC
1 CTAAACC
43950026 CT-AACC
1 CTAAACC
43950032 CTTAAACC
1 C-TAAACC
*
43950040 ATAAA
1 CTAAA
43950045 TCATAATCTC
Statistics
Matches: 104, Mismatches: 23, Indels: 12
0.75 0.17 0.09
Matches are distributed among these distances:
6 7 0.07
7 82 0.79
8 15 0.14
ACGTcount: A:0.39, C:0.40, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:43949996 original size:21 final size:21
Alignment explanation
Indices: 43949974--43950036 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
43949964 AAATAATAAA
*
43949974 CCCTAAACCCTTAACACTTAAC
1 CCCTAAACCC-TAACCCTTAAC
*
43949996 CCCT-AACTCCTAACCCCTAAC
1 CCCTAAAC-CCTAACCCTTAAC
43950017 CCCTAAACCCTAACCCTTAA
1 CCCTAAACCCTAACCCTTAA
43950037 ACCATAAATC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 27 0.75
22 9 0.25
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.21
Consensus pattern (21 bp):
CCCTAAACCCTAACCCTTAAC
Found at i:43950030 original size:14 final size:14
Alignment explanation
Indices: 43949974--43950039 Score: 69
Period size: 14 Copynumber: 4.6 Consensus size: 14
43949964 AAATAATAAA
43949974 CCCTAAACCCTTAAC
1 CCCTAAACCC-TAAC
* * *
43949989 ACTTAACCCCTAAC
1 CCCTAAACCCTAAC
* *
43950003 TCCTAACCCCTAAC
1 CCCTAAACCCTAAC
43950017 CCCTAAACCCTAAC
1 CCCTAAACCCTAAC
*
43950031 CCTTAAACC
1 CCCTAAACC
43950040 ATAAATCATA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
14 36 0.84
15 7 0.16
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (14 bp):
CCCTAAACCCTAAC
Found at i:43950044 original size:21 final size:21
Alignment explanation
Indices: 43949970--43950044 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
43949960 ATATAAATAA
*
43949970 TAAACCCTAAACCCTTAACACT
1 TAAACCCTAAACCC-TAACCCT
* *
43949992 TAACCCCT-AACTCCTAACCCC
1 TAAACCCTAAAC-CCTAACCCT
*
43950013 TAACCCCTAAACCCTAACCCT
1 TAAACCCTAAACCCTAACCCT
*
43950034 TAAACCATAAA
1 TAAACCCTAAA
43950045 TCATAATCTC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 33 0.73
22 12 0.27
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAACCCTAAACCCTAACCCT
Found at i:43956701 original size:17 final size:17
Alignment explanation
Indices: 43956681--43956718 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
43956671 ACACGGCTAT
43956681 GTGACACACACAGTCAA
1 GTGACACACACAGTCAA
*
43956698 GTG--ACACACGGTCAA
1 GTGACACACACAGTCAA
43956713 GTGACA
1 GTGACA
43956719 TAGCCATGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 4
0.78 0.04 0.17
Matches are distributed among these distances:
15 14 0.78
17 4 0.22
ACGTcount: A:0.37, C:0.26, G:0.24, T:0.13
Consensus pattern (17 bp):
GTGACACACACAGTCAA
Found at i:43956704 original size:15 final size:15
Alignment explanation
Indices: 43956686--43956718 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
43956676 GCTATGTGAC
43956686 ACACACAGTCAAGTG
1 ACACACAGTCAAGTG
*
43956701 ACACACGGTCAAGTG
1 ACACACAGTCAAGTG
43956716 ACA
1 ACA
43956719 TAGCCATGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.27, G:0.21, T:0.12
Consensus pattern (15 bp):
ACACACAGTCAAGTG
Found at i:43958139 original size:24 final size:24
Alignment explanation
Indices: 43958087--43958224 Score: 82
Period size: 25 Copynumber: 5.6 Consensus size: 24
43958077 GTACAAGTAT
* *
43958087 GCTCATACGAGCTCTAAATCGGTAT
1 GCTCATACGAGCTGTAAA-CGGTAA
*
43958112 GCTCTTACGAGCTGTAAACGGTAA
1 GCTCATACGAGCTGTAAACGGTAA
* * * *
43958136 GCTCCTCCAAGCTGAATAACGGTAA
1 GCTCATACGAGCTGTA-AACGGTAA
* * *
43958161 GCTCCT-CTGAGCTGAATAATGGTAA
1 GCTCATAC-GAGCTGTA-AACGGTAA
* * *
43958186 GCTCATGCAAGCAG-AGAACCGGTAA
1 GCTCATACGAGCTGTA-AA-CGGTAA
*
43958211 GCTCATATGAGCTG
1 GCTCATACGAGCTG
43958225 AAATTTGTAA
Statistics
Matches: 91, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
24 21 0.23
25 69 0.76
26 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (24 bp):
GCTCATACGAGCTGTAAACGGTAA
Found at i:43958161 original size:25 final size:25
Alignment explanation
Indices: 43958128--43958189 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
43958118 ACGAGCTGTA
43958128 AACGGTAAGCTCCTCCAAGCTGAAT
1 AACGGTAAGCTCCTCCAAGCTGAAT
**
43958153 AACGGTAAGCTCCTCTGAGCTGAAT
1 AACGGTAAGCTCCTCCAAGCTGAAT
*
43958178 AATGGTAAGCTC
1 AACGGTAAGCTC
43958190 ATGCAAGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.23
Consensus pattern (25 bp):
AACGGTAAGCTCCTCCAAGCTGAAT
Found at i:43958197 original size:50 final size:50
Alignment explanation
Indices: 43958131--43958226 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
43958121 AGCTGTAAAC
* * * *
43958131 GGTAAGCTCCTCCAAGCTGA-ATAACGGTAAGCTCCTCTGAGCTGAATAAT
1 GGTAAGCTCATCCAAGCAGAGA-AACGGTAAGCTCATATGAGCTGAATAAT
* *
43958181 GGTAAGCTCATGCAAGCAGAGAACCGGTAAGCTCATATGAGCTGAA
1 GGTAAGCTCATCCAAGCAGAGAAACGGTAAGCTCATATGAGCTGAA
43958227 ATTTGTAACC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 38 0.97
51 1 0.03
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (50 bp):
GGTAAGCTCATCCAAGCAGAGAAACGGTAAGCTCATATGAGCTGAATAAT
Found at i:43971797 original size:21 final size:20
Alignment explanation
Indices: 43971759--43971797 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
43971749 TGCAGTTTTG
* *
43971759 AAAAATTTTATTATTTTCTA
1 AAAAAATTTATAATTTTCTA
43971779 AAAAAATTTATAATATTTC
1 AAAAAATTTATAAT-TTTC
43971798 GATTTAGTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
AAAAAATTTATAATTTTCTA
Found at i:43973653 original size:13 final size:13
Alignment explanation
Indices: 43973635--43973679 Score: 81
Period size: 13 Copynumber: 3.5 Consensus size: 13
43973625 CTATAAATTC
43973635 TGTTTTCAAGTTA
1 TGTTTTCAAGTTA
*
43973648 TGTTTTCAAGTCA
1 TGTTTTCAAGTTA
43973661 TGTTTTCAAGTTA
1 TGTTTTCAAGTTA
43973674 TGTTTT
1 TGTTTT
43973680 ACACGAGCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.20, C:0.09, G:0.16, T:0.56
Consensus pattern (13 bp):
TGTTTTCAAGTTA
Found at i:43974917 original size:17 final size:18
Alignment explanation
Indices: 43974884--43974919 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
43974874 AGTCATGTCT
43974884 TATGTTGTTATGCGAACC
1 TATGTTGTTATGCGAACC
*
43974902 TATGTTG-TATGTGAACC
1 TATGTTGTTATGCGAACC
43974919 T
1 T
43974920 TTATAACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (18 bp):
TATGTTGTTATGCGAACC
Found at i:43982258 original size:23 final size:23
Alignment explanation
Indices: 43982192--43982259 Score: 118
Period size: 23 Copynumber: 3.0 Consensus size: 23
43982182 CAACACTAAT
**
43982192 ATGTAGCCGAAGCTACCACTGTT
1 ATGTAGCCGAAGCTACCACTGAA
43982215 ATGTAGCCGAAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGAA
43982238 ATGTAGCCGAAGCTACCACTGA
1 ATGTAGCCGAAGCTACCACTGA
43982260 TCAATAACAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (23 bp):
ATGTAGCCGAAGCTACCACTGAA
Found at i:43985815 original size:37 final size:37
Alignment explanation
Indices: 43985774--43985847 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
43985764 TTTAATAAAA
**
43985774 TAATTAGACCATTAATTTTAATGGTGGACAAAGATGG
1 TAATTAGACCATTAATTTTAATAATGGACAAAGATGG
43985811 TAATTAGACCATTAATTTTAATAATGGACAAAGATGG
1 TAATTAGACCATTAATTTTAATAATGGACAAAGATGG
43985848 ACATCTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (37 bp):
TAATTAGACCATTAATTTTAATAATGGACAAAGATGG
Found at i:43992840 original size:14 final size:13
Alignment explanation
Indices: 43992822--43992855 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
43992812 TAAATAATTA
43992822 ATTTTTTAATATT
1 ATTTTTTAATATT
43992835 ATTTTTTAATATT
1 ATTTTTTAATATT
43992848 ATTTTTTA
1 ATTTTTTA
43992856 TAAAAACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
ATTTTTTAATATT
Found at i:43993094 original size:20 final size:19
Alignment explanation
Indices: 43993043--43993096 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
43993033 TTCTAATGTT
43993043 TTTTTAGTAATTTTTTATA
1 TTTTTAGTAATTTTTTATA
* *
43993062 TTTTTCTGCAATTTTTTATA
1 TTTTT-AGTAATTTTTTATA
43993082 TTTTTAGTAAATTTT
1 TTTTTAGT-AATTTT
43993097 ATAATGATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.67
Consensus pattern (19 bp):
TTTTTAGTAATTTTTTATA
Found at i:43993381 original size:18 final size:18
Alignment explanation
Indices: 43993355--43993398 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
43993345 TCTTTTCAAC
*
43993355 AATATCATAAAATATATT
1 AATACCATAAAATATATT
*
43993373 AATACCATAAAATGTATT
1 AATACCATAAAATATATT
43993391 AATACCAT
1 AATACCAT
43993399 GCTTAAGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATACCATAAAATATATT
Found at i:43993754 original size:33 final size:33
Alignment explanation
Indices: 43993709--43993771 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
43993699 TAATTATTTT
43993709 AATTAATTAAATTTTATTAAAAT-TATATTTAAA
1 AATTAATTAAATTTT-TTAAAATATATATTTAAA
*
43993742 AATT-ATTGAAATTTTTTATAATATATATTT
1 AATTAATT-AAATTTTTTAAAATATATATTT
43993772 TAAATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 9 0.33
33 18 0.67
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (33 bp):
AATTAATTAAATTTTTTAAAATATATATTTAAA
Found at i:43995677 original size:24 final size:25
Alignment explanation
Indices: 43995634--43995680 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
43995624 ATCACCTCAT
43995634 ACATATATATCAAAATTATAAAATA
1 ACATATATATCAAAATTATAAAATA
43995659 ACATAT-TAT-AAATATTATAAAA
1 ACATATATATCAAA-ATTATAAAA
43995681 AATTATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 3 0.14
24 12 0.57
25 6 0.29
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (25 bp):
ACATATATATCAAAATTATAAAATA
Found at i:43996372 original size:58 final size:60
Alignment explanation
Indices: 43996310--43996442 Score: 180
Period size: 61 Copynumber: 2.2 Consensus size: 60
43996300 ATAATTTTAA
* *
43996310 TATTAAATTAATATAATACTTA-T-GAAGATAAATATTAGATTAAATTTAATATTAAATC
1 TATTAAATTAATATAATACTTACTAGAAGATAAATATTAAATTAAATTTAATATTAAAAC
* **
43996368 TATTAAATTAATAGAATGTTTATCTAGAAGATAAATATTAAATTAAATTTAATATTAAAAC
1 TATTAAATTAATATAATACTTA-CTAGAAGATAAATATTAAATTAAATTTAATATTAAAAC
* *
43996429 TAGTAAAATAATAT
1 TATTAAATTAATAT
43996443 CATCTTTGGA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
58 19 0.30
60 1 0.02
61 44 0.69
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (60 bp):
TATTAAATTAATATAATACTTACTAGAAGATAAATATTAAATTAAATTTAATATTAAAAC
Found at i:43999898 original size:27 final size:26
Alignment explanation
Indices: 43999845--43999898 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
43999835 AAAGGTTGTT
* * *
43999845 AAAACTCCTTTAAAAGAAAACTCAAG
1 AAAAATCCTTAAAAAGAAAACTAAAG
43999871 AAAAATCCTTAAAAAGAAAACCTAAAG
1 AAAAATCCTTAAAAAGAAAA-CTAAAG
43999898 A
1 A
43999899 GAAGTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.59, C:0.17, G:0.07, T:0.17
Consensus pattern (26 bp):
AAAAATCCTTAAAAAGAAAACTAAAG
Found at i:44001521 original size:21 final size:21
Alignment explanation
Indices: 44001496--44001537 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
44001486 GTTTCTGGGT
*
44001496 TTTTCTTCATTTTCAATTTCC
1 TTTTCTACATTTTCAATTTCC
* *
44001517 TTTTCTAGATTTTCTATTTCC
1 TTTTCTACATTTTCAATTTCC
44001538 ATCTCATTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.14, C:0.21, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTTCTACATTTTCAATTTCC
Found at i:44008933 original size:11 final size:11
Alignment explanation
Indices: 44008913--44009017 Score: 63
Period size: 11 Copynumber: 9.4 Consensus size: 11
44008903 TTAAAAATTA
44008913 AAAAAGTATTTT
1 AAAAA-TATTTT
44008925 AAAAATATTTT
1 AAAAATATTTT
* ****
44008936 AAAATTTAAAAA
1 AAAA-ATATTTT
44008948 AAAAAAGTATTTT
1 A-AAAA-TATTTT
*
44008961 TAAAATATTTT
1 AAAAATATTTT
*
44008972 TAAAATATTTT
1 AAAAATATTTT
**
44008983 --AAA-ATTAA
1 AAAAATATTTT
44008991 AAAAAGTATTTT
1 AAAAA-TATTTT
44009003 AAAAATATTTT
1 AAAAATATTTT
44009014 AAAA
1 AAAA
44009018 TTTAAAAAAT
Statistics
Matches: 71, Mismatches: 15, Indels: 15
0.70 0.15 0.15
Matches are distributed among these distances:
8 3 0.04
9 3 0.04
10 3 0.04
11 37 0.52
12 20 0.28
13 5 0.07
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:44009008 original size:31 final size:30
Alignment explanation
Indices: 44008962--44009027 Score: 105
Period size: 31 Copynumber: 2.2 Consensus size: 30
44008952 AAGTATTTTT
*
44008962 AAAATATTTTTAAAATATTTTAAAATTAAA
1 AAAATATTTTAAAAATATTTTAAAATTAAA
*
44008992 AAAAGTATTTTAAAAATATTTTAAAATTTAA
1 AAAA-TATTTTAAAAATATTTTAAAATTAAA
44009023 AAAAT
1 AAAAT
44009028 TTAAAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 5 0.15
31 28 0.85
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (30 bp):
AAAATATTTTAAAAATATTTTAAAATTAAA
Found at i:44009023 original size:18 final size:16
Alignment explanation
Indices: 44009000--44009033 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
44008990 AAAAAAGTAT
44009000 TTTAAAAATATTTTAAAA
1 TTTAAAAA-A-TTTAAAA
44009018 TTTAAAAAATTTAAAA
1 TTTAAAAAATTTAAAA
44009034 AATAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTAAAAAATTTAAAA
Found at i:44009035 original size:18 final size:18
Alignment explanation
Indices: 44009000--44009047 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
44008990 AAAAAAGTAT
*
44009000 TTTAAAAATATTTTAAAA
1 TTTAAAAATATTTAAAAA
44009018 TTTAAAAA-ATTTAAAAA
1 TTTAAAAATATTTAAAAA
* *
44009035 -ATAAATATATTTA
1 TTTAAAAATATTTA
44009048 TTATATCGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 5 0.19
17 13 0.50
18 8 0.31
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTTAAAAATATTTAAAAA
Found at i:44009035 original size:42 final size:43
Alignment explanation
Indices: 44008946--44009035 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 43
44008936 AAAATTTAAA
* **
44008946 AAAAAAAAGTATTTTTAAAATATTTTTAAAATATTTTAAAATT
1 AAAAAAAAGTATTTTAAAAATATTTTTAAAATATTAAAAAATT
44008989 -AAAAAAAGTATTTTAAAAATA-TTTTAAAAT-TTAAAAAATT
1 AAAAAAAAGTATTTTAAAAATATTTTTAAAATATTAAAAAATT
*
44009029 TAAAAAA
1 AAAAAAA
44009036 TAAATATATT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 8 0.19
41 15 0.35
42 20 0.47
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (43 bp):
AAAAAAAAGTATTTTAAAAATATTTTTAAAATATTAAAAAATT
Found at i:44013753 original size:13 final size:13
Alignment explanation
Indices: 44013718--44013755 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
44013708 TTTATAAATT
*
44013718 ATAAAAGATTTAA
1 ATAAAATATTTAA
44013731 ATAAAATATTTAA
1 ATAAAATATTTAA
44013744 A-AAAATTATTTA
1 ATAAAA-TATTTA
44013756 GGTGGACTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 4 0.17
13 19 0.83
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
ATAAAATATTTAA
Found at i:44015997 original size:22 final size:23
Alignment explanation
Indices: 44015969--44016016 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
44015959 ACACGTTAGC
44015969 AAACAAATA-TATAAATAT-AAAT
1 AAACAAATACT-TAAATATAAAAT
*
44015991 AAACAAATACTTATATATAAAAT
1 AAACAAATACTTAAATATAAAAT
44016014 AAA
1 AAA
44016017 ATAAATTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (23 bp):
AAACAAATACTTAAATATAAAAT
Found at i:44019719 original size:79 final size:79
Alignment explanation
Indices: 44019588--44019743 Score: 312
Period size: 79 Copynumber: 2.0 Consensus size: 79
44019578 GCTGATATGC
44019588 GACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGATGT
1 GACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGATGT
44019653 TGTTTGTGTTTTGT
66 TGTTTGTGTTTTGT
44019667 GACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGATGT
1 GACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGATGT
44019732 TGTTTGTGTTTT
66 TGTTTGTGTTTT
44019744 AATGAATAAG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.18, C:0.04, G:0.24, T:0.54
Consensus pattern (79 bp):
GACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGATGT
TGTTTGTGTTTTGT
Found at i:44020030 original size:52 final size:52
Alignment explanation
Indices: 44019947--44020047 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
44019937 TAAGGCAACG
* *
44019947 TAATGGACAGCAGCTTAAGATCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
*
44019999 TAATAGACAGTAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAA
44020048 TATGTGCATG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (52 bp):
TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
Found at i:44023275 original size:79 final size:79
Alignment explanation
Indices: 44023144--44023302 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
44023134 CATGCTGATA
44023144 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
1 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
44023209 TGTTGTTTGTGTTT
66 TGTTGTTTGTGTTT
44023223 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
1 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
44023288 TGTTGTTTGTGTTT
66 TGTTGTTTGTGTTT
44023302 T
1 T
44023303 AATGAATAAG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.18, C:0.04, G:0.24, T:0.55
Consensus pattern (79 bp):
TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
TGTTGTTTGTGTTT
Found at i:44026372 original size:87 final size:86
Alignment explanation
Indices: 44026187--44026498 Score: 357
Period size: 87 Copynumber: 3.7 Consensus size: 86
44026177 AACAAAATCA
* * * **
44026187 AAATAAAATCTGTTAAACGGCGAGAATAAATCCCAAAATAGA--TTACTCAA-TTTAATTCTATT
1 AAATAAAATCTGTTAAACGACGAGAATAAATCCCAAAACAGATTTTATTCAATTTTAATTCTCGT
* *
44026249 TTGGAAACAAAAT-TAAAATC
66 TTGGAAACAAAATAAAAAATG
* * * *
44026269 AAATAAAATCTATTAAACGGC-AGGAATAAATCTCAAAACAGATTTTATTTAATTTTAAATTCTC
1 AAATAAAATCTGTTAAACGACGA-GAATAAATCCCAAAACAGATTTTATTCAATTTT-AATTCTC
44026333 GTTTGGAAACAAAATAAAAAATG
64 GTTTGGAAACAAAATAAAAAATG
* * * *
44026356 GAATAAAATCTGTTAAATGACGAGAATAAATCCCAAAACAGATTTTATTTAATTTTAATACTCGT
1 AAATAAAATCTGTTAAACGACGAGAATAAATCCCAAAACAGATTTTATTCAATTTTAATTCTCGT
* *
44026421 TTTGAAACAAAGTCAAAAAATG
66 TTGGAAACAAAAT-AAAAAATG
* * * *
44026443 AAATAAAATATGTTGAACAAC-AGGAATAAATCCTAAAACAGATTTTATTCAATTTT
1 AAATAAAATCTGTTAAACGACGA-GAATAAATCCCAAAACAGATTTTATTCAATTTT
44026499 TATTTTTATT
Statistics
Matches: 197, Mismatches: 24, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
81 1 0.01
82 37 0.19
84 6 0.03
85 3 0.02
86 40 0.20
87 109 0.55
88 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (86 bp):
AAATAAAATCTGTTAAACGACGAGAATAAATCCCAAAACAGATTTTATTCAATTTTAATTCTCGT
TTGGAAACAAAATAAAAAATG
Found at i:44026489 original size:174 final size:169
Alignment explanation
Indices: 44026188--44026498 Score: 401
Period size: 174 Copynumber: 1.8 Consensus size: 169
44026178 ACAAAATCAA
* * *
44026188 AATAAAATCTGTTAAACGGCGAGAATAAATCCCAAAATAGATTACTCAATTTAATTCTATTTTGG
1 AATAAAATCTGTTAAACGACGAGAATAAATCCCAAAACAGATTACTCAATTTAATACTATTTTGG
* * **
44026253 AAACAAAATTAAAATCAAATAAAATCTATTAAACGGCAGGAATAAATCTCAAAACAGATTTTATT
66 AAACAAAATAAAAATCAAATAAAATATATTAAACAACAGGAATAAATCTCAAAACAGATTTTATT
*
44026318 TAATTTTAAATTCTCGTTTGGAAACAAAATAAAAAATGG
131 CAATTTTAAATTCTCGTTTGGAAACAAAATAAAAAATGG
* * * *
44026357 AATAAAATCTGTTAAATGACGAGAATAAATCCCAAAACAGATTTTATTTAATTTTAATACTCGTT
1 AATAAAATCTGTTAAACGACGAGAATAAATCCCAAAACAGA--TTACTCAA-TTTAATACT-ATT
* * * *
44026422 TT-GAAACAAAGTCAAAAAATGAAATAAAATATGTTGAACAACAGGAATAAATC-CTAAAACAGA
62 TTGGAAACAAAAT--AAAAATCAAATAAAATATATTAAACAACAGGAATAAATCTC-AAAACAGA
44026485 TTTTATTCAATTTT
124 TTTTATTCAATTTT
44026499 TATTTTTATT
Statistics
Matches: 119, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
169 38 0.32
171 6 0.05
172 17 0.14
173 5 0.04
174 53 0.45
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (169 bp):
AATAAAATCTGTTAAACGACGAGAATAAATCCCAAAACAGATTACTCAATTTAATACTATTTTGG
AAACAAAATAAAAATCAAATAAAATATATTAAACAACAGGAATAAATCTCAAAACAGATTTTATT
CAATTTTAAATTCTCGTTTGGAAACAAAATAAAAAATGG
Found at i:44026900 original size:14 final size:14
Alignment explanation
Indices: 44026881--44026911 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
44026871 ATCGAAGCAA
44026881 TAACACCTCTGCAG
1 TAACACCTCTGCAG
*
44026895 TAACACCTTTGCAG
1 TAACACCTCTGCAG
44026909 TAA
1 TAA
44026912 TCAACGAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (14 bp):
TAACACCTCTGCAG
Found at i:44028021 original size:20 final size:20
Alignment explanation
Indices: 44027996--44028034 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
44027986 GTTAATGTGA
*
44027996 AAATTTGTGACTATATTTTG
1 AAATTTGTCACTATATTTTG
44028016 AAATTTGTCACTATATTTT
1 AAATTTGTCACTATATTTT
44028035 ACTTTAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (20 bp):
AAATTTGTCACTATATTTTG
Found at i:44028065 original size:12 final size:12
Alignment explanation
Indices: 44028048--44028074 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
44028038 TTAATTGATG
44028048 TTTGCCATTATA
1 TTTGCCATTATA
44028060 TTTGCCATTATA
1 TTTGCCATTATA
44028072 TTT
1 TTT
44028075 TACTCTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (12 bp):
TTTGCCATTATA
Found at i:44030211 original size:14 final size:14
Alignment explanation
Indices: 44030192--44030227 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
44030182 AAAACTCAAA
44030192 AACGCGCTGACGTG
1 AACGCGCTGACGTG
44030206 AACGCGCTGACGTG
1 AACGCGCTGACGTG
44030220 AACGCGCT
1 AACGCGCT
44030228 TTAGTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.31, G:0.33, T:0.14
Consensus pattern (14 bp):
AACGCGCTGACGTG
Found at i:44030596 original size:20 final size:20
Alignment explanation
Indices: 44030568--44030626 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
44030558 GTAAGGGTTA
*
44030568 ATTTCATTTTTTTTAATATT
1 ATTTAATTTTTTTTAATATT
*
44030588 ATTTAATTTTTTATAAT-TT
1 ATTTAATTTTTTTTAATATT
*
44030607 AATTAATATTTTTTATAATA
1 ATTTAAT-TTTTTT-TAATA
44030627 GTCGGTAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 8 0.25
20 20 0.62
21 4 0.12
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTTAATTTTTTTTAATATT
Found at i:44030599 original size:19 final size:18
Alignment explanation
Indices: 44030575--44030621 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 18
44030565 TTAATTTCAT
*
44030575 TTTTTTTAATATTATTTAA
1 TTTTTTTAAT-TTAATTAA
44030594 TTTTTTATAATTTAATTAA
1 TTTTTT-TAATTTAATTAA
44030613 TATTTTTTA
1 T-TTTTTTA
44030622 TAATAGTCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTTTAATTTAATTAA
Found at i:44032662 original size:59 final size:59
Alignment explanation
Indices: 44032556--44032759 Score: 309
Period size: 59 Copynumber: 3.4 Consensus size: 59
44032546 ATTGATTTAT
* * *
44032556 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTAAATAAAATGGAAGTTC
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTA
* * *
44032615 TTTTGAATATTTTTGTACAAATTATTTTTATATGGTTTTATTTAATAAAATAAAAGTTA
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTA
* * * *
44032674 TTTTGAATATTTTTATACAACTTATTTTTATATTATTTCATTTAATAAAATAGAAGTTG
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTA
44032733 TTTTGAATATTTTTGTACAAATATATT
1 TTTTGAATATTTTTGTACAAAT-TATT
44032760 ACTGACTATG
Statistics
Matches: 129, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
59 125 0.97
60 4 0.03
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.52
Consensus pattern (59 bp):
TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTA
Found at i:44032844 original size:29 final size:28
Alignment explanation
Indices: 44032812--44032884 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
44032802 AATCCATCTA
*
44032812 GTCAAAATAATTTTTTCAGAACACATCA-T
1 GTCAAAAT-ATTTTTTCAAAACACAT-ATT
* *
44032841 GTCAAATTTATTTTTTCAAAATACATATT
1 GTCAAA-ATATTTTTTCAAAACACATATT
44032870 GTCAAAAGTATTTTT
1 GTCAAAA-TATTTTT
44032885 CCCATAACAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
28 1 0.03
29 35 0.95
30 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.42
Consensus pattern (28 bp):
GTCAAAATATTTTTTCAAAACACATATT
Found at i:44033601 original size:22 final size:20
Alignment explanation
Indices: 44033570--44033610 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
44033560 AAATTTAAAA
44033570 ATTTTAAAAATATATAAAAATT
1 ATTTTAAAAA-A-ATAAAAATT
*
44033592 ATTTTTAAAAAATAAAAAT
1 ATTTTAAAAAAATAAAAAT
44033611 CATTAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 1 0.06
22 9 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTTTAAAAAAATAAAAATT
Found at i:44034371 original size:31 final size:31
Alignment explanation
Indices: 44034333--44034394 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
44034323 ATTATTATTT
** *
44034333 TAGTTAAATTTGATGATCAATTTTTTAAAAA
1 TAGTTAAATTTGACAATCAATCTTTTAAAAA
*
44034364 TAGTTAAATTTGACAATTAATCTTTTAAAAA
1 TAGTTAAATTTGACAATCAATCTTTTAAAAA
44034395 AATTTGAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (31 bp):
TAGTTAAATTTGACAATCAATCTTTTAAAAA
Found at i:44049545 original size:69 final size:69
Alignment explanation
Indices: 44049471--44049790 Score: 292
Period size: 69 Copynumber: 4.7 Consensus size: 69
44049461 ACCTAGTTTT
* *
44049471 CATAGTCCAACCATGTTCTTACATAGTATATTCCCCTTGTTTACTGTCCTGGCAAACTATTCTGG
1 CATAGTCCAACCATGGTCTTACATAGTATATTCCCCTTGTTTACTGTCCTGGCAAACTATCCTGG
*
44049536 TTGT
66 TTGC
* * * ** *
44049540 TATAGTCTAACCATGGTCTTAGACT-GTATATTCCTCC-TGTTTACTGTCCTGGTGAACTATCCA
1 CATAGTCCAACCATGGTCTTACA-TAGTATATTCC-CCTTGTTTACTGTCCTGGCAAACTATCCT
44049603 GGTTGC
64 GGTTGC
* * * ** **
44049609 TATAGTCCAACCATAGTCTTACATCGTATATT-CATTATGTTTACTGT-CTCGGTGAACTATCCT
1 CATAGTCCAACCATGGTCTTACATAGTATATTCCCCT-TGTTTACTGTCCT-GGCAAACTATCCT
44049672 GGTTGC
64 GGTTGC
* * * * * * ** *
44049678 CATAGTCCAACCATGGTATTATACTA-AATATTTCTCGTGTTTACTGTTATGGCAGACTATCCTG
1 CATAGTCCAACCATGGTCTTACA-TAGTATATTCCCCTTGTTTACTGTCCTGGCAAACTATCCTG
44049742 GTTGC
65 GTTGC
** * *
44049747 CATAGTCCAACCATGGTCTTA-ACCGTATATTCCTCATGTTTACT
1 CATAGTCCAACCATGGTCTTACATAGTATATTCCCCTTGTTTACT
44049791 CAGAGTTTTG
Statistics
Matches: 207, Mismatches: 34, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
68 21 0.10
69 180 0.87
70 6 0.03
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (69 bp):
CATAGTCCAACCATGGTCTTACATAGTATATTCCCCTTGTTTACTGTCCTGGCAAACTATCCTGG
TTGC
Found at i:44049620 original size:138 final size:137
Alignment explanation
Indices: 44049471--44049790 Score: 351
Period size: 138 Copynumber: 2.3 Consensus size: 137
44049461 ACCTAGTTTT
* * *
44049471 CATAGTCCAACCATGTTCTTACATAGTATATTCCCCTTGTTTACTGTC-CTGGCAAACTATTCTG
1 CATAGTCCAACCATG-TCTTACATCGTATATTCCACTTGTTTACTGTCTC-GGCAAACTATCCTG
** * * ** * *
44049535 GTTGTTATAGTCTAACCATGGTCTTAGACTGTATATTCCTCCTGTTTACTGTCCTGG-TGAACTA
64 GTTGCCATAGTCCAACCATGGTATTAGACTAAATATTCCTCCTGTTTACTGTCATGGCAG-ACTA
44049599 TCCAGGTTGC
128 TCCAGGTTGC
* * **
44049609 TATAGTCCAACCATAGTCTTACATCGTATATT-CATTATGTTTACTGTCTCGGTGAACTATCCTG
1 CATAGTCCAACCAT-GTCTTACATCGTATATTCCACT-TGTTTACTGTCTCGGCAAACTATCCTG
* * * *
44049673 GTTGCCATAGTCCAACCATGGTATTATACTAAATATTTCTCGTGTTTACTGTTATGGCAGACTAT
64 GTTGCCATAGTCCAACCATGGTATTAGACTAAATATTCCTCCTGTTTACTGTCATGGCAGACTAT
*
44049738 CCTGGTTGC
129 CCAGGTTGC
* * *
44049747 CATAGTCCAACCATGGTCTTA-ACCGTATATTCCTCATGTTTACT
1 CATAGTCCAACCAT-GTCTTACATCGTATATTCCACTTGTTTACT
44049791 CAGAGTTTTG
Statistics
Matches: 151, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
137 19 0.13
138 129 0.85
139 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (137 bp):
CATAGTCCAACCATGTCTTACATCGTATATTCCACTTGTTTACTGTCTCGGCAAACTATCCTGGT
TGCCATAGTCCAACCATGGTATTAGACTAAATATTCCTCCTGTTTACTGTCATGGCAGACTATCC
AGGTTGC
Found at i:44052284 original size:29 final size:27
Alignment explanation
Indices: 44052252--44052352 Score: 84
Period size: 29 Copynumber: 3.7 Consensus size: 27
44052242 ATATAAACAG
44052252 TAATAAACATAACATATATAATATCCTAC
1 TAATAAACAT-ACATA-ATAATATCCTAC
* *
44052281 TAATATACATACATAAT-ATA-CATAC
1 TAATAAACATACATAATAATATCCTAC
*
44052306 --ATAAACATTAATATACATAATATCCATAC
1 TAATAAACA-T-ACATA-ATAATATCC-TAC
*
44052335 TAATATACATACATAATA
1 TAATAAACATACATAATA
44052353 GACATAATAA
Statistics
Matches: 57, Mismatches: 7, Indels: 17
0.70 0.09 0.21
Matches are distributed among these distances:
23 6 0.11
24 1 0.02
25 8 0.14
26 5 0.09
27 5 0.09
28 9 0.16
29 16 0.28
30 1 0.02
31 6 0.11
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (27 bp):
TAATAAACATACATAATAATATCCTAC
Found at i:44052295 original size:54 final size:54
Alignment explanation
Indices: 44052236--44052362 Score: 172
Period size: 54 Copynumber: 2.4 Consensus size: 54
44052226 TAAAGTCAGT
*
44052236 TACATAATATAAACAGTA-ATAAACA-TAACATATATAATATCC-TACTAATATACA
1 TACATAATAT--ACA-TACATAAACATTAACATACATAATATCCATACTAATATACA
*
44052290 TACATAATATACATACATAAACATTAATATACATAATATCCATACTAATATACA
1 TACATAATATACATACATAAACATTAACATACATAATATCCATACTAATATACA
*
44052344 TACATAATAGACATA-ATAA
1 TACATAATATACATACATAA
44052363 TATACAATTG
Statistics
Matches: 67, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
51 2 0.03
52 10 0.15
53 19 0.28
54 36 0.54
ACGTcount: A:0.54, C:0.15, G:0.02, T:0.30
Consensus pattern (54 bp):
TACATAATATACATACATAAACATTAACATACATAATATCCATACTAATATACA
Found at i:44052303 original size:9 final size:9
Alignment explanation
Indices: 44052289--44052361 Score: 60
Period size: 9 Copynumber: 8.1 Consensus size: 9
44052279 ACTAATATAC
44052289 ATACATAAT
1 ATACATAAT
44052298 ATACATACAT
1 ATACATA-AT
*
44052308 AAACATTAAT
1 ATACA-TAAT
44052318 ATACATAAT
1 ATACATAAT
* *
44052327 ATCCATACT
1 ATACATAAT
* *
44052336 A-ATAT-AC
1 ATACATAAT
44052343 ATACATAAT
1 ATACATAAT
*
44052352 AGACATAAT
1 ATACATAAT
44052361 A
1 A
44052362 ATATACAATT
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
7 1 0.02
8 5 0.10
9 29 0.59
10 12 0.24
11 2 0.04
ACGTcount: A:0.53, C:0.15, G:0.01, T:0.30
Consensus pattern (9 bp):
ATACATAAT
Found at i:44052308 original size:41 final size:40
Alignment explanation
Indices: 44052236--44052349 Score: 110
Period size: 41 Copynumber: 2.8 Consensus size: 40
44052226 TAAAGTCAGT
* *
44052236 TACATAATATA-A-ACAGTAATAAACATAACATATA-TAATA
1 TACATAATATACATACA-TAATATACAT-ACATACATTAATA
*
44052275 TCCTACTAATATACATACATAATATACATACATAAACATTAATA
1 TAC-A-TAATATACATACATAATATACATACAT--ACATTAATA
*
44052319 TACATAATATCCATAC-TAATATACATACATA
1 TACATAATATACATACATAATATACATACATA
44052350 ATAGACATAA
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
39 3 0.05
40 1 0.02
41 25 0.40
42 21 0.33
43 6 0.10
44 7 0.11
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.31
Consensus pattern (40 bp):
TACATAATATACATACATAATATACATACATACATTAATA
Found at i:44052310 original size:62 final size:65
Alignment explanation
Indices: 44052244--44052368 Score: 159
Period size: 62 Copynumber: 2.0 Consensus size: 65
44052234 GTTACATAAT
* *
44052244 ATAAACAGTAATAAACATAACAT-ATA-TAATAT-CCTAC-TAATATACATACATAATATACATA
1 ATAAACAGTAATAAACATAACATCATACTAATATACATACATAATAGACATA-ATAATATACATA
44052305 C
65 C
* * *
44052306 ATAAACATTAATATACATAATATCCATACTAATATACATACATAATAGACATAATAATATACA
1 ATAAACAGTAATAAACATAACAT-CATACTAATATACATACATAATAGACATAATAATATACA
44052369 ATTGACTGAC
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
62 20 0.38
64 3 0.06
65 6 0.11
66 14 0.26
67 10 0.19
ACGTcount: A:0.54, C:0.15, G:0.02, T:0.30
Consensus pattern (65 bp):
ATAAACAGTAATAAACATAACATCATACTAATATACATACATAATAGACATAATAATATACATAC
Found at i:44052340 original size:12 final size:13
Alignment explanation
Indices: 44052236--44052368 Score: 105
Period size: 13 Copynumber: 10.0 Consensus size: 13
44052226 TAAAGTCAGT
44052236 TACATAATATA-A
1 TACATAATATACA
*
44052248 -ACAGTAATAAACA
1 TACA-TAATATACA
*
44052261 TAACATATATAATATCC
1 T-ACATA-AT-ATA-CA
44052278 TAC-TAATATACA
1 TACATAATATACA
44052290 TACATAATATACA
1 TACATAATATACA
* *
44052303 TACATAAACATTAATA
1 TACAT-AATA-T-ACA
*
44052319 TACATAATATCCA
1 TACATAATATACA
44052332 TAC-TAATATACA
1 TACATAATATACA
*
44052344 TACATAATAGACA
1 TACATAATATACA
44052357 TA-ATAATATACA
1 TACATAATATACA
44052369 ATTGACTGAC
Statistics
Matches: 97, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
11 3 0.03
12 30 0.31
13 32 0.33
14 8 0.08
15 11 0.11
16 11 0.11
17 2 0.02
ACGTcount: A:0.53, C:0.15, G:0.02, T:0.30
Consensus pattern (13 bp):
TACATAATATACA
Found at i:44052346 original size:25 final size:25
Alignment explanation
Indices: 44052263--44052368 Score: 81
Period size: 25 Copynumber: 4.6 Consensus size: 25
44052253 AATAAACATA
* *
44052263 ACATATATAATAT-CCTACTAATAT
1 ACATACATAATATACATACTAATAT
*
44052287 ACATACATAATATACATAC--ATAA
1 ACATACATAATATACATACTAATAT
44052310 ACAT---TAATATAC--A-TAATAT
1 ACATACATAATATACATACTAATAT
* *
44052329 CCATAC-TAATATACATACATAATAG
1 ACATACATAATATACATAC-TAATAT
44052354 ACATA-ATAATATACA
1 ACATACATAATATACA
44052369 ATTGACTGAC
Statistics
Matches: 65, Mismatches: 7, Indels: 19
0.71 0.08 0.21
Matches are distributed among these distances:
18 1 0.02
19 6 0.09
20 8 0.12
21 8 0.12
23 8 0.12
24 12 0.18
25 22 0.34
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.31
Consensus pattern (25 bp):
ACATACATAATATACATACTAATAT
Found at i:44054074 original size:4 final size:4
Alignment explanation
Indices: 44054067--44054092 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
44054057 TTAATTAGTA
44054067 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
44054093 TTAGTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:44058506 original size:19 final size:20
Alignment explanation
Indices: 44058469--44058506 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
44058459 GGAGTGAGTT
* *
44058469 AATATTTTTTTTAAGAAATA
1 AATAATTTTTATAAGAAATA
44058489 AATAATTTTTATAA-AAAT
1 AATAATTTTTATAAGAAAT
44058507 TCCAAGATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
AATAATTTTTATAAGAAATA
Found at i:44061243 original size:19 final size:20
Alignment explanation
Indices: 44061219--44061271 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
44061209 ATTTTTATAA
44061219 ATATTTTTTTACGA-AATTT
1 ATATTTTTTTACGATAATTT
* **
44061238 ATATTTCTTTAC-ATTTTTT
1 ATATTTTTTTACGATAATTT
44061257 ATAATTTTTTTACGA
1 AT-ATTTTTTTACGA
44061272 CCTTATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 1 0.04
19 16 0.59
20 9 0.33
21 1 0.04
ACGTcount: A:0.28, C:0.08, G:0.04, T:0.60
Consensus pattern (20 bp):
ATATTTTTTTACGATAATTT
Found at i:44061295 original size:10 final size:9
Alignment explanation
Indices: 44061282--44061368 Score: 63
Period size: 9 Copynumber: 9.3 Consensus size: 9
44061272 CCTTATAAAA
44061282 TTTTATATT
1 TTTTATATT
44061291 TTTT-TATAT
1 TTTTATAT-T
* *
44061300 TTCTATATA
1 TTTTATATT
44061309 TTTTATAATT
1 TTTTAT-ATT
44061319 TTTTATGA-T
1 TTTTAT-ATT
**
44061328 TTTTATAAAA
1 TTTTAT-ATT
44061338 TTTTATATT
1 TTTTATATT
44061347 TTTT-TACTAT
1 TTTTATA-T-T
44061357 TTTTATATT
1 TTTTATATT
44061366 TTT
1 TTT
44061369 AAAACTTTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
8 5 0.08
9 31 0.50
10 24 0.39
11 2 0.03
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.70
Consensus pattern (9 bp):
TTTTATATT
Found at i:44061331 original size:19 final size:18
Alignment explanation
Indices: 44061282--44061385 Score: 84
Period size: 19 Copynumber: 5.6 Consensus size: 18
44061272 CCTTATAAAA
*
44061282 TTTTATATTTTT-TTATAT
1 TTTTATATTTTTATAAT-T
*
44061300 TTCTATATATTTTATAATT
1 TTTTATAT-TTTTATAATT
**
44061319 TTTTATGATTTTTATAAAA
1 TTTTAT-ATTTTTATAATT
* *
44061338 TTTTATATTTTTTTACTAT
1 TTTTATATTTTTATAAT-T
*
44061357 TTTTATATTTTTAAAACTT
1 TTTTATATTTTTATAA-TT
*
44061376 TTTAATATTT
1 TTTTATATTT
44061386 GATTTTTTTA
Statistics
Matches: 68, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
18 15 0.22
19 47 0.69
20 6 0.09
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (18 bp):
TTTTATATTTTTATAATT
Found at i:44061334 original size:56 final size:56
Alignment explanation
Indices: 44061274--44061379 Score: 169
Period size: 56 Copynumber: 1.9 Consensus size: 56
44061264 TTTTACGACC
* *
44061274 TTATAAAATTTTATATTTTTTTA-TATTTCTATATATTTTATAATTTTTTATGATTT
1 TTATAAAATTTTATATTTTTTTACTATTTCTATAT-TTTTAAAACTTTTTATGATTT
*
44061330 TTATAAAATTTTATATTTTTTTACTATTTTTATATTTTTAAAACTTTTTA
1 TTATAAAATTTTATATTTTTTTACTATTTCTATATTTTTAAAACTTTTTA
44061380 ATATTTGATT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
56 36 0.78
57 10 0.22
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (56 bp):
TTATAAAATTTTATATTTTTTTACTATTTCTATATTTTTAAAACTTTTTATGATTT
Found at i:44061357 original size:11 final size:10
Alignment explanation
Indices: 44061282--44061368 Score: 53
Period size: 10 Copynumber: 9.2 Consensus size: 10
44061272 CCTTATAAAA
44061282 TTTTATATTT
1 TTTTATATTT
44061292 TTTTATA--T
1 TTTTATATTT
* *
44061300 TTCTATA-TA
1 TTTTATATTT
*
44061309 TTTTATAATT
1 TTTTATATTT
44061319 TTTTATGA--T
1 TTTTAT-ATTT
***
44061328 TTTTATAAAA
1 TTTTATATTT
44061338 TTTTATATTT
1 TTTTATATTT
44061348 TTTTACTA--T
1 TTTTA-TATTT
44061357 TTTTATATTT
1 TTTTATATTT
44061367 TT
1 TT
44061369 AAAACTTTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
8 10 0.16
9 19 0.31
10 29 0.48
11 3 0.05
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.70
Consensus pattern (10 bp):
TTTTATATTT
Found at i:44061358 original size:29 final size:28
Alignment explanation
Indices: 44061274--44061363 Score: 128
Period size: 29 Copynumber: 3.2 Consensus size: 28
44061264 TTTTACGACC
44061274 TTATAAAATTTTATATTTTTTTATATTT
1 TTATAAAATTTTATATTTTTTTATATTT
* * *
44061302 CTAT-ATATTTTATAATTTTTTATGATTT
1 TTATAAAATTTTATATTTTTTTAT-ATTT
44061330 TTATAAAATTTTATATTTTTTTACTATTT
1 TTATAAAATTTTATATTTTTTTA-TATTT
44061359 TTATA
1 TTATA
44061364 TTTTTAAAAC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 17 0.32
28 10 0.19
29 25 0.47
30 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (28 bp):
TTATAAAATTTTATATTTTTTTATATTT
Found at i:44061553 original size:90 final size:90
Alignment explanation
Indices: 44061459--44061687 Score: 320
Period size: 90 Copynumber: 2.5 Consensus size: 90
44061449 AATCTTTAGT
44061459 AAAAGAAAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGACACATTTTGAAAG
1 AAAAG-AAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGACACATTTTGAAAG
*
44061524 TTCAAGTACCCAATTGAGTGA-AAAAA
65 TTCAAATACCCAATTGAGT-ACAAAAA
* * * * **
44061550 AAAGGTAGGGGCTTAATTGCTTTTTTTTAAAAGGTTTGAGGG-CTTTTTTGATGCATTTTGAAAG
1 AAAAGAAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTC-TTTTTGACACATTTTGAAAG
*
44061614 TTCAAATACGCAATTGAGTACAAAAA
65 TTCAAATACCCAATTGAGTACAAAAA
*
44061640 AAAAGCAGGGGCTTAATTG-TTTTTGTTGAAAAAGTTTGAGGGTCTTTT
1 AAAAGAAGGGGCTTAATTGCTTTTT-TTGAAAAAGTTTGAGGGTCTTTT
44061688 GCACCCTTAA
Statistics
Matches: 122, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
89 7 0.06
90 110 0.90
91 5 0.04
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.36
Consensus pattern (90 bp):
AAAAGAAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGACACATTTTGAAAGT
TCAAATACCCAATTGAGTACAAAAA
Found at i:44068054 original size:16 final size:17
Alignment explanation
Indices: 44068033--44068070 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
44068023 TGGAGGCAAA
44068033 AAAAACAAAAA-AAAAC
1 AAAAACAAAAATAAAAC
*
44068049 AAAAACAAAAATAAAAG
1 AAAAACAAAAATAAAAC
44068066 AAAAA
1 AAAAA
44068071 AACCTCTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.87, C:0.08, G:0.03, T:0.03
Consensus pattern (17 bp):
AAAAACAAAAATAAAAC
Found at i:44068531 original size:19 final size:21
Alignment explanation
Indices: 44068509--44068553 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
44068499 TTTCACTTGA
44068509 AAAAAAAAG-AAACAAAAA-G
1 AAAAAAAAGAAAACAAAAACG
* *
44068528 AAAAAAAGGAAAAGAAAAACG
1 AAAAAAAAGAAAACAAAAACG
44068549 AAAAA
1 AAAAA
44068554 GAAAAGAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 8 0.36
21 6 0.27
ACGTcount: A:0.82, C:0.04, G:0.13, T:0.00
Consensus pattern (21 bp):
AAAAAAAAGAAAACAAAAACG
Found at i:44068545 original size:13 final size:13
Alignment explanation
Indices: 44068507--44068567 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
44068497 AATTTCACTT
*
44068507 GAAAAAAAAAGAAA
1 GAAAAAGAAA-AAA
*
44068521 CAAAAAGAAAAAAA
1 GAAAAAG-AAAAAA
* *
44068535 GGAAAAGAAAAAC
1 GAAAAAGAAAAAA
*
44068548 GAAAAAGAAAAGA
1 GAAAAAGAAAAAA
44068561 GAAAAAG
1 GAAAAAG
44068568 GAGAGGCCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
13 22 0.58
14 13 0.34
15 3 0.08
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (13 bp):
GAAAAAGAAAAAA
Found at i:44068559 original size:32 final size:29
Alignment explanation
Indices: 44068507--44068569 Score: 81
Period size: 32 Copynumber: 2.1 Consensus size: 29
44068497 AATTTCACTT
*
44068507 GAAAAAAAAAGAAACAAAAAGAAAAAAAG
1 GAAAAAAAAAGAAAAAAAAAGAAAAAAAG
*
44068536 GAAAAGAAAAACGAAAAAGAAAAGAGAAAAAG
1 GAAAA-AAAAA-GAAAAA-AAAAGAAAAAAAG
44068568 GA
1 GA
44068570 GAGGCCAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 5 0.17
30 5 0.17
31 5 0.17
32 14 0.48
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (29 bp):
GAAAAAAAAAGAAAAAAAAAGAAAAAAAG
Found at i:44069979 original size:44 final size:45
Alignment explanation
Indices: 44069916--44070047 Score: 128
Period size: 44 Copynumber: 3.0 Consensus size: 45
44069906 GTGGAGATGG
* *
44069916 TTGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGA
1 TTGAAGACAATAGACCTTGCCTTCCTGCATTGACAGCGAAGCAGA
* * * * * * *
44069961 TTGAAGACACA-AG-CCTTGCCTCCCT-CGTTTG-TAGTGGAGCTGG
1 TTGAAGACA-ATAGACCTTGCCTTCCTGC-ATTGACAGCGAAGCAGA
*
44070004 TTGAAGACAATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAG
1 TTGAAGACAATAGACCTTGCCTTCCTGCATTGACAGCGAAGCAG
44070048 GTCGAAAACA
Statistics
Matches: 66, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
42 1 0.02
43 19 0.29
44 26 0.39
45 19 0.29
46 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (45 bp):
TTGAAGACAATAGACCTTGCCTTCCTGCATTGACAGCGAAGCAGA
Found at i:44070012 original size:43 final size:44
Alignment explanation
Indices: 44069885--44070025 Score: 117
Period size: 44 Copynumber: 3.2 Consensus size: 44
44069875 CGAAAACAAA
* * *
44069885 ACCTTGCCTCCATCGGTTGTAGTGGAGATGGTTGAAGACAACAG
1 ACCTTGCCTCCCTCGATTGTAGTGGAGCTGGTTGAAGACAACAG
* * * * * * *
44069929 ATCTTGCCTTCCT-GCATTGACAGCGAAGCAGATTGAAGAC-ACA-
1 ACCTTGCCTCCCTCG-ATTG-TAGTGGAGCTGGTTGAAGACAACAG
* *
44069972 AGCCTTGCCTCCCTCGTTTGTAGTGGAGCTGGTTGAAGACAATAG
1 A-CCTTGCCTCCCTCGATTGTAGTGGAGCTGGTTGAAGACAACAG
*
44070017 ATCTTGCCT
1 ACCTTGCCT
44070026 TCCTGCATTG
Statistics
Matches: 71, Mismatches: 20, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
43 17 0.24
44 38 0.54
45 16 0.23
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (44 bp):
ACCTTGCCTCCCTCGATTGTAGTGGAGCTGGTTGAAGACAACAG
Found at i:44070315 original size:87 final size:87
Alignment explanation
Indices: 44069538--44070292 Score: 1071
Period size: 87 Copynumber: 8.7 Consensus size: 87
44069528 AGAAACAGAT
* *
44069538 CCTTGCCTCCATCAGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
44069603 GCGAAGCAGATCGAAAACAAAA
66 GCGAAGCAGATCGAAAACAAAA
* * *
44069625 CCTTGCCTCCATCGGTTGCAGTGGAGCTAGTCAAAGATAGCAGATCTTGTCTTCCTGCATTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
44069690 GCGAAGCAGATCGAAAACAAAA
66 GCGAAGCAGATCGAAAACAAAA
* * * *
44069712 TCTTGCCTCCATCGATTGCAGTGGAACTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
*
44069777 GCGAAGCAGATTGAAAACAAAA
66 GCGAAGCAGATCGAAAACAAAA
* * * *
44069799 CCTTGCCTCTATCAGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCTTGCATTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
44069864 GCGAAGCAGATCGAAAACAAAA
66 GCGAAGCAGATCGAAAACAAAA
* * * * * *
44069886 CCTTGCCTCCATCGGTTGTAGTGGAGATGGTTGAAGACAACAGATCTTGCCTTCCTGCATTGACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
* * *
44069951 GCGAAGCAGATTGAAGACACAAG
66 GCGAAGCAGATCGAAAACA-AAA
* * * * * ** *
44069974 CCTTGCCTCCCTCGTTTGTAGTGGAGCTGGTTGAAGACAATAGATCTTGCCTTCCTGCATTGACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
*
44070039 GCGAAGCAGGTCGAAAACACAAA
66 GCGAAGCAGATCGAAAACA-AAA
* * * * * *
44070062 CGTTGCCTCTC-TCAGTTGTAGTGGAGTTGGTTAAAAATAGCAGATCTTGCCTTCCTACATTAAC
1 CCTTGCCTC-CATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAAC
*
44070126 AGCGAAACAGATCGAAAACAAAA
65 AGCGAAGCAGATCGAAAACAAAA
* *
44070149 CCTTGCCTTCATCAGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
* *
44070214 GCGAAGTAGATCGAAAATAAAA
66 GCGAAGCAGATCGAAAACAAAA
* *
44070236 CCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAAATAGCAGATCTTGCCTTCCTG
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTG
44070293 TACTGACGAC
Statistics
Matches: 602, Mismatches: 63, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
86 1 0.00
87 449 0.75
88 151 0.25
89 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (87 bp):
CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
GCGAAGCAGATCGAAAACAAAA
Found at i:44070331 original size:350 final size:349
Alignment explanation
Indices: 44069538--44070331 Score: 1098
Period size: 350 Copynumber: 2.3 Consensus size: 349
44069528 AGAAACAGAT
* * *
44069538 CCTTGCCTCCATCAGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTGACA
* * *
44069603 GCGAAGCAGATCG-A-AAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTAGTCAAAGATAGC
66 GCGAAGCAGATCGAAGAAAC-AAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGTCAAAGACAAC
*
44069666 AGATCTTGTCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAATCTTGCCTCCATCGATTGC
130 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAATCTTGCCTCCATCGATTGC
* * * *
44069731 AGTGGAACTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATTGAAAACA
195 AGTGGAACTGGTCAAAAATAGCAGATCTTGCCTTCCTACATTAACAGCGAAACAGATCGAAAACA
*
44069796 AAACCTTGCCTCTATCAGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCTTGCATTA
260 AAACCTTGCCTCTATCAGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTA
44069861 ACAGCGAAGCAGATCGAAAACAAAA
325 ACAGCGAAGCAGATCGAAAACAAAA
* * * * *
44069886 CCTTGCCTCCATCGGTTGTAGTGGAGATGGTTGAAGACAACAGATCTTGCCTTCCTGCATTGACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTGACA
* * * * * * ** *
44069951 GCGAAGCAGATTGAAGACACAAGCCTTGCCTCCCTCGTTTGTAGTGGAGCTGGTTGAAGACAATA
66 GCGAAGCAGATCGAAGAAACAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGTCAAAGACAACA
* *
44070016 GATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAAACACAAA-CGTTGCCTCTC-TC-AGT
131 GATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACA-AAATC-TTGCCTC-CATCGA-T
* ** *
44070078 TGTAGTGGAGTTGGTTAAAAATAGCAGATCTTGCCTTCCTACATTAACAGCGAAACAGATCGAAA
192 TGCAGTGGAACTGGTCAAAAATAGCAGATCTTGCCTTCCTACATTAACAGCGAAACAGATCGAAA
*
44070143 ACAAAACCTTGCCT-TCATCAGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGC
257 ACAAAACCTTGCCTCT-ATCAGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGC
* *
44070207 ATTAACAGCGAAGTAGATCGAAAATAAAA
321 ATTAACAGCGAAGCAGATCGAAAACAAAA
* * * *
44070236 CCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAAATAGCAGATCTTGCCTTCCTGTACTGAC-
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTGACA
* * *
44070300 GACGAAGTAGATCGAAGAAACTAGTCTTGCCT
66 G-CGAAGCAGATCGAAGAAACAAGCCTTGCCT
44070332 TCCTGTACTA
Statistics
Matches: 389, Mismatches: 49, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
348 69 0.18
349 79 0.20
350 240 0.62
351 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (349 bp):
CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTGACA
GCGAAGCAGATCGAAGAAACAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGTCAAAGACAACA
GATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAATCTTGCCTCCATCGATTGCA
GTGGAACTGGTCAAAAATAGCAGATCTTGCCTTCCTACATTAACAGCGAAACAGATCGAAAACAA
AACCTTGCCTCTATCAGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAA
CAGCGAAGCAGATCGAAAACAAAA
Found at i:44070659 original size:132 final size:132
Alignment explanation
Indices: 44070493--44070985 Score: 704
Period size: 132 Copynumber: 3.7 Consensus size: 132
44070483 AATAGATTGA
* * * * *
44070493 AGATTGAAGATGACGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGTAGTTCT
1 AGATCGAAGATGGCGAATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAATTCT
* * * *
44070558 A-TCTCCCTAGGCAGCAGTAGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGG
66 ACT-TCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGG
44070622 AGC
130 AGC
* * * * *
44070625 AGATCGAAGATGGCGGATTTTACCTCCCTGAGATTACAGCGAAGTACATTGAAGTCAGTAGTTCT
1 AGATCGAAGATGGCGAATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAATTCT
* * **
44070690 A-TCTCCCTGGGCAGCAGTGGAATAGATT-AAAACCACAGATCTTATCTCCCTAAGCAGTAGTGG
66 ACT-TCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGG
44070753 AGC
130 AGC
* * * *
44070756 AGATCGAAGATGGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTCAAGCCAGAAATTCT
1 AGATCGAAGATGGCGAATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAATTCT
* *
44070821 ACTTCCATGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGA
66 ACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
44070886 GC
131 GC
* *
44070888 AGATCGAAGATGGCGAATTTTACCTCTCTGAGATTACAGTAGAGTACATTGAAGCCAGTAATTCT
1 AGATCGAAGATGGCGAATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAATTCT
*
44070953 ACTTCCCTGGACAACAGTGGAATAGATTGAAGA
66 ACTTCCCTGGGCAACAGTGGAATAGATTGAAGA
44070986 GCAGACAAAA
Statistics
Matches: 324, Mismatches: 35, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
131 114 0.35
132 210 0.65
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (132 bp):
AGATCGAAGATGGCGAATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAATTCT
ACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
GC
Found at i:44070973 original size:263 final size:263
Alignment explanation
Indices: 44070493--44070980 Score: 730
Period size: 263 Copynumber: 1.9 Consensus size: 263
44070483 AATAGATTGA
* * * * * *
44070493 AGATTGAAGATGACGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGTAGTTCT
1 AGATCGAAGATGACGAATTTTACCTCCCTGAGATTACAGTGGAGTACATTCAAGCCAGAAATTCT
* * * *
44070558 ATCTCCCTAGGCAGCAGTAGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGA
66 ATCTCCATAGGCAACAGTAGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGA
* * * *
44070623 GCAGATCGAAGATGGCGGATTTTACCTCCCTGAGATTACAGCGAAGTACATTGAAGTCAGTAGTT
131 GCAGATCGAAGATGGCGAATTTTACCTCCCTGAGATTACAGAGAAGTACATTGAAGCCAGTAATT
* *
44070688 CTATCTCCCTGGGCAGCAGTGGAATAGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGG
196 CTATCTCCCTGGACAACAGTGGAATAGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGG
44070753 AGC
261 AGC
* * *
44070756 AGATCGAAGATGGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTCAAGCCAGAAATTCT
1 AGATCGAAGATGACGAATTTTACCTCCCTGAGATTACAGTGGAGTACATTCAAGCCAGAAATTCT
* *
44070821 A-CTTCCATGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGG
66 ATC-TCCATAGGCAACAGTAGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGG
*
44070885 AGCAGATCGAAGATGGCGAATTTTACCTCTCTGAGATTACAGTAG-AGTACATTGAAGCCAGTAA
130 AGCAGATCGAAGATGGCGAATTTTACCTCCCTGAGATTACAG-AGAAGTACATTGAAGCCAGTAA
44070949 TTCTA-CTTCCCTGGACAACAGTGGAATAGATT
194 TTCTATC-TCCCTGGACAACAGTGGAATAGATT
44070981 GAAGAGCAGA
Statistics
Matches: 200, Mismatches: 22, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
262 2 0.01
263 197 0.99
264 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (263 bp):
AGATCGAAGATGACGAATTTTACCTCCCTGAGATTACAGTGGAGTACATTCAAGCCAGAAATTCT
ATCTCCATAGGCAACAGTAGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGA
GCAGATCGAAGATGGCGAATTTTACCTCCCTGAGATTACAGAGAAGTACATTGAAGCCAGTAATT
CTATCTCCCTGGACAACAGTGGAATAGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGG
AGC
Found at i:44072488 original size:12 final size:12
Alignment explanation
Indices: 44072473--44072501 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
44072463 TATTTTAAGT
44072473 TATATATATATG
1 TATATATATATG
44072485 TATATATATATG
1 TATATATATATG
44072497 TATAT
1 TATAT
44072502 TTTATTTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATATATATATG
Found at i:44074135 original size:13 final size:13
Alignment explanation
Indices: 44074117--44074160 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
44074107 AAGATTTAGT
44074117 ATTTATTAGTATA
1 ATTTATTAGTATA
*
44074130 ATTTATT--TAGA
1 ATTTATTAGTATA
*
44074141 ATTTATTAGCATA
1 ATTTATTAGTATA
44074154 ATTTATT
1 ATTTATT
44074161 TGACCTACGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 10 0.38
13 16 0.62
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (13 bp):
ATTTATTAGTATA
Found at i:44074138 original size:24 final size:24
Alignment explanation
Indices: 44074110--44074161 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
44074100 TTTTGAGAAG
* *
44074110 ATTTAGTATTTATTAGTATAATTT
1 ATTTAGAATTTATTAGCATAATTT
44074134 ATTTAGAATTTATTAGCATAATTT
1 ATTTAGAATTTATTAGCATAATTT
44074158 ATTT
1 ATTT
44074162 GACCTACGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (24 bp):
ATTTAGAATTTATTAGCATAATTT
Found at i:44076462 original size:20 final size:21
Alignment explanation
Indices: 44076431--44076470 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
44076421 TATGAATTAT
44076431 GAAATTTAAATATGTGAAATG
1 GAAATTTAAATATGTGAAATG
44076452 GAAATTT-AATATGTGAAAT
1 GAAATTTAAATATGTGAAAT
44076471 AGATTAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.35
Consensus pattern (21 bp):
GAAATTTAAATATGTGAAATG
Found at i:44077276 original size:20 final size:21
Alignment explanation
Indices: 44077237--44077277 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
44077227 TGTTTTGACA
44077237 TGTTTTAAGCATGCTTAAATG
1 TGTTTTAAGCATGCTTAAATG
* *
44077258 TGTTTTGAGTATG-TTAAATG
1 TGTTTTAAGCATGCTTAAATG
44077278 GTTGGTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.46
Consensus pattern (21 bp):
TGTTTTAAGCATGCTTAAATG
Found at i:44086445 original size:5 final size:6
Alignment explanation
Indices: 44086381--44086451 Score: 61
Period size: 5 Copynumber: 13.2 Consensus size: 6
44086371 AATCACTTTT
44086381 ATATTA A-ATTA ATA-TA ATATT- -TATTAA ATATT- ATATTA AT-TTA
1 ATATTA ATATTA ATATTA ATATTA ATATT-A ATATTA ATATTA ATATTA
*
44086424 AT-TAA ATATT- ATATTA AT-TTA ATATTA A
1 ATATTA ATATTA ATATTA ATATTA ATATTA A
44086452 ATCTTTTTAA
Statistics
Matches: 54, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
4 4 0.07
5 34 0.63
6 12 0.22
7 4 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
ATATTA
Found at i:44086450 original size:16 final size:16
Alignment explanation
Indices: 44086381--44086450 Score: 65
Period size: 16 Copynumber: 4.4 Consensus size: 16
44086371 AATCACTTTT
* *
44086381 ATATTAAATTAATATA
1 ATATTATATTAATTTA
44086397 ATATT-TATTAAATATT-
1 ATATTATATT-AAT-TTA
*
44086413 ATATTA-ATTTAATTAA
1 ATATTATA-TTAATTTA
44086429 ATATTATATTAATTTA
1 ATATTATATTAATTTA
44086445 ATATTA
1 ATATTA
44086451 AATCTTTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
15 4 0.09
16 36 0.82
17 4 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATTATATTAATTTA
Found at i:44086461 original size:21 final size:22
Alignment explanation
Indices: 44086378--44086453 Score: 97
Period size: 21 Copynumber: 3.5 Consensus size: 22
44086368 TTTAATCACT
*
44086378 TTTATATTAAAT-TAATA-TAA
1 TTTATATTAAATATTATATTAA
44086398 TATT-TATTAAATATTATATTAA
1 T-TTATATTAAATATTATATTAA
44086420 TTTA-ATTAAATATTATATTAA
1 TTTATATTAAATATTATATTAA
44086441 TTTAATATTAAAT
1 TTT-ATATTAAAT
44086454 CTTTTTAAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
20 9 0.18
21 28 0.57
22 5 0.10
23 7 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTATATTAAATATTATATTAA
Found at i:44086539 original size:20 final size:18
Alignment explanation
Indices: 44086492--44086540 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
44086482 CATGATAAAC
44086492 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
44086509 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
44086529 ATTAAATTAATA
1 ATTAAATTAATA
44086541 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:44096564 original size:14 final size:15
Alignment explanation
Indices: 44096547--44096584 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
44096537 ATGTTTATTA
44096547 AATTAATTTA-AATT
1 AATTAATTTATAATT
44096561 AATTAATTTTATAATT
1 AATTAA-TTTATAATT
44096577 AA-TAATTT
1 AATTAATTT
44096585 TCTAAACTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.41
15 7 0.32
16 6 0.27
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AATTAATTTATAATT
Found at i:44096578 original size:16 final size:15
Alignment explanation
Indices: 44096547--44096585 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
44096537 ATGTTTATTA
44096547 AATTAA-TTTAAATT
1 AATTAATTTTAAATT
44096561 AATTAATTTTATAATT
1 AATTAATTTTA-AATT
44096577 AA-TAATTTT
1 AATTAATTTT
44096586 CTAAACTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.26
15 11 0.48
16 6 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
AATTAATTTTAAATT
Found at i:44100249 original size:42 final size:41
Alignment explanation
Indices: 44100116--44100249 Score: 96
Period size: 42 Copynumber: 3.2 Consensus size: 41
44100106 GAAAACCCGT
* * * * * * *
44100116 AAGGGTTGAATGGAAGCTCATAGGA-CTGAACGGAAACCTA
1 AAGGGTTAAATTGAAGCTCAAAAGAGCTGAACTGACACTTA
* * *
44100156 TAAGGGTT-AATCTGAAGCTCAGAAGAGCTAAACTGAAACCCATTA
1 -AAGGGTTAAAT-TGAAGCTCAAAAGAGCTGAACTG--ACAC-TTA
44100201 AA--GTTAAATTGAAGCTCAAAAGAGCTGAACTGACACTTA
1 AAGGGTTAAATTGAAGCTCAAAAGAGCTGAACTGACACTTA
44100240 GAAGGGTTAA
1 -AAGGGTTAA
44100250 TCTGAAACCC
Statistics
Matches: 73, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
39 3 0.04
40 8 0.11
41 18 0.25
42 35 0.48
43 3 0.04
44 4 0.05
45 2 0.03
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (41 bp):
AAGGGTTAAATTGAAGCTCAAAAGAGCTGAACTGACACTTA
Found at i:44102721 original size:102 final size:102
Alignment explanation
Indices: 44102545--44102751 Score: 414
Period size: 102 Copynumber: 2.0 Consensus size: 102
44102535 ATCTCGTAAA
44102545 CGCTAAATAAATAATAAAATAATAATTCACTCATCAGAATTGTGATCCCGAAACCACTGTTTCTG
1 CGCTAAATAAATAATAAAATAATAATTCACTCATCAGAATTGTGATCCCGAAACCACTGTTTCTG
44102610 ACACCATTGAAAAATAGGTTGTTACAACTATACCTAG
66 ACACCATTGAAAAATAGGTTGTTACAACTATACCTAG
44102647 CGCTAAATAAATAATAAAATAATAATTCACTCATCAGAATTGTGATCCCGAAACCACTGTTTCTG
1 CGCTAAATAAATAATAAAATAATAATTCACTCATCAGAATTGTGATCCCGAAACCACTGTTTCTG
44102712 ACACCATTGAAAAATAGGTTGTTACAACTATACCTAG
66 ACACCATTGAAAAATAGGTTGTTACAACTATACCTAG
44102749 CGC
1 CGC
44102752 AACAACTTTC
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 105 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (102 bp):
CGCTAAATAAATAATAAAATAATAATTCACTCATCAGAATTGTGATCCCGAAACCACTGTTTCTG
ACACCATTGAAAAATAGGTTGTTACAACTATACCTAG
Found at i:44112286 original size:38 final size:38
Alignment explanation
Indices: 44112235--44112311 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
44112225 CTGGCTTTTT
44112235 CTCCTCTCTCTCTCTCTCTCTCTCTGCAGAGAAATTAA
1 CTCCTCTCTCTCTCTCTCTCTCTCTGCAGAGAAATTAA
44112273 CTCCTCTCTCTCTCTCTCTCTCTCTGCAGAGAAATTAA
1 CTCCTCTCTCTCTCTCTCTCTCTCTGCAGAGAAATTAA
44112311 C
1 C
44112312 CTTATGCTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.18, C:0.38, G:0.08, T:0.36
Consensus pattern (38 bp):
CTCCTCTCTCTCTCTCTCTCTCTCTGCAGAGAAATTAA
Found at i:44113406 original size:83 final size:80
Alignment explanation
Indices: 44113255--44113415 Score: 223
Period size: 83 Copynumber: 2.0 Consensus size: 80
44113245 TGCAAGGTGC
** * * * *
44113255 TGGATCTTGACTCTGCTTTTTTTTCTTTCAGTAGAATGATTGTTTTCTGATAATGGACGAATAAT
1 TGGATCTTGACTCTGCTTTGGTTTCTATCAGTACAATCATAGTTTTCTGATAATGGACGAATAAT
44113320 AAAATGAACGGTTGT
66 AAAATGAACGGTTGT
* *
44113335 TGGATCTTGACTCTCCGCTTTGGTTTCTATCAGTACAATCATAGTTTTTGTGATAATTGACGAAT
1 TGGATCTTGACTCT--GCTTTGGTTTCTATCAGTACAATCATAG-TTTTCTGATAATGGACGAAT
44113400 AATAAAATGAACGGTT
63 AATAAAATGAACGGTT
44113416 CCATTTGGCT
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
80 14 0.20
82 22 0.31
83 34 0.49
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.40
Consensus pattern (80 bp):
TGGATCTTGACTCTGCTTTGGTTTCTATCAGTACAATCATAGTTTTCTGATAATGGACGAATAAT
AAAATGAACGGTTGT
Found at i:44122356 original size:24 final size:24
Alignment explanation
Indices: 44122324--44122391 Score: 109
Period size: 24 Copynumber: 2.8 Consensus size: 24
44122314 ACTGCAATAA
*
44122324 TGAGTGGCTTGACCATAACGTTAT
1 TGAGTGGCTTGACCACAACGTTAT
* *
44122348 TGAGTGGCTTGATCACAACCTTAT
1 TGAGTGGCTTGACCACAACGTTAT
44122372 TGAGTGGCTTGACCACAACG
1 TGAGTGGCTTGACCACAACG
44122392 ATGCAGCTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (24 bp):
TGAGTGGCTTGACCACAACGTTAT
Found at i:44122535 original size:22 final size:24
Alignment explanation
Indices: 44122507--44122550 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
44122497 AATGTTTTTG
*
44122507 AAAAACT-TGCATTGAT-TTCTGA
1 AAAAACTCTACATTGATATTCTGA
44122529 AAAAACTCTACATTGATATTCT
1 AAAAACTCTACATTGATATTCT
44122551 CGTGCACCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (24 bp):
AAAAACTCTACATTGATATTCTGA
Found at i:44125466 original size:16 final size:16
Alignment explanation
Indices: 44125422--44125468 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
44125412 ATAGATTTAA
44125422 TATTAAATTTAATATTT
1 TATT-AATTTAATATTT
*
44125439 T-TCTTA-TTAATATTT
1 TAT-TAATTTAATATTT
44125454 TATTAATTTAATATT
1 TATTAATTTAATATT
44125469 AAAGTGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
15 12 0.48
16 11 0.44
17 2 0.08
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTAATTTAATATTT
Found at i:44126589 original size:19 final size:20
Alignment explanation
Indices: 44126553--44126594 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
44126543 TAAAATACCA
* *
44126553 AAAAAACCAAAGATCAAAGC
1 AAAAAACCAAAGAACAAACC
*
44126573 AAAAACCCAAA-AACAAACC
1 AAAAAACCAAAGAACAAACC
44126592 AAA
1 AAA
44126595 TCTGAAAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.69, C:0.24, G:0.05, T:0.02
Consensus pattern (20 bp):
AAAAAACCAAAGAACAAACC
Found at i:44128433 original size:45 final size:45
Alignment explanation
Indices: 44128383--44128473 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
44128373 TTGAAATAAA
44128383 TTATTTTCTCATTTTATTAAAAATTTAAATATTCAAATTTTATTT
1 TTATTTTCTCATTTTATTAAAAATTTAAATATTCAAATTTTATTT
44128428 TTATTTTCTCATTTTATTAAAAATTTAAATATTCAAATTTTATTT
1 TTATTTTCTCATTTTATTAAAAATTTAAATATTCAAATTTTATTT
44128473 T
1 T
44128474 AACTTTTATC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (45 bp):
TTATTTTCTCATTTTATTAAAAATTTAAATATTCAAATTTTATTT
Found at i:44128489 original size:38 final size:41
Alignment explanation
Indices: 44128392--44128489 Score: 103
Period size: 45 Copynumber: 2.4 Consensus size: 41
44128382 ATTATTTTCT
* *
44128392 CATTTTATTAAAAATTTAAATATTCAAATTTTATTTTTATTTTCT
1 CATTTTATCAAAAATTTAAATATTCAAATTTTATTTTTA---T-A
*
44128437 CATTTTATTAAAAATTTAAATATTCAAATTTTA-TTTTA-A
1 CATTTTATCAAAAATTTAAATATTCAAATTTTATTTTTATA
*
44128476 C-TTTTATCCAAAAT
1 CATTTTATCAAAAAT
44128490 AAAATAAAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
38 11 0.22
39 1 0.02
44 5 0.10
45 33 0.66
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (41 bp):
CATTTTATCAAAAATTTAAATATTCAAATTTTATTTTTATA
Found at i:44130259 original size:20 final size:21
Alignment explanation
Indices: 44130236--44130274 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44130226 TATTTTATAT
*
44130236 ATAAAAA-TTGTATTTATTCA
1 ATAAAAACTTGAATTTATTCA
44130256 ATAAAAACTTGAATTTATT
1 ATAAAAACTTGAATTTATT
44130275 AATGATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (21 bp):
ATAAAAACTTGAATTTATTCA
Found at i:44130686 original size:51 final size:51
Alignment explanation
Indices: 44130607--44130710 Score: 172
Period size: 51 Copynumber: 2.0 Consensus size: 51
44130597 GTGTATAGCT
*
44130607 CATTATCATATAGTTCACCTGCACGGTTCGCCTATGCACTTCGCCGCCATG
1 CATTATCATATAGTTCACCTGCACGGTTCGCCTATGCACTTCGCCACCATG
* * *
44130658 CATTATCATATTGTTCGCCTGCATGGTTCGCCTATGCACTTCGCCACCATG
1 CATTATCATATAGTTCACCTGCACGGTTCGCCTATGCACTTCGCCACCATG
44130709 CA
1 CA
44130711 GGTGAACTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.19, C:0.33, G:0.17, T:0.31
Consensus pattern (51 bp):
CATTATCATATAGTTCACCTGCACGGTTCGCCTATGCACTTCGCCACCATG
Found at i:44131493 original size:20 final size:20
Alignment explanation
Indices: 44131470--44131521 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 20
44131460 AATAAAGTGC
*
44131470 AAATGATTTTAACCAAGTCA
1 AAATCATTTTAACCAAGTCA
* * * * *
44131490 AAATTATTTCAATCATGTTA
1 AAATCATTTTAACCAAGTCA
44131510 AAATCATTTTAA
1 AAATCATTTTAA
44131522 ATGTTTTTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (20 bp):
AAATCATTTTAACCAAGTCA
Found at i:44138274 original size:15 final size:15
Alignment explanation
Indices: 44138256--44138287 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
44138246 TTTAAATCTA
*
44138256 TTAGTTTTATTTAAT
1 TTAGTTTAATTTAAT
44138271 TTAGTTTAATTTAAT
1 TTAGTTTAATTTAAT
44138286 TT
1 TT
44138288 CTACAGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (15 bp):
TTAGTTTAATTTAAT
Found at i:44138411 original size:27 final size:27
Alignment explanation
Indices: 44138371--44138431 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
44138361 TAAAAACGGG
* *
44138371 AATGATCCTGGTCTCAACGATAATCTA
1 AATGGTCCTAGTCTCAACGATAATCTA
*
44138398 AATGGTCCTAGTCTCAATGATAATCTA
1 AATGGTCCTAGTCTCAACGATAATCTA
44138425 AATGGTC
1 AATGGTC
44138432 AGGATGTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (27 bp):
AATGGTCCTAGTCTCAACGATAATCTA
Done.