Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 149 of 230
Found at i:43897437 original size:47 final size:47
Alignment explanation
Indices: 43897365--43897914 Score: 768
Period size: 47 Copynumber: 11.6 Consensus size: 47
43897355 CCCTTCGAGA
* * *
43897365 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
43897412 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
43897459 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
43897506 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
43897553 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
43897600 CTTATCTCACATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
43897647 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
43897694 CTTATCACATATATATATACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
43897743 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
43897790 CTTATTACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTA-T-CACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
43897839 CTTATCACATATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
43897888 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
43897915 TGTTCAAATA
Statistics
Matches: 468, Mismatches: 27, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 332 0.71
48 2 0.00
49 132 0.28
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:43897655 original size:22 final size:22
Alignment explanation
Indices: 43897581--43897655 Score: 57
Period size: 23 Copynumber: 3.3 Consensus size: 22
43897571 GTTCACATTC
43897581 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
43897603 ATCTCACATAT-G-CATGTTC-ACATT
1 A--TCACAT-TGGCCA--TTCGGCCTT
43897627 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
43897650 ATCACA
1 ATCACA
43897656 CATACACATG
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 11 0.28
23 12 0.30
24 12 0.30
25 5 0.12
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:43899429 original size:56 final size:56
Alignment explanation
Indices: 43899362--43899478 Score: 225
Period size: 56 Copynumber: 2.1 Consensus size: 56
43899352 TAGTTTATTA
43899362 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
1 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
*
43899418 CCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTG
1 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
43899474 CCCAT
1 CCCAT
43899479 CATCCCTTGT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (56 bp):
CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
Found at i:43908840 original size:23 final size:23
Alignment explanation
Indices: 43908771--43908848 Score: 104
Period size: 23 Copynumber: 3.4 Consensus size: 23
43908761 GAATAACATT
* *
43908771 AATCACTTTAATATTTAAGAACA
1 AATCACATTAATATTTAAGAATA
43908794 AATCACATTAATATTTAAGAATA
1 AATCACATTAATATTTAAGAATA
*
43908817 AATCTA-ATTAATATTTAAGCATA
1 AATC-ACATTAATATTTAAGAATA
*
43908840 AAGCACATT
1 AATCACATT
43908849 GACTTTTCAC
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.02
23 47 0.96
24 1 0.02
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.35
Consensus pattern (23 bp):
AATCACATTAATATTTAAGAATA
Found at i:43912762 original size:154 final size:150
Alignment explanation
Indices: 43912527--43912826 Score: 431
Period size: 154 Copynumber: 2.0 Consensus size: 150
43912517 ACCCTCCCAT
* *
43912527 TGTGACAAAGCACCCTACACTGTTGATCGTTTGCAGGTCTACTATTAGGAGTTGGTTCTAGAACC
1 TGTGACAAAGCACCCTACACTGTTGATAGTTTGCAGGTCTACTATTAAGAGTTGGTTCTAGAACC
* *
43912592 ATCTTCGTAGGATTTTATATATTTCCTGAAATTTCCTCGAGTACTTCTTTACTCCGAGGTTGGAA
66 ATCTTCGTAGGATTTTATATATTTCCTG----TTCCTCAAGTACTTCTTTACTCCGAGGTTGAAA
**
43912657 GTTGTTCATGTAATTTCCTCTTAC
127 GTCATTCATGTAATTTCCTCTTAC
* * * *
43912681 TGTGACAGAGCACCCTACGCTGTTGATAGTTTGCAGGTCTACTATTAAGAGTTGGTTTTAGAAGC
1 TGTGACAAAGCACCCTACACTGTTGATAGTTTGCAGGTCTACTATTAAGAGTTGGTTCTAGAACC
* * *
43912746 ATTTTCGTATGG-TTTTATATATTTCCTGTTCCTCAAGTACTTCTTTACTCTGAGGTTTAAAGTC
66 ATCTTCGTA-GGATTTTATATATTTCCTGTTCCTCAAGTACTTCTTTACTCCGAGGTTGAAAGTC
43912810 ATTCATGTAATTTCCTC
130 ATTCATGTAATTTCCTC
43912827 AAATAAAGTA
Statistics
Matches: 132, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
150 47 0.36
154 83 0.63
155 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (150 bp):
TGTGACAAAGCACCCTACACTGTTGATAGTTTGCAGGTCTACTATTAAGAGTTGGTTCTAGAACC
ATCTTCGTAGGATTTTATATATTTCCTGTTCCTCAAGTACTTCTTTACTCCGAGGTTGAAAGTCA
TTCATGTAATTTCCTCTTAC
Found at i:43919781 original size:13 final size:13
Alignment explanation
Indices: 43919763--43919789 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
43919753 TTTATAATTT
43919763 TTAATGATTAAAG
1 TTAATGATTAAAG
43919776 TTAATGATTAAAG
1 TTAATGATTAAAG
43919789 T
1 T
43919790 GCCTTTTTGA
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:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (13 bp):
TTAATGATTAAAG
Found at i:43919818 original size:9 final size:9
Alignment explanation
Indices: 43919804--43919923 Score: 57
Period size: 10 Copynumber: 12.7 Consensus size: 9
43919794 TTTTGATGTA
43919804 TTTTATAAT
1 TTTTATAAT
43919813 TTTTATATAT
1 TTTTATA-AT
**
43919823 TTTTACGA-
1 TTTTATAAT
43919831 TTTTATATAT
1 TTTTATA-AT
43919841 TTTTAT-AT
1 TTTTATAAT
*
43919849 TTTTAATAAA
1 TTTT-ATAAT
43919859 TTTTA-AAT
1 TTTTATAAT
*
43919867 GCTTTTTTATAT
1 --TTTTATA-AT
*
43919879 TTTTATTAAAG
1 TTTTA-T-AAT
* *
43919890 TTTAAAAAT
1 TTTTATAAT
*
43919899 TTTTATAAC
1 TTTTATAAT
*
43919908 TTTTACTGAT
1 TTTTA-TAAT
43919918 TTTTAT
1 TTTTAT
43919924 TTTTTAATTT
Statistics
Matches: 82, Mismatches: 17, Indels: 24
0.67 0.14 0.20
Matches are distributed among these distances:
8 13 0.16
9 26 0.32
10 33 0.40
11 7 0.09
12 3 0.04
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:43919823 original size:18 final size:18
Alignment explanation
Indices: 43919802--43919853 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
43919792 CTTTTTGATG
43919802 TATTTTATA-ATTTTTATA
1 TATTTT-TACATTTTTATA
43919820 TATTTTTACGA-TTTTATA
1 TATTTTTAC-ATTTTTATA
*
43919838 TATTTTTATATTTTTA
1 TATTTTTACATTTTTA
43919854 ATAAATTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 3 0.10
18 26 0.87
19 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TATTTTTACATTTTTATA
Found at i:43919824 original size:10 final size:10
Alignment explanation
Indices: 43919804--43919884 Score: 57
Period size: 9 Copynumber: 8.6 Consensus size: 10
43919794 TTTTGATGTA
43919804 TTTTATA-AT
1 TTTTATATAT
43919813 TTTTATATAT
1 TTTTATATAT
**
43919823 TTTTA-CGA-
1 TTTTATATAT
43919831 TTTTATATAT
1 TTTTATATAT
43919841 TTTTATAT-T
1 TTTTATATAT
* *
43919850 TTTAATA-AA
1 TTTTATATAT
* *
43919859 TTTTAAATGCT
1 TTTTATAT-AT
43919870 TTTT-TATAT
1 TTTTATATAT
43919879 TTTTAT
1 TTTTAT
43919885 TAAAGTTTAA
Statistics
Matches: 53, Mismatches: 12, Indels: 13
0.68 0.15 0.17
Matches are distributed among these distances:
8 5 0.09
9 26 0.49
10 18 0.34
11 4 0.08
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTATATAT
Found at i:43920203 original size:95 final size:92
Alignment explanation
Indices: 43920074--43920245 Score: 220
Period size: 95 Copynumber: 1.8 Consensus size: 92
43920064 AAACAAAAAC
* * *
43920074 TTAATTGTTTTTTTTTTAAAGTTTGATAGTATTTTT-AGTGTATTTTAACAATTCAAGTACTCAA
1 TTAATTGTTTTTTTTTAAAAGTTTGATAATATTTTTGA-TATATTTTAACAATTCAAGTACTCAA
*
43920138 TTGAGTGCAAAAAGACAACAACAGTGAT
65 TTGAATGCAAAAAGACAACAACAGTGAT
* * **
43920166 TTAATTGCTTTTTTTTTGAAAAAGTTTGATAATATTTTTGATATATTTTGACAGTTTGAGTACTC
1 TTAATTG-TTTTTTTTT--AAAAGTTTGATAATATTTTTGATATATTTTAACAATTCAAGTACTC
*
43920231 AATTGAATGTAAAAA
63 AATTGAATGCAAAAA
43920246 AACCATAATG
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
92 7 0.10
93 9 0.13
95 50 0.75
96 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (92 bp):
TTAATTGTTTTTTTTTAAAAGTTTGATAATATTTTTGATATATTTTAACAATTCAAGTACTCAAT
TGAATGCAAAAAGACAACAACAGTGAT
Found at i:43924911 original size:19 final size:19
Alignment explanation
Indices: 43924887--43924923 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
43924877 TTACTTTCTA
43924887 TTTTT-GTTGATTTTCTTGC
1 TTTTTGGTTG-TTTTCTTGC
43924906 TTTTTGGTTGTTTTCTTG
1 TTTTTGGTTGTTTTCTTG
43924924 TATGGTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.03, C:0.08, G:0.19, T:0.70
Consensus pattern (19 bp):
TTTTTGGTTGTTTTCTTGC
Found at i:43926658 original size:18 final size:17
Alignment explanation
Indices: 43926632--43926665 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
43926622 TTTTGTTATA
43926632 TTTAATTTTCGATATGTC
1 TTTAATTTT-GATATGTC
*
43926650 TTTATTTTTGATATGT
1 TTTAATTTTGATATGT
43926666 TTCATTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.62
Consensus pattern (17 bp):
TTTAATTTTGATATGTC
Found at i:43937939 original size:51 final size:50
Alignment explanation
Indices: 43937804--43938098 Score: 317
Period size: 51 Copynumber: 5.8 Consensus size: 50
43937794 ACTTTTATCA
* * *
43937804 TTCGATACACGTAGTAACTTTCACATAGTACTACACACGTGATCAAG-TT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* *
43937853 TTACGGTTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
1 TT-CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * *
43937905 TTCGATACACATAGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
* * *
43937955 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACATGACCAAAGCTT
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * * * * *
43938007 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
* *
43938057 TATCGATACACGTAGTAGCCTTCACACAGTACTATACACGTG
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
43938099 TTCATCGATA
Statistics
Matches: 201, Mismatches: 36, Indels: 16
0.79 0.14 0.06
Matches are distributed among these distances:
49 6 0.03
50 42 0.21
51 145 0.72
52 6 0.03
53 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (50 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
Found at i:43937993 original size:102 final size:102
Alignment explanation
Indices: 43937804--43938098 Score: 430
Period size: 102 Copynumber: 2.9 Consensus size: 102
43937794 ACTTTTATCA
* * * * * * *** *
43937804 TTCGATACACGTAGTAACTTTCACATAGTACTACACACGTGATCAAGTTTTA-CGGTTCACGTAG
1 TTCGATACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
*
43937868 TAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
66 TAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
43937905 TTCGATACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
1 TTCGATACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
*
43937970 TAGCCTTCACACAGTACTACACACATGACCAAAGCTT
66 TAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
* * * *
43938007 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATACACGTAG
1 TTCGATACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
*
43938072 TAGCCTTCACACAGTACTATACACGTG
66 TAGCCTTCACACAGTACTACACACGTG
43938099 TTCATCGATA
Statistics
Matches: 175, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
101 43 0.25
102 132 0.75
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (102 bp):
TTCGATACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
TAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
Found at i:43938079 original size:153 final size:151
Alignment explanation
Indices: 43937805--43938090 Score: 369
Period size: 153 Copynumber: 1.9 Consensus size: 151
43937795 CTTTTATCAT
* * * * * * *
43937805 TCGATACACGTAGTAACTTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAGTA
1 TCGATACACGTAGTAACCTTCACACAGTACTACACACATGACCAAGTTCTACGGTACACATAGTA
**
43937870 GCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGATACACATAGTAGCCTTCACTTAGTA
66 GCCTTCACATAGTACTACACACGTGACCAAA-CTTTTCGATACACATAGTAGCCTTCACACAGTA
43937935 CTACACATGTGACCATCATTTA
130 CTACACATGTGACCATCATTTA
* * *
43937957 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACATGACCAAAGCTTCT-CGGTACACATTG
1 TCGATACACGTAGTAACCTTCACACAGTACTACACACATGACC-AAG-TTCTACGGTACACATAG
* * * *
43938021 TAGCCTTCACTTAGTACTACACATGTGACC-ATCATTTATCGATACACGTAGTAGCCTTCACACA
64 TAGCCTTCACATAGTACTACACACGTGACCAAAC-TTT-TCGATACACATAGTAGCCTTCACACA
43938085 GTACTA
127 GTACTA
43938091 TACACGTGTT
Statistics
Matches: 114, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
151 1 0.01
152 41 0.36
153 69 0.61
154 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (151 bp):
TCGATACACGTAGTAACCTTCACACAGTACTACACACATGACCAAGTTCTACGGTACACATAGTA
GCCTTCACATAGTACTACACACGTGACCAAACTTTTCGATACACATAGTAGCCTTCACACAGTAC
TACACATGTGACCATCATTTA
Found at i:43939260 original size:249 final size:249
Alignment explanation
Indices: 43938819--43939306 Score: 895
Period size: 249 Copynumber: 2.0 Consensus size: 249
43938809 TTCCTAGCTT
* *
43938819 CATATTCTACCATAAAACAGCAAAATAAACATATTTCACCTATGGGTATTTTTCCAAATGTGAAC
1 CATATTCTACCATAAAACAGCAAAATAAAAACATTTCACCTATGGGTATTTTTCCAAATGTGAAC
* *
43938884 CCTAACATGAATTGATGGTAGAAATAGCTAAACCGAGCTTCGAGGATCTCAAAAATGCAAAGAAC
66 CCTAACATGAATTAATGGTAGAAATAGCTAAACCGAGCTACGAGGATCTCAAAAATGCAAAGAAC
* *
43938949 ATTAAAAACGGGGCTAAGATGCACTTACTATGAGCTTGAGAAAGTGAAGAAACCCTAGCTATGGT
131 ATTAAAAACGGGGCTAAGATGCACTTACTATGAGCTTAAGAAAGTGAAGAAACCCCAGCTATGGT
43939014 GTCTTCCAAAATTTGGCAGCAACTAATGAAGATGAACACCATTTCATATTCTAC
196 GTCTTCCAAAATTTGGCAGCAACTAATGAAGATGAACACCATTTCATATTCTAC
43939068 CATATTCTACCATAAAACAGCAAAATAAAAACATTTCACCTATGGGTATTTTTCCAAATGTGAAC
1 CATATTCTACCATAAAACAGCAAAATAAAAACATTTCACCTATGGGTATTTTTCCAAATGTGAAC
*
43939133 CCTAACATGAATTAATGGTAGAAATAGCTAAACCGAGCTACGGGGATCTCAAAAATGCAAAGAAC
66 CCTAACATGAATTAATGGTAGAAATAGCTAAACCGAGCTACGAGGATCTCAAAAATGCAAAGAAC
43939198 ATTAAAAACGGGGCTAAGATGCACTTACTATGAGCTTAAGAAAGTGAAGAAACCCCAGCTATGGT
131 ATTAAAAACGGGGCTAAGATGCACTTACTATGAGCTTAAGAAAGTGAAGAAACCCCAGCTATGGT
* *
43939263 GTCTTCCAAAATTTGGCAGCAACTAATGAAGATTAACATCATTT
196 GTCTTCCAAAATTTGGCAGCAACTAATGAAGATGAACACCATTT
43939307 TTTCATCTTT
Statistics
Matches: 230, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
249 230 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (249 bp):
CATATTCTACCATAAAACAGCAAAATAAAAACATTTCACCTATGGGTATTTTTCCAAATGTGAAC
CCTAACATGAATTAATGGTAGAAATAGCTAAACCGAGCTACGAGGATCTCAAAAATGCAAAGAAC
ATTAAAAACGGGGCTAAGATGCACTTACTATGAGCTTAAGAAAGTGAAGAAACCCCAGCTATGGT
GTCTTCCAAAATTTGGCAGCAACTAATGAAGATGAACACCATTTCATATTCTAC
Found at i:43942995 original size:40 final size:40
Alignment explanation
Indices: 43942791--43942995 Score: 236
Period size: 40 Copynumber: 5.1 Consensus size: 40
43942781 CGAAATTTAA
** *
43942791 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
43942831 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
43942871 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
43942911 CCGAATTTAGTAACCCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
43942951 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
43942991 CCGGA
1 CCGGA
43942996 CATCATTCAA
Statistics
Matches: 143, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
39 4 0.03
40 129 0.90
41 10 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:43947925 original size:51 final size:51
Alignment explanation
Indices: 43947862--43948055 Score: 243
Period size: 51 Copynumber: 3.8 Consensus size: 51
43947852 CCAGTTCACA
* * *
43947862 TAGTAGCTTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACACG
* * ** *
43947913 TAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCTGGTATGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGGTACACG
* *
43947964 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGGTACACG
43948014 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATC
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATC
43948056 ACTTTCACAT
Statistics
Matches: 119, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
49 4 0.03
50 41 0.34
51 71 0.60
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACACG
Found at i:43948028 original size:101 final size:102
Alignment explanation
Indices: 43947860--43948044 Score: 320
Period size: 101 Copynumber: 1.8 Consensus size: 102
43947850 TACCAGTTCA
* *
43947860 CATAGTAGCTTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
43947925 CATAGTACTACACACGTGATCGAAGCTATCTGGTATG
66 CATAGTACTACACACGTGATCGAAGCTATCTGGTATG
*
43947962 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCCGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTGC
43948025 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
43948045 CCATCACTAT
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
101 41 0.52
102 34 0.43
103 4 0.05
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATCTGGTATG
Found at i:43948067 original size:101 final size:103
Alignment explanation
Indices: 43947856--43948078 Score: 287
Period size: 101 Copynumber: 2.2 Consensus size: 103
43947846 ATGATACCAG
* *
43947856 TTCACATAGTAGCTTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCC
1 TTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCC
* **
43947921 TGCACATAGTACTACACACGTGATCGAAGCTATCTGGT
66 TGCACATAGTACTACACACGTGATCCAAGCTATCTACT
* * *
43947959 AT-GCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCCGGTACACGTAGTAGC
1 TTCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGC
43948021 CTGCACATAGTACTACACACGTGA-CCATCA-CTATC-ACT
65 CTGCACATAGTACTACACACGTGATCCA--AGCTATCTACT
* *
43948059 TTCACATAGTGGCCTACACA
1 TTCACATAGTAGCCTGCACA
43948079 CAGTCCATGC
Statistics
Matches: 104, Mismatches: 12, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
100 4 0.04
101 60 0.58
102 35 0.34
103 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (103 bp):
TTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCC
TGCACATAGTACTACACACGTGATCCAAGCTATCTACT
Found at i:43963174 original size:48 final size:49
Alignment explanation
Indices: 43963077--43963175 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
43963067 AGCACAATGG
*
43963077 AGGTACCATTCTTAACAAGACTAGAGGACAAGCAAAATGGGGACAAGGT
1 AGGTACCATTCTTAACAAGACTAGAGGACAAGCAAAAGGGGGACAAGGT
43963126 AGGTACCATTCTTAACAAGACTAGA-GACAAGCAAAAGGGGGACAAGGT
1 AGGTACCATTCTTAACAAGACTAGAGGACAAGCAAAAGGGGGACAAGGT
43963174 AG
1 AG
43963176 ATTTTATAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 24 0.49
49 25 0.51
ACGTcount: A:0.41, C:0.16, G:0.27, T:0.15
Consensus pattern (49 bp):
AGGTACCATTCTTAACAAGACTAGAGGACAAGCAAAAGGGGGACAAGGT
Found at i:43968158 original size:39 final size:38
Alignment explanation
Indices: 43968061--43968176 Score: 153
Period size: 38 Copynumber: 3.0 Consensus size: 38
43968051 TATTATAGTT
*
43968061 TGAGTCTTTAATTATGTCTTAATTTGAACATTATTAATA
1 TGAGT-TTTAATTATGTCATAATTTGAACATTATTAATA
*
43968100 TGAGTTTTAATTATATCATAATTTGAACATTATTAATA
1 TGAGTTTTAATTATGTCATAATTTGAACATTATTAATA
* * *
43968138 TGGGTTTTTAATTATGTCATAGTTCGAACATGT-TTAATA
1 TGAG-TTTTAATTATGTCATAATTTGAACAT-TATTAATA
43968177 CTTGTTTTCA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
38 34 0.49
39 34 0.49
40 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.47
Consensus pattern (38 bp):
TGAGTTTTAATTATGTCATAATTTGAACATTATTAATA
Found at i:43974515 original size:24 final size:24
Alignment explanation
Indices: 43974488--43974535 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
43974478 ACTCTGTTAG
43974488 TTGTCA-TAGTCGAGTTATAGTCTT
1 TTGTCATTA-TCGAGTTATAGTCTT
*
43974512 TTGTCATTATTGAGTTATAGTCTT
1 TTGTCATTATCGAGTTATAGTCTT
43974536 ACACCTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.21, C:0.10, G:0.19, T:0.50
Consensus pattern (24 bp):
TTGTCATTATCGAGTTATAGTCTT
Found at i:43978434 original size:29 final size:29
Alignment explanation
Indices: 43978401--43978458 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
43978391 AAATTAAGTA
*
43978401 TAAATTCAAGATATTTTCCATTAAACCAG
1 TAAATTCAAGAAATTTTCCATTAAACCAG
43978430 TAAATTCAAGAAATTTTCCATTAAACCAG
1 TAAATTCAAGAAATTTTCCATTAAACCAG
43978459 CCCCCAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (29 bp):
TAAATTCAAGAAATTTTCCATTAAACCAG
Found at i:43981081 original size:25 final size:24
Alignment explanation
Indices: 43981047--43981131 Score: 107
Period size: 25 Copynumber: 3.5 Consensus size: 24
43981037 TCCTATACAT
43981047 GTATGCTCATACTAGCTCTGAATCG
1 GTATGCTCATACTAGCTCT-AATCG
43981072 GTATGCTCATACTAGCTCTAAATCG
1 GTATGCTCATACTAGCTCT-AATCG
* * * *
43981097 GTATGCTCTTACGAGCTGTAAACG
1 GTATGCTCATACTAGCTCTAATCG
*
43981121 GTAAGCTCATA
1 GTATGCTCATA
43981132 TGAGCTGAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 13 0.25
25 40 0.75
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (24 bp):
GTATGCTCATACTAGCTCTAATCG
Found at i:43981152 original size:25 final size:24
Alignment explanation
Indices: 43981067--43981165 Score: 101
Period size: 25 Copynumber: 4.0 Consensus size: 24
43981057 ACTAGCTCTG
* * *
43981067 AATCGGTATGCTCATACTAGCTCTA
1 AATCGGTAAGCTCATACGAGCT-GA
* *
43981092 AATCGGTATGCTCTTACGAGCTGTA
1 AATCGGTAAGCTCATACGAGCTG-A
*
43981117 AA-CGGTAAGCTCATATGAGCTGA
1 AATCGGTAAGCTCATACGAGCTGA
*
43981140 ATATCGGTAAGCTCATGCGAGCTGA
1 A-ATCGGTAAGCTCATACGAGCTGA
43981165 A
1 A
43981166 GATCTATAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
23 2 0.03
24 18 0.29
25 43 0.68
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (24 bp):
AATCGGTAAGCTCATACGAGCTGA
Found at i:43981175 original size:25 final size:25
Alignment explanation
Indices: 43981101--43981178 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 25
43981091 AAATCGGTAT
* *
43981101 GCTCTTACGAGCTGTAA-A-CGGTAA
1 GCTCATACGAGCTG-AAGATCGATAA
* * *
43981125 GCTCATATGAGCTGAATATCGGTAA
1 GCTCATACGAGCTGAAGATCGATAA
* *
43981150 GCTCATGCGAGCTGAAGATCTATAA
1 GCTCATACGAGCTGAAGATCGATAA
43981175 GCTC
1 GCTC
43981179 TCTTGATCTA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
23 2 0.04
24 13 0.29
25 30 0.67
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (25 bp):
GCTCATACGAGCTGAAGATCGATAA
Found at i:43989630 original size:28 final size:28
Alignment explanation
Indices: 43989499--43989653 Score: 136
Period size: 28 Copynumber: 5.6 Consensus size: 28
43989489 AACATGCCAG
* * * *
43989499 GAAAAAGAAAGCCTTTGTAGTGATCTAA
1 GAAAAAGGAAGCCTTTGTGGCGATCTAT
* *
43989527 GAAAAAGGGAGCCTTTGTGGCGATCTAC
1 GAAAAAGGAAGCCTTTGTGGCGATCTAT
*
43989555 GAAAAATGG--GCCTTTGTGGTGA-CTTAT
1 GAAAAA-GGAAGCCTTTGTGGCGATC-TAT
* ** * *
43989582 AAAAAAGGAAGTGTTTGTGGCAACCTAT
1 GAAAAAGGAAGCCTTTGTGGCGATCTAT
*
43989610 GAAAAAGGAAGCCTTTGTGGCAATCTAT
1 GAAAAAGGAAGCCTTTGTGGCGATCTAT
* *
43989638 GAAAATGAAAGCCTTT
1 GAAAAAGGAAGCCTTT
43989654 TATGGTGATT
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
26 3 0.03
27 19 0.18
28 79 0.76
29 3 0.03
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (28 bp):
GAAAAAGGAAGCCTTTGTGGCGATCTAT
Found at i:43996543 original size:29 final size:29
Alignment explanation
Indices: 43996484--43996868 Score: 303
Period size: 29 Copynumber: 13.2 Consensus size: 29
43996474 GCACCGATTA
* * *
43996484 ATGAAAA-GGATGGTGACGACCATTGAAT
1 ATGAAAAGGGATGGTGATGACCATCGACT
* * ** *
43996512 ATGAAAATGAATGGTTTTGACTATCGACT
1 ATGAAAAGGGATGGTGATGACCATCGACT
*
43996541 ATGAAAAGGGATGGTGATGACCATCAACT
1 ATGAAAAGGGATGGTGATGACCATCGACT
*
43996570 ATGAAAAGGGATGGTGATGACCATCGAAT
1 ATGAAAAGGGATGGTGATGACCATCGACT
* * *
43996599 ATGAAAAGGGATAGT-TTCGACTATCGACT
1 ATGAAAAGGGATGGTGAT-GACCATCGACT
* * *
43996628 ATGAAAAGGGATGGTGACGACCATTGAAT
1 ATGAAAAGGGATGGTGATGACCATCGACT
* ** *
43996657 ATGAAAAGGGATAGTTTTGACTATCGACT
1 ATGAAAAGGGATGGTGATGACCATCGACT
* * *
43996686 ATGAAAAGGGATAGTGATGACCATCAAAT
1 ATGAAAAGGGATGGTGATGACCATCGACT
* * ** * *
43996715 AT-AAAATGGGATAGCT-TTTTCTATTGACT
1 ATGAAAA-GGGAT-GGTGATGACCATCGACT
* *
43996744 ATGAAAAGGGATGGCGATGACCATCAACT
1 ATGAAAAGGGATGGTGATGACCATCGACT
* * *
43996773 ATGAAAACGGATTGTGATGACCATCGATT
1 ATGAAAAGGGATGGTGATGACCATCGACT
* * * *
43996802 AATGAAAAAGGCTGGT-TTCGACCATCGAAT
1 -ATGAAAAGGGATGGTGAT-GACCATCGACT
* * * *
43996832 ATGCAAAAGGGATGGTGACGAACAACGAAT
1 ATG-AAAAGGGATGGTGATGACCATCGACT
43996862 ATGAAAA
1 ATGAAAA
43996869 TGAATGGTTT
Statistics
Matches: 276, Mismatches: 70, Indels: 21
0.75 0.19 0.06
Matches are distributed among these distances:
28 13 0.05
29 214 0.78
30 49 0.18
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGATGACCATCGACT
Found at i:44000723 original size:17 final size:18
Alignment explanation
Indices: 44000693--44000726 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
44000683 AGCAACTCAT
44000693 TTATTAATCTAAGATGAG
1 TTATTAATCTAAGATGAG
44000711 TTATTAA-CTAAGATGA
1 TTATTAATCTAAGATGA
44000727 ACTCAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (18 bp):
TTATTAATCTAAGATGAG
Found at i:44004023 original size:30 final size:30
Alignment explanation
Indices: 44003989--44004111 Score: 142
Period size: 29 Copynumber: 4.2 Consensus size: 30
44003979 AATAACATTA
*
44003989 ACCATCGATTAATGAAAAGGGATGGTGACG
1 ACCATCAATTAATGAAAAGGGATGGTGACG
* * *
44004019 ACCATCAACT-ATGAAAAGGGGTGGCGACG
1 ACCATCAATTAATGAAAAGGGATGGTGACG
***
44004048 ACCATCAATTAATGAAAAGGGATGGTTTTG
1 ACCATCAATTAATGAAAAGGGATGGTGACG
* **
44004078 ACCATCGA-GGATGAAAAGGGATGGTGACG
1 ACCATCAATTAATGAAAAGGGATGGTGACG
44004107 ACCAT
1 ACCAT
44004112 TGTTTAGTAC
Statistics
Matches: 76, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
29 47 0.62
30 29 0.38
ACGTcount: A:0.36, C:0.15, G:0.29, T:0.20
Consensus pattern (30 bp):
ACCATCAATTAATGAAAAGGGATGGTGACG
Found at i:44004081 original size:59 final size:59
Alignment explanation
Indices: 44003989--44004111 Score: 165
Period size: 59 Copynumber: 2.1 Consensus size: 59
44003979 AATAACATTA
* * *
44003989 ACCATCGATTAATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGGTGGCGACG
1 ACCATCAATTAATGAAAAGGGATGGTGACGACCATCAACGATGAAAAGGGATGGCGACG
*** * * *
44004048 ACCATCAATTAATGAAAAGGGATGGTTTTGACCATCGAGGATGAAAAGGGATGGTGACG
1 ACCATCAATTAATGAAAAGGGATGGTGACGACCATCAACGATGAAAAGGGATGGCGACG
44004107 ACCAT
1 ACCAT
44004112 TGTTTAGTAC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.36, C:0.15, G:0.29, T:0.20
Consensus pattern (59 bp):
ACCATCAATTAATGAAAAGGGATGGTGACGACCATCAACGATGAAAAGGGATGGCGACG
Found at i:44009442 original size:40 final size:39
Alignment explanation
Indices: 44009398--44009519 Score: 145
Period size: 40 Copynumber: 3.1 Consensus size: 39
44009388 ATATTATTTA
* * *
44009398 ATTCATGATTACCAAAGTACAAACAGGGGCATGTACGTGC
1 ATTCAGGA-TACCAAAGTACAAACAGGGGCACGTATGTGC
* *
44009438 ATTCAGGGATGCCAAAGTACAAACAGGGGCACATATGTGC
1 ATTCA-GGATACCAAAGTACAAACAGGGGCACGTATGTGC
* **
44009478 ATTCAGGGGTACTGAAGTACAAACAGGGGCACGTATGTGC
1 ATTCA-GGATACCAAAGTACAAACAGGGGCACGTATGTGC
44009518 AT
1 AT
44009520 CCATTGAATA
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 69 0.97
41 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (39 bp):
ATTCAGGATACCAAAGTACAAACAGGGGCACGTATGTGC
Found at i:44012839 original size:16 final size:18
Alignment explanation
Indices: 44012805--44012859 Score: 64
Period size: 16 Copynumber: 3.2 Consensus size: 18
44012795 CAAAAGGAGA
44012805 TTTAGAGGTTTTAAGGAT
1 TTTAGAGGTTTTAAGGAT
44012823 TTTAG-GGTTTT-AGGAT
1 TTTAGAGGTTTTAAGGAT
44012839 TTTA-AGAG-TTTAGAGGAT
1 TTTAGAG-GTTTTA-AGGAT
44012857 TTT
1 TTT
44012860 GAAAGAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 13 0.39
17 7 0.21
18 13 0.39
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.47
Consensus pattern (18 bp):
TTTAGAGGTTTTAAGGAT
Found at i:44020187 original size:34 final size:34
Alignment explanation
Indices: 44020144--44020211 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
44020134 AAAAGTACCG
44020144 TATGGACAAGTAAAGGTTGTTTTATGTTGGTCAT
1 TATGGACAAGTAAAGGTTGTTTTATGTTGGTCAT
44020178 TATGGACAAGTAAAGGTTGTTTTATGTTGGTCAT
1 TATGGACAAGTAAAGGTTGTTTTATGTTGGTCAT
44020212 CCGGGGCTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.41
Consensus pattern (34 bp):
TATGGACAAGTAAAGGTTGTTTTATGTTGGTCAT
Found at i:44023528 original size:44 final size:44
Alignment explanation
Indices: 44023465--44023553 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
44023455 CTTGTAACGC
* *
44023465 ATAGGTTTTTGCAAGTGTACACAGTCGTTATCAATTAATAAGTA
1 ATAGGTTTGTGCAAGTGTACACAGTCGTTATCAACTAATAAGTA
44023509 ATAGGTTTGTGCAAGTGTACACAGTCGTTATCAACTAATAAGTA
1 ATAGGTTTGTGCAAGTGTACACAGTCGTTATCAACTAATAAGTA
44023553 A
1 A
44023554 GTATCAAGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (44 bp):
ATAGGTTTGTGCAAGTGTACACAGTCGTTATCAACTAATAAGTA
Found at i:44027812 original size:24 final size:24
Alignment explanation
Indices: 44027781--44027837 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
44027771 CATCGATTTC
44027781 CTCTCCATCTCAAATTCGGGTGAT
1 CTCTCCATCTCAAATTCGGGTGAT
*
44027805 CTCTCCATCTCAAATTCGGTTGAT
1 CTCTCCATCTCAAATTCGGGTGAT
44027829 CTCTCCATC
1 CTCTCCATC
44027838 CAGGATTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.35
Consensus pattern (24 bp):
CTCTCCATCTCAAATTCGGGTGAT
Found at i:44029407 original size:27 final size:27
Alignment explanation
Indices: 44029377--44029507 Score: 147
Period size: 27 Copynumber: 4.9 Consensus size: 27
44029367 TTTCATCTCC
** *
44029377 TAGGGGTATAACAATCATTTTACCCAA
1 TAGGGGTATTTCAATCATTTTACCCTA
**
44029404 TAGGGGTATTTCGGTCATTTT-CCCTA
1 TAGGGGTATTTCAATCATTTTACCCTA
*
44029430 TGGGGGTATTTCAATCATTTTACCCTA
1 TAGGGGTATTTCAATCATTTTACCCTA
***
44029457 TAGGGGTATTTTGGTCATTTTACCCTA
1 TAGGGGTATTTCAATCATTTTACCCTA
* **
44029484 TGGGGGTATTTCGGTCATTTTACC
1 TAGGGGTATTTCAATCATTTTACC
44029508 TATTTTAGGG
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 22 0.25
27 67 0.75
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (27 bp):
TAGGGGTATTTCAATCATTTTACCCTA
Found at i:44029510 original size:53 final size:53
Alignment explanation
Indices: 44029379--44029507 Score: 195
Period size: 53 Copynumber: 2.4 Consensus size: 53
44029369 TCATCTCCTA
** *
44029379 GGGGTATAACAATCATTTTACCCAATAGGGGTATTTCGGTCATTTTCCCTATG
1 GGGGTATTTCAATCATTTTACCCTATAGGGGTATTTCGGTCATTTTCCCTATG
*
44029432 GGGGTATTTCAATCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATG
1 GGGGTATTTCAATCATTTTACCCTATAGGGGTATTTCGGTCATTTT-CCCTATG
**
44029486 GGGGTATTTCGGTCATTTTACC
1 GGGGTATTTCAATCATTTTACC
44029508 TATTTTAGGG
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
53 42 0.61
54 27 0.39
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.40
Consensus pattern (53 bp):
GGGGTATTTCAATCATTTTACCCTATAGGGGTATTTCGGTCATTTTCCCTATG
Found at i:44043541 original size:39 final size:39
Alignment explanation
Indices: 44043457--44043602 Score: 133
Period size: 38 Copynumber: 3.8 Consensus size: 39
44043447 TAAACACATG
* * *
44043457 TATTAAAGATGTCTAAACTAGGACAT-ATTTAAAA-CAT
1 TATTAAAGATGTCTAAACTATGACATAATTAAAAACCCT
44043494 ATATTTAAA-ATGTCCTAAACTATGACATAATTAAAAACCCT
1 -TA-TTAAAGATGT-CTAAACTATGACATAATTAAAAACCCT
* * * *
44043535 TATTAAAGATGT-TAGATTATGACATAATT-AAAACTCA
1 TATTAAAGATGTCTAAACTATGACATAATTAAAAACCCT
* *
44043572 TATTAATGATGT-TCAAATTATGACATAATTA
1 TATTAAAGATGTCT-AAACTATGACATAATTA
44043603 TAGACTTAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
37 18 0.20
38 36 0.39
39 23 0.25
40 13 0.14
41 2 0.02
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.35
Consensus pattern (39 bp):
TATTAAAGATGTCTAAACTATGACATAATTAAAAACCCT
Found at i:44046184 original size:112 final size:112
Alignment explanation
Indices: 44045987--44046215 Score: 386
Period size: 112 Copynumber: 2.0 Consensus size: 112
44045977 GCATAACCAA
* * *
44045987 CCACTCGTACAAACCGTGCTTTGTCTTAAATTTCATTTTCCACTAATCTCCTTCTCGCATTCATA
1 CCACTCGTACAAACCGTGCTTTGTCTTAAATGTCATTTTCCACTAATCTCCTTCCCGCATTCAGA
*
44046052 TCTCATGATAACCACTTTTGAGATCTATTTTGGAGAAGAGTTGGGCT
66 TCTCATGATAACCACTTTTGAGATCTATTTTGGAGAAGAGTTGGACT
* *
44046099 CCACTCGTACAAACTGTGCTTTGTCTTAAATGTCATTTTCCACTAATCTCCTTCCCGCATTCGGA
1 CCACTCGTACAAACCGTGCTTTGTCTTAAATGTCATTTTCCACTAATCTCCTTCCCGCATTCAGA
**
44046164 TCTGGTGATAACCACTTTTGAGATCTATTTTGGAGAAGAGTTGGACT
66 TCTCATGATAACCACTTTTGAGATCTATTTTGGAGAAGAGTTGGACT
44046211 CCACT
1 CCACT
44046216 TAGTTCATCC
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
112 109 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (112 bp):
CCACTCGTACAAACCGTGCTTTGTCTTAAATGTCATTTTCCACTAATCTCCTTCCCGCATTCAGA
TCTCATGATAACCACTTTTGAGATCTATTTTGGAGAAGAGTTGGACT
Found at i:44046797 original size:22 final size:21
Alignment explanation
Indices: 44046761--44046820 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 21
44046751 TCTCTTTATT
*
44046761 CTTTTCCCTTGTTTTTACCTCTTG
1 CTTTT-CCTTTTTTTTA-CT-TTG
*
44046785 C-TTTCCTTTTTTTTAGTTTG
1 CTTTTCCTTTTTTTTACTTTG
44046805 CTTTTCCTTTTCTTTT
1 CTTTTCCTTTT-TTTT
44046821 TCAATCTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 4 0.12
21 10 0.31
22 14 0.44
23 3 0.09
24 1 0.03
ACGTcount: A:0.03, C:0.23, G:0.07, T:0.67
Consensus pattern (21 bp):
CTTTTCCTTTTTTTTACTTTG
Found at i:44050041 original size:38 final size:39
Alignment explanation
Indices: 44049994--44050082 Score: 121
Period size: 38 Copynumber: 2.3 Consensus size: 39
44049984 TGTCCTAAAC
* *
44049994 TATGACATAATTAAAAACCCTTATTAAA-GATG-TCATAT
1 TATGACATAATTAAAAACCCATA-TAAATGATGTTCAAAT
*
44050032 TATGACATAATT-AAAACTCATATAAATGATGTTCAAAT
1 TATGACATAATTAAAAACCCATATAAATGATGTTCAAAT
44050070 TATGACATAATTA
1 TATGACATAATTA
44050083 TAGACTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
36 4 0.09
37 12 0.27
38 29 0.64
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (39 bp):
TATGACATAATTAAAAACCCATATAAATGATGTTCAAAT
Found at i:44052564 original size:21 final size:21
Alignment explanation
Indices: 44052538--44052581 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
44052528 AAGATTTTCC
44052538 ATAAAACTCTATTTACAAGTT
1 ATAAAACTCTATTTACAAGTT
* * *
44052559 ATAAAACTTTGTTTTCAAGTT
1 ATAAAACTCTATTTACAAGTT
44052580 AT
1 AT
44052582 GTTTTAAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (21 bp):
ATAAAACTCTATTTACAAGTT
Found at i:44057529 original size:17 final size:17
Alignment explanation
Indices: 44057509--44057543 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
44057499 TGATTCAATA
*
44057509 TCTAGCGTTTCTTGGTT
1 TCTAGAGTTTCTTGGTT
*
44057526 TCTAGAGTTTCTTTGTT
1 TCTAGAGTTTCTTGGTT
44057543 T
1 T
44057544 AGGCCTAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.14, G:0.20, T:0.57
Consensus pattern (17 bp):
TCTAGAGTTTCTTGGTT
Found at i:44058460 original size:31 final size:31
Alignment explanation
Indices: 44058419--44058491 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
44058409 GTTTCAAAAA
* * *
44058419 TTTTCATTTAAATCATTAAACTATT-TACAAT
1 TTTTTATTTAAATCACTAAACTATTCGA-AAT
* *
44058450 TTTTTATTTAAGTCACTAAATTATTCGAAAT
1 TTTTTATTTAAATCACTAAACTATTCGAAAT
44058481 TTTTTATTTAA
1 TTTTTATTTAA
44058492 GTTGCGCATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
31 35 0.97
32 1 0.03
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.52
Consensus pattern (31 bp):
TTTTTATTTAAATCACTAAACTATTCGAAAT
Found at i:44061623 original size:9 final size:9
Alignment explanation
Indices: 44061609--44061645 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
44061599 TATAGTTTGA
44061609 TATTCGAAT
1 TATTCGAAT
44061618 TATTCGAAT
1 TATTCGAAT
*
44061627 TATTCGAGT
1 TATTCGAAT
44061636 TATTCGAAT
1 TATTCGAAT
44061645 T
1 T
44061646 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:44064808 original size:24 final size:26
Alignment explanation
Indices: 44064781--44064831 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 26
44064771 ATATACATAT
*
44064781 ACATGTAGATATTT-ATA-TTTTATA
1 ACATATAGATATTTCATATTTTTATA
* *
44064805 ACATATATATTTTTCATATTTTTATA
1 ACATATAGATATTTCATATTTTTATA
44064831 A
1 A
44064832 TTTTATGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 11 0.50
25 3 0.14
26 8 0.36
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (26 bp):
ACATATAGATATTTCATATTTTTATA
Found at i:44065398 original size:108 final size:108
Alignment explanation
Indices: 44065111--44065517 Score: 527
Period size: 108 Copynumber: 3.8 Consensus size: 108
44065101 TCTAATTGAT
* * * * *
44065111 GCAATATTTAGCGTTTGGAAACTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGGTCTTTCTCGT
1 GCAATGTTTTGCGTTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGT
** * *
44065176 TCAACCAAACGGCTTAATATCTTTTTCAAAAATTT-CAAAATAAG
66 TCAACCAAATAGCTAAATAT-TCTTTC-AAAATTTACAAAATAAG
* * * *
44065220 GTAATGTTCTACGTTTGGAAATTCGAGAAAACATGCCCTAAAGTGCTGGGTGTCGATTTTTCTCG
1 GCAATGTTTTGCGTTTGGAAATTCGAG-AAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCG
44065285 TTCAACCAAATAGCTAAATATTCTTTCAAAATTTACAAAATAAG
65 TTCAACCAAATAGCTAAATATTCTTTCAAAATTTACAAAATAAG
* * *
44065329 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGTTGGGTGTCGATTTTTCTCGT
1 GCAATGTTTTGCGTTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGT
*
44065394 TCAACCAAATAGCTAAATATCCTTTCAAAA-TTACAAAATAAG
66 TCAACCAAATAGCTAAATATTCTTTCAAAATTTACAAAATAAG
* * * * *
44065436 GCAATG-TTTGTGTTTGGAAATTTGAGGAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTCTCGT
1 GCAATGTTTTGCGTTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGT
* * *
44065498 TTAACCAAATTGCCAAATAT
66 TCAACCAAATAGCTAAATAT
44065518 CCTCTTGAAT
Statistics
Matches: 268, Mismatches: 28, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
104 25 0.09
106 44 0.16
107 18 0.07
108 70 0.26
109 59 0.22
110 52 0.19
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (108 bp):
GCAATGTTTTGCGTTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGT
TCAACCAAATAGCTAAATATTCTTTCAAAATTTACAAAATAAG
Found at i:44077342 original size:46 final size:43
Alignment explanation
Indices: 44077246--44077496 Score: 176
Period size: 41 Copynumber: 5.8 Consensus size: 43
44077236 TTAAAATAAA
* * * *
44077246 AGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT--CGCATC
1 AGATCTTATCTCTCTGAGGTTACAGTGGAGTAGATGAAGAATC
*
44077287 AGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACTGAAGAATTTC
1 AGATCTTATCTCTCTGAGGTTACAGTGGAGTAGA-TGAAGAA--TC
* * * *
44077333 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA-G
1 AGATCTTATCTCTCTGAGGTTACAGTGGAGTAGA-TGAAG-AATC
* * * * * *
44077377 AGATCTTATCTCCCTGAGATTACAGTAGAGCAGAT--CGCATC
1 AGATCTTATCTCTCTGAGGTTACAGTGGAGTAGATGAAGAATC
* * * * *
44077418 A-AGTCTTATCTCCCTGAGGTTACAGTAGAGCAGATTGAAGCCA-G
1 AGA-TCTTATCTCTCTGAGGTTACAGTGGAGTAGA-TGAAG-AATC
*
44077462 AGATCTTATCT-TCTTGAGATTACAGTGGAGTAGAT
1 AGATCTTATCTCTC-TGAGGTTACAGTGGAGTAGAT
44077497 CGCATCAAGT
Statistics
Matches: 174, Mismatches: 22, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
40 3 0.02
41 63 0.36
42 2 0.01
43 3 0.02
44 61 0.35
45 3 0.02
46 38 0.22
47 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (43 bp):
AGATCTTATCTCTCTGAGGTTACAGTGGAGTAGATGAAGAATC
Found at i:44077400 original size:44 final size:44
Alignment explanation
Indices: 44077157--44077517 Score: 260
Period size: 44 Copynumber: 8.4 Consensus size: 44
44077147 GGTGAATATT
* * * * *
44077157 AGAGATCTTATCTCCCCGAGATTACGGCGGAGCAGATCGAAGAC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTC
** * * * * *
44077201 A-CTATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATA
1 AGAGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGTC
* * * * * *
44077244 AAAGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCA-TC
1 AGAGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGTC
* * * * *
44077287 AG-G-TCTTATCTCTCTGAGGTTACAGTGGAGTAGACTGAAGAATT
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG--TC
** * *
44077331 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTC
* * *
44077375 AGAGATCTTATCTCCCTGAGATTACAGTAGAGCAGATCGCA-TC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTC
* * *
44077418 A-AG-TCTTATCTCCCTGAGGTTACAGTAGAGCAGATTGAAGCC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTC
* * * * *
44077460 AGAGATCTTATCTTCTTGAGATTACAGTGGAGTAGATCGCA-TC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTC
44077503 A-AG-TCTTATCTCCCT
1 AGAGATCTTATCTCCCT
44077518 AAGCAGTAGT
Statistics
Matches: 248, Mismatches: 58, Indels: 25
0.75 0.18 0.08
Matches are distributed among these distances:
41 73 0.29
42 8 0.03
43 37 0.15
44 95 0.38
45 1 0.00
46 34 0.14
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (44 bp):
AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTC
Found at i:44077400 original size:131 final size:131
Alignment explanation
Indices: 44077208--44077457 Score: 358
Period size: 131 Copynumber: 1.9 Consensus size: 131
44077198 GACACTATCC
* * *
44077208 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAAGATCTTATCTCCCTGAAGTTACAGTA
* * * * *
44077273 GAGTAGATCGCATCAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACTGAAGAATTTCAGATC
66 GAGCAGATCGCATCAAGTCTTATCTCCCTGAGGTTACAGTAGAGCAGACTGAAGAATTTCAGATC
44077338 T
131 T
* * * * *
44077339 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG-AGATTACAGT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAAGATCTTATCTCCCTGAAG-TTACAGT
*
44077403 AGAGCAGATCGCATCAAGTCTTATCTCCCTGAGGTTACAGTAGAGCAGATTGAAG
65 AGAGCAGATCGCATCAAGTCTTATCTCCCTGAGGTTACAGTAGAGCAGACTGAAG
44077458 CCAGAGATCT
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
130 2 0.02
131 102 0.98
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (131 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAAGATCTTATCTCCCTGAAGTTACAGTA
GAGCAGATCGCATCAAGTCTTATCTCCCTGAGGTTACAGTAGAGCAGACTGAAGAATTTCAGATC
T
Found at i:44077435 original size:85 final size:85
Alignment explanation
Indices: 44077336--44077517 Score: 319
Period size: 85 Copynumber: 2.1 Consensus size: 85
44077326 GAATTTCAGA
*
44077336 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGGTTACAGTAGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACA
44077401 GTAGAGCAGATCGCATCAAG
66 GTAGAGCAGATCGCATCAAG
* *
44077421 TCTTATCTCCCTGAGGTTACAGTAGAGCAGATTGAAGCCAGAGATCTTATCTTCTTGAGATTACA
1 TCTTATCTCCCTGAGGTTACAGTAGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACA
* *
44077486 GTGGAGTAGATCGCATCAAG
66 GTAGAGCAGATCGCATCAAG
44077506 TCTTATCTCCCT
1 TCTTATCTCCCT
44077518 AAGCAGTAGT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (85 bp):
TCTTATCTCCCTGAGGTTACAGTAGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACA
GTAGAGCAGATCGCATCAAG
Found at i:44079489 original size:24 final size:26
Alignment explanation
Indices: 44079462--44079512 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 26
44079452 ATATACATAT
*
44079462 ACATGTAGATATTT-ATA-TTTTATA
1 ACATATAGATATTTCATATTTTTATA
* *
44079486 ACATATATATTTTTCATATTTTTATA
1 ACATATAGATATTTCATATTTTTATA
44079512 A
1 A
44079513 TTTTATGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 11 0.50
25 3 0.14
26 8 0.36
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (26 bp):
ACATATAGATATTTCATATTTTTATA
Found at i:44080076 original size:108 final size:108
Alignment explanation
Indices: 44079805--44080203 Score: 527
Period size: 108 Copynumber: 3.7 Consensus size: 108
44079795 ATATTTAGCA
* * * * *
44079805 TTTGGAAACTCTAGAAACATGCCCTAAGGTGCTGGGTGTCGGTCTTTCTCGTTCAACCAAA-CGA
1 TTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAG-
* * ** *
44079869 CTTAATATCTTTTTCAAAAATTT-CAAAATAAGATAATGTTCTGCG
65 CTAAATATC-CTTTC-AAAATTTACAAAATAAGGCAATGTTTTGCG
*
44079914 TTTGGAAATTCGAGAAAACATGCCCTAAAGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAG
1 TTTGGAAATTCGAG-AAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAG
44079979 CTAAATATCCTTTCAAAATTTACAAAATAAGGCAATGTTTTGCG
65 CTAAATATCCTTTCAAAATTTACAAAATAAGGCAATGTTTTGCG
* *
44080023 TTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGC
1 TTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGC
* *
44080088 TAAATATCCTTTCAAAAATTACAAAATAAGGCAATGTTTTGCA
66 TAAATATCCTTTCAAAATTTACAAAATAAGGCAATGTTTTGCG
* * * * * * *
44080131 TTTGGAAATTTGAGGAACGTGCCCTAAGGTGCTAGGTTTCGA--TTTCTCGTTTAACCAAATTGC
1 TTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGC
*
44080194 CAAATATCCT
66 TAAATATCCT
44080204 CTTGAATTTT
Statistics
Matches: 265, Mismatches: 22, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
106 28 0.11
108 135 0.51
109 49 0.18
110 52 0.20
111 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (108 bp):
TTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGC
TAAATATCCTTTCAAAATTTACAAAATAAGGCAATGTTTTGCG
Found at i:44085562 original size:7 final size:7
Alignment explanation
Indices: 44085551--44085582 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
44085541 ACTGCTACAC
*
44085551 TGCTCTC
1 TGCTCTT
44085558 TGCTCTT
1 TGCTCTT
44085565 TGCTCTT
1 TGCTCTT
44085572 TGCTCTT
1 TGCTCTT
44085579 TGCT
1 TGCT
44085583 GGTTCCCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.00, C:0.31, G:0.16, T:0.53
Consensus pattern (7 bp):
TGCTCTT
Found at i:44085604 original size:21 final size:21
Alignment explanation
Indices: 44085580--44085621 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
44085570 TTTGCTCTTT
44085580 GCTGGTTCCCTCTGCTGCTAC
1 GCTGGTTCCCTCTGCTGCTAC
*
44085601 GCTGGTTCTCTCTGCTGCTAC
1 GCTGGTTCCCTCTGCTGCTAC
44085622 ACTACTCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.05, C:0.36, G:0.24, T:0.36
Consensus pattern (21 bp):
GCTGGTTCCCTCTGCTGCTAC
Found at i:44086774 original size:16 final size:16
Alignment explanation
Indices: 44086750--44086780 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44086740 TAAAATTTTT
44086750 ATACCGTTTTTTGTTA
1 ATACCGTTTTTTGTTA
*
44086766 ATACTGTTTTTTGTT
1 ATACCGTTTTTTGTT
44086781 CATGTATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.10, G:0.13, T:0.61
Consensus pattern (16 bp):
ATACCGTTTTTTGTTA
Found at i:44088101 original size:72 final size:72
Alignment explanation
Indices: 44087984--44088147 Score: 233
Period size: 72 Copynumber: 2.3 Consensus size: 72
44087974 CGAAGTATGT
* * * * *
44087984 TTTTATCAATAGTTATTTATGTTTAGTTTTTAGATATTGAATTTATGTTCTACTTATTTATGT-G
1 TTTTATTAATAGTTGTTTATGTTTAGTCTTTAGATATTGAATTTATGTTCCACTTATTT-TGTAC
44088048 T-AATCTAG
65 TAAAT-TAG
* *
44088056 TTTTATTAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCCACTTATTTTTTACT
1 TTTTATTAATAGTTGTTTATGTTTAGTCTTTAGATATTGAATTTATGTTCCACTTATTTTGTACT
44088121 AAATTAG
66 AAATTAG
44088128 TTTTATTAATAGTTGTTTAT
1 TTTTATTAATAGTTGTTTAT
44088148 ATGTGATTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
71 2 0.02
72 78 0.94
73 3 0.04
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.57
Consensus pattern (72 bp):
TTTTATTAATAGTTGTTTATGTTTAGTCTTTAGATATTGAATTTATGTTCCACTTATTTTGTACT
AAATTAG
Found at i:44090216 original size:13 final size:13
Alignment explanation
Indices: 44090195--44090255 Score: 79
Period size: 13 Copynumber: 4.7 Consensus size: 13
44090185 ACACTCAAAA
44090195 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
44090208 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
*
44090221 TTTTCCACAA-CAC
1 TTTT-CAAAAGCAC
44090234 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
44090247 TTTTTAAAA
1 TTTTCAAAA
44090256 ATAATGAAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
12 4 0.10
13 33 0.80
14 4 0.10
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.33
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:44090623 original size:11 final size:11
Alignment explanation
Indices: 44090607--44090635 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
44090597 GGTATTAAAA
44090607 TATTTTTATTC
1 TATTTTTATTC
44090618 TA-TTTTATTC
1 TATTTTTATTC
44090628 TATTTTTA
1 TATTTTTA
44090636 ATTCCCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTTTTATTC
Found at i:44092891 original size:35 final size:34
Alignment explanation
Indices: 44092843--44093014 Score: 218
Period size: 35 Copynumber: 4.9 Consensus size: 34
44092833 ACAAATTTGT
* *
44092843 CTTAGATGAGTCTATCCCAACCTTTTTAAGGTTGC
1 CTTAGACGAGTCTATCCCAACC-TTTTAAGGTTGA
* *
44092878 CTTAGACGTGTCTATCCCAACCCATTTAAGGTTGA
1 CTTAGACGAGTCTATCCCAA-CCTTTTAAGGTTGA
*
44092913 CTTAGACGAGTCTATCCCAACCCTTTTCAGGTTGA
1 CTTAGACGAGTCTATCCCAA-CCTTTTAAGGTTGA
* * *
44092948 CTTAGATGAGTCTATCCCAATCCTTCTAAGGTTGC
1 CTTAGACGAGTCTATCCCAA-CCTTTTAAGGTTGA
*
44092983 CTTAGACGAGCCTATCCCAACACTTTTAAGGT
1 CTTAGACGAGTCTATCCCAAC-CTTTTAAGGT
44093015 CACTTTTGAC
Statistics
Matches: 120, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
34 1 0.01
35 117 0.98
36 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (34 bp):
CTTAGACGAGTCTATCCCAACCTTTTAAGGTTGA
Found at i:44093731 original size:35 final size:35
Alignment explanation
Indices: 44093625--44093737 Score: 163
Period size: 35 Copynumber: 3.2 Consensus size: 35
44093615 CCATTACAAA
* * *
44093625 GTTGCCTTAAATGGGTCAATCCCAACCTTTTTAAG
1 GTTGCCTTAGACGGGTCTATCCCAACCTTTTTAAG
* *
44093660 GGTACCTTAGACGGGTCTATCCCAACCTTTTTAAG
1 GTTGCCTTAGACGGGTCTATCCCAACCTTTTTAAG
* *
44093695 GTTGCTTTAGACGGGTCTATCCTAACCTTTTTAAG
1 GTTGCCTTAGACGGGTCTATCCCAACCTTTTTAAG
44093730 GTTGCCTT
1 GTTGCCTT
44093738 TGATTGGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.36
Consensus pattern (35 bp):
GTTGCCTTAGACGGGTCTATCCCAACCTTTTTAAG
Found at i:44095284 original size:13 final size:14
Alignment explanation
Indices: 44095260--44095288 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
44095250 CATTAAATGT
44095260 AAATTTTCTTTTTA
1 AAATTTTCTTTTTA
44095274 AAATTTT-TTTTTA
1 AAATTTTCTTTTTA
44095287 AA
1 AA
44095289 TTTCAACTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
AAATTTTCTTTTTA
Found at i:44095289 original size:12 final size:13
Alignment explanation
Indices: 44095259--44095291 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
44095249 TCATTAAATG
44095259 TAAATTTTCTTTT
1 TAAATTTTCTTTT
44095272 TAAAATTTT-TTTT
1 T-AAATTTTCTTTT
44095285 TAAATTT
1 TAAATTT
44095292 CAACTACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.32
13 6 0.32
14 7 0.37
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (13 bp):
TAAATTTTCTTTT
Found at i:44096989 original size:28 final size:30
Alignment explanation
Indices: 44096924--44096990 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 30
44096914 TGTGTGTTTT
* * **
44096924 TATTATTAAATCTTAATTTCTAAATAATGG
1 TATTATTTATTCTTAATTTCTAAATAATAA
44096954 TATT-TTTATTCTT-ATTTCTAAA-AATAA
1 TATTATTTATTCTTAATTTCTAAATAATAA
44096981 TATTATTTAT
1 TATTATTTAT
44096991 CAAGAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 7 0.22
28 14 0.44
29 7 0.22
30 4 0.12
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (30 bp):
TATTATTTATTCTTAATTTCTAAATAATAA
Found at i:44100918 original size:11 final size:11
Alignment explanation
Indices: 44100898--44100944 Score: 71
Period size: 11 Copynumber: 4.4 Consensus size: 11
44100888 TTGTAAAATC
44100898 CAAAA-ATTTT
1 CAAAATATTTT
44100908 C-AAATAATTTT
1 CAAAAT-ATTTT
44100919 CAAAATATTTT
1 CAAAATATTTT
44100930 CAAAATATTTT
1 CAAAATATTTT
44100941 CAAA
1 CAAA
44100945 TATCCTTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 3 0.09
10 1 0.03
11 26 0.76
12 4 0.12
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (11 bp):
CAAAATATTTT
Found at i:44101745 original size:13 final size:13
Alignment explanation
Indices: 44101727--44101752 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44101717 CCGTCAATGA
44101727 ATAAATGAACCAG
1 ATAAATGAACCAG
44101740 ATAAATGAACCAG
1 ATAAATGAACCAG
44101753 CAATCTATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (13 bp):
ATAAATGAACCAG
Found at i:44103329 original size:27 final size:27
Alignment explanation
Indices: 44103312--44103489 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
44103302 ATATTAAGTC
44103312 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* ** *
44103339 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
44103366 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* *** ** *
44103394 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * **
44103421 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTCAGTGCTAT-ATAATCAACT
* * * * *
44103448 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
*
44103475 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
44103490 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:44103451 original size:82 final size:81
Alignment explanation
Indices: 44103333--44103488 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44103323 TGCTATATAA
* *
44103333 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
44103398 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
44103415 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
44103479 CACTTAGTGC
65 CACTTAGTGC
44103489 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:44103472 original size:54 final size:54
Alignment explanation
Indices: 44103312--44103488 Score: 205
Period size: 54 Copynumber: 3.3 Consensus size: 54
44103302 ATATTAAGTC
* * * *
44103312 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
44103366 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
44103421 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
44103475 CGCACACTTAGTGC
1 CGCACACTTAGTGC
44103489 TGTACAATTT
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
54 57 0.55
55 45 0.43
56 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:44119446 original size:34 final size:34
Alignment explanation
Indices: 44119402--44119469 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
44119392 GCACAGTTGA
* *
44119402 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTA-CAGTG
*
44119437 ACAGT-TTGGGCCTTAGCCCATCTCAGTACAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
44119470 TCAAAAATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (34 bp):
ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
Found at i:44123686 original size:15 final size:16
Alignment explanation
Indices: 44123655--44123688 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
44123645 TAGTTTGCAT
*
44123655 AATATTTAGATTTTTA
1 AATATTTAGATTATTA
44123671 AATATTT-GATTATTA
1 AATATTTAGATTATTA
44123686 AAT
1 AAT
44123689 TCCTGTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (16 bp):
AATATTTAGATTATTA
Found at i:44123983 original size:17 final size:18
Alignment explanation
Indices: 44123957--44123991 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
44123947 TTTGATTGCT
44123957 TATTAAATTATTT-TTAC
1 TATTAAATTATTTATTAC
*
44123974 TATTAGATTATTTATTAC
1 TATTAAATTATTTATTAC
44123992 GAAAACAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (18 bp):
TATTAAATTATTTATTAC
Found at i:44128253 original size:22 final size:22
Alignment explanation
Indices: 44128228--44128272 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
44128218 AGTCTTGAAA
44128228 ACAAATGCTAAACGATGAATCC
1 ACAAATGCTAAACGATGAATCC
*
44128250 ACAAATGCTAAATGATGAATCC
1 ACAAATGCTAAACGATGAATCC
44128272 A
1 A
44128273 ACTCACTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (22 bp):
ACAAATGCTAAACGATGAATCC
Found at i:44139294 original size:13 final size:13
Alignment explanation
Indices: 44139276--44139303 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
44139266 AACTTGCGTC
44139276 TAATGGTTGTTGT
1 TAATGGTTGTTGT
44139289 TAATGGTTGTTGT
1 TAATGGTTGTTGT
44139302 TA
1 TA
44139304 CAACCTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.54
Consensus pattern (13 bp):
TAATGGTTGTTGT
Found at i:44145912 original size:24 final size:25
Alignment explanation
Indices: 44145872--44145924 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
44145862 ATAGGAAAAG
* *
44145872 GGTTACAAGAAGATGAAATGTTAAA
1 GGTTACAAGAAGATGAAAGGTGAAA
*
44145897 GGTTA-AATAAGATGAAAGGTGAAA
1 GGTTACAAGAAGATGAAAGGTGAAA
44145921 GGTT
1 GGTT
44145925 GAACATCCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.45, C:0.02, G:0.28, T:0.25
Consensus pattern (25 bp):
GGTTACAAGAAGATGAAAGGTGAAA
Found at i:44157396 original size:33 final size:34
Alignment explanation
Indices: 44157344--44157420 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 34
44157334 AAATTTAATA
* * *
44157344 TAAATATAAGTAGTTCCTTAAC-AAACTTTCAAG
1 TAAACATAAGTAATCCCTTAACAAAACTTTCAAG
44157377 TAAACATAAGTAATCCCTTAACAAAACTTTCAAG
1 TAAACATAAGTAATCCCTTAACAAAACTTTCAAG
*
44157411 CATAACATAA
1 TA-AACATAA
44157421 CAGGAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
33 19 0.50
34 12 0.32
35 7 0.18
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (34 bp):
TAAACATAAGTAATCCCTTAACAAAACTTTCAAG
Found at i:44157871 original size:24 final size:24
Alignment explanation
Indices: 44157837--44157891 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
44157827 AAGAACATGA
44157837 AAGGTTTAAGGAAGATGAAAGGTGG
1 AAGG-TTAAGGAAGATGAAAGGTGG
* *
44157862 AAGGTTAAGGGAGATTAAAGGTGG
1 AAGGTTAAGGAAGATGAAAGGTGG
44157886 AAGGTT
1 AAGGTT
44157892 GAACATCCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.40, T:0.22
Consensus pattern (24 bp):
AAGGTTAAGGAAGATGAAAGGTGG
Found at i:44158366 original size:24 final size:24
Alignment explanation
Indices: 44158320--44158366 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
44158310 ATCTACTTTT
* *
44158320 TTTAAAAAAATTAATCAACTTAGC
1 TTTAAAAAAAGTAATCAAATTAGC
44158344 TTTAAAAAAAGTAAT-ATAATTAG
1 TTTAAAAAAAGTAATCA-AATTAG
44158367 ATTAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (24 bp):
TTTAAAAAAAGTAATCAAATTAGC
Found at i:44170482 original size:14 final size:14
Alignment explanation
Indices: 44170463--44170492 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
44170453 TGGATGTGTT
44170463 ATAATCTAATATAA
1 ATAATCTAATATAA
*
44170477 ATAATCTAGTATAA
1 ATAATCTAATATAA
44170491 AT
1 AT
44170493 TAGTTCAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (14 bp):
ATAATCTAATATAA
Found at i:44176160 original size:40 final size:38
Alignment explanation
Indices: 44176076--44176259 Score: 160
Period size: 40 Copynumber: 4.7 Consensus size: 38
44176066 TCGAATGATG
* *
44176076 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTA--ATAA
* * *
44176116 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATAATAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTAATAA
*
44176155 TTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTAAT-AA
* *
44176195 T-CAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA--ATAA
*
44176235 T-CGGGCTATGACCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
44176260 AATGAGTAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
38 9 0.08
39 47 0.39
40 56 0.47
41 8 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (38 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTAATAA
Found at i:44176291 original size:79 final size:78
Alignment explanation
Indices: 44176128--44176292 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 78
44176118 CGGACTAAGA
**
44176128 TCCGAAGGCATTTGTGCGAGATAATAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGAAGGCATTTGTGCGAGATAATAATTCCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTA
*
44176193 AATCAGGTTAAGT
66 AATCAGGTTAAAT
* * * *
44176206 CCCGAAGGCATTTGTGCGAGTTACTATAA-T-CGGGCTATGACCCGAAGGCATTTGAATGAG-TA
1 TCCGAAGGCATTTGTGCGAGATA--ATAATTCCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA
*
44176268 GCTATAT-ACGGTTAAAT
63 -CTAAATCA-GGTTAAAT
44176285 TCCGAAGG
1 TCCGAAGG
44176293 TACGTGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
78 32 0.44
79 37 0.51
80 4 0.05
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (78 bp):
TCCGAAGGCATTTGTGCGAGATAATAATTCCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTA
AATCAGGTTAAAT
Found at i:44180309 original size:14 final size:15
Alignment explanation
Indices: 44180275--44180324 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
44180265 TTGTAAAAGG
44180275 AGAAAACAAAGAATCAA
1 AGAAAACAAA-AA-CAA
*
44180292 AGAAAATAAAAA-AA
1 AGAAAACAAAAACAA
*
44180306 AGAAAGCAAAAACAA
1 AGAAAACAAAAACAA
44180321 AGAA
1 AGAA
44180325 GGTCACCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 12 0.41
15 6 0.21
16 2 0.07
17 9 0.31
ACGTcount: A:0.76, C:0.08, G:0.12, T:0.04
Consensus pattern (15 bp):
AGAAAACAAAAACAA
Found at i:44181488 original size:44 final size:44
Alignment explanation
Indices: 44181386--44181800 Score: 248
Period size: 44 Copynumber: 9.6 Consensus size: 44
44181376 TTCTCAGTCT
* * * *
44181386 GCTCCACTGCAACCTCAGGGAGATAAGACCTGA-TGC---GATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCT-ATTACTTTAATCC
* * *
44181427 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTTAATCC
* * ** * *
44181471 GCTCCACTACAACTTCAGGGAGATAGGAT-TATCGGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACTTTAATCC
* * *
44181515 ACTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTTAATCC
* * * * * * *
44181559 GCTCTACTACAACTTTAGGGAGATAGGAT-TATCGACTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACTTTAATCC
* * * * * ** *
44181603 ACTCCACCGCAACCTCAGGGAGATAAGATTTGCTT-CTTTGGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCT-ATTACTTTAATCC
* ** * * *
44181647 GCCCCACTGTGACTTCAAGGG-GATAAGA-CT-TGT-TTTCTCAGTCT
1 GCTCCACTGCAACTTC-AGGGAGATAAGATCTAT-TACTT-T-AATCC
* * *
44181691 GCTCCACTGCAACCTCAGGGAGATAAGACCTGA-TAC---GATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCT-ATTACTTTAATCC
* * *
44181732 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTTAATCC
*
44181776 GCTCCACTACAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
44181801 GGAAACTTCA
Statistics
Matches: 278, Mismatches: 74, Indels: 41
0.71 0.19 0.10
Matches are distributed among these distances:
40 2 0.01
41 60 0.22
42 3 0.01
43 12 0.04
44 189 0.68
45 11 0.04
46 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTTAATCC
Found at i:44181539 original size:88 final size:88
Alignment explanation
Indices: 44181427--44181631 Score: 338
Period size: 88 Copynumber: 2.3 Consensus size: 88
44181417 GATGCGATCC
* *
44181427 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGA
1 ACTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGA
*
44181492 GATAGGATTATCGGCTTCAATCT
66 GATAGGATTATCGACTTCAATCT
* *
44181515 ACTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCTACTACAACTTTAGGGA
1 ACTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGA
44181580 GATAGGATTATCGACTTCAATCT
66 GATAGGATTATCGACTTCAATCT
* * *
44181603 ACTCCACCGCAACCTCAGGGAGATAAGAT
1 ACTCCACTGCAACTTCAGAGAGATAAGAT
44181632 TTGCTTCTTT
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 109 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (88 bp):
ACTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGA
GATAGGATTATCGACTTCAATCT
Found at i:44181617 original size:217 final size:218
Alignment explanation
Indices: 44181192--44181630 Score: 510
Period size: 217 Copynumber: 2.0 Consensus size: 218
44181182 TCTAGTCGGC
* * *
44181192 AAGACTTGATGCGATCTATTTCTACTGCAACGTCAGAGAGATAAGATCTATTACTTTAACCCGCT
1 AAGACCTGATGCGATCCATCTCTACTGCAACGTCAGAGAGATAAGATCTATTACTTTAACCCGCT
* *
44181257 CTACTACAACTTCAAGGAGATAGGATTATCGACTTCAATCTACTCCACCGAAACCTTAGGGAGAT
66 CCACTACAACTTCAAGGAGATAGGATTATCGACTTCAATCTACTCCACCGAAACCTTAGAGAGAT
* * *** * *** * * *** * *
44181322 AAAATTTGCTTCTTTGGTCTGCCCCACTGTGACTTCAATGGGATAAGACTTGTTTTCTCAGTCTG
131 AAAATCTGATTCTTTAACCCGCCCCACTACAACTTCAAGGGGATAAGACTTATCGACTCAATCTA
*
44181387 CTCCACTGCAACCTCAGGGAGAT
196 CTCCACCGCAACCTCAGGGAGAT
* *
44181410 AAGACCTGATGCGATCCA-CTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCT
1 AAGACCTGATGCGATCCATCTCTACTGCAACGTCAGAGAGATAAGATCTATTACTTTAACCCGCT
* * * *
44181474 CCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTGCAA-CTTCAGAGAGA
66 CCACTACAACTTCAAGGAGATAGGATTATCGACTTCAATCTACTCCACCGAAACCTT-AGAGAGA
* * * * *
44181538 TAAGATCT-ATTACTTTAACCCGCTCTACTACAACTT-TAGGGAGATAGGA-TTATCGACTTCAA
130 TAAAATCTGATT-CTTTAACCCGCCCCACTACAACTTCAAGGG-GATAAGACTTATCGAC-TCAA
44181600 TCTACTCCACCGCAACCTCAGGGAGAT
192 TCTACTCCACCGCAACCTCAGGGAGAT
44181627 AAGA
1 AAGA
44181631 TTTGCTTCTT
Statistics
Matches: 184, Mismatches: 33, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
216 12 0.07
217 156 0.85
218 16 0.09
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (218 bp):
AAGACCTGATGCGATCCATCTCTACTGCAACGTCAGAGAGATAAGATCTATTACTTTAACCCGCT
CCACTACAACTTCAAGGAGATAGGATTATCGACTTCAATCTACTCCACCGAAACCTTAGAGAGAT
AAAATCTGATTCTTTAACCCGCCCCACTACAACTTCAAGGGGATAAGACTTATCGACTCAATCTA
CTCCACCGCAACCTCAGGGAGAT
Found at i:44181766 original size:305 final size:305
Alignment explanation
Indices: 44181215--44181803 Score: 1106
Period size: 305 Copynumber: 1.9 Consensus size: 305
44181205 ATCTATTTCT
44181215 ACTGCAACGTCAGAGAGATAAGATCTATTACTTTAACCCGCTCTACTACAACTTCAAGGAGATAG
1 ACTGCAACGTCAGAGAGATAAGATCTATTACTTTAACCCGCTCTACTACAACTTCAAGGAGATAG
*
44181280 GATTATCGACTTCAATCTACTCCACCGAAACCTTAGGGAGATAAAATTTGCTTCTTTGGTCTGCC
66 GATTATCGACTTCAATCTACTCCACCGAAACCTCAGGGAGATAAAATTTGCTTCTTTGGTCTGCC
*
44181345 CCACTGTGACTTCAATGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGAT
131 CCACTGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGAT
*
44181410 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
196 AAGACCTGATACGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
44181475 CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCC
261 CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCC
* * *
44181520 ACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCTACTACAACTTTAGGGAGATAG
1 ACTGCAACGTCAGAGAGATAAGATCTATTACTTTAACCCGCTCTACTACAACTTCAAGGAGATAG
* *
44181585 GATTATCGACTTCAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCC
66 GATTATCGACTTCAATCTACTCCACCGAAACCTCAGGGAGATAAAATTTGCTTCTTTGGTCTGCC
44181650 CCACTGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGAT
131 CCACTGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGAT
44181715 AAGACCTGATACGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
196 AAGACCTGATACGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
44181780 CACTACAACTTCAGGGAGATAGGA
261 CACTACAACTTCAGGGAGATAGGA
44181804 AACTTCAGAG
Statistics
Matches: 276, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
305 276 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (305 bp):
ACTGCAACGTCAGAGAGATAAGATCTATTACTTTAACCCGCTCTACTACAACTTCAAGGAGATAG
GATTATCGACTTCAATCTACTCCACCGAAACCTCAGGGAGATAAAATTTGCTTCTTTGGTCTGCC
CCACTGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGAT
AAGACCTGATACGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCC
Found at i:44181840 original size:62 final size:62
Alignment explanation
Indices: 44181742--44181865 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
44181732 ACTCTACTGC
*
44181742 AACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGA
1 AACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGA
*
44181804 AACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTTAGGGAGATAGGA
1 AACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGA
44181866 TTATCGACTT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (62 bp):
AACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGA
Found at i:44182025 original size:279 final size:279
Alignment explanation
Indices: 44181525--44182082 Score: 1062
Period size: 279 Copynumber: 2.0 Consensus size: 279
44181515 ACTCCACTGC
*
44181525 AACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCTACTACAACTTTAGGGAGATAGGATTA
1 AACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTTAGGGAGATAGGATTA
44181590 TCGACTTCAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCCCCACT
66 TCGACTTCAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCCCCACT
44181655 GTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGAC
131 GTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGAC
*
44181720 CTGATACGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTA
196 CTGATACGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCACTCCACTA
44181785 CAACTTCAGGGAGATAGGA
261 CAACTTCAGGGAGATAGGA
44181804 AACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTTAGGGAGATAGGATTA
1 AACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTTAGGGAGATAGGATTA
* *
44181869 TCGACTTTAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCCCTACT
66 TCGACTTCAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCCCCACT
*
44181934 GTGACTTCAGGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGAC
131 GTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGAC
*
44181999 CTGATACGATCCACTCTACTGCAACTTCAGAGAGATATGATCTATTACTTTAATCCACTCCACTA
196 CTGATACGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCACTCCACTA
44182064 CAACTTCAGGGAGATAGGA
261 CAACTTCAGGGAGATAGGA
44182083 TTATCGGCTT
Statistics
Matches: 273, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
279 273 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (279 bp):
AACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTTAGGGAGATAGGATTA
TCGACTTCAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCCCCACT
GTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGAC
CTGATACGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCACTCCACTA
CAACTTCAGGGAGATAGGA
Found at i:44182273 original size:127 final size:128
Alignment explanation
Indices: 44182119--44182449 Score: 547
Period size: 127 Copynumber: 2.6 Consensus size: 128
44182109 AACTTCAGGG
* *
44182119 AGATAAGATTTGCCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
44182184 ACCTATTCCACTATTGACCAGGGACATAGGACTTGTGGCTTAAATAT-CTTCCTTACACTTGA
66 ACCTATTCCACTATTGACCAGGGACATAGGACTTGTGGCTTAAATATACTTCCTTACACTTGA
* * * * *
44182246 AGATAAGATTCACCGTCTTCAATCTGCTCCGCTACTGCTTAGAGAGAAAAGATCTGTAATTTCCC
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
* *
44182311 ACCTATTCCACTATTGACCAGGGATATAGGACTTGTGGCTTAAATCTACTTCCTTACACTTGA
66 ACCTATTCCACTATTGACCAGGGACATAGGACTTGTGGCTTAAATATACTTCCTTACACTTGA
* *
44182374 AGATAAGATTCGTCGTCTTTGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCC
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTT-CC
44182439 AACCTATTCCA
65 AACCTATTCCA
44182450 TTGCTAGTCA
Statistics
Matches: 186, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
127 103 0.55
128 71 0.38
129 12 0.06
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (128 bp):
AGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
ACCTATTCCACTATTGACCAGGGACATAGGACTTGTGGCTTAAATATACTTCCTTACACTTGA
Found at i:44183762 original size:7 final size:7
Alignment explanation
Indices: 44183750--44183790 Score: 66
Period size: 7 Copynumber: 5.9 Consensus size: 7
44183740 AGCCTCTCCA
44183750 TTTTCAT
1 TTTTCAT
44183757 TTTTCAT
1 TTTTCAT
44183764 TTTTCA-
1 TTTTCAT
44183770 TTTTCATT
1 TTTTCA-T
44183778 TTTTCAT
1 TTTTCAT
44183785 TTTTCA
1 TTTTCA
44183791 CACATTTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.19
7 20 0.62
8 6 0.19
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTCAT
Found at i:44183782 original size:21 final size:20
Alignment explanation
Indices: 44183748--44183790 Score: 77
Period size: 21 Copynumber: 2.1 Consensus size: 20
44183738 TTAGCCTCTC
44183748 CATTTTCATTTTTCATTTTT
1 CATTTTCATTTTTCATTTTT
44183768 CATTTTCATTTTTTCATTTTT
1 CATTTTCA-TTTTTCATTTTT
44183789 CA
1 CA
44183791 CACATTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.67
Consensus pattern (20 bp):
CATTTTCATTTTTCATTTTT
Found at i:44184742 original size:26 final size:25
Alignment explanation
Indices: 44184681--44184742 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
44184671 TTTATTTTTC
44184681 ATTTTCATTTTTTGTTTCAACTTTG
1 ATTTTCATTTTTTGTTTCAACTTTG
**
44184706 ATTTTTC-TTTTTTGCTTTTGACTTTG
1 A-TTTTCATTTTTTG-TTTCAACTTTG
* *
44184732 CTTTTGATTTT
1 ATTTTCATTTT
44184743 CTTTTTCTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
25 12 0.40
26 18 0.60
ACGTcount: A:0.11, C:0.11, G:0.10, T:0.68
Consensus pattern (25 bp):
ATTTTCATTTTTTGTTTCAACTTTG
Found at i:44190721 original size:17 final size:17
Alignment explanation
Indices: 44190680--44190726 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
44190670 TCCGTTTTTT
44190680 AAAAG-AAGAAAATAAA
1 AAAAGAAAGAAAATAAA
* **
44190696 GAATCAAAGAAAATAAA
1 AAAAGAAAGAAAATAAA
44190713 AAAAGAAAGCAAAA
1 AAAAGAAAG-AAAA
44190727 ACAGAGAAGG
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
16 2 0.09
17 17 0.74
18 4 0.17
ACGTcount: A:0.77, C:0.04, G:0.13, T:0.06
Consensus pattern (17 bp):
AAAAGAAAGAAAATAAA
Found at i:44198313 original size:40 final size:39
Alignment explanation
Indices: 44198225--44198325 Score: 96
Period size: 40 Copynumber: 2.5 Consensus size: 39
44198215 TTAGATGCGT
* * * *
44198225 AATAGAGGCATTGGAGTGCAAACAGAGGCACAAATGTGC
1 AATAGAGGCACTGAAGTGCAAACAAAGACACAAATGTGC
* * *
44198264 AATTGGAGGCACTGTAGTGCAAACAAAGACACCAAA-GTGT
1 AA-TAGAGGCACTGAAGTGCAAACAAAGACA-CAAATGTGC
*
44198304 ATATAGAGGCACCGAAGTGCAA
1 A-ATAGAGGCACTGAAGTGCAA
44198326 TCCCATCATA
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
39 2 0.04
40 43 0.86
41 5 0.10
ACGTcount: A:0.40, C:0.17, G:0.28, T:0.16
Consensus pattern (39 bp):
AATAGAGGCACTGAAGTGCAAACAAAGACACAAATGTGC
Found at i:44200471 original size:21 final size:20
Alignment explanation
Indices: 44200441--44200479 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
44200431 CAAGATAAAA
44200441 AAATAGATTAAATTTAATATT
1 AAATAGATTAAA-TTAATATT
*
44200462 AAATATATTAAATTAATA
1 AAATAGATTAAATTAATA
44200480 GAATATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (20 bp):
AAATAGATTAAATTAATATT
Found at i:44206678 original size:40 final size:40
Alignment explanation
Indices: 44206441--44206664 Score: 287
Period size: 40 Copynumber: 5.6 Consensus size: 40
44206431 TGAATGATGT
* * * *
44206441 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
44206481 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
44206521 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
44206559 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
44206600 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
44206640 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
44206665 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
39 35 0.21
40 120 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:44206686 original size:119 final size:119
Alignment explanation
Indices: 44206440--44206697 Score: 301
Period size: 119 Copynumber: 2.2 Consensus size: 119
44206430 TTGAATGATG
* *
44206440 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
* * **
44206505 GTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGTCACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * *
44206559 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
* * *
44206622 TTGTGCGAGTCACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGTCACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
44206679 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
44206698 TACGTGATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 85 0.71
120 31 0.26
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGTCACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:44209149 original size:22 final size:22
Alignment explanation
Indices: 44209122--44209165 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
44209112 AGTGGATTAA
44209122 GGTAATTTGATAGTAAAAATTT
1 GGTAATTTGATAGTAAAAATTT
44209144 GGTAATTTGATAGTAAAAATTT
1 GGTAATTTGATAGTAAAAATTT
44209166 TTCTATGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (22 bp):
GGTAATTTGATAGTAAAAATTT
Found at i:44214184 original size:39 final size:40
Alignment explanation
Indices: 44214084--44214268 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
44214074 TTGAATGATG
* * * *
44214084 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
44214124 TCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
44214164 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44214203 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* **
44214244 -CCGGGCTATGTCTGGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44214269 AACGAGGAGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44214220 original size:79 final size:80
Alignment explanation
Indices: 44214084--44214240 Score: 203
Period size: 79 Copynumber: 2.0 Consensus size: 80
44214074 TTGAATGATG
*
44214084 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGAACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGAACTAAGATCCGAAGGCATTT
44214149 GTGCGAGATACTAAT
66 GTGCGAGATACTAAT
* * * ***
44214164 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGAACTAAGAT-CCGAAGGCAT
*
44214226 TTGTGCGAGTTACTA
64 TTGTGCGAGATACTA
44214241 TAACCGGGCT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 1 0.01
79 48 0.72
80 18 0.27
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGAACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAT
Found at i:44214290 original size:79 final size:79
Alignment explanation
Indices: 44214137--44214301 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
44214127 GAACTAAGAT
* ** * *
44214137 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGAATAA
*
44214202 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * **
44214216 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCTGGAAGGCATTTGAACGAG-GAGA
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-A
* *
44214279 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
44214295 CCGAAGG
1 CCGAAGG
44214302 TACGTGATTT
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.66
80 22 0.31
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGAATAA
ATCCGGGTTAAATC
Found at i:44222195 original size:79 final size:82
Alignment explanation
Indices: 44222054--44222243 Score: 239
Period size: 79 Copynumber: 2.4 Consensus size: 82
44222044 GTTATTTGAA
* *
44222054 TAATGTCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG
1 TAATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAG
44222118 GCATTTGTGCGAGATAC
66 GCATTTGTGCGAGATAC
* * * **
44222135 TAAT-TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAA
1 TAATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAA
*
44222196 GGCATTTGTGCGAGTTAC
65 GGCATTTGTGCGAGATAC
* *
44222214 T-ATAACCGGGCTATGTCCCGAAGGCATTTG
1 TAATATCCGGGCTAAGTCCCGAAGGCATTTG
44222244 AACGAGGAGC
Statistics
Matches: 96, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.59
80 32 0.33
81 4 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (82 bp):
TAATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAG
GCATTTGTGCGAGATAC
Found at i:44222257 original size:40 final size:41
Alignment explanation
Indices: 44222059--44222243 Score: 231
Period size: 40 Copynumber: 4.6 Consensus size: 41
44222049 TTGAATAATG
* * *
44222059 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
44222099 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
44222139 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
44222178 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
44222219 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44222244 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 35 0.28
40 82 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:44222274 original size:79 final size:79
Alignment explanation
Indices: 44222060--44222276 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
44222050 TGAATAATGT
** * * * *
44222060 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGA-TCCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGATTAA-ATTCCGAAGGCATT
*
44222123 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * * * *
44222140 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGATTAAATTCCGAAGGCATTTGT
*
44222205 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* *
44222219 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GATTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGATTAAATTCCGAAGG
44222277 TACGTGATTT
Statistics
Matches: 114, Mismatches: 18, Indels: 11
0.80 0.13 0.08
Matches are distributed among these distances:
78 2 0.02
79 70 0.61
80 42 0.37
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGATTAAATTCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:44224639 original size:5 final size:6
Alignment explanation
Indices: 44224627--44224681 Score: 58
Period size: 6 Copynumber: 9.2 Consensus size: 6
44224617 AAATTAAATG
* * * *
44224627 AATAAA AATAAA AATAAA AATAAA AAT-GA AACAAA ATTAAA AATAGGA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATA-AA
44224675 AATAAA A
1 AATAAA A
44224682 GTTATTTAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
5 3 0.08
6 31 0.79
7 5 0.13
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:44224681 original size:29 final size:27
Alignment explanation
Indices: 44224617--44224681 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 27
44224607 TAATCAAAAT
*
44224617 AAATTAAATGAATAAAAATAAAAATAA
1 AAATAAAATGAATAAAAATAAAAATAA
*
44224644 AAATAAAAATGAA-ACAAAATTAAAAATAGG
1 AAAT-AAAATGAATA-AAAA-TAAAAATA-A
44224674 AAATAAAA
1 AAATAAAA
44224682 GTTATTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 5 0.16
28 11 0.34
29 12 0.38
30 4 0.12
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.18
Consensus pattern (27 bp):
AAATAAAATGAATAAAAATAAAAATAA
Found at i:44230378 original size:23 final size:23
Alignment explanation
Indices: 44230348--44230399 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
44230338 CAAATTAGAA
*
44230348 GTAATTCATGGTAGACATCCCTT
1 GTAATTCATGGTACACATCCCTT
44230371 GTAATTCATGGTACACATCCCTT
1 GTAATTCATGGTACACATCCCTT
*
44230394 GAAATT
1 GTAATT
44230400 TTTTAAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (23 bp):
GTAATTCATGGTACACATCCCTT
Found at i:44233834 original size:275 final size:275
Alignment explanation
Indices: 44233337--44233887 Score: 1030
Period size: 275 Copynumber: 2.0 Consensus size: 275
44233327 AATTTGCAAA
* *
44233337 ATAATAAAAATGGTGCGAAAGAAGGGATTTGTACTTGGGTTTCAAGGAACTTTTCACTAATACTT
1 ATAATAAAAATGGTGCAAAAGAAGGGATTTGTACTTGGGTTTCAAGGAACTTTTCACTAACACTT
*
44233402 AACTATCCAACTAATACCTCATTTATTTCCTAAAATGCATCGATAGTCTCAAAATTTAGGGCATG
66 AACTATCCAACTAATACCTCATTTATTTCCTAAAATGCATAGATAGTCTCAAAATTTAGGGCATG
* *
44233467 ACCACTTTTTCTCGATTCACAAGCCCAATTCGACTAACCCCAGATTTTAGGAATGTTACAATTGT
131 ACCACTTTTTCTCAATTCACAAACCCAATTCGACTAACCCCAGATTTTAGGAATGTTACAATTGT
44233532 CGTGTGTGAATATGATGTGCAGATTGTGAAAGTATACACATTGAAACAAGTAATAAAGTGATAAG
196 CGTGTGTGAATATGATGTGCAGATTGTGAAAGTATACACATTGAAACAAGTAATAAAGTGATAAG
44233597 TGAGATCGTCTCCAT
261 TGAGATCGTCTCCAT
44233612 ATAATAAAAATGGTGCAAAAGAAGGGATTTGTACTTGGGTTTCAAGGAACTTTTCACTAACACTT
1 ATAATAAAAATGGTGCAAAAGAAGGGATTTGTACTTGGGTTTCAAGGAACTTTTCACTAACACTT
44233677 AACTATCCAACTAATACCTCATTTATTTCCTAAAATGCATAGATAGTCTCAAAATTTAGGGCATG
66 AACTATCCAACTAATACCTCATTTATTTCCTAAAATGCATAGATAGTCTCAAAATTTAGGGCATG
44233742 ACCACTTTTTCTCAATTCACAAACCCAATTCGACTAACCCCAGATTTTAGGAATGTTACAATTGT
131 ACCACTTTTTCTCAATTCACAAACCCAATTCGACTAACCCCAGATTTTAGGAATGTTACAATTGT
* * *
44233807 CGTGTGTGAATGTGATGTTCGGATTGTGAAAGTATACACATTGAAACAAGTAATAAAGTGATAAG
196 CGTGTGTGAATATGATGTGCAGATTGTGAAAGTATACACATTGAAACAAGTAATAAAGTGATAAG
44233872 TGAGATCGTCTCCAT
261 TGAGATCGTCTCCAT
44233887 A
1 A
44233888 GGGATTAGAG
Statistics
Matches: 268, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
275 268 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (275 bp):
ATAATAAAAATGGTGCAAAAGAAGGGATTTGTACTTGGGTTTCAAGGAACTTTTCACTAACACTT
AACTATCCAACTAATACCTCATTTATTTCCTAAAATGCATAGATAGTCTCAAAATTTAGGGCATG
ACCACTTTTTCTCAATTCACAAACCCAATTCGACTAACCCCAGATTTTAGGAATGTTACAATTGT
CGTGTGTGAATATGATGTGCAGATTGTGAAAGTATACACATTGAAACAAGTAATAAAGTGATAAG
TGAGATCGTCTCCAT
Found at i:44238831 original size:30 final size:30
Alignment explanation
Indices: 44238797--44238871 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
44238787 GGTTGATACC
* * *
44238797 TCCCTTTTCGTAATTCCATAATCGAAGTTA
1 TCCCTTTTCATAATTCCATAACCGAAGCTA
* * *
44238827 TCCCTTTTCATAGTTCGATAGCCGAAGCTA
1 TCCCTTTTCATAATTCCATAACCGAAGCTA
44238857 TCCCTTTTCATAATT
1 TCCCTTTTCATAATT
44238872 TGATGGTCGT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.24, C:0.25, G:0.11, T:0.40
Consensus pattern (30 bp):
TCCCTTTTCATAATTCCATAACCGAAGCTA
Found at i:44238890 original size:30 final size:30
Alignment explanation
Indices: 44238856--44238935 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 30
44238846 AGCCGAAGCT
*
44238856 ATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGCCGTCACC
* ** * * *
44238886 ATCCCTCTTCATTGTTCGACGGCCGTCATC
1 ATCCCTTTTCATAATTTGATGGCCGTCACC
44238916 ATCCCTTTTCATAATTTGAT
1 ATCCCTTTTCATAATTTGAT
44238936 AGCAAAAGCT
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.19, C:0.29, G:0.12, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGCCGTCACC
Found at i:44238890 original size:60 final size:59
Alignment explanation
Indices: 44238826--44239026 Score: 190
Period size: 60 Copynumber: 3.4 Consensus size: 59
44238816 AATCGAAGTT
* *
44238826 ATCCCTTTTCATAGTTCGATAGCCGAAGCTATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAGATCGATAGCCGAAGC-ATCCCTTTTCATAATTTGATGGTCATCACC
* * * ** * * * ** *
44238886 ATCCCTCTTCATTGTTCGACGGCCGTCATCATCCCTTTTCATAATTTGATAG-CAAAAGCT
1 ATCCCTTTTCATAGATCGATAGCCG-AAGCATCCCTTTTCATAATTTGATGGTCATCA-CC
* ** * *
44238946 ATCCCTTTTCATAGATCGATAGCCGAAGCCATCTCTTTTCATAGCTCGGTGGTCATCACC
1 ATCCCTTTTCATAGATCGATAGCCGAAG-CATCCCTTTTCATAATTTGATGGTCATCACC
44239006 ATCCCTTTTCATA-ATCGATAG
1 ATCCCTTTTCATAGATCGATAG
44239027 ACGTATCCCT
Statistics
Matches: 110, Mismatches: 27, Indels: 9
0.75 0.18 0.06
Matches are distributed among these distances:
59 11 0.10
60 94 0.85
61 5 0.05
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (59 bp):
ATCCCTTTTCATAGATCGATAGCCGAAGCATCCCTTTTCATAATTTGATGGTCATCACC
Found at i:44238967 original size:30 final size:29
Alignment explanation
Indices: 44238916--44239072 Score: 90
Period size: 30 Copynumber: 5.4 Consensus size: 29
44238906 GGCCGTCATC
*
44238916 ATCCCTTTTCATAATTTGATAGCAAAAGCT
1 ATCCCTTTTCATAA-TCGATAGCAAAAGCT
** *
44238946 ATCCCTTTTCATAGATCGATAGCCGAAGCC
1 ATCCCTTTTCATA-ATCGATAGCAAAAGCT
* * * * ** *
44238976 ATCTCTTTTCATAGCTCGGTGGTCATCA-CC
1 ATCCCTTTTCATA-ATCGATAG-CAAAAGCT
*
44239006 ATCCCTTTTCATAATCGATAG---ACG-T
1 ATCCCTTTTCATAATCGATAGCAAAAGCT
* * *
44239031 ATCCCTTTTACGTATTCGATAGCTAAAGCT
1 ATCCCTTTT-CATAATCGATAGCAAAAGCT
*
44239061 ATCTCTTTTCAT
1 ATCCCTTTTCAT
44239073 TCCTCGATGA
Statistics
Matches: 96, Mismatches: 23, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
25 9 0.09
26 10 0.10
29 9 0.09
30 65 0.68
31 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.36
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGCAAAAGCT
Found at i:44238978 original size:90 final size:90
Alignment explanation
Indices: 44238826--44239026 Score: 210
Period size: 90 Copynumber: 2.2 Consensus size: 90
44238816 AATCGAAGTT
* ** * * * *
44238826 ATCCCTTTTCATAGTTCGATAGCCGAAGCTATCCCTTTTCATAATTTGATGGTCGTCACCATCCC
1 ATCCCTTTTCATAATTCGATAGCAAAAGCTATCCCTTTTCATAATTCGATAGCCGTAACCATCCC
* * * *
44238891 TCTTCATTGTTCGACGGCCGTCATC
66 TCTTCATAGCTCGACGGCCATCACC
*
44238916 ATCCCTTTTCATAATTTGATAGCAAAAGCTATCCCTTTTCATAGA-TCGATAGCCG-AAGCCATC
1 ATCCCTTTTCATAATTCGATAGCAAAAGCTATCCCTTTTCATA-ATTCGATAGCCGTAA-CCATC
* * ** *
44238979 TCTTTTCATAGCTCGGTGGTCATCACC
64 CCTCTTCATAGCTCGACGGCCATCACC
44239006 ATCCCTTTTCATAA-TCGATAG
1 ATCCCTTTTCATAATTCGATAG
44239027 ACGTATCCCT
Statistics
Matches: 91, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
89 7 0.08
90 83 0.91
91 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (90 bp):
ATCCCTTTTCATAATTCGATAGCAAAAGCTATCCCTTTTCATAATTCGATAGCCGTAACCATCCC
TCTTCATAGCTCGACGGCCATCACC
Found at i:44246581 original size:30 final size:30
Alignment explanation
Indices: 44246541--44246610 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
44246531 GGTTGTCACC
* * ** *
44246541 ATCCTTTTTCATACTTTGATAGCCGAAGCT
1 ATCCCTTTTCATACATCAATAGCCGAAGCA
*
44246571 ATCCCTTTTCATAGATCAATAGCCGAAGCA
1 ATCCCTTTTCATACATCAATAGCCGAAGCA
44246601 ATCCCTTTTC
1 ATCCCTTTTC
44246611 GTAGCTAGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.26, C:0.27, G:0.11, T:0.36
Consensus pattern (30 bp):
ATCCCTTTTCATACATCAATAGCCGAAGCA
Found at i:44256908 original size:47 final size:47
Alignment explanation
Indices: 44256836--44257432 Score: 849
Period size: 47 Copynumber: 12.5 Consensus size: 47
44256826 CCCTTCGGGA
* * *
44256836 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
44256883 CTTATCACATATATAGACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
44256930 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
44256977 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
44257024 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
44257071 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
44257120 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATT-CGGC
* *
44257168 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
44257217 CTTATCACATATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
44257266 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
44257313 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
44257360 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
44257409 CTTATCACATATATACACTTTCAC
1 CTTATCACATATATACACTTTCAC
44257433 GTTTATTCAA
Statistics
Matches: 517, Mismatches: 24, Indels: 18
0.92 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 325 0.63
48 10 0.02
49 145 0.28
50 36 0.07
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:44257150 original size:143 final size:143
Alignment explanation
Indices: 44256836--44257432 Score: 891
Period size: 143 Copynumber: 4.2 Consensus size: 143
44256826 CCCTTCGGGA
* * * * *
44256836 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACAC
* * * *
44256901 TTTCACATTCATCACATTGGCCATTCGGCCTTATCTC--ATATATGCA-TGTTCACATTCATCAC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT-TTCACATTCATCAC
*
44256963 ATTGGCCATTCGGC
130 ATTGGCCATTAGGC
* * * * *
44256977 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACA
* *
44257041 -TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
65 CT-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
44257105 CATTGGCCATTCA-GC
129 CATTGGCCATT-AGGC
*
44257120 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGGCCTTATCACATATATATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATT-CGGCCTTATCAC--ATATATA
44257185 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
63 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
*
44257250 ACATTGGCTATTAGGC
128 ACATTGGCCATTAGGC
* *
44257266 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACAC
44257331 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
44257396 TTGGCCATTAGGT
131 TTGGCCATTAGGC
44257409 CTTATCACATATATACACTTTCAC
1 CTTATCACATATATACACTTTCAC
44257433 GTTTATTCAA
Statistics
Matches: 420, Mismatches: 24, Indels: 22
0.90 0.05 0.05
Matches are distributed among these distances:
140 2 0.00
141 89 0.21
143 182 0.43
144 13 0.03
145 12 0.03
146 121 0.29
147 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.34
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TTGGCCATTAGGC
Found at i:44258828 original size:85 final size:85
Alignment explanation
Indices: 44258699--44258877 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
44258689 TATTTTATTG
*
44258699 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
44258764 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
44258784 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
44258849 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
44258869 CCCATGCTC
1 CCCATGCTC
44258878 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:44260190 original size:40 final size:40
Alignment explanation
Indices: 44260133--44260611 Score: 748
Period size: 40 Copynumber: 12.1 Consensus size: 40
44260123 AGAATACACG
* * * *
44260133 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** * *
44260173 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
44260213 TCACTAGCACGAATGCTCTTCAGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
44260253 TCACTAGCATGATTGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
44260293 TTACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * *
44260333 TCACTAGCACGAATGCTCTTCGGAACTTAACCAGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
44260373 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
44260413 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
44260453 TCACTAGCATGAATGCTCTTC-GGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
44260492 TCACTAGCATGAATGCTCTTC-GGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
44260531 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
44260571 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
44260610 TC
1 TC
44260612 GTCGAGACCT
Statistics
Matches: 406, Mismatches: 32, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
39 81 0.20
40 325 0.80
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Done.