Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 14 of 186
Found at i:4311727 original size:22 final size:22
Alignment explanation
Indices: 4311699--4311770 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
4311689 GCTCACATTC
4311699 ATCACATTGGCCATTCAGCCTT
1 ATCACATTGGCCATTCAGCCTT
* *
4311721 ATCACATATATG-CATGTTCA-CATT
1 ATCACAT-T-GGCCA--TTCAGCCTT
*
4311745 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCAGCCTT
4311768 ATC
1 ATC
4311771 TCATATATAC
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
22 13 0.34
23 7 0.18
24 7 0.18
25 11 0.29
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Found at i:4311749 original size:25 final size:25
Alignment explanation
Indices: 4311674--4311752 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
4311664 ATTCGACCCT
*
4311674 ATCACATATATGCATGCTCACATTC
1 ATCACATATATGCATGTTCACATTC
* *
4311699 ATCACAT-T-GGCCA--TTCAGCCTT-
1 ATCACATATATG-CATGTTCA-CATTC
4311721 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATGTTCACATTC
4311746 ATCACAT
1 ATCACAT
4311753 TGGCCATTCG
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
22 10 0.24
23 7 0.17
24 7 0.17
25 18 0.43
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (25 bp):
ATCACATATATGCATGTTCACATTC
Found at i:4322503 original size:14 final size:16
Alignment explanation
Indices: 4322484--4322522 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
4322474 AAGAAAATGA
*
4322484 TGATATATGACA-A-G
1 TGATATATGAAATATG
4322498 TGATATATGAAATATG
1 TGATATATGAAATATG
4322514 TGATATATG
1 TGATATATG
4322523 TTATTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 1 0.05
16 10 0.45
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.36
Consensus pattern (16 bp):
TGATATATGAAATATG
Found at i:4322951 original size:50 final size:51
Alignment explanation
Indices: 4322831--4323017 Score: 167
Period size: 50 Copynumber: 3.7 Consensus size: 51
4322821 TGAGGTCGCA
* * * *
4322831 TGTGTAGTACTAAGTGCAGGCTACTAT-GCGTACCCGAAAACT-GT-GATCACT
1 TGTGTAGTACTAAGTGCAGGCTACTATCGTGTA-CC--AGACTGGTGGGTCACG
* **
4322882 TGTGTAGTACTAAGGGCAGGCTACTATC-TGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATCGTGTACCAGACTGGTG-GGTCACG
** *
4322932 TGTGTAGTACTAAGTGCAGGCTACTA-CGTGTACCAGACTTTTGGG-C-GG
1 TGTGTAGTACTAAGTGCAGGCTACTATCGTGTACCAGACTGGTGGGTCACG
*
4322980 ATGTGTAGTACTAAGTGCAGGCTACTAT-GCGTACCAGA
1 -TGTGTAGTACTAAGTGCAGGCTACTATCGTGTACCAGA
4323018 TAGCTTTGGC
Statistics
Matches: 114, Mismatches: 14, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
47 1 0.01
48 5 0.04
49 37 0.32
50 39 0.34
51 32 0.28
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTATCGTGTACCAGACTGGTGGGTCACG
Found at i:4328270 original size:43 final size:43
Alignment explanation
Indices: 4328207--4328290 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
4328197 CAACTCTGTC
*
4328207 GGAGCCATTTTGTACGGAGCTATTGATATCGATGATGTTCCCG
1 GGAGCCATTTTGTACAGAGCTATTGATATCGATGATGTTCCCG
*
4328250 GGAGCCATTTTGTACAGAGCTATTGATATCGGTGATGTTCC
1 GGAGCCATTTTGTACAGAGCTATTGATATCGATGATGTTCC
4328291 TGGTACTAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.33
Consensus pattern (43 bp):
GGAGCCATTTTGTACAGAGCTATTGATATCGATGATGTTCCCG
Found at i:4344967 original size:27 final size:27
Alignment explanation
Indices: 4344926--4344979 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
4344916 TGTCATGTGA
* *
4344926 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
4344953 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
4344980 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:4345362 original size:28 final size:28
Alignment explanation
Indices: 4345330--4345413 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
4345320 AACTTCGATC
4345330 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
4345358 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
4345380 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
4345408 ACGTGT
1 ACGTGT
4345414 ACCAGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:4345398 original size:50 final size:50
Alignment explanation
Indices: 4345225--4345438 Score: 243
Period size: 49 Copynumber: 4.3 Consensus size: 50
4345215 ATCTATTGTG
* * * *
4345225 AGGTCACGTGTGTAGTAATAAGTGTAGGCTACTACGTGTATCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * * * *
4345275 -GGTCGCATGTATAGTACTAAGTGTAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * **
4345325 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
4345375 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
4345425 -GGTCGCATGTGTAG
1 AGGTCACGTGTGTAG
4345439 NTATGCGTAC
Statistics
Matches: 136, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
49 51 0.38
50 49 0.36
51 36 0.26
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:4355788 original size:21 final size:21
Alignment explanation
Indices: 4355756--4355796 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4355746 AGGCTCGAGG
4355756 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
4355777 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
4355797 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:4363585 original size:97 final size:97
Alignment explanation
Indices: 4363419--4363654 Score: 436
Period size: 97 Copynumber: 2.4 Consensus size: 97
4363409 TTGAAGTATG
* *
4363419 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATGTCCAAATTTAAGATTAAATTTG
1 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTG
*
4363484 CATATTTTAATTAAAATATAATTTAGTACTTA
66 CATATTTTAATTAAAATATAATTCAGTACTTA
4363516 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTG
1 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTG
*
4363581 CATATTTTAATTAAAATATAATTCGGTACTTA
66 CATATTTTAATTAAAATATAATTCAGTACTTA
4363613 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAAT
1 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAAT
4363655 TGTTATTAAA
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 135 1.00
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (97 bp):
TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTG
CATATTTTAATTAAAATATAATTCAGTACTTA
Found at i:4363727 original size:23 final size:23
Alignment explanation
Indices: 4363692--4363736 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
4363682 CCTTATTTAA
**
4363692 TTCAAATTGATTAT-AATATTATT
1 TTCAAATAAATTATCAA-ATTATT
4363715 TTCAAATAAATTATCAAATTAT
1 TTCAAATAAATTATCAAATTAT
4363737 AAAATGACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (23 bp):
TTCAAATAAATTATCAAATTATT
Found at i:4368104 original size:18 final size:17
Alignment explanation
Indices: 4368076--4368110 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4368066 NNTATTAAGA
*
4368076 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
4368093 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
4368111 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:4368367 original size:16 final size:16
Alignment explanation
Indices: 4368346--4368381 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
4368336 GATTTGCTAT
4368346 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
4368362 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
4368378 TACA
1 TACA
4368382 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:4376730 original size:6 final size:6
Alignment explanation
Indices: 4376721--4376753 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
4376711 TATATATGTA
*
4376721 TATATG TATATG AATATG TATATG TATATG TAT
1 TATATG TATATG TATATG TATATG TATATG TAT
4376754 TCTTTTTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.48
Consensus pattern (6 bp):
TATATG
Found at i:4376817 original size:16 final size:16
Alignment explanation
Indices: 4376796--4376831 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
4376786 TACTTTTTTT
4376796 TATATATGTATATCTA
1 TATATATGTATATCTA
*
4376812 TATATATGTATATGTA
1 TATATATGTATATCTA
4376828 TATA
1 TATA
4376832 CTTTCCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (16 bp):
TATATATGTATATCTA
Found at i:4376972 original size:11 final size:11
Alignment explanation
Indices: 4376956--4376998 Score: 56
Period size: 10 Copynumber: 4.2 Consensus size: 11
4376946 ACATGCACAT
4376956 TTATATATATA
1 TTATATATATA
4376967 TTATATATAT-
1 TTATATATATA
4376977 TTATATA-ATA
1 TTATATATATA
*
4376987 TT-TATATGTA
1 TTATATATATA
4376997 TT
1 TT
4376999 TGCGCATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 6 0.21
10 13 0.45
11 10 0.34
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (11 bp):
TTATATATATA
Found at i:4376978 original size:21 final size:21
Alignment explanation
Indices: 4376954--4376999 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
4376944 TCACATGCAC
4376954 ATTTATAT-ATATATTATATAT
1 ATTTATATAATAT-TTATATAT
*
4376975 ATTTATATAATATTTATATGT
1 ATTTATATAATATTTATATAT
4376996 ATTT
1 ATTT
4377000 GCGCATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
ATTTATATAATATTTATATAT
Found at i:4391585 original size:21 final size:21
Alignment explanation
Indices: 4391553--4391593 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4391543 AGGCTCGAGG
4391553 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
4391574 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
4391594 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:4400723 original size:87 final size:86
Alignment explanation
Indices: 4400553--4400723 Score: 184
Period size: 87 Copynumber: 2.0 Consensus size: 86
4400543 GGATGAGCTC
* * *
4400553 CTTACTCTTAATGAGTTCATAGCCCAGAGTTTGCGTGGTCTTAGTAAGATGAACTTGATGAATTC
1 CTTACTCTTAATGAATTCATAGCCAAGAGTTTGCGTGGTCTTA-TAAGACGAACTTGATGAATTC
* * *
4400618 ACCAACGTGTGAAGTTGAGTTT
65 ACCAACGTATAAAATTGAGTTT
* * * * *
4400640 CTTACTCTTAATGAATTCATATCCAATAGTTTGGGTGGTTCTGT-TGAGACGGACTTGATGAATT
1 CTTACTCTTAATGAATTCATAGCCAAGAGTTTGCGTGG-TCT-TATAAGACGAACTTGATGAATT
*
4400704 CACCGAA-TTATAAAATTGAG
64 CACC-AACGTATAAAATTGAG
4400724 AGGTTAAGCT
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
87 63 0.91
88 5 0.07
89 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (86 bp):
CTTACTCTTAATGAATTCATAGCCAAGAGTTTGCGTGGTCTTATAAGACGAACTTGATGAATTCA
CCAACGTATAAAATTGAGTTT
Found at i:4410102 original size:46 final size:46
Alignment explanation
Indices: 4410084--4410240 Score: 165
Period size: 46 Copynumber: 3.3 Consensus size: 46
4410074 TGACAAGTGG
* * *
4410084 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
4410130 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * *
4410176 AAGTGAAAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
4410228 AAAGTGATAAGTG
1 AAAGTGATAAGTG
4410241 GCTACACTTA
Statistics
Matches: 101, Mismatches: 3, Indels: 14
0.86 0.03 0.12
Matches are distributed among these distances:
46 57 0.56
52 43 0.43
53 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:4410103 original size:52 final size:51
Alignment explanation
Indices: 4410032--4410240 Score: 284
Period size: 52 Copynumber: 4.1 Consensus size: 51
4410022 ATCAAGTGAC
* **
4410032 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
4410084 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
4410130 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* *
4410181 AAAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-AAGTG
4410234 ATAAGTG
1 A-AAGTG
4410241 GCTACACTTA
Statistics
Matches: 140, Mismatches: 9, Indels: 15
0.85 0.05 0.09
Matches are distributed among these distances:
46 44 0.31
52 86 0.61
53 10 0.07
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:4410138 original size:98 final size:98
Alignment explanation
Indices: 4410018--4410241 Score: 376
Period size: 98 Copynumber: 2.3 Consensus size: 98
4410008 TTTGAGTACT
*
4410018 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
4410083 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTACACTTA
* *
4410116 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
4410181 AAAAGTGATAAGTGATAGCTTTGGCTACACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTACACTTA
*
4410214 TCTGATCAAGAGACAAAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
4410242 CTACACTTAT
Statistics
Matches: 117, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 117 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTACACTTA
Found at i:4410246 original size:37 final size:37
Alignment explanation
Indices: 4410202--4410349 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
4410192 GTGATAGCTT
*
4410202 TGGCTACACTTATCTGATCAAGAGACAAAGTGATAAG
1 TGGCTACACTTATCTGATCAAGAAACAAAGTGATAAG
4410239 TGGCTACACTTATCTGATCAAGAAACAAAGTGATAAG
1 TGGCTACACTTATCTGATCAAGAAACAAAGTGATAAG
*
4410276 TGGCTACACTTATCTGATCAAGAAACAAAGTGATAGG
1 TGGCTACACTTATCTGATCAAGAAACAAAGTGATAAG
**
4410313 TGGCTACACTTATCTGATC-AGGGAC-AAGTGATAAG
1 TGGCTACACTTATCTGATCAAGAAACAAAGTGATAAG
4410348 TG
1 TG
4410350 ATCATACGTA
Statistics
Matches: 106, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
35 11 0.10
36 4 0.04
37 91 0.86
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
TGGCTACACTTATCTGATCAAGAAACAAAGTGATAAG
Found at i:4436777 original size:26 final size:26
Alignment explanation
Indices: 4436748--4436801 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
4436738 TGGTATGAGT
4436748 ATGAATGAAATGGAAGAAATAAAAGA
1 ATGAATGAAATGGAAGAAATAAAAGA
4436774 ATGAATGAAATGGAAGAAATAAAAGA
1 ATGAATGAAATGGAAGAAATAAAAGA
4436800 AT
1 AT
4436802 ATTTTCCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.17
Consensus pattern (26 bp):
ATGAATGAAATGGAAGAAATAAAAGA
Found at i:4449098 original size:10 final size:10
Alignment explanation
Indices: 4449083--4449129 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
4449073 TGCGTTTGTA
4449083 TTTTCTTTAT
1 TTTTCTTTAT
4449093 TTTTCTTTTAT
1 TTTTC-TTTAT
4449104 TTTAT-TTTAT
1 TTT-TCTTTAT
* *
4449114 TTTTGTTTGT
1 TTTTCTTTAT
4449124 TTTTCT
1 TTTTCT
4449130 ACAATCTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 1 0.03
10 22 0.69
11 8 0.25
12 1 0.03
ACGTcount: A:0.09, C:0.06, G:0.04, T:0.81
Consensus pattern (10 bp):
TTTTCTTTAT
Found at i:4454161 original size:26 final size:25
Alignment explanation
Indices: 4454132--4454180 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
4454122 TGCCGATAAT
*
4454132 GAAATCTGCACTATAGCACGATGTCA
1 GAAATCTGCACTAT-GAACGATGTCA
* *
4454158 GAAATTTGCAGTATGAACGATGT
1 GAAATCTGCACTATGAACGATGT
4454181 AATTCTTTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (25 bp):
GAAATCTGCACTATGAACGATGTCA
Found at i:4454407 original size:22 final size:22
Alignment explanation
Indices: 4454376--4454454 Score: 72
Period size: 22 Copynumber: 3.5 Consensus size: 22
4454366 AATCAAAGTC
*
4454376 AAAATGAAAATGAAAATGAAAA
1 AAAATCAAAATGAAAATGAAAA
*
4454398 AAAATCAAAAATCAAAAT-AAAA
1 AAAATC-AAAATGAAAATGAAAA
* *
4454420 AAAAT-AAAAAGAAGAAAGAAGAAA
1 AAAATCAAAATGAA-AATG-A-AAA
4454444 AAAATCAAAAT
1 AAAATCAAAAT
4454455 CAAGATCAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
20 6 0.13
21 2 0.04
22 14 0.31
23 11 0.24
24 8 0.18
25 4 0.09
ACGTcount: A:0.76, C:0.04, G:0.09, T:0.11
Consensus pattern (22 bp):
AAAATCAAAATGAAAATGAAAA
Found at i:4454414 original size:23 final size:21
Alignment explanation
Indices: 4454350--4454429 Score: 79
Period size: 24 Copynumber: 3.6 Consensus size: 21
4454340 AAAAGGGAAG
*
4454350 AAAAAATAAAAATCACAATCAA
1 AAAAAATAAAAATCAAAAT-AA
* * *
4454372 AGTCAAAATGAAAATGAAAATGAA
1 A--AAAAATAAAAATCAAAAT-AA
4454396 AAAAAATCAAAAATCAAAATAA
1 AAAAAAT-AAAAATCAAAATAA
4454418 AAAAAATAAAAA
1 AAAAAATAAAAA
4454430 GAAGAAAGAA
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
21 5 0.11
22 15 0.32
23 10 0.21
24 17 0.36
ACGTcount: A:0.74, C:0.07, G:0.05, T:0.14
Consensus pattern (21 bp):
AAAAAATAAAAATCAAAATAA
Found at i:4454495 original size:51 final size:47
Alignment explanation
Indices: 4454376--4454497 Score: 124
Period size: 50 Copynumber: 2.5 Consensus size: 47
4454366 AATCAAAGTC
*
4454376 AAAATGAAAATGAAAATGAAAAAAAATCAAAAATCAAAATAAAAAAAATA
1 AAAATGAAAA--AGAATG-AAAAAAATCAAAAATCAAAATAAAAAAAATA
*
4454426 AAAA-GAAGAAAGAA-GAAAAAAATC-AAAATCAAGATCAAAATGAAAATGA
1 AAAATGAA-AAAGAATGAAAAAAATCAAAAATCAAAAT-AAAA--AAAAT-A
4454475 GAAAATGAAAAAGAATGAAAAAA
1 -AAAATGAAAAAGAATGAAAAAA
4454498 GAGAAATCTA
Statistics
Matches: 62, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
45 10 0.16
46 13 0.21
47 1 0.02
48 8 0.13
49 4 0.06
50 16 0.26
51 10 0.16
ACGTcount: A:0.73, C:0.04, G:0.11, T:0.11
Consensus pattern (47 bp):
AAAATGAAAAAGAATGAAAAAAATCAAAAATCAAAATAAAAAAAATA
Found at i:4455440 original size:13 final size:13
Alignment explanation
Indices: 4455424--4455448 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4455414 GAATGAAAAC
4455424 AAATGAAAAATGA
1 AAATGAAAAATGA
4455437 AAATGAAAAATG
1 AAATGAAAAATG
4455449 GAGAGGCTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (13 bp):
AAATGAAAAATGA
Found at i:4457000 original size:70 final size:70
Alignment explanation
Indices: 4456886--4457040 Score: 256
Period size: 70 Copynumber: 2.2 Consensus size: 70
4456876 GTAATTCTTG
* * * *
4456886 CTCCTTGATTTCAGCCTTAAATGTTGCATGTTGTTGGCCGAATGGGTGCTTGAAAATACCAACCA
1 CTCCTTAATTTCAGCCTTAAATGATGCATGTTGTTGACCAAATGGGTGCTTGAAAATACCAACCA
4456951 GCAGC
66 GCAGC
* *
4456956 TTCCTTAATTTCAGCCTTAAATGATGCATGTTGTTGACCAAATGGGTGTTTGAAAATACCAACCA
1 CTCCTTAATTTCAGCCTTAAATGATGCATGTTGTTGACCAAATGGGTGCTTGAAAATACCAACCA
4457021 GCAGC
66 GCAGC
4457026 CTCCTTAATTTCAGC
1 CTCCTTAATTTCAGC
4457041 ATGAATTCAA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 78 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (70 bp):
CTCCTTAATTTCAGCCTTAAATGATGCATGTTGTTGACCAAATGGGTGCTTGAAAATACCAACCA
GCAGC
Found at i:4460313 original size:15 final size:16
Alignment explanation
Indices: 4460295--4460341 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 16
4460285 CTGAGTCAAC
*
4460295 AAAAAATG-AGAATGA
1 AAAAAATGAAAAATGA
4460310 AAAAAATGAAAAATG-
1 AAAAAATGAAAAATGA
4460325 --AAAATGAAAAATGA
1 AAAAAATGAAAAATGA
4460339 AAA
1 AAA
4460342 TGAAAAATGG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
13 13 0.48
15 8 0.30
16 6 0.22
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (16 bp):
AAAAAATGAAAAATGA
Found at i:4460321 original size:6 final size:6
Alignment explanation
Indices: 4460312--4460347 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
4460302 GAGAATGAAA
4460312 AAAATG AAAAATG AAAATG AAAAATG AAAATG AAAA
1 AAAATG -AAAATG AAAATG -AAAATG AAAATG AAAA
4460348 ATGGAGAGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 16 0.57
7 12 0.43
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:4460323 original size:7 final size:7
Alignment explanation
Indices: 4460311--4460350 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
4460301 TGAGAATGAA
4460311 AAAAATG
1 AAAAATG
4460318 AAAAATG
1 AAAAATG
4460325 -AAAATG
1 AAAAATG
4460331 AAAAATG
1 AAAAATG
4460338 -AAAATG
1 AAAAATG
4460344 AAAAATG
1 AAAAATG
4460351 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.39
7 19 0.61
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:4460328 original size:13 final size:13
Alignment explanation
Indices: 4460312--4460350 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
4460302 GAGAATGAAA
4460312 AAAATGAAAAATG
1 AAAATGAAAAATG
4460325 AAAATGAAAAATG
1 AAAATGAAAAATG
4460338 AAAATGAAAAATG
1 AAAATGAAAAATG
4460351 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:4461533 original size:12 final size:12
Alignment explanation
Indices: 4461513--4461554 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
4461503 AAAGAAAAGG
4461513 TAAAAAAATAAA
1 TAAAAAAATAAA
*
4461525 TAAATAAATAAA
1 TAAAAAAATAAA
*
4461537 T--AAAAATATA
1 TAAAAAAATAAA
4461547 TAAAAAAA
1 TAAAAAAA
4461555 ACTGAGACCC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
10 8 0.32
12 17 0.68
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
TAAAAAAATAAA
Found at i:4461909 original size:70 final size:70
Alignment explanation
Indices: 4461795--4461949 Score: 238
Period size: 70 Copynumber: 2.2 Consensus size: 70
4461785 GTAATTCTTG
* * * *
4461795 CTCCTTGATTTCAGCCTTAAATGTTGCATGTTGTTGGCCGAATGGGTGCTTGAAAATACCAACCA
1 CTCCTTAATTTCAGCCTTAAATGATGCATGTTGTTGACCAAATGGGTGCTTGAAAATACCAACCA
4461860 GAAGC
66 GAAGC
* * *
4461865 TTCCTTAATTTCAGCCTTAAATGATGCATGTTTTTGACCAAATGGGTGTTTGAAAATACCAACCA
1 CTCCTTAATTTCAGCCTTAAATGATGCATGTTGTTGACCAAATGGGTGCTTGAAAATACCAACCA
*
4461930 GCAGC
66 GAAGC
4461935 CTCCTTAATTTCAGC
1 CTCCTTAATTTCAGC
4461950 ATGAATTCAA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 76 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (70 bp):
CTCCTTAATTTCAGCCTTAAATGATGCATGTTGTTGACCAAATGGGTGCTTGAAAATACCAACCA
GAAGC
Found at i:4466568 original size:70 final size:70
Alignment explanation
Indices: 4466455--4466608 Score: 254
Period size: 70 Copynumber: 2.2 Consensus size: 70
4466445 TTGAATTCAT
* * * *
4466455 GCTGAAATTAAGGAGGCTGCTGGTTGGTATTTTCAAACACCCATTTGGTCAACAACATGCATCAT
1 GCTGAAATTAAGGAAGCTGCTGGTTGGTATTTTCAAACACCCATTCGGCCAACAACATGCAACAT
4466520 TTAAG
66 TTAAG
*
4466525 GCTGAAATTAAGGAAGCTGCTGGTTGGTATTTTCAAGCACCCATTCGGCCAACAACATGCAACAT
1 GCTGAAATTAAGGAAGCTGCTGGTTGGTATTTTCAAACACCCATTCGGCCAACAACATGCAACAT
4466590 TTAAG
66 TTAAG
*
4466595 GCTGAAATCAAGGA
1 GCTGAAATTAAGGA
4466609 GCAAGAATTA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 78 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (70 bp):
GCTGAAATTAAGGAAGCTGCTGGTTGGTATTTTCAAACACCCATTCGGCCAACAACATGCAACAT
TTAAG
Found at i:4466870 original size:4 final size:4
Alignment explanation
Indices: 4466863--4466889 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
4466853 TTTTATATAT
4466863 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
4466890 TTACCTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:4467831 original size:44 final size:44
Alignment explanation
Indices: 4467775--4468758 Score: 743
Period size: 44 Copynumber: 22.7 Consensus size: 44
4467765 TTGCAGATCT
4467775 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCC
* * * * * *
4467819 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATTA-AAGATCT
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTA-ATCC
* * ** * * * * * *
4467863 TATCTCTCT-AAAGTTACAGTAGAGTAGATCGCA-TCAG--GTCT
1 TATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGTTAGTAATCC
** **
4467904 TATCTCCCTGAGATTACAATGGAGCAGACCGAAGAATT--TCAGAT-C
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAG--TTAGT-A-ATCC
* * *
4467949 TCATCTCCCTAAGATTACAGCGGAGCAGATTAAAGCTAGTAATCC
1 T-ATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCC
* * ** * * *
4467994 TATCTCCTTGAGATTACAGTGGAGTGGATT-AAGATAAAG-GATCT
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-T-TAGTAATCC
* * * * * *
4468038 TATCTCTCT-AAAGTTACAGCGGAGCAGA-TCACA-TCAG--GTCT
1 TATCTCCCTGAGA-TTACAGCGGAGCAGATTGA-AGTTAGTAATCC
* * ** * *
4468079 TATCTCCCTGAGATTACAGTGGGGCAGACCGAAAAATT--TCAGATCT
1 TATCTCCCTGAGATTACAGCGGAGCAGATTG--AAGTTAGT-A-ATCC
* *
4468125 TATCTCCCTGAGATTACAGCGGAGCAAATTGAAGCTAGTAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCC
* *
4468169 TATCT--CTCA-A-T-----GGAGCAGATTGAAGCTAGTAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCC
** * * * * * * * *
4468204 TATCTCTTTGATATTACAGTGGAGCGGATTAAAATAAAG-GATCT
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGT-TAGTAATCC
* * * * * * *
4468248 TATCTCTCTGA-AGTTACAGCAGAGCAGATCGCA-TCAG--GTCT
1 TATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGTTAGTAATCC
* * *
4468289 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCC
* * *
4468333 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCC
* * *
4468377 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCC
* * *
4468421 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCC
* * *
4468465 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCC
* * *
4468509 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCC
* * *
4468553 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCC
* * *
4468597 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCC
* * *
4468641 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCC
* * *
4468685 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCC
* *
4468729 TATCTCCCTGAGATTACAGTGGAGCGGATT
1 TATCTCCCTGAGATTACAGCGGAGCAGATT
4468759 AAAATAAAGG
Statistics
Matches: 794, Mismatches: 100, Indels: 92
0.81 0.10 0.09
Matches are distributed among these distances:
35 28 0.04
37 2 0.00
38 1 0.00
39 1 0.00
40 1 0.00
41 79 0.10
42 14 0.02
43 15 0.02
44 584 0.74
45 10 0.01
46 59 0.07
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCC
Found at i:4467921 original size:85 final size:85
Alignment explanation
Indices: 4467819--4468100 Score: 307
Period size: 85 Copynumber: 3.3 Consensus size: 85
4467809 TTAGTAATCC
**
4467819 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATTAAAGATCTTATCTCTCTAAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATTAAAGATCTTATCTCTCTAAAGTTACAGCG
* *
4467884 GAGTAGATCGCATCAGGTCT
66 GAGCAGATCACATCAGGTCT
* * ** ** * *
4467904 TATCTCCCTGAGATTACAATGGAGCAGACCGAAGAATTTCAGATCTCATCTCCCT-AAGATTACA
1 TATCTCCCTGAGATTACAGTGGAGCGGA-TTAA-AATTAAAGATCTTATCTCTCTAAAG-TTACA
* * * * *
4467968 GCGGAGCAGATTAAAGCTAGTAATCC
63 GCGGAGCAGATCACATC-AG--GTCT
* * *
4467994 TATCTCCTTGAGATTACAGTGGAGTGGATTAAGA-TAAAGGATCTTATCTCTCTAAAGTTACAGC
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATTAAA-GATCTTATCTCTCTAAAGTTACAGC
4468058 GGAGCAGATCACATCAGGTCT
65 GGAGCAGATCACATCAGGTCT
4468079 TATCTCCCTGAGATTACAGTGG
1 TATCTCCCTGAGATTACAGTGG
4468101 GGCAGACCGA
Statistics
Matches: 155, Mismatches: 34, Indels: 16
0.76 0.17 0.08
Matches are distributed among these distances:
85 49 0.32
86 5 0.03
87 36 0.23
88 34 0.22
89 5 0.03
90 26 0.17
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (85 bp):
TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATTAAAGATCTTATCTCTCTAAAGTTACAGCG
GAGCAGATCACATCAGGTCT
Found at i:4468013 original size:175 final size:175
Alignment explanation
Indices: 4467722--4468174 Score: 719
Period size: 175 Copynumber: 2.6 Consensus size: 175
4467712 GTTCATTATA
* * * *
4467722 CAGGTCTTATTTCCCTGAGATTACGGTGGAACAGACCGAAGAATTGCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
*
4467787 ATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
* * *
4467852 ATTAAA-GATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCAT
131 A-TAAAGGATCTTATCTCTCTAAAGTTACAGCAGAGCAGATCACAT
* * *
4467897 CAGGTCTTATCTCCCTGAGATTACAATGGAGCAGACCGAAGAATTTCAGATCTCATCTCCCTAAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
* * * *
4467962 ATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCTTGAGATTACAGTGGAGTGGATTAAG
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
*
4468027 ATAAAGGATCTTATCTCTCTAAAGTTACAGCGGAGCAGATCACAT
131 ATAAAGGATCTTATCTCTCTAAAGTTACAGCAGAGCAGATCACAT
* *
4468072 CAGGTCTTATCTCCCTGAGATTACAGTGGGGCAGACCGAAAAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
*
4468137 ATTACAGCGGAGCAAATTGAAGCTAGTAATCCTATCTC
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTC
4468175 TCAATGGAGC
Statistics
Matches: 254, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
174 4 0.02
175 250 0.98
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (175 bp):
CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
ATAAAGGATCTTATCTCTCTAAAGTTACAGCAGAGCAGATCACAT
Found at i:4468791 original size:88 final size:88
Alignment explanation
Indices: 4468289--4468747 Score: 918
Period size: 88 Copynumber: 5.2 Consensus size: 88
4468279 CATCAGGTCT
4468289 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCG
4468354 AAGCAGCTTGAAGTTCGTAATCC
66 AAGCAGCTTGAAGTTCGTAATCC
4468377 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCG
4468442 AAGCAGCTTGAAGTTCGTAATCC
66 AAGCAGCTTGAAGTTCGTAATCC
4468465 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCG
4468530 AAGCAGCTTGAAGTTCGTAATCC
66 AAGCAGCTTGAAGTTCGTAATCC
4468553 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCG
4468618 AAGCAGCTTGAAGTTCGTAATCC
66 AAGCAGCTTGAAGTTCGTAATCC
4468641 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCG
4468706 AAGCAGCTTGAAGTTCGTAATCC
66 AAGCAGCTTGAAGTTCGTAATCC
4468729 TATCTCCCTGAGATTACAG
1 TATCTCCCTGAGATTACAG
4468748 TGGAGCGGAT
Statistics
Matches: 371, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 371 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (88 bp):
TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCG
AAGCAGCTTGAAGTTCGTAATCC
Found at i:4468791 original size:132 final size:132
Alignment explanation
Indices: 4468289--4468747 Score: 918
Period size: 132 Copynumber: 3.5 Consensus size: 132
4468279 CATCAGGTCT
4468289 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCG
4468354 AAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAAT
66 AAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAAT
4468419 CC
131 CC
4468421 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCG
4468486 AAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAAT
66 AAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAAT
4468551 CC
131 CC
4468553 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCG
4468618 AAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAAT
66 AAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAAT
4468683 CC
131 CC
4468685 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAG
1 TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAG
4468748 TGGAGCGGAT
Statistics
Matches: 327, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
132 327 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (132 bp):
TATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCG
AAGCAGCTTGAAGTTCGTAATCCTATCTCCCTGAGATTACAGCGAAGCAGCTTGAAGTTCGTAAT
CC
Found at i:4469829 original size:2 final size:2
Alignment explanation
Indices: 4469822--4469855 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4469812 AGGAAGAAAT
4469822 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4469856 AGTTCGTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4478427 original size:26 final size:26
Alignment explanation
Indices: 4478396--4478456 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
4478386 ATAAGAGCCA
* * *
4478396 TAATCAGGAAGTTTACAAAGAAATTT
1 TAATCAGGAAGATCACAAAGAAACTT
* **
4478422 TAATCAGAAAGATCACAAAGAGCCTT
1 TAATCAGGAAGATCACAAAGAAACTT
4478448 TAATCAGGA
1 TAATCAGGA
4478457 GCTCTAAATA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.46, C:0.13, G:0.16, T:0.25
Consensus pattern (26 bp):
TAATCAGGAAGATCACAAAGAAACTT
Found at i:4479603 original size:51 final size:52
Alignment explanation
Indices: 4479547--4479769 Score: 197
Period size: 51 Copynumber: 4.4 Consensus size: 52
4479537 GCATGGACTG
* *** *
4479547 TGTGTAGGCCACTATGTGAAAGTGAAAGTGAT-GGTCACGTGTGTAGTACTA
1 TGTGTAGGCTACTATGTGAACCAGAAAGTGATAGGTCACATGTGTAGTACTA
* * **
4479598 TGTGTAGGCTACTACGTGTACCAG-AA-TGATAGGTCTTATGTGTAGTACTA
1 TGTGTAGGCTACTATGTGAACCAGAAAGTGATAGGTCACATGTGTAGTACTA
* * * * * * *
4479648 TGTGCAGGCTACTATGCGTACCAGATAGCT--TCGATCACGTGTGTAGTACTA
1 TGTGTAGGCTACTATGTGAACCAGAAAG-TGATAGGTCACATGTGTAGTACTA
* * * *
4479699 TGTGTAGGCTACTATGTGTATCGGATAGTGAT-GGTCACATGTGTAGTACTA
1 TGTGTAGGCTACTATGTGAACCAGAAAGTGATAGGTCACATGTGTAGTACTA
* *
4479750 TGTGCATGCTACTATGTGAA
1 TGTGTAGGCTACTATGTGAA
4479770 TCCGCATCAT
Statistics
Matches: 139, Mismatches: 27, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
49 4 0.03
50 40 0.29
51 93 0.67
52 1 0.01
53 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (52 bp):
TGTGTAGGCTACTATGTGAACCAGAAAGTGATAGGTCACATGTGTAGTACTA
Found at i:4479697 original size:101 final size:102
Alignment explanation
Indices: 4479581--4479765 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
4479571 AAAGTGATGG
**
4479581 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-A-TGATAGGTCTTATGTGTAGT
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
4479644 ACTATGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
* * *
4479682 TCACGTGTGTAGTACTATGTGTAGGCTACTATGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
*
4479747 CTATGTGCATGCTACTATG
66 CTATGTGCAGGCTACTATG
4479766 TGAATCCGCA
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 39 0.51
102 33 0.43
103 4 0.05
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
Found at i:4479716 original size:26 final size:25
Alignment explanation
Indices: 4479687--4479767 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 25
4479677 TTCGATCACG
4479687 TGTGTAGTACTATGTGTAGGCTACTA
1 TGTGTAGTACTATGTG-AGGCTACTA
*
4479713 TGTGTA-T-CGGATAGTGATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGA-GGCT-ACTA
*
4479738 TGTGTAGTACTATGTGCATGCTACTA
1 TGTGTAGTACTATGTG-AGGCTACTA
4479764 TGTG
1 TGTG
4479768 AATCCGCATC
Statistics
Matches: 43, Mismatches: 3, Indels: 18
0.67 0.05 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.42
26 23 0.53
27 1 0.02
ACGTcount: A:0.22, C:0.12, G:0.28, T:0.37
Consensus pattern (25 bp):
TGTGTAGTACTATGTGAGGCTACTA
Found at i:4479890 original size:41 final size:42
Alignment explanation
Indices: 4479775--4479901 Score: 161
Period size: 43 Copynumber: 3.0 Consensus size: 42
4479765 GTGAATCCGC
* *
4479775 ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCAT
1 ATCATTGATTAT-AAGGTGGTTGCTAAGTGCTGATTCCACCGT
* *
4479818 ATCCTTGACTGTGA-AAGG-GGTTGCTATGTGCTGATTCC-CCGT
1 ATCATTGA-T-T-ATAAGGTGGTTGCTAAGTGCTGATTCCACCGT
4479860 ATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 ATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGT
4479902 GTGACGGTTA
Statistics
Matches: 72, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
39 1 0.01
40 5 0.07
41 20 0.28
42 14 0.19
43 26 0.36
44 4 0.06
45 1 0.01
46 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (42 bp):
ATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGT
Found at i:4484640 original size:13 final size:13
Alignment explanation
Indices: 4484595--4484639 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
4484585 AAAGCAAGGC
*
4484595 AATAACAATAAAT
1 AATAAAAATAAAT
4484608 AGAT--AAATAAAT
1 A-ATAAAAATAAAT
4484620 AATAAAAATAAA-
1 AATAAAAATAAAT
4484632 AATAAAAA
1 AATAAAAA
4484640 AATCCAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
11 2 0.07
12 16 0.57
13 8 0.29
14 2 0.07
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (13 bp):
AATAAAAATAAAT
Found at i:4496011 original size:43 final size:43
Alignment explanation
Indices: 4495964--4496234 Score: 257
Period size: 43 Copynumber: 6.3 Consensus size: 43
4495954 GTGCCGGACA
* *
4495964 AAACGCCGCTAAAGACTAAGACCTTTAGCGGCGCTTTTCCTAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCTAC
*
4496007 AAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCTAC
* * *
4496050 AAACGCCGCTAAAGACTAGGACCTTTAGC-AGCGATTTTTCC-AC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGA-CG-CTTTTCCTAC
** * * *
4496093 AAGTGTCGCTAAAGACCAAAACCTTTAGCGGCGCTTTTTCC-AC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGACGC-TTTTCCTAC
* *
4496136 AAACGCCGCTAAAGACCCAA-ACCTATAGCGACGCTTTT-TTCAC
1 AAACGCCGCTAAAGA-CCAAGACCTTTAGCGACGCTTTTCCT-AC
* * * * * ***
4496179 AAACACCGCTATAG-CTCAAGACTTTTAGTGACACTTTGATTAC
1 AAACGCCGCTAAAGAC-CAAGACCTTTAGCGACGCTTTTCCTAC
4496222 AAACGCCGCTAAA
1 AAACGCCGCTAAA
4496235 AATACTATTA
Statistics
Matches: 189, Mismatches: 29, Indels: 20
0.79 0.12 0.08
Matches are distributed among these distances:
41 1 0.01
42 8 0.04
43 168 0.89
44 12 0.06
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCTAC
Found at i:4496206 original size:129 final size:129
Alignment explanation
Indices: 4495970--4496206 Score: 345
Period size: 129 Copynumber: 1.8 Consensus size: 129
4495960 GACAAAACGC
* * *
4495970 CGCTAAAGACTAAGACCTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGACCAAGACCTTTAG
1 CGCTAAAGACCAAAACCTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGACCAAGACCTATAG
* *
4496035 CGACGCTTTTCCCACAAACGCCGCTAAAGACTAGGACCTTTAGCAGCGATTTTTCCACAAGTGT
66 CGACGCTTTTCCCACAAACACCGCTAAAGACTAAGACCTTTAGCAGCGATTTTTCCACAAGTGT
4496099 CGCTAAAGACCAAAACCTTTAGCGGCGCTTTTTCC-ACAAACGCCGCTAAAGACCCAA-ACCTAT
1 CGCTAAAGACCAAAACCTTTAGCGGCGC-TTTTCCTACAAACGCCGCTAAAGA-CCAAGACCTAT
** * *
4496162 AGCGACGCTTTTTTCACAAACACCGCTATAG-CTCAAGACTTTTAG
64 AGCGACGCTTTTCCCACAAACACCGCTAAAGACT-AAGACCTTTAG
4496207 TGACACTTTG
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
128 2 0.02
129 84 0.88
130 10 0.10
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (129 bp):
CGCTAAAGACCAAAACCTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGACCAAGACCTATAG
CGACGCTTTTCCCACAAACACCGCTAAAGACTAAGACCTTTAGCAGCGATTTTTCCACAAGTGT
Found at i:4501432 original size:8 final size:7
Alignment explanation
Indices: 4501414--4501501 Score: 52
Period size: 7 Copynumber: 12.3 Consensus size: 7
4501404 TAATGTTAAT
4501414 CTAAACC
1 CTAAACC
4501421 CTAAACCC
1 CTAAA-CC
*
4501429 CTAATCC
1 CTAAACC
*
4501436 CT-ATCTC
1 CTAAAC-C
4501443 CTAAACC
1 CTAAACC
* *
4501450 TTAAATC
1 CTAAACC
* *
4501457 ATAAAAC
1 CTAAACC
*
4501464 ATAAACC
1 CTAAACC
4501471 CTAAACCC
1 CTAAA-CC
*
4501479 CTAACCC
1 CTAAACC
*
4501486 CTAACCC
1 CTAAACC
*
4501493 CTAACCC
1 CTAAACC
4501500 CT
1 CT
4501502 CTTTTACAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
6 3 0.04
7 51 0.75
8 14 0.21
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:4501500 original size:14 final size:15
Alignment explanation
Indices: 4501469--4501501 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
4501459 AAAACATAAA
4501469 CCCTAAACCCCTAAC
1 CCCTAAACCCCTAAC
4501484 CCCT-AACCCCTAAC
1 CCCTAAACCCCTAAC
4501498 CCCT
1 CCCT
4501502 CTTTTACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.27, C:0.58, G:0.00, T:0.15
Consensus pattern (15 bp):
CCCTAAACCCCTAAC
Found at i:4501640 original size:16 final size:16
Alignment explanation
Indices: 4501619--4501655 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
4501609 TTTGGTTCGC
4501619 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
4501635 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
4501651 TGTAT
1 TGTAT
4501656 CTTATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:4504716 original size:14 final size:14
Alignment explanation
Indices: 4504699--4504743 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
4504689 CACTAACTCT
*
4504699 TAACCTTTAACCCC
1 TAACCTCTAACCCC
4504713 TAACCTCTAACCCC
1 TAACCTCTAACCCC
4504727 TAA-CTACTAACCCC
1 TAACCT-CTAACCCC
4504741 TAA
1 TAA
4504744 ACCTTATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 2 0.07
14 27 0.93
ACGTcount: A:0.33, C:0.42, G:0.00, T:0.24
Consensus pattern (14 bp):
TAACCTCTAACCCC
Found at i:4504794 original size:7 final size:7
Alignment explanation
Indices: 4504782--4504829 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
4504772 ATTACTTAAT
4504782 CTAAACC
1 CTAAACC
4504789 CTAAACC
1 CTAAACC
4504796 CT-AACC
1 CTAAACC
4504802 C-AAATCC
1 CTAAA-CC
*
4504809 CTAACCC
1 CTAAACC
*
4504816 CTAACCC
1 CTAAACC
4504823 CTAAACC
1 CTAAACC
4504830 TTATTTAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
6 7 0.19
7 27 0.75
8 2 0.06
ACGTcount: A:0.38, C:0.48, G:0.00, T:0.15
Consensus pattern (7 bp):
CTAAACC
Found at i:4504810 original size:13 final size:13
Alignment explanation
Indices: 4504785--4504826 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
4504775 ACTTAATCTA
4504785 AACCCTAAACCCT
1 AACCCTAAACCCT
4504798 AACCC-AAATCCCT
1 AACCCTAAA-CCCT
*
4504811 AACCCCTAACCCCT
1 AA-CCCTAAACCCT
4504825 AA
1 AA
4504827 ACCTTATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 3 0.12
13 11 0.44
14 9 0.36
15 2 0.08
ACGTcount: A:0.38, C:0.48, G:0.00, T:0.14
Consensus pattern (13 bp):
AACCCTAAACCCT
Found at i:4504878 original size:81 final size:84
Alignment explanation
Indices: 4504700--4504883 Score: 257
Period size: 81 Copynumber: 2.2 Consensus size: 84
4504690 ACTAACTCTT
* * *
4504700 AACCTTTAACCCCTAACCTCTAACCCCTAACTACTAACCCCTAAACCTTATTTAATATATAAATT
1 AACC-TTAAACCCTAACCTCAAACCCCTAACCACTAACCCCTAAACCTTATTTAATATATAAATT
* *
4504765 AAAAAACATTACTTAATCTA
65 AAAAAACACTAATTAATCTA
* * *
4504785 AACCCTAAACCCTAACC-CAAATCCCTAACCCCTAACCCCTAAACCTTATTT-A-ATATAAATTA
1 AACCTTAAACCCTAACCTCAAACCCCTAACCACTAACCCCTAAACCTTATTTAATATATAAATTA
*
4504847 AAACACACTAATTAATCTA
66 AAAAACACTAATTAATCTA
4504866 AACCTTAAACCCTAACCT
1 AACCTTAAACCCTAACCT
4504884 AACATCGAAT
Statistics
Matches: 88, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
81 42 0.48
82 1 0.01
83 30 0.34
84 11 0.12
85 4 0.05
ACGTcount: A:0.42, C:0.31, G:0.00, T:0.27
Consensus pattern (84 bp):
AACCTTAAACCCTAACCTCAAACCCCTAACCACTAACCCCTAAACCTTATTTAATATATAAATTA
AAAAACACTAATTAATCTA
Found at i:4504937 original size:7 final size:7
Alignment explanation
Indices: 4504925--4504956 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
4504915 CTTTTAATCT
4504925 CTAACCC
1 CTAACCC
*
4504932 CTAACCA
1 CTAACCC
4504939 CTAACCC
1 CTAACCC
4504946 CTAACCC
1 CTAACCC
4504953 CTAA
1 CTAA
4504957 ATCACAACCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.34, C:0.50, G:0.00, T:0.16
Consensus pattern (7 bp):
CTAACCC
Found at i:4505381 original size:41 final size:42
Alignment explanation
Indices: 4505336--4505445 Score: 143
Period size: 41 Copynumber: 2.7 Consensus size: 42
4505326 AAATATTTTT
* * *
4505336 GCGGCACTTTTTTAAAAACGCCGCTAAAAG-CCTAAGCATTA
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAAGACCTAAGCATCA
* * *
4505377 GCGGCGCTTTTTCAAAAACGCCGCT-AAAGATCTGAGCATCA
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAAGACCTAAGCATCA
*
4505418 GCGACGCTTTTTAAAAAACGCCGCTAAA
1 GCGGCGCTTTTTAAAAAACGCCGCTAAA
4505446 GCCCCGAAAG
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
40 4 0.07
41 54 0.90
42 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (42 bp):
GCGGCGCTTTTTAAAAAACGCCGCTAAAAGACCTAAGCATCA
Found at i:4505579 original size:40 final size:39
Alignment explanation
Indices: 4505501--4505606 Score: 151
Period size: 40 Copynumber: 2.7 Consensus size: 39
4505491 CGGCGTTTTT
* *
4505501 CTAATGCTC-ATTTTTAGTGGCGCTTTTCTGAAAGCGCCG
1 CTAATGCTCGATTTTTAGCGGCG-TTTTATGAAAGCGCCG
* *
4505540 CTAATGCTCGATCTTTAACGGCGTTTTATGTAAAGCGCCG
1 CTAATGCTCGATTTTTAGCGGCGTTTTATG-AAAGCGCCG
4505580 CTAATGCTCGATTTTTAGCGGCGTTTT
1 CTAATGCTCGATTTTTAGCGGCGTTTT
4505607 TTGTCCAAAC
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 15 0.25
40 44 0.75
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.37
Consensus pattern (39 bp):
CTAATGCTCGATTTTTAGCGGCGTTTTATGAAAGCGCCG
Found at i:4514443 original size:16 final size:16
Alignment explanation
Indices: 4514421--4514489 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
4514411 TTTGGTTCGC
4514421 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
4514437 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
4514453 TGTATTGTGATTAGAGG
1 TGTATTG-GATTAGAGG
4514470 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
4514486 TGTA
1 TGTA
4514490 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.36, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:4514467 original size:33 final size:32
Alignment explanation
Indices: 4514421--4514489 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
4514411 TTTGGTTCGC
4514421 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
4514453 TGTATTGTGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTG-GATTAGAGGCGTATTGGATTAGAGG
4514486 TGTA
1 TGTA
4514490 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 7 0.20
33 28 0.80
ACGTcount: A:0.25, C:0.01, G:0.36, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:4514554 original size:44 final size:45
Alignment explanation
Indices: 4514470--4514560 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
4514460 TGATTAGAGG
* * *
4514470 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
4514515 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
4514559 TG
1 TG
4514561 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:4514746 original size:18 final size:17
Alignment explanation
Indices: 4514725--4514759 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4514715 TTATTATTAA
*
4514725 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4514743 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4514760 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4514813 original size:157 final size:157
Alignment explanation
Indices: 4514612--4514928 Score: 580
Period size: 157 Copynumber: 2.0 Consensus size: 157
4514602 TAGAATACCC
*
4514612 TTAGCATAAATTTGTTTTAGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTAGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
4514677 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
4514742 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
* *
4514769 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTAGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
4514834 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
4514899 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
4514926 TTA
1 TTA
4514929 ATATTCTTAT
Statistics
Matches: 154, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 154 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTAGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:4514899 original size:16 final size:16
Alignment explanation
Indices: 4514862--4514903 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
4514852 TTAATCATAT
*
4514862 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
4514878 TT-AAATATATTATAA
1 TTAAAATATATTATAA
4514893 TTAAAATATAT
1 TTAAAATATAT
4514904 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:4514910 original size:14 final size:15
Alignment explanation
Indices: 4514871--4514912 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4514861 TTTAAACATA
*
4514871 ATTATTATTAAATAT
1 ATTATAATTAAATAT
4514886 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
4514900 A-TATAATTTAATA
1 ATTATAATTAAATA
4514913 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:4514925 original size:82 final size:82
Alignment explanation
Indices: 4514682--4514931 Score: 215
Period size: 76 Copynumber: 3.1 Consensus size: 82
4514672 TATTATTATC
* *
4514682 AATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATAT
4514747 AATTTAATAAAATTCTT
66 AATTTAATAAAATTCTT
* * * *
4514764 AATAATTAGCAGA-AATTT-GT--T-TTGGT-AA-ATTATTATTGTT--AT-TGTTAT--TTAAA
1 AATAA-TA--A-ATAATTTAATCATATT--TAAACATAATTATTATTAAATATATTATAATTAAA
* * * * *
4514817 TTTTAATAAGATTATTAATA-TC--
60 ATAT-ATAA-TTTAATAAAATTCTT
4514839 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATAT
4514904 AATTTAATAAAATTCTT
66 AATTTAATAAAATTCTT
*
4514921 AATAATTAATA
1 AATAATAAATA
4514932 TTCTTATATG
Statistics
Matches: 124, Mismatches: 21, Indels: 46
0.65 0.11 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 3 0.02
75 8 0.06
76 19 0.15
77 6 0.05
78 13 0.10
79 14 0.11
80 6 0.05
81 19 0.15
82 18 0.15
83 3 0.02
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (82 bp):
AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATAT
AATTTAATAAAATTCTT
Found at i:4514999 original size:66 final size:64
Alignment explanation
Indices: 4514921--4515119 Score: 186
Period size: 66 Copynumber: 3.2 Consensus size: 64
4514911 TAAAATTCTT
4514921 AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
1 AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AATTT-
4514986 A
64 A
** * * * * *
4514987 AATAATTAATATT-AAATAT--ATTT--T--AAT--TAAAATAT-ATAATTTAATA-AAATTCTT
1 AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAATT-TA
* * *
4515041 AATAAATAAAATTCTTCTATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTC
1 AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAG-AAATTT-
4515106 A
64 A
4515107 AATAATTAATATT
1 AATAATTAATATT
4515120 AAATATGATT
Statistics
Matches: 100, Mismatches: 19, Indels: 28
0.68 0.13 0.19
Matches are distributed among these distances:
54 15 0.15
55 5 0.05
56 8 0.08
57 11 0.11
59 4 0.04
61 4 0.04
63 11 0.11
64 8 0.08
65 5 0.05
66 29 0.29
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.40
Consensus pattern (64 bp):
AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAATTTA
Found at i:4515004 original size:120 final size:119
Alignment explanation
Indices: 4514868--4515156 Score: 481
Period size: 120 Copynumber: 2.4 Consensus size: 119
4514858 ATATTTAAAC
* * *
4514868 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTAATATTAAATATATT-TAATTAAAATATATAATTTAATAAAATTCTTAATAAATAAAAT
* *
4514933 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA
65 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAA
4514988 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAATAAAAT
1 ATAATTAATATTAAATATA-TTTAATTAAAATATATAATTTAATAAAATTCTTAATAAATAAAAT
*
4515053 TCTTCTATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAA
65 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAA
*
4515108 ATAATTAATATTAAATATGATTTAATT-AAATATATGATTTAATAAAATT
1 ATAATTAATATTAAATAT-ATTTAATTAAAATATATAATTTAATAAAATT
4515157 TAAAATAATT
Statistics
Matches: 160, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
119 21 0.13
120 136 0.85
121 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (119 bp):
ATAATTAATATTAAATATATTTAATTAAAATATATAATTTAATAAAATTCTTAATAAATAAAATT
CTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAA
Found at i:4515012 original size:157 final size:158
Alignment explanation
Indices: 4514663--4515013 Score: 353
Period size: 157 Copynumber: 2.2 Consensus size: 158
4514653 ATTTAAATTT
* *
4514663 TAATAAGATTATTATTATCAATAAT-AA-ATATTTTAATCATATTTAAACATAATTATTATTAAA
1 TAATAAGA-TAATAATATCAATAATAAATATATTTTAATCATATTTAAACATAATTATTATTAAA
* * * * * **
4514726 TATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAATTTGTTTTGGTA
65 TATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTA
* * * * * ***
4514791 AATTATTATTGTTATTGTTATTTAAATTT
130 AATCATTAATGATATTGATATATAAAAGA
*
4514820 TAATAAGATTATTAATATCAATAATAAATA-A-TTTAATCATATTTAAACATAATTATTATTAAA
1 TAATAAGA-TAATAATATCAATAATAAATATATTTTAATCATATTTAAACATAATTATTATTAAA
* **
4514883 TATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTA
65 TATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACA--CAAATATG-ATTTA
4514948 CTCAAATCA-TAAT-ATA-TGATACTATAAAAGA
127 CT-AAATCATTAATGATATTGATA-TATAAAAGA
** *
4514979 TAATTTGA-AATAAT-T-AATATTAAATATATTTTAAT
1 TAATAAGATAATAATATCAATAATAAATATATTTTAAT
4515014 TAAAATATAT
Statistics
Matches: 162, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
155 10 0.06
156 2 0.01
157 113 0.70
158 7 0.04
159 18 0.11
160 7 0.04
161 5 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (158 bp):
TAATAAGATAATAATATCAATAATAAATATATTTTAATCATATTTAAACATAATTATTATTAAAT
ATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAA
ATCATTAATGATATTGATATATAAAAGA
Found at i:4515029 original size:18 final size:17
Alignment explanation
Indices: 4515002--4515036 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4514992 TTAATATTAA
*
4515002 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4515020 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4515037 TCTTAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4515137 original size:15 final size:15
Alignment explanation
Indices: 4515117--4515155 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
4515107 AATAATTAAT
4515117 ATTAAATATGATTTA
1 ATTAAATATGATTTA
4515132 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
4515149 ATAAAAT
1 ATTAAAT
4515156 TTAAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:4515142 original size:17 final size:17
Alignment explanation
Indices: 4515122--4515155 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4515112 TTAATATTAA
*
4515122 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
4515139 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
4515156 TTAAAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:4515941 original size:13 final size:13
Alignment explanation
Indices: 4515923--4515952 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
4515913 CAATCAGCTA
4515923 AATTCAGAAAAAC
1 AATTCAGAAAAAC
4515936 AATTCAGAAAAAC
1 AATTCAGAAAAAC
4515949 AATT
1 AATT
4515953 ACATGACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (13 bp):
AATTCAGAAAAAC
Found at i:4526618 original size:12 final size:12
Alignment explanation
Indices: 4526601--4526626 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4526591 TCTTCTCCCA
4526601 TTAACCCTTTCT
1 TTAACCCTTTCT
4526613 TTAACCCTTTCT
1 TTAACCCTTTCT
4526625 TT
1 TT
4526627 CTTCCTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.31, G:0.00, T:0.54
Consensus pattern (12 bp):
TTAACCCTTTCT
Found at i:4535663 original size:14 final size:14
Alignment explanation
Indices: 4535644--4535674 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
4535634 AAGTCTTGGT
4535644 ATCCTGCCCAAGCC
1 ATCCTGCCCAAGCC
4535658 ATCCTGCCCAAGCC
1 ATCCTGCCCAAGCC
4535672 ATC
1 ATC
4535675 TCTAATGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.48, G:0.13, T:0.16
Consensus pattern (14 bp):
ATCCTGCCCAAGCC
Found at i:4555460 original size:2 final size:2
Alignment explanation
Indices: 4555453--4555478 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4555443 TAATTGAGAA
4555453 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4555479 TTGTAATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4565573 original size:18 final size:20
Alignment explanation
Indices: 4565536--4565573 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
4565526 AGCGTTAAAT
*
4565536 TTGATAATGATGATGAAGAG
1 TTGATAATGATGACGAAGAG
4565556 TTGAT-ATG-TGACGAAGAG
1 TTGATAATGATGACGAAGAG
4565574 GGCAATGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 3 0.18
20 5 0.29
ACGTcount: A:0.37, C:0.03, G:0.32, T:0.29
Consensus pattern (20 bp):
TTGATAATGATGACGAAGAG
Found at i:4574469 original size:18 final size:18
Alignment explanation
Indices: 4574435--4574470 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4574425 TAAAAGGAAT
*
4574435 AATAAAATAACACAAAAA
1 AATAAAATAAAACAAAAA
*
4574453 AATAAAATAAAATAAAAA
1 AATAAAATAAAACAAAAA
4574471 TGAGATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.14
Consensus pattern (18 bp):
AATAAAATAAAACAAAAA
Found at i:4574563 original size:15 final size:13
Alignment explanation
Indices: 4574541--4574582 Score: 52
Period size: 12 Copynumber: 3.2 Consensus size: 13
4574531 AAAAGCAAGG
4574541 AAAT-AATAATAA
1 AAATAAATAATAA
4574553 ATAGATAAATAATAA
1 A-A-ATAAATAATAA
4574568 AAATAAA-AATAA
1 AAATAAATAATAA
4574580 AAA
1 AAA
4574583 AATCCATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 9 0.33
13 6 0.22
14 3 0.11
15 9 0.33
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (13 bp):
AAATAAATAATAA
Found at i:4575495 original size:12 final size:12
Alignment explanation
Indices: 4575480--4575504 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4575470 TTGTTACTAT
4575480 TTTTGTTGTTTC
1 TTTTGTTGTTTC
4575492 TTTTGTTGTTTC
1 TTTTGTTGTTTC
4575504 T
1 T
4575505 GTCTTCTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.16, T:0.76
Consensus pattern (12 bp):
TTTTGTTGTTTC
Found at i:4593556 original size:28 final size:28
Alignment explanation
Indices: 4593525--4593584 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
4593515 GTTAAGTTCA
*
4593525 ATTTCTTT-TAATTTTAATATTAAAATTT
1 ATTTCTTTAAAATTTT-ATATTAAAATTT
*
4593553 ATTT-TTTAAAATTTTATATTTAAATTT
1 ATTTCTTTAAAATTTTATATTAAAATTT
4593580 -TTTCT
1 ATTTCT
4593585 AATTTAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
26 3 0.11
27 15 0.54
28 10 0.36
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (28 bp):
ATTTCTTTAAAATTTTATATTAAAATTT
Found at i:4595384 original size:33 final size:34
Alignment explanation
Indices: 4595331--4595395 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
4595321 TACGGAAAAT
* *
4595331 GCCGCTAAAGATTGAGCATTAGCGGCGTTTTTAC
1 GCCGCTAAAGAATGAGCATTAACGGCGTTTTTAC
*
4595365 GCCGCTAAA-AATGAGCATTAATGGCGTTTTT
1 GCCGCTAAAGAATGAGCATTAACGGCGTTTTT
4595396 CGGAAAAACG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 19 0.68
34 9 0.32
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (34 bp):
GCCGCTAAAGAATGAGCATTAACGGCGTTTTTAC
Found at i:4595585 original size:42 final size:41
Alignment explanation
Indices: 4595441--4595594 Score: 247
Period size: 41 Copynumber: 3.7 Consensus size: 41
4595431 TTGACCCTTT
4595441 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCTGCTAATGCTC
1 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCTGCTAATGCTC
* *
4595482 GGGGCTTTAGCGGCGTTTTTGGTAAAGCGCCGCTAATGCTC
1 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCTGCTAATGCTC
* *
4595523 GGGTCTTTAGCGGCGTTTTT-GATAAAGCGCTGCTAATGCTTA
1 GGGGCTTTAGCGGCGTTTTTGGA-AAAGCGCTGCTAATGC-TC
4595565 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGC
1 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGC
4595595 CGCAAAAAAC
Statistics
Matches: 103, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
40 1 0.01
41 73 0.71
42 27 0.26
43 2 0.02
ACGTcount: A:0.17, C:0.19, G:0.34, T:0.31
Consensus pattern (41 bp):
GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCTGCTAATGCTC
Found at i:4596023 original size:7 final size:7
Alignment explanation
Indices: 4596013--4596074 Score: 61
Period size: 7 Copynumber: 8.7 Consensus size: 7
4596003 GATTTAATGT
4596013 TTAGGGG
1 TTAGGGG
4596020 TTAGGGG
1 TTAGGGG
**
4596027 TTAGATG
1 TTAGGGG
4596034 TTAGGGG
1 TTAGGGG
*
4596041 TTAGGAG
1 TTAGGGG
*
4596048 TTAGGAG
1 TTAGGGG
*
4596055 TTAGGGAT
1 TTAGGG-G
*
4596063 TTAGGGT
1 TTAGGGG
4596070 TTAGG
1 TTAGG
4596075 AATTCAGGGG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
7 41 0.87
8 6 0.13
ACGTcount: A:0.21, C:0.00, G:0.45, T:0.34
Consensus pattern (7 bp):
TTAGGGG
Found at i:4596038 original size:21 final size:21
Alignment explanation
Indices: 4596013--4596060 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
4596003 GATTTAATGT
*
4596013 TTAGGGGTTAGGGGTTA-GATG
1 TTAGGGGTTAGGAGTTAGGA-G
4596034 TTAGGGGTTAGGAGTTAGGAG
1 TTAGGGGTTAGGAGTTAGGAG
4596055 TTAGGG
1 TTAGGG
4596061 ATTTAGGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.21, C:0.00, G:0.48, T:0.31
Consensus pattern (21 bp):
TTAGGGGTTAGGAGTTAGGAG
Found at i:4596059 original size:14 final size:14
Alignment explanation
Indices: 4596013--4596085 Score: 67
Period size: 14 Copynumber: 5.1 Consensus size: 14
4596003 GATTTAATGT
*
4596013 TTAGGGGTTAGGGG
1 TTAGGAGTTAGGGG
4596027 TTA-GATGTTAGGGG
1 TTAGGA-GTTAGGGG
*
4596041 TTAGGAGTTAGGAG
1 TTAGGAGTTAGGGG
* *
4596055 TTAGGGATTTAGGGT
1 TTA-GGAGTTAGGGG
*
4596070 TTAGGAATTCAGGGG
1 TTAGGAGTT-AGGGG
4596085 T
1 T
4596086 CAAGTTAAGG
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
13 1 0.02
14 29 0.60
15 18 0.38
ACGTcount: A:0.22, C:0.01, G:0.44, T:0.33
Consensus pattern (14 bp):
TTAGGAGTTAGGGG
Found at i:4596319 original size:7 final size:7
Alignment explanation
Indices: 4596309--4596370 Score: 61
Period size: 7 Copynumber: 8.7 Consensus size: 7
4596299 GATTTAATGT
4596309 TTAGGGG
1 TTAGGGG
4596316 TTAGGGG
1 TTAGGGG
**
4596323 TTAGATG
1 TTAGGGG
4596330 TTAGGGG
1 TTAGGGG
*
4596337 TTAGGAG
1 TTAGGGG
*
4596344 TTAGGAG
1 TTAGGGG
*
4596351 TTAGGGAT
1 TTAGGG-G
*
4596359 TTAGGGT
1 TTAGGGG
4596366 TTAGG
1 TTAGG
4596371 AATTCAGGGG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
7 41 0.87
8 6 0.13
ACGTcount: A:0.21, C:0.00, G:0.45, T:0.34
Consensus pattern (7 bp):
TTAGGGG
Found at i:4596334 original size:21 final size:21
Alignment explanation
Indices: 4596309--4596356 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
4596299 GATTTAATGT
*
4596309 TTAGGGGTTAGGGGTTA-GATG
1 TTAGGGGTTAGGAGTTAGGA-G
4596330 TTAGGGGTTAGGAGTTAGGAG
1 TTAGGGGTTAGGAGTTAGGAG
4596351 TTAGGG
1 TTAGGG
4596357 ATTTAGGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.21, C:0.00, G:0.48, T:0.31
Consensus pattern (21 bp):
TTAGGGGTTAGGAGTTAGGAG
Found at i:4596355 original size:14 final size:14
Alignment explanation
Indices: 4596309--4596381 Score: 67
Period size: 14 Copynumber: 5.1 Consensus size: 14
4596299 GATTTAATGT
*
4596309 TTAGGGGTTAGGGG
1 TTAGGAGTTAGGGG
4596323 TTA-GATGTTAGGGG
1 TTAGGA-GTTAGGGG
*
4596337 TTAGGAGTTAGGAG
1 TTAGGAGTTAGGGG
* *
4596351 TTAGGGATTTAGGGT
1 TTA-GGAGTTAGGGG
*
4596366 TTAGGAATTCAGGGG
1 TTAGGAGTT-AGGGG
4596381 T
1 T
4596382 CAAGTTAAGG
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
13 1 0.02
14 29 0.60
15 18 0.38
ACGTcount: A:0.22, C:0.01, G:0.44, T:0.33
Consensus pattern (14 bp):
TTAGGAGTTAGGGG
Found at i:4596415 original size:296 final size:296
Alignment explanation
Indices: 4595881--4596546 Score: 1296
Period size: 296 Copynumber: 2.2 Consensus size: 296
4595871 TATCACTATA
4595881 GTTTAGGGTTTTTGGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGGTTTAAGAGTTACTA
1 GTTTAGGGTTTTTGGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGGTTTAAGAGTTACTA
4595946 TTTTAAGGTTAATTTAGGGAGTATATATGGATTTAAGGATTATGGTTTAAGGGCTGAGATTTAAT
66 TTTTAAGGTTAATTTAGGGAGTATATATGGATTTAAGGATTATGGTTTAAGGGCTGAGATTTAAT
4596011 GTTTAGGGGTTAGGGGTTAGATGTTAGGGGTTAGGAGTTAGGAGTTAGGGATTTAGGGTTTAGGA
131 GTTTAGGGGTTAGGGGTTAGATGTTAGGGGTTAGGAGTTAGGAGTTAGGGATTTAGGGTTTAGGA
4596076 ATTCAGGGGTCAAGTTAAGGTTTTGGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATG
196 ATTCAGGGGTCAAGTTAAGGTTTTGGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATG
4596141 TTCTTATATAATTGTAAAAGAGATAATAATAAATTT
261 TTCTTATATAATTGTAAAAGAGATAATAATAAATTT
*
4596177 GTTTAGGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGGTTTAAGAGTTACTA
1 GTTTAGGGTTTTTGGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGGTTTAAGAGTTACTA
4596242 TTTTAAGGTTAATTTAGGGAGTATATATGGATTTAAGGATTATGGTTTAAGGGCTGAGATTTAAT
66 TTTTAAGGTTAATTTAGGGAGTATATATGGATTTAAGGATTATGGTTTAAGGGCTGAGATTTAAT
4596307 GTTTAGGGGTTAGGGGTTAGATGTTAGGGGTTAGGAGTTAGGAGTTAGGGATTTAGGGTTTAGGA
131 GTTTAGGGGTTAGGGGTTAGATGTTAGGGGTTAGGAGTTAGGAGTTAGGGATTTAGGGTTTAGGA
4596372 ATTCAGGGGTCAAGTTAAGGTTTTGGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATG
196 ATTCAGGGGTCAAGTTAAGGTTTTGGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATG
*
4596437 TTCTTATATAATTGTAAAAGAGATAATAATATATTT
261 TTCTTATATAATTGTAAAAGAGATAATAATAAATTT
* *
4596473 GTTTAGGGTTTTTGGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCAGTTTAGGAGTTACTA
1 GTTTAGGGTTTTTGGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGGTTTAAGAGTTACTA
4596538 TTTTAAGGT
66 TTTTAAGGT
4596547 GTAGGGGGTA
Statistics
Matches: 365, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
296 365 1.00
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.42
Consensus pattern (296 bp):
GTTTAGGGTTTTTGGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGGTTTAAGAGTTACTA
TTTTAAGGTTAATTTAGGGAGTATATATGGATTTAAGGATTATGGTTTAAGGGCTGAGATTTAAT
GTTTAGGGGTTAGGGGTTAGATGTTAGGGGTTAGGAGTTAGGAGTTAGGGATTTAGGGTTTAGGA
ATTCAGGGGTCAAGTTAAGGTTTTGGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATG
TTCTTATATAATTGTAAAAGAGATAATAATAAATTT
Found at i:4596637 original size:22 final size:21
Alignment explanation
Indices: 4596589--4596637 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
4596579 GGATTATGGT
*
4596589 TTAAGG-GTTGTGCTTTAAAG
1 TTAAGGAGTTGTGCTTAAAAG
* *
4596609 TTTAGGAGTTAGTGGTTAAAAG
1 TTAAGGAGTT-GTGCTTAAAAG
4596631 TTAAGGA
1 TTAAGGA
4596638 TTTAAGGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 5 0.22
21 3 0.13
22 15 0.65
ACGTcount: A:0.31, C:0.02, G:0.31, T:0.37
Consensus pattern (21 bp):
TTAAGGAGTTGTGCTTAAAAG
Found at i:4602467 original size:17 final size:19
Alignment explanation
Indices: 4602445--4602480 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4602435 GTTTTTGGTG
4602445 TTTT-GGGGG-TGATTTTT
1 TTTTGGGGGGATGATTTTT
4602462 TTTTGGGGGGATGATTTTT
1 TTTTGGGGGGATGATTTTT
4602481 CATCTGTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 5 0.29
19 8 0.47
ACGTcount: A:0.08, C:0.00, G:0.36, T:0.56
Consensus pattern (19 bp):
TTTTGGGGGGATGATTTTT
Found at i:4606221 original size:42 final size:42
Alignment explanation
Indices: 4606167--4606345 Score: 189
Period size: 42 Copynumber: 4.2 Consensus size: 42
4606157 TTAAATGCCG
* * * *
4606167 CTAAAGAACAAGACTTTTAGCGGCGCTTTTTTACAAACGCCA
1 CTAAAGACCAAGACCTTTAGCGACGCTTTTTCACAAACGCCA
* * *
4606209 CTAAAGACCAAGACCTTTAGCGGCGTTTTTTCCACAAACGCCG
1 CTAAAGACCAAGACCTTTAGCGACGCTTTTT-CACAAACGCCA
* * * ** * *
4606252 CTAAAGACTATGACCTTTAGCGACACTTTCCCACAAACGTCG
1 CTAAAGACCAAGACCTTTAGCGACGCTTTTTCACAAACGCCA
*
4606294 CTAAAGA-CAATGACCTTTAGCGACGCTTTTCTCACAAACGCTA
1 CTAAAGACCAA-GACCTTTAGCGACGCTTTT-TCACAAACGCCA
4606337 CTAAAGACC
1 CTAAAGACC
4606346 GTGATCTTTA
Statistics
Matches: 112, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
41 1 0.01
42 62 0.55
43 48 0.43
44 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (42 bp):
CTAAAGACCAAGACCTTTAGCGACGCTTTTTCACAAACGCCA
Found at i:4606271 original size:85 final size:84
Alignment explanation
Indices: 4606163--4606344 Score: 197
Period size: 85 Copynumber: 2.1 Consensus size: 84
4606153 AGAATTAAAT
* * * ***
4606163 GCCGCTAAAGAACAAGACTTTTAGCGGCGCTTTTTTACAAACGCCACTAAAGACCAA-GACCTTT
1 GCCGCTAAAG-ACAAGACCTTTAGCGACACTTTCCCACAAACGCCACTAAAGA-CAATGACCTTT
* *
4606227 AGCGGCG-TTTTTTCCACAAAC
64 AGCGACGCTTTTCT-CACAAAC
* * *
4606248 GCCGCTAAAGACTATGACCTTTAGCGACACTTTCCCACAAACGTCGCTAAAGACAATGACCTTTA
1 GCCGCTAAAGAC-AAGACCTTTAGCGACACTTTCCCACAAACGCCACTAAAGACAATGACCTTTA
4606313 GCGACGCTTTTCTCACAAAC
65 GCGACGCTTTTCTCACAAAC
**
4606333 GCTACTAAAGAC
1 GCCGCTAAAGAC
4606345 CGTGATCTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
84 5 0.06
85 71 0.88
86 5 0.06
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (84 bp):
GCCGCTAAAGACAAGACCTTTAGCGACACTTTCCCACAAACGCCACTAAAGACAATGACCTTTAG
CGACGCTTTTCTCACAAAC
Found at i:4606355 original size:43 final size:43
Alignment explanation
Indices: 4606167--4606355 Score: 186
Period size: 43 Copynumber: 4.4 Consensus size: 43
4606157 TTAAATGCCG
* * * * *
4606167 CTAAAGAACAAGACTTTTAGCGGCGCTTTT-TTACAAACGCCA
1 CTAAAGACCATGACCTTTAGCGACGCTTTTCTCACAAACGCCA
* * * *
4606209 CTAAAGACCAAGACCTTTAGCGGCG-TTTTTTCCACAAACGCCG
1 CTAAAGACCATGACCTTTAGCGACGCTTTTCT-CACAAACGCCA
* * * * *
4606252 CTAAAGACTATGACCTTTAGCGACAC-TTTCCCACAAACGTCG
1 CTAAAGACCATGACCTTTAGCGACGCTTTTCTCACAAACGCCA
* *
4606294 CTAAAGACAATGACCTTTAGCGACGCTTTTCTCACAAACGCTA
1 CTAAAGACCATGACCTTTAGCGACGCTTTTCTCACAAACGCCA
* *
4606337 CTAAAGACCGTGATCTTTA
1 CTAAAGACCATGACCTTTA
4606356 AAAAAATAGC
Statistics
Matches: 123, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
41 4 0.03
42 58 0.47
43 61 0.50
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
CTAAAGACCATGACCTTTAGCGACGCTTTTCTCACAAACGCCA
Found at i:4606355 original size:85 final size:85
Alignment explanation
Indices: 4606199--4606355 Score: 201
Period size: 85 Copynumber: 1.8 Consensus size: 85
4606189 GCGCTTTTTT
* * * *
4606199 ACAAACGCCACTAAAGACCAAGACCTTTAGCGGCGTTTTTTCCACAAACGCCGCTAAAGACTATG
1 ACAAACGCCACTAAAGACCAAGACCTTTAGCGACGTTTTCTCCACAAACGCCACTAAAGACCATG
4606264 ACCTTTAGCGACACTTTCCC
66 ACCTTTAGCGACACTTTCCC
* * * *
4606284 ACAAACGTCGCTAAAGA-CAATGACCTTTAGCGACGCTTTTCT-CACAAACGCTACTAAAGACCG
1 ACAAACGCCACTAAAGACCAA-GACCTTTAGCGACG-TTTTCTCCACAAACGCCACTAAAGACCA
*
4606347 TGATCTTTA
64 TGACCTTTA
4606356 AAAAAATAGC
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
84 3 0.05
85 53 0.87
86 5 0.08
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (85 bp):
ACAAACGCCACTAAAGACCAAGACCTTTAGCGACGTTTTCTCCACAAACGCCACTAAAGACCATG
ACCTTTAGCGACACTTTCCC
Found at i:4608635 original size:115 final size:115
Alignment explanation
Indices: 4608433--4608673 Score: 448
Period size: 115 Copynumber: 2.1 Consensus size: 115
4608423 GAAGCGACTG
*
4608433 AATCCAGCTCCCCCTGGAAAATAAAAAAGACGAAAAAAAAAACAGCATATGCATACAACACTCAT
1 AATCCAGGTCCCCCTGGAAAATAAAAAAGACGAAAAAAAAAACAGCATATGCATACAACACTCAT
4608498 AGTAACAATTAAAGTAGAAGAAATTAGTGGAAAGGGAAAGATATACCATA
66 AGTAACAATTAAAGTAGAAGAAATTAGTGGAAAGGGAAAGATATACCATA
*
4608548 AATCCAGGTCCCTCTGGAAAATAAAGAAAGACG-AAAAAAAAACAGCATATGCATACAACACTCA
1 AATCCAGGTCCCCCTGGAAAATAAA-AAAGACGAAAAAAAAAACAGCATATGCATACAACACTCA
4608612 TAGTAACAATTAAAGTAGAAGAAATTAGTGGAAAGGGAAAGATATACCATA
65 TAGTAACAATTAAAGTAGAAGAAATTAGTGGAAAGGGAAAGATATACCATA
4608663 AATCCAGGTCC
1 AATCCAGGTCC
4608674 TTTAAAAAAT
Statistics
Matches: 123, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
115 116 0.94
116 7 0.06
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.17
Consensus pattern (115 bp):
AATCCAGGTCCCCCTGGAAAATAAAAAAGACGAAAAAAAAAACAGCATATGCATACAACACTCAT
AGTAACAATTAAAGTAGAAGAAATTAGTGGAAAGGGAAAGATATACCATA
Found at i:4611127 original size:148 final size:148
Alignment explanation
Indices: 4610916--4611387 Score: 745
Period size: 148 Copynumber: 3.2 Consensus size: 148
4610906 ATGGCACAAT
*
4610916 TTTTTAAACTAAAATTATTTTTTTGTGGCGTTTTTTTATAAAAACGCCGCTATTGCTCACCTTTT
1 TTTTTAAAATAAAATTA-TTTTTTGTGGCGTTTTTTTATAAAAACGCCGCTATTGCTCACCTTTT
* * * * ** * *
4610981 GCAGCGTTTT-TATGTAAAACGCCGCAAAAAATTATTTTATTTGGAATAAAACGATATTGTTTTT
65 GCGGCGTTTTACAT-AAAAATGCCGCAAAAAATTATTACATTTGGAATAAAACGATACTGTTTTG
4611045 CTATGCTAAAAATCTCGCTA
129 CTATGCTAAAAATCTCGCTA
4611065 TTTTTAAAATAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACGCCGCTATTGCTCACCTTTTG
1 TTTTTAAAATAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACGCCGCTATTGCTCACCTTTTG
*
4611130 CGGCGTTTTACATAAAAATGCCGCAAAAAA-TATTACATTTAGAATAAAACGATACTGTTTTGCT
66 CGGCGTTTTACATAAAAATGCCGCAAAAAATTATTACATTTGGAATAAAACGATACTGTTTTGCT
4611194 ATGCTAAAAATCTCGCTA
131 ATGCTAAAAATCTCGCTA
4611212 TTTTTTAAAATAAAATTATTTTTTGTGGCG-TTTTTTATAAAAACGCCGCTATTGCTCACCTTTT
1 -TTTTTAAAATAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACGCCGCTATTGCTCACCTTTT
*
4611276 GCGGCGTTTTACATAAAAAAATGCCGC-AAAAATTATTACATTTGGAATAAAACGACACTGTTTT
65 GCGGCGTTTTACAT--AAAAATGCCGCAAAAAATTATTACATTTGGAATAAAACGATACTGTTTT
4611340 GCTATGCTAAAAATCTCGCTA
128 GCTATGCTAAAAATCTCGCTA
* *
4611361 TTTTTTAAAGAAAATTTATTTTTTGTG
1 TTTTTAAAATAAAA-TTATTTTTTGTG
4611388 AACGCCGCAA
Statistics
Matches: 303, Mismatches: 14, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
147 95 0.31
148 117 0.39
149 91 0.30
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (148 bp):
TTTTTAAAATAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACGCCGCTATTGCTCACCTTTTG
CGGCGTTTTACATAAAAATGCCGCAAAAAATTATTACATTTGGAATAAAACGATACTGTTTTGCT
ATGCTAAAAATCTCGCTA
Found at i:4611905 original size:21 final size:21
Alignment explanation
Indices: 4611833--4611920 Score: 65
Period size: 22 Copynumber: 4.2 Consensus size: 21
4611823 CTAATTAATC
* *
4611833 TAAA-CCCTAAC-CTGACCCT
1 TAAATCCCTAACTCTAACCCA
* * *
4611852 TGAATCCCTAAATCCTAACCCT
1 TAAATCCCTAACT-CTAACCCA
*
4611874 TAAATCACTAACTCTTAACCCA
1 TAAATCCCTAACTC-TAACCCA
*
4611896 T-AATCCCTAACTACTAACCCC
1 TAAATCCCTAACT-CTAACCCA
4611917 TAAA
1 TAAA
4611921 CCTTAAATCC
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
19 3 0.06
20 6 0.11
21 18 0.33
22 27 0.50
ACGTcount: A:0.36, C:0.36, G:0.02, T:0.25
Consensus pattern (21 bp):
TAAATCCCTAACTCTAACCCA
Found at i:4612220 original size:21 final size:20
Alignment explanation
Indices: 4612186--4612227 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 20
4612176 ACTAGTTAAT
4612186 CTAAACCCAAAACCATAAAC
1 CTAAACCCAAAACCATAAAC
4612206 CTAAACCCTAAAACCATAAAC
1 CTAAACCC-AAAACCATAAAC
4612227 C
1 C
4612228 CTTGACATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.52, C:0.36, G:0.00, T:0.12
Consensus pattern (20 bp):
CTAAACCCAAAACCATAAAC
Found at i:4612272 original size:21 final size:21
Alignment explanation
Indices: 4612242--4612300 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
4612232 ACATGCACAT
*
4612242 AACCTCTAAACCTTAAACCCC
1 AACCTCTAAACCATAAACCCC
* **
4612263 AACCTTTAAACCATAAACCAT
1 AACCTCTAAACCATAAACCCC
*
4612284 AACCCCTAAACCCATAA
1 AACCTCTAAA-CCATAA
4612301 TCTATAAACA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
21 25 0.81
22 6 0.19
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.19
Consensus pattern (21 bp):
AACCTCTAAACCATAAACCCC
Found at i:4629313 original size:127 final size:127
Alignment explanation
Indices: 4629113--4630493 Score: 712
Period size: 131 Copynumber: 10.6 Consensus size: 127
4629103 CTGTAACTTC
* ** * * *
4629113 AGGGAGATAAGACTGGATGCGATCTGCTTTACTATTGA-TT-GAGAGATAAGATTTACAATCTTC
1 AGGGAGATAAGACTTGATGCGATCTGCTCCACTACT-ACTTAGGGAGATAAGATCTACAATCTTC
* * * * * *** *** *
4629176 AACCTACTCCACTGCTGCTCAAGGAGATAGGATTGGTTTTTTTTGTCTGCTCCGCTACTGCTT
65 GACCTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAAATCTGCTCCACTACTGCTT
*
4629239 AGGGAGATAAGACTTGATGCGATTTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCG
1 AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCG
*
4629304 ACCTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTT
66 ACCTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAAATCTGCTCCACTACTGCTT
* * * * * * *
4629366 AGGAAAATGAGA-TTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCAT
1 AGGGAGATAAGACTT-G--A--TGCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAAT
* * * * * * *
4629430 CTTTGACCTGCTCTACTACTGTTTAGGGAGATAGGACTGGTGGCTTAAATCTACTTCATTACTGC
61 CTTCGACCTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAAATCTGCTCCACTACTGC
4629495 TT
126 TT
* * * * * * *****
4629497 AGGAAGATAAGA-TTCGCCGTCTTCGATCAGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGG
1 AGGGAGATAAGACTT----G-ATGCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAAT
** * * * * **** **
4629560 CTTAAATCTGGTTCACTACTGCTT-AGGAAGAT-GAGATTCGCCATCTTCGATCTGCTCCACTAC
61 CTTCGACCTGCTCCACTACTGCTTAAGG-AGATAG-GACT-GGTGGCTTAAATCTGCTCCACTAC
4629623 TGCTT
123 TGCTT
* ** * * * *****
4629628 AGGGAGATAGGATCTACCAT-CTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGG
1 AGGGAGATAAGA-CT-TGATGC---GATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAAT
** ** * * * * ** ** **
4629691 CTTAAATTTGCTTCACTACTGCTT-AGAAAGATAAGATTTGCCGTATTCGATCTGCTCCACTACT
61 CTTCGACCTGCTCCACTACTGCTTAAG-GAGATAGGA-CTGGTGGCTTAAATCTGCTCCACTACT
4629755 GCTT
124 GCTT
* ** * * * *
4629759 AGGGAGATAGGATCTACCAT-CTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCAT
1 AGGGAGATAAGA-CT-TGATGC---GATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAAT
* * * * * * *
4629823 CTTTGACCTGCTCCATTACTGCTTAGGGAGATAGGACTGGTGGTTTAAATCAGCTTCACTACTGT
61 CTTCGACCTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAAATCTGCTCCACTACTGC
4629888 TT
126 TT
* * * * * *
4629890 AGGAAGATAAGA-TTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCAT
1 AGGGAGATAAGACTT----G-ATGCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAAT
* * * *
4629954 CTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCATTACTGC
61 CTTCGACCTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAAATCTGCTCCACTACTGC
4630019 TT
126 TT
* * * * * *
4630021 AGGAATATGAGA-TTCGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAGGATCTACCAT
1 AGGGAGATAAGACTT-G--A--TGCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAAT
* * * *
4630085 CTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGC
61 CTTCGACCTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAAATCTGCTCCACTACTGC
4630150 TT
126 TT
* * * * * ****
4630152 AGGAAAATAAGA-TTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGA-CTAGTGG
1 AGGGAGATAAGACTT-G--A--TGCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAAT
** * * * * * ***** **
4630215 CTTAAATCTGCTTCACTACTGCTT-AGGAAAATAAGATTCGCCATTTTCGATCTGCTCCACTACT
61 CTTCGACCTGCTCCACTACTGCTTAAGG-AGATAGGACT-GGTGGCTTAAATCTGCTCCACTACT
4630279 GCTT
124 GCTT
* * * * * * * * *
4630283 AGGGAGATAGGACTAG-TGGCTTAAATCTGCTTCACTACTGCTTAGGAAAATAAGAT-TCGCCAT
1 AGGGAGATAAGACTTGAT-GC---GATCTGCTCCACTACTACTTAGGGAGATAAGATCT-ACAAT
* * * * * *
4630346 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACCACTGC
61 CTTCGACCTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAAATCTGCTCCACTACTGC
4630411 TT
126 TT
* * * * *
4630413 AGGAAAATAAGA-TTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCAT
1 AGGGAGATAAGACTT-G--A--TGCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAAT
*
4630477 CTTCGACCTGTTCCACT
61 CTTCGACCTGCTCCACT
4630494 GTAACCTCAG
Statistics
Matches: 1017, Mismatches: 188, Indels: 95
0.78 0.14 0.07
Matches are distributed among these distances:
125 1 0.00
126 36 0.04
127 82 0.08
128 3 0.00
129 9 0.01
130 113 0.11
131 732 0.72
132 33 0.03
133 3 0.00
134 4 0.00
135 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (127 bp):
AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCG
ACCTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAAATCTGCTCCACTACTGCTT
Found at i:4629397 original size:87 final size:86
Alignment explanation
Indices: 4629221--4630465 Score: 954
Period size: 87 Copynumber: 14.3 Consensus size: 86
4629211 GTTTTTTTTG
* * * * * * *
4629221 TCTGCTCCGCTACTGCTTAGGGAGATAAGACTTGAT-GC---GATTTGCTCCACTACTACTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGACTAG-TGGCTTAAATCTGCTTCACTACTGCTTAGG
* * *
4629282 GAGATAAGA-TCTACAATCTTCGA
65 AAGAT-AGATTC-GCCATCTTCGA
* * *
4629305 CCTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGA
*
4629370 AAATGAGATTCGCCATCTTCGA
66 AGAT-AGATTCGCCATCTTCGA
**** ** * *
4629392 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGC-TCTACTACTGTTTAG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGA-CTAGTGGCTTAAATCTGCTTC-ACTACTGCTTAG
* * **** **
4629456 GGAGATAGGACT-GGTGGCTTAAA
64 GAAGATA-GATTCGCCATCTTCGA
* * * * * * * * * ** * *
4629479 TCTACTTCATTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCAGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGACTAG-TGGCTTAAATCTGCTTCACTACTGCTTAGG
* * **** **
4629544 GAGATAGGACT-GGTGGCTTAAA
65 AAGATA-GATTCGCCATCTTCGA
* * * * * *** ** *
4629566 TCTGGTTCACTACTGCTTAGGAAGAT-GAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAG
1 TCTGCTCCACTACTGCTTAGGGAGATAG-GACTAG-TGGCTTAAATCTGCTTCACTACTGCTTAG
* * *
4629630 GGAGATAGGA-TCTACCATCTTTGA
64 GAAGATA-GATTC-GCCATCTTCGA
* * * *
4629654 CCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATTTGCTTCACTACTGCTTAGAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGA
* * *
4629719 AGATAAGATTTGCCGTATTCGA
66 AGAT-AGATTCGCCATCTTCGA
**** ** * *
4629741 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGA-CTAGTGGCTTAAATCTGCTTCACTACTGCTTAGG
* * *
4629806 GAGATAGGA-TCTACCATCTTTGA
65 AAGATA-GATTC-GCCATCTTCGA
* * * * * *
4629829 CCTGCTCCATTACTGCTTAGGGAGATAGGACTGGTGGTTTAAATCAGCTTCACTACTGTTTAGGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGA
*
4629894 AGATAAGATTCGCCGTCTTCGA
66 AGAT-AGATTCGCCATCTTCGA
**** ** * *
4629916 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGA-CTAGTGGCTTAAATCTGCTTCACTACTGCTTAGG
* * **** **
4629981 GAGATAGGACT-GGTGGCTTAAA
65 AAGATA-GATTCGCCATCTTCGA
* * * * *** ** * *
4630003 TCTGCTTCATTACTGCTTA-GGA-ATATGAGATTCGCCATCTTCGATCTGCTCCACTACTACTTA
1 TCTGCTCCACTACTGCTTAGGGAGATA-G-GACTAG-TGGCTTAAATCTGCTTCACTACTGCTTA
* * *
4630066 GGGAGATAGGA-TCTACCATCTTTGA
63 GGAAGATA-GATTC-GCCATCTTCGA
*
4630091 CCTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGA
* *
4630156 AAATAAGATTCGCCATTTTCGA
66 AGAT-AGATTCGCCATCTTCGA
4630178 TCTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGA
* *
4630243 AAATAAGATTCGCCATTTTCGA
66 AGAT-AGATTCGCCATCTTCGA
4630265 TCTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGA
* *
4630330 AAATAAGATTCGCCATTTTCGA
66 AGAT-AGATTCGCCATCTTCGA
*
4630352 TCTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACCACTGCTTAGGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGA
* *
4630417 AAATAAGATTCGCCATTTTCGA
66 AGAT-AGATTCGCCATCTTCGA
4630439 TCTGCTCCACTACTGCTTAGGGAGATA
1 TCTGCTCCACTACTGCTTAGGGAGATA
4630466 AGATCTACCA
Statistics
Matches: 957, Mismatches: 172, Indels: 61
0.80 0.14 0.05
Matches are distributed among these distances:
83 1 0.00
84 31 0.03
85 3 0.00
86 8 0.01
87 720 0.75
88 186 0.19
89 5 0.01
90 3 0.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (86 bp):
TCTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGA
AGATAGATTCGCCATCTTCGA
Found at i:4629439 original size:131 final size:131
Alignment explanation
Indices: 4629258--4630493 Score: 1275
Period size: 131 Copynumber: 9.4 Consensus size: 131
4629248 AGACTTGATG
* * * * *
4629258 CGATTTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCGACCTGCTCCACTACTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTT
* * *
4629323 AAGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAAATGAGATTCGCCATCT
66 AGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCATCT
4629388 T
131 T
* *
4629389 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCTACTACTGTTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTT
* * *
4629454 AGGGAGATAGGACTGGTGGCTTAAATCTACTTCATTACTGCTTAGGAAGATAAGATTCGCCGTCT
66 AGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCATCT
4629519 T
131 T
* ***** ** * * *
4629520 CGATCAGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAATCTGGTTCACTACTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTT
* * **** ** * * * *
4629584 AGGAAGAT-GAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGA-TCTACCA
66 AGGGAGATAG-GACT-GGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTC-GCCA
4629647 TCTT
128 TCTT
* * ***** ** ** *
4629651 TGACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAATTTGCTTCACTACTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTT
** * * ** ** ** * * * *
4629715 AGAAAGATAAGATTTGCCGTATTCGATCTGCTCCACTACTGCTTAGGGAGATAGGA-TCTACCAT
66 AGGGAGATAGGA-CTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTC-GCCAT
4629779 CTT
129 CTT
* * *
4629782 TGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCATTACTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTT
* * * *
4629847 AGGGAGATAGGACTGGTGGTTTAAATCAGCTTCACTACTGTTTAGGAAGATAAGATTCGCCGTCT
66 AGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCATCT
4629912 T
131 T
4629913 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTT
* * *
4629978 AGGGAGATAGGACTGGTGGCTTAAATCTGCTTCATTACTGCTTAGGAATATGAGATTCGCCATCT
66 AGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCATCT
4630043 T
131 T
*
4630044 CGATCTGCTCCACTACTACTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTT
* * *
4630109 AGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAAATAAGATTCGCCATTT
66 AGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCATCT
4630174 T
131 T
**** ** * *
4630175 CGATCTGCTCCACTACTGCTTAGGGAGATAGGA-CTAGTGGCTTAAATCTGCTTCACTACTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTT
* * * * ***** ** * * * * * ***
4630239 AGGAAAATAAGATTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGACTAG-TGGC
66 AGGGAGATAGGACT-GGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCATC
4630303 TT
130 TT
** * * * * * *
4630305 AAATCTGCTTCACTACTGCTTAGGAAAATAAGAT-TCGCCAT-TTTCGATCTGCTCCACTACTGC
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCT-ACCATCTTT-GACCTGCTCCACTACTGC
* * *
4630368 TTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACCACTGCTTAGGAAAATAAGATTCGCCAT
64 TTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCAT
*
4630433 TTT
129 CTT
* * *
4630436 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGTTCCACT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACT
4630494 GTAACCTCAG
Statistics
Matches: 920, Mismatches: 171, Indels: 28
0.82 0.15 0.03
Matches are distributed among these distances:
129 1 0.00
130 126 0.14
131 757 0.82
132 36 0.04
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (131 bp):
CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTT
AGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCATCT
T
Found at i:4629532 original size:218 final size:218
Alignment explanation
Indices: 4629222--4630294 Score: 1349
Period size: 218 Copynumber: 4.9 Consensus size: 218
4629212 TTTTTTTTGT
* * * * * * * *
4629222 CTGCTCCGCTACTGCTTAGGGAGATAAGACTTGAT-GC---GATTTGCTCCACTACTACTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAGGAC-TGGTGGCTTAAATCTGCTTCACTACTGCTTAGGA
* * * *
4629283 AGATAAGA-TCTACAATCTTCGACCTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAA
65 AGATAAGATTC-GCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAA
4629347 ATCTGCTTCACTACTGCTTAGGAAAATGAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAG
129 ATCTGCTTCACTACTGCTTAGGAAAATGAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAG
4629412 GGAGATAGGATCTACCATCTTTGAC
194 GGAGATAGGATCTACCATCTTTGAC
* * * *
4629437 CTGCTCTACTACTGTTTAGGGAGATAGGACTGGTGGCTTAAATCTACTTCATTACTGCTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* *
4629502 GATAAGATTCGCCGTCTTCGATCAGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAAT
66 GATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAAT
* *
4629567 CTGGTTCACTACTGCTTAGGAAGATGAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGG
131 CTGCTTCACTACTGCTTAGGAAAATGAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGG
4629632 AGATAGGATCTACCATCTTTGAC
196 AGATAGGATCTACCATCTTTGAC
* *
4629655 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATTTGCTTCACTACTGCTTAGAAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* * * ***** **
4629720 GATAAGATTTGCCGTATTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGA
66 GATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAA
* * * * * * * *
4629785 CCTGCTCCACTACTGCTTAGGGAGAT-AGGA-TCTACCATCTTTGACCTGCTCCATTACTGCTTA
130 TCTGCTTCACTACTGCTTAGGAAAATGA-GATTC-GCCATCTTCGATCTGCTCCACTACTGCTTA
** * * *
4629848 GGGAGATAGGA-CT--GGTGGTTTAAAT
193 GGGAGATAGGATCTACCAT-CTTT-GAC
* * * * * * ** * ** * *
4629873 CAGCTTCACTACTGTTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAGGACT-GGTGGCTTAAATCTGCTTCACTACTGCTTAGGA
* * * *
4629938 AGATAGGA-TCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAA
65 AGATAAGATTC-GCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAA
* * *
4630002 ATCTGCTTCATTACTGCTTAGGAATATGAGATTCGCCATCTTCGATCTGCTCCACTACTACTTAG
129 ATCTGCTTCACTACTGCTTAGGAAAATGAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAG
4630067 GGAGATAGGATCTACCATCTTTGAC
194 GGAGATAGGATCTACCATCTTTGAC
*
4630092 CTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* * *
4630157 AATAAGATTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAAT
66 GATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAAT
* *
4630222 CTGCTTCACTACTGCTTAGGAAAATAAGATTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGG
131 CTGCTTCACTACTGCTTAGGAAAATGAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGG
4630287 AGATAGGA
196 AGATAGGA
4630295 CTAGTGGCTT
Statistics
Matches: 721, Mismatches: 119, Indels: 33
0.83 0.14 0.04
Matches are distributed among these distances:
214 3 0.00
215 28 0.04
216 1 0.00
217 3 0.00
218 513 0.71
219 169 0.23
220 3 0.00
221 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (218 bp):
CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
GATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAAT
CTGCTTCACTACTGCTTAGGAAAATGAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGG
AGATAGGATCTACCATCTTTGAC
Found at i:4630717 original size:46 final size:45
Alignment explanation
Indices: 4630488--4630734 Score: 177
Period size: 44 Copynumber: 5.6 Consensus size: 45
4630478 TTCGACCTGT
* ** *
4630488 TCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTTTAC
1 TCCACTGTAACCTCAGGGAGATAAGATCTG-AATTTTTCAATCTAC
* *
4630534 TCCACTGTAACCTCAGGGAGATAAGACCTG-A---TGCAATCTAC
1 TCCACTGTAACCTCAGGGAGATAAGATCTGAATTTTTCAATCTAC
** * * * * * **
4630575 TTTACTGTAACTTCAGAGAGATGAGATCT--TTTATTTTAATCCGC
1 TCCACTGTAACCTCAGGGAGATAAGATCTGAATT-TTTCAATCTAC
* * * * *** *
4630619 TCCACTGTAACTTCAAGGAGATAGGAT-T-ACTAGCTCTAATCTGC
1 TCCACTGTAACCTCAGGGAGATAAGATCTGAATTTTTC-AATCTAC
**
4630663 TCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTAC
1 TCCACTGTAACCTCAGGGAGATAAGATCTG-AATTTTTCAATCTAC
4630709 TCCACTGTAACCTCAGGGAGATAAGA
1 TCCACTGTAACCTCAGGGAGATAAGA
4630735 CTTGCATATT
Statistics
Matches: 154, Mismatches: 38, Indels: 18
0.73 0.18 0.09
Matches are distributed among these distances:
41 29 0.19
43 2 0.01
44 59 0.38
45 1 0.01
46 59 0.38
47 4 0.03
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (45 bp):
TCCACTGTAACCTCAGGGAGATAAGATCTGAATTTTTCAATCTAC
Found at i:4630804 original size:175 final size:174
Alignment explanation
Indices: 4630488--4630820 Score: 412
Period size: 175 Copynumber: 1.9 Consensus size: 174
4630478 TTCGACCTGT
*
4630488 TCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTTTACTCCACTGTAACCTCAGGGA
1 TCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGA
* * * **
4630553 GATAAGACCTGATGCAATCTACTTTACTGTAACTTCAGAGAGATGAGATCTTTTATTTTAATCCG
66 GATAAGACCT-ATGCAATCTACTTCACTGTAACTTCAGAGAGATAAGAGCTTTTATTGCAATCCG
4630618 CTCCACTGTAACTTCA-AGGAGATAGGATTACTAGCTCTAATCTGC
130 CTCCACTGTAACTTCAGA-GAGATAGGATTACTAGCTCTAATCTGC
*
4630663 TCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTACTCCACTGTAACCTCAGGGA
1 TCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGA
* *
4630728 GATAAGA-CT-TGCATAT-TCAGCTTGCCCCACTGTAACTTTAGGGAGATAAG-GC-TTTA-TGC
66 GATAAGACCTATGCA-ATCT-A-CTT----CACTGTAACTTCAGAGAGATAAGAGCTTTTATTGC
* **
4630787 GA-CCTGCTCTGCTGTAACTTCAGAGAGATAGGAT
124 AATCC-GCTCCACTGTAACTTCAGAGAGATAGGAT
4630821 CCTTTATTTT
Statistics
Matches: 137, Mismatches: 12, Indels: 18
0.82 0.07 0.11
Matches are distributed among these distances:
172 5 0.04
173 3 0.02
174 7 0.05
175 97 0.71
176 5 0.04
177 1 0.01
178 19 0.14
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (174 bp):
TCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGA
GATAAGACCTATGCAATCTACTTCACTGTAACTTCAGAGAGATAAGAGCTTTTATTGCAATCCGC
TCCACTGTAACTTCAGAGAGATAGGATTACTAGCTCTAATCTGC
Found at i:4630986 original size:46 final size:44
Alignment explanation
Indices: 4630885--4631040 Score: 142
Period size: 41 Copynumber: 3.6 Consensus size: 44
4630875 ATCTGCTCTG
*
4630885 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTACTCCA
* * * **
4630929 CTGTAACCTCAGGGAGATAATATCTAAACT-TCTTCGGTCTACTCCA
1 CTGTAATCTCAGGGAGATAAGATCT---CTGGCTTCAATCTACTCCA
* * * *
4630975 CTGTAATCTCAGGGAGATAAGA-C-CT-GATGCGATCTACTCTA
1 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTACTCCA
*
4631016 CTGTAA-CTTCAGAGAGATAAGATCT
1 CTGTAATC-TCAGGGAGATAAGATCT
4631041 TTTATTTTAA
Statistics
Matches: 92, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
40 1 0.01
41 32 0.35
42 1 0.01
44 23 0.25
45 1 0.01
46 32 0.35
47 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (44 bp):
CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTACTCCA
Found at i:4631433 original size:69 final size:67
Alignment explanation
Indices: 4631322--4631449 Score: 229
Period size: 69 Copynumber: 1.9 Consensus size: 67
4631312 GACCGACTTC
4631322 TTCAAAGCATCACTTTAATCAGATTGCCCCCACTGTGAAATCCACTAGGACACAAAATTTGTACC
1 TTCAAAGCATCACTTTAATCAGATTGCCCCCACTGTGAAATCCACTAGG--ACAAAATTTGTACC
4631387 ATCA
64 ATCA
*
4631391 TTCAAAGCATCACTTTAGTCAGATTGCCCCCACTGTGAAATCCACTAGGACAAAATTTG
1 TTCAAAGCATCACTTTAATCAGATTGCCCCCACTGTGAAATCCACTAGGACAAAATTTG
4631450 ATGTCTTAGT
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
67 10 0.17
69 48 0.83
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.27
Consensus pattern (67 bp):
TTCAAAGCATCACTTTAATCAGATTGCCCCCACTGTGAAATCCACTAGGACAAAATTTGTACCAT
CA
Found at i:4638338 original size:11 final size:10
Alignment explanation
Indices: 4638282--4638376 Score: 61
Period size: 10 Copynumber: 9.1 Consensus size: 10
4638272 ATGTGTATAT
4638282 ATAAGTTTTTA
1 ATAA-TTTTTA
*
4638293 ATTATTATTT-
1 ATAATT-TTTA
4638303 ATAATTTATT-
1 ATAATTT-TTA
*
4638313 ATAATTCTTA
1 ATAATTTTTA
4638323 ATAATTTTTAA
1 ATAATTTTT-A
*
4638334 ATAATTTTTTT
1 ATAA-TTTTTA
*
4638345 CTAATTTTT-
1 ATAATTTTTA
*
4638354 CTAATTATTTA
1 ATAATT-TTTA
4638365 ATAATTATTTA
1 ATAATT-TTTA
4638376 A
1 A
4638377 GAAACTATTT
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
9 9 0.13
10 31 0.44
11 25 0.36
12 5 0.07
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (10 bp):
ATAATTTTTA
Found at i:4639707 original size:26 final size:26
Alignment explanation
Indices: 4639678--4639734 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
4639668 AATAAGAAAG
* * *
4639678 AAAACAACAAAA-ATAAAATCTACTCT
1 AAAA-AACAAAAGAGAAAACCTAATCT
*
4639704 AAAAAAGAAAAGAGAAAACCTAATCT
1 AAAAAACAAAAGAGAAAACCTAATCT
4639730 AAAAA
1 AAAAA
4639735 TGAAAAGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.67, C:0.14, G:0.05, T:0.14
Consensus pattern (26 bp):
AAAAAACAAAAGAGAAAACCTAATCT
Found at i:4639739 original size:26 final size:26
Alignment explanation
Indices: 4639692--4639747 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
4639682 CAACAAAAAT
* * *
4639692 AAAATCTACTCTAAAAAAGAAAAGAG
1 AAAACCTAATCTAAAAAAGAAAAGAA
*
4639718 AAAACCTAATCTAAAAATGAAAAGAA
1 AAAACCTAATCTAAAAAAGAAAAGAA
4639744 AAAA
1 AAAA
4639748 AAAGGAAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.66, C:0.11, G:0.09, T:0.14
Consensus pattern (26 bp):
AAAACCTAATCTAAAAAAGAAAAGAA
Found at i:4639755 original size:16 final size:16
Alignment explanation
Indices: 4639730--4639761 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4639720 AACCTAATCT
*
4639730 AAAAATGAAAAGAAAA
1 AAAAAGGAAAAGAAAA
4639746 AAAAAGGAAAAGAAAA
1 AAAAAGGAAAAGAAAA
4639762 CGTAACTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (16 bp):
AAAAAGGAAAAGAAAA
Found at i:4642032 original size:43 final size:43
Alignment explanation
Indices: 4641905--4642032 Score: 136
Period size: 43 Copynumber: 3.0 Consensus size: 43
4641895 AGCTCGTACA
* * *
4641905 ATGCCA-TCGTCCTAGACGTGGTCTTATATGTAATCATATATCG
1 ATGCCACT-GTCCCAGACGTGGTCTTACATGTAATCACATATCG
* *
4641948 ATGCCACTGTCCCAGACAG-GGTCTTACACGTAATCAGATATCG
1 ATGCCACTGTCCCAGAC-GTGGTCTTACATGTAATCACATATCG
* * *
4641991 ATGTCGA-TGTCCCAGACGTGGTCTTACATGAAAACACATATC
1 ATG-CCACTGTCCCAGACGTGGTCTTACATGTAATCACATATC
4642033 AGAGTCCTAT
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
42 1 0.01
43 67 0.93
44 4 0.06
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACGTGGTCTTACATGTAATCACATATCG
Found at i:4642959 original size:28 final size:28
Alignment explanation
Indices: 4642919--4642973 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
4642909 TATGTTTGTT
*
4642919 TTTATTATAATAA-CTTTATAATATATTC
1 TTTATTATAATAACCCTTATAAT-TATTC
*
4642947 TTTATTATCATAACCCTTATAATTATT
1 TTTATTATAATAACCCTTATAATTATT
4642974 ATAAAAACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (28 bp):
TTTATTATAATAACCCTTATAATTATTC
Done.