Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 105 of 378
Found at i:28949078 original size:23 final size:23
Alignment explanation
Indices: 28949043--28949137 Score: 86
Period size: 23 Copynumber: 4.1 Consensus size: 23
28949033 CATAACATTT
* *
28949043 TGTAAAGATTTTGTGGCGTATTC
1 TGTAAACACTTTGTGGCGTATTC
*
28949066 TGTAAACACTTTGTGGCATATTC
1 TGTAAACACTTTGTGGCGTATTC
* * *
28949089 TATAAAGC-CTTTCTAGCGTATTC
1 TGTAAA-CACTTTGTGGCGTATTC
* *
28949112 TGT-GATACTTGTGTGGCGTATTC
1 TGTAAACACTT-TGTGGCGTATTC
28949135 TGT
1 TGT
28949138 GATGCCCTTG
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
22 4 0.07
23 52 0.91
24 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.22, T:0.42
Consensus pattern (23 bp):
TGTAAACACTTTGTGGCGTATTC
Found at i:28951621 original size:40 final size:39
Alignment explanation
Indices: 28951566--28951823 Score: 308
Period size: 40 Copynumber: 6.5 Consensus size: 39
28951556 TGGATGATAA
*
28951566 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-ACTA-TAT
28951606 CCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AG-TACTATAT
28951646 CCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AG-TACTATAT
*
28951686 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TACTATAT
* *
28951726 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TACTATAT
* * * * *
28951766 CCGGACTATGTCCCGAAGGCATTCGAGCGAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTA-CTATAT
* *
28951806 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
28951824 TACTTGTCTT
Statistics
Matches: 201, Mismatches: 12, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
39 16 0.08
40 184 0.92
41 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTACTATAT
Found at i:28951779 original size:120 final size:120
Alignment explanation
Indices: 28951566--28951823 Score: 360
Period size: 120 Copynumber: 2.2 Consensus size: 120
28951556 TGGATGATAA
* *
28951566 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
* * * * *
28951631 TGTGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGCTA-CTATAT
66 TGCGAGCTACTATATCCGGACTAAGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
* *
28951686 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTG
* *
28951750 GTGCGAGTTACTATATCCGGACTATGTCCCGAAGGCATTCGAGCGAGTAGCTATAT
65 GTGCGAGCTACTATATCCGGACTAAGTCCCGAAGGCATTCGAGCGAGTAGCTATAT
* *
28951806 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
28951824 TACTTGTCTT
Statistics
Matches: 123, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
119 17 0.14
120 106 0.86
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
TGCGAGCTACTATATCCGGACTAAGTCCCGAAGGCATTCGAGCGAGTAGCTATAT
Found at i:28956355 original size:29 final size:27
Alignment explanation
Indices: 28956257--28956356 Score: 83
Period size: 29 Copynumber: 3.5 Consensus size: 27
28956247 GATAAAAACA
* *
28956257 TAATAATAATTATGATTTTTTAATTTATA
1 TAATAATAATTAT--TTTATTAATTTATT
* **
28956286 TAATAATAATTATATTAAGAATTTTATT
1 TAATAATAATTATTTTATTAA-TTTATT
* *
28956314 AAATTATATATTATTTTATTAAGTTATATT
1 TAATAATA-ATTATTTTATTAA-TT-TATT
28956344 TAATAATAATTAT
1 TAATAATAATTAT
28956357 GTTAAAATAT
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
27 4 0.07
28 11 0.20
29 30 0.55
30 10 0.18
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (27 bp):
TAATAATAATTATTTTATTAATTTATT
Found at i:28956355 original size:58 final size:56
Alignment explanation
Indices: 28956271--28956424 Score: 186
Period size: 58 Copynumber: 2.7 Consensus size: 56
28956261 AATAATTATG
* *
28956271 ATTTT-TTAATT-TATATAATAATAATTATATTAAGAATTTTATTAAATTATATATT
1 ATTTTATTAATTATATTTAATAATAATTATATTAA-AATTTGATTAAATTATATATT
* * * *
28956326 ATTTTATTAAGTTATATTTAATAATAATTATGTTAAAATATGGTTAAATTATTTATT
1 ATTTTATTAA-TTATATTTAATAATAATTATATTAAAATTTGATTAAATTATATATT
* *
28956383 ATTTTTATTAAATTATTTTTAATAATAATTTTATTAAAATTT
1 A-TTTTATT-AATTATATTTAATAATAATTATATTAAAATTT
28956425 AATAACAATA
Statistics
Matches: 84, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
55 5 0.06
56 4 0.05
57 20 0.24
58 53 0.63
59 2 0.02
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (56 bp):
ATTTTATTAATTATATTTAATAATAATTATATTAAAATTTGATTAAATTATATATT
Found at i:28956399 original size:14 final size:14
Alignment explanation
Indices: 28956380--28956420 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
28956370 TAAATTATTT
28956380 ATTATTTTTATTAA
1 ATTATTTTTATTAA
*
28956394 ATTATTTTTAAT-A
1 ATTATTTTTATTAA
*
28956407 A-TAATTTTATTAA
1 ATTATTTTTATTAA
28956420 A
1 A
28956421 ATTTAATAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
12 8 0.35
13 4 0.17
14 11 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTATTTTTATTAA
Found at i:28956615 original size:16 final size:16
Alignment explanation
Indices: 28956591--28956645 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
28956581 TGAATTACTG
*
28956591 ATTATAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
28956607 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
28956623 ATTACAG-TCTTATTCC
1 ATTACAGCTC-TATTCC
28956639 ATTACAG
1 ATTACAG
28956646 TGAACCAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
15 2 0.06
16 33 0.94
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:28959989 original size:61 final size:61
Alignment explanation
Indices: 28959934--28960054 Score: 181
Period size: 61 Copynumber: 2.0 Consensus size: 61
28959924 ACAAAGGTTT
* * *
28959934 TCCTTTACATCTAGTACTCGCCACAAATGCTTTCCTATCCA-ATGTTTTACCACAAAGGCAG
1 TCCTTTAAATCTAATACTCGCCACAAAGGCTTTCCTATCCAGA-GTTTTACCACAAAGGCAG
* *
28959995 TCCTTTAAATCTAATACTTGCCACAAAGGCTTTCCTATCTAGAGTTTTACCACAAAGGCA
1 TCCTTTAAATCTAATACTCGCCACAAAGGCTTTCCTATCCAGAGTTTTACCACAAAGGCA
28960055 TCTTTTTTCT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 53 0.98
62 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (61 bp):
TCCTTTAAATCTAATACTCGCCACAAAGGCTTTCCTATCCAGAGTTTTACCACAAAGGCAG
Found at i:28960257 original size:53 final size:53
Alignment explanation
Indices: 28960172--28960434 Score: 271
Period size: 53 Copynumber: 5.0 Consensus size: 53
28960162 TCCTTTAGTC
* **
28960172 CTTCCTATATGATGCCATAACCTGCCAGTTACGATCTTACACAATATGGTCTT
1 CTTCCCATATGATGCCATAACCCACCAGTTACGATCTTACACAATATGGTCTT
* ** * * * *
28960225 CTACTTATATGATGCCATAACCCATCAGTTACGGTCTTATACGATATGGTCTT
1 CTTCCCATATGATGCCATAACCCACCAGTTACGATCTTACACAATATGGTCTT
* * * ** *
28960278 CTTCCCATATGATGTCATAACCCACCAGTTA-TAGTTTTACACGCTATGGTATT
1 CTTCCCATATGATGCCATAACCCACCAGTTACGA-TCTTACACAATATGGTCTT
* * * * *
28960331 TTTCCCATATGATGTCATAACCTACTAGTTAC-AGTCTTACACAATATAGTCTT
1 CTTCCCATATGATGCCATAACCCACCAGTTACGA-TCTTACACAATATGGTCTT
* *
28960384 CTTCCCATATGATACCATAACCCACCAGTTACGGTCTTACA-AGATATGGTC
1 CTTCCCATATGATGCCATAACCCACCAGTTACGATCTTACACA-ATATGGTC
28960435 CTACAATGCT
Statistics
Matches: 172, Mismatches: 34, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
52 1 0.01
53 171 0.99
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (53 bp):
CTTCCCATATGATGCCATAACCCACCAGTTACGATCTTACACAATATGGTCTT
Found at i:28960424 original size:106 final size:106
Alignment explanation
Indices: 28960172--28960433 Score: 301
Period size: 106 Copynumber: 2.5 Consensus size: 106
28960162 TCCTTTAGTC
* ** * * * **
28960172 CTTCCTATATGATGCCATAACCTGCCAGTTACGATCTTACACAATATGGTCTTCTACTTATATGA
1 CTTCCCATATGATGCCATAACCCACCAGTTACGGTCTTACACGATATGGTATTCTACCCATATGA
* * * *
28960237 TGCCATAACCCATCAGTTACGGTCTTATACGATATGGTCTT
66 TGCCATAACCCATCAGTTACAGTCTTACACAATATAGTCTT
* ** * * * *
28960278 CTTCCCATATGATGTCATAACCCACCAGTTATAGTTTTACACGCTATGGTATTTTTCCCATATGA
1 CTTCCCATATGATGCCATAACCCACCAGTTACGGTCTTACACGATATGGTATTCTACCCATATGA
* *
28960343 TGTCATAACCTA-CTAGTTACAGTCTTACACAATATAGTCTT
66 TGCCATAACCCATC-AGTTACAGTCTTACACAATATAGTCTT
* *
28960384 CTTCCCATATGATACCATAACCCACCAGTTACGGTCTTACAAGATATGGT
1 CTTCCCATATGATGCCATAACCCACCAGTTACGGTCTTACACGATATGGT
28960434 CCTACAATGC
Statistics
Matches: 127, Mismatches: 28, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
105 1 0.01
106 126 0.99
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (106 bp):
CTTCCCATATGATGCCATAACCCACCAGTTACGGTCTTACACGATATGGTATTCTACCCATATGA
TGCCATAACCCATCAGTTACAGTCTTACACAATATAGTCTT
Found at i:28964869 original size:43 final size:43
Alignment explanation
Indices: 28964789--28964964 Score: 257
Period size: 43 Copynumber: 4.1 Consensus size: 43
28964779 GATAAACCCT
* * * *
28964789 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCTTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
28964830 GCAGGCTTAGTGCCGGTGATGTGTATGCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
28964873 GCAGGCTTAATGTCAGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
28964916 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
28964959 GCAGGC
1 GCAGGC
28964965 GTAATACCGG
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
41 15 0.12
42 2 0.02
43 103 0.86
ACGTcount: A:0.13, C:0.23, G:0.34, T:0.30
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:28964912 original size:86 final size:86
Alignment explanation
Indices: 28964810--28964969 Score: 284
Period size: 86 Copynumber: 1.9 Consensus size: 86
28964800 GCTGGTATTA
*
28964810 TATTCGGGCTTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTATGCGGGCCTTCGTGCCTAGC
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTATGCGGGCCTTCGTGCCTAGC
*
28964875 AGGCTTAATGTCAGTGATGTG
66 AGGCGTAATGTCAGTGATGTG
* *
28964896 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTATGCGGGCCTTCGTGCCTAGC
28964961 AGGCGTAAT
66 AGGCGTAAT
28964970 ACCGGTGAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 70 1.00
ACGTcount: A:0.13, C:0.23, G:0.33, T:0.31
Consensus pattern (86 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTATGCGGGCCTTCGTGCCTAGC
AGGCGTAATGTCAGTGATGTG
Found at i:28965403 original size:43 final size:44
Alignment explanation
Indices: 28965316--28965416 Score: 113
Period size: 43 Copynumber: 2.3 Consensus size: 44
28965306 GCTTAGCAAA
*
28965316 CTATAATGCCGGTGAGATACTATTCGGGCCTTCAGCCTAGCAGG
1 CTATAATGCCGGTGAGATACTATTCGGGCCTTCAGCCTAACAGG
28965360 CTATAATGCCGGT--GA-ACTGATATCGGGCC-TCGAGCCTAACAGG
1 CTATAATGCCGGTGAGATACT-AT-TCGGGCCTTC-AGCCTAACAGG
* *
28965403 CGA-AATGCCAGTGA
1 CTATAATGCCGGTGA
28965417 TTTGAGAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
41 3 0.06
42 14 0.29
43 19 0.39
44 13 0.27
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.22
Consensus pattern (44 bp):
CTATAATGCCGGTGAGATACTATTCGGGCCTTCAGCCTAACAGG
Found at i:28972978 original size:132 final size:131
Alignment explanation
Indices: 28972786--28973601 Score: 1204
Period size: 132 Copynumber: 6.2 Consensus size: 131
28972776 AGCTTCAATA
* * *
28972786 TGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAACCTACTCCGCTACAACTTTAGG
1 TGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAAT-TTCAACCTACTCCACTACAACTTTAGG
* * * * * * *
28972851 GAGCTAGGATGGTGGCTTAAATCTACTTCATTGCAATTTCAGGAAGTCAAGATTCACAGTCTTCG
65 GAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAGTCAAGATTCGC-GTCTTCG
28972916 ATC
129 ATC
* * *
28972919 TGTTTCACTGCAACTTCAGGGAAACAAAATCTAAAATTTCAACCTACTCCACTACAACTTTAGGG
1 TGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGGG
* * *
28972984 AACTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCTC-AGATTCGCCGTCTTCG
66 AGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAG-TCAAGATTCG-CGTCTTCG
28973048 ATC
129 ATC
* * * *
28973051 TGCTCCACTACAACTTCAGGGAAACGAGATCTAAAATTTTAACCTACTCCACTACAACTCTAGGG
1 TGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGGG
* *
28973116 AGCTAGGTTAGTGGCTTAAATCTGCTTCACTGCAACTTTAGGAAGCTC-AGATTCGCCGTCTTCG
66 AGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAG-TCAAGATTCG-CGTCTTCG
*
28973180 ATT
129 ATC
* * * *
28973183 TGCTCCACTGCAACTTCAGGGAATCGAGATCGAAAATTTCAACCTACTCCACTACAACTTTAGAG
1 TGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGGG
* *
28973248 AGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAGTCAAGATTCGTTGTCTTTGA
66 AGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAGTCAAGATTCG-CGTCTTCGA
28973313 TC
130 TC
* *
28973315 TGCTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTTTAACCTACTCCACTACAACTTTAGGG
1 TGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGGG
* *
28973380 AGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAGTCAGGATTCGTCGTCTTTGA
66 AGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAGTCAAGATTCG-CGTCTTCGA
28973445 TC
130 TC
** * *
28973447 TGCTCCACTGCAACTTCAGGGAAGTAGGATCTAAAATCTCAACCTACTCCACTACAACTTTAGGG
1 TGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGGG
28973512 AGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAGTCAAGATTCGTCGTCTTCGA
66 AGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAGTCAAGATTCG-CGTCTTCGA
28973577 TC
130 TC
28973579 TGCTCCACTGCAACTTCAGGGAA
1 TGCTCCACTGCAACTTCAGGGAA
28973602 GTAGGATCTG
Statistics
Matches: 631, Mismatches: 49, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
131 2 0.00
132 594 0.94
133 35 0.06
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (131 bp):
TGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGGG
AGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAGTCAAGATTCGCGTCTTCGAT
C
Found at i:28973317 original size:45 final size:45
Alignment explanation
Indices: 28973266--28973603 Score: 187
Period size: 45 Copynumber: 7.6 Consensus size: 45
28973256 TAGTGACTTA
*
28973266 AATCTGCTTCACTGCAACTTCAGGAAGTCAAGATTCGTTGTCTTT
1 AATCTGCTCCACTGCAACTTCAGGAAGTCAAGATTCGTTGTCTTT
* * * **
28973311 GATCTGCTCCACTGCAACTTCAGGGAA-ACGAGA-TC-TAAAAT-TTT
1 AATCTGCTCCACTGCAACTTCA-GGAAGTCAAGATTCGT--TGTCTTT
* * * * * * * * * *
28973355 AACCTACTCCACTACAACTTTAGGGAG-CTAGGTTAG-TGACTTA
1 AATCTGCTCCACTGCAACTTCAGGAAGTCAAGATTCGTTGTCTTT
* * *
28973398 AATCTGCTTCACTGCAACTTCAGGAAGTCAGGATTCGTCGTCTTT
1 AATCTGCTCCACTGCAACTTCAGGAAGTCAAGATTCGTTGTCTTT
* * ** *
28973443 GATCTGCTCCACTGCAACTTCAGGGAAGT-AGGA-TC-TAAAATC-TC
1 AATCTGCTCCACTGCAACTTCA-GGAAGTCAAGATTCGT--TGTCTTT
* * * * * * * * * *
28973487 AACCTACTCCACTACAACTTTAGGGAG-CTAGGTTAG-TGACTTA
1 AATCTGCTCCACTGCAACTTCAGGAAGTCAAGATTCGTTGTCTTT
* * *
28973530 AATCTGCTTCACTGCAACTTCAGGAAGTCAAGATTCGTCGTCTTC
1 AATCTGCTCCACTGCAACTTCAGGAAGTCAAGATTCGTTGTCTTT
*
28973575 GATCTGCTCCACTGCAACTTCAGGGAAGT
1 AATCTGCTCCACTGCAACTTCA-GGAAGT
28973604 AGGATCTGTA
Statistics
Matches: 209, Mismatches: 65, Indels: 37
0.67 0.21 0.12
Matches are distributed among these distances:
42 1 0.00
43 58 0.28
44 55 0.26
45 79 0.38
46 16 0.08
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGAAGTCAAGATTCGTTGTCTTT
Found at i:28978756 original size:40 final size:40
Alignment explanation
Indices: 28978648--28978850 Score: 258
Period size: 40 Copynumber: 5.2 Consensus size: 40
28978638 TCTTCGGAAT
* ** *
28978648 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
28978687 TTAACCCGG-TATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
28978726 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
28978766 TTAACCCGG--ATAACAACTCGCACAAATGCCTT-GGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
28978803 TTA-CCCGGATATAATC-ACTAGCATAAATGCCTTCGGGGC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
28978842 TTAGCCCGG
1 TTAGCCCGG
28978851 GTATCATTCA
Statistics
Matches: 145, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
36 5 0.03
37 8 0.06
38 42 0.29
39 44 0.30
40 46 0.32
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:28978788 original size:38 final size:39
Alignment explanation
Indices: 28978668--28978850 Score: 248
Period size: 38 Copynumber: 4.7 Consensus size: 39
28978658 ATAACCACAA
* *
28978668 GCACAATTGCCTTCGGGTCTTAACCCGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGTATAACAACTC
*
28978707 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGG-TATAACAACTC
28978747 GCACAAATGCCTTCGGGTCTTAACCCGG-ATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGTATAACAACTC
*
28978785 GCACAAATGCCTT-GGGTCTT-ACCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGG-TATAA-CAACTC
* * *
28978823 GCATAAATGCCTTCGGGGCTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
28978851 GTATCATTCA
Statistics
Matches: 130, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
36 6 0.05
37 7 0.05
38 42 0.32
39 33 0.25
40 42 0.32
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (39 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGTATAACAACTC
Found at i:28986718 original size:40 final size:40
Alignment explanation
Indices: 28986673--28986861 Score: 278
Period size: 40 Copynumber: 4.8 Consensus size: 40
28986663 ATAACCACAA
* * *
28986673 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAACAACTC
*
28986713 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAACAACTC
28986753 GCACAAATGCCTTCGGGTCTTAGCCC-GG-ATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAACAACTC
* *
28986791 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAA-CAACTC
*
28986831 GCATAAATGCCTTCGGG-CTTAGCCCGGGTAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGTAT
28986862 CATTCAAATG
Statistics
Matches: 137, Mismatches: 9, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
38 36 0.26
39 15 0.11
40 85 0.62
41 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAACAACTC
Found at i:28986821 original size:78 final size:78
Alignment explanation
Indices: 28986653--28986857 Score: 299
Period size: 78 Copynumber: 2.6 Consensus size: 78
28986643 TCTTCGGAAT
* * * *
28986653 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGCCC-GGTATAACAACTCGCAC
28986717 AAATGCCTTCGGGTC
64 AAATGCCTTCGGGTC
*
28986732 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGG-ATAACAACTCGCACA
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGTATAACAACTCGCACA
28986796 AATGCCTTCGGGTC
65 AATGCCTTCGGGTC
*
28986810 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGG-CTTAGCCCGG
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
28986858 GTATCATTCA
Statistics
Matches: 116, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
77 10 0.09
78 62 0.53
79 8 0.07
80 36 0.31
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (78 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGCCCGGTATAACAACTCGCACAA
ATGCCTTCGGGTC
Found at i:28991614 original size:49 final size:49
Alignment explanation
Indices: 28991542--28991828 Score: 524
Period size: 49 Copynumber: 5.9 Consensus size: 49
28991532 GATATATATA
28991542 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
28991591 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
28991640 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
28991689 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
28991738 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
28991785 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
28991829 TATATGTGTG
Statistics
Matches: 232, Mismatches: 6, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
47 45 0.19
49 187 0.81
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:28991969 original size:37 final size:37
Alignment explanation
Indices: 28991928--28992005 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
28991918 GTTCCGGGTG
28991928 AGACCCGATGACTACGTGTGGAGATTATGTCCAGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGTCCAGGTA
* *
28991965 AGACCCGATGACTACGTGTGGAGATTATGTTCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGTCCAGGTA
28992002 AGAC
1 AGAC
28992006 TTCGTAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGTCCAGGTA
Found at i:29001765 original size:2 final size:2
Alignment explanation
Indices: 29001758--29001789 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
29001748 ATCTACAAAT
29001758 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
29001790 ACCCCCTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:29004561 original size:2 final size:2
Alignment explanation
Indices: 29004554--29004597 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
29004544 GTTTGATTGA
29004554 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29004596 AT
1 AT
29004598 GAAATCGATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29007209 original size:13 final size:13
Alignment explanation
Indices: 29007193--29007218 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29007183 AACTCTACAC
29007193 TTTATAATTTAAT
1 TTTATAATTTAAT
29007206 TTTATAATTTAAT
1 TTTATAATTTAAT
29007219 CTAACTCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTATAATTTAAT
Found at i:29007306 original size:17 final size:17
Alignment explanation
Indices: 29007284--29007323 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
29007274 TTTAATTAGA
29007284 TAAATTAATTTT-TCAAT
1 TAAATT-ATTTTCTCAAT
29007301 TAAATTATTTTCTCAAT
1 TAAATTATTTTCTCAAT
*
29007318 CAAATT
1 TAAATT
29007324 TTAATTTCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATTATTTTCTCAAT
Found at i:29007708 original size:16 final size:16
Alignment explanation
Indices: 29007687--29007719 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
29007677 TTTTTACCTA
29007687 TTAATTATAAACTCAT
1 TTAATTATAAACTCAT
*
29007703 TTAATTATAAAGTCAT
1 TTAATTATAAACTCAT
29007719 T
1 T
29007720 CTACTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.45
Consensus pattern (16 bp):
TTAATTATAAACTCAT
Found at i:29012270 original size:31 final size:31
Alignment explanation
Indices: 29012232--29012295 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
29012222 CCTTTCCATA
29012232 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
29012263 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
29012294 TT
1 TT
29012296 ACTGTAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:29012553 original size:23 final size:24
Alignment explanation
Indices: 29012489--29012628 Score: 182
Period size: 23 Copynumber: 6.0 Consensus size: 24
29012479 GCTTTATCAT
*
29012489 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
29012514 ATAACTAGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
29012538 ATAACT-GGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
29012560 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
29012583 ATAACTGAGGCATAAG-CCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
29012606 ATAATTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
29012629 TCACTTCCTC
Statistics
Matches: 104, Mismatches: 7, Indels: 9
0.87 0.06 0.08
Matches are distributed among these distances:
22 12 0.12
23 60 0.58
24 21 0.20
25 11 0.11
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:29012702 original size:20 final size:20
Alignment explanation
Indices: 29012677--29012743 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
29012667 TTATGATTAC
29012677 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
29012697 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
29012717 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
29012737 ACCATGT
1 ATCATGT
29012744 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:29012708 original size:11 final size:11
Alignment explanation
Indices: 29012677--29012732 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
29012667 TTATGATTAC
29012677 ATCATGTGCAT
1 ATCATGTGCAT
*
29012688 ATCA--TACAT
1 ATCATGTGCAT
29012697 ATCATGTGCAT
1 ATCATGTGCAT
*
29012708 ATCA--TACAT
1 ATCATGTGCAT
*
29012717 GTCATGTGCAT
1 ATCATGTGCAT
29012728 ATCAT
1 ATCAT
29012733 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:29017272 original size:2 final size:2
Alignment explanation
Indices: 29017265--29017291 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
29017255 TTGTTTTAAT
29017265 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
29017292 TATGTTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29017424 original size:17 final size:17
Alignment explanation
Indices: 29017402--29017435 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
29017392 AAGTAAAAGA
29017402 TATTT-ATTGATTATTAT
1 TATTTAATTGA-TATTAT
29017419 TATTTAATTGATATTAT
1 TATTTAATTGATATTAT
29017436 ATTAGTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATTTAATTGATATTAT
Found at i:29018299 original size:17 final size:17
Alignment explanation
Indices: 29018273--29018314 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
29018263 TTGATTGTAT
*
29018273 ATTGAAATGGAATTGAA
1 ATTGAAATGGAAATGAA
*
29018290 ATTGATATGGAAATGAA
1 ATTGAAATGGAAATGAA
29018307 ATTGAAAT
1 ATTGAAAT
29018315 AAAATAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.31
Consensus pattern (17 bp):
ATTGAAATGGAAATGAA
Found at i:29018302 original size:23 final size:24
Alignment explanation
Indices: 29018266--29018314 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
29018256 TATTGAATTG
* *
29018266 ATTGTATATTGAAATGGAATTGAA
1 ATTGTATATGGAAATGAAATTGAA
29018290 ATTG-ATATGGAAATGAAATTGAA
1 ATTGTATATGGAAATGAAATTGAA
29018313 AT
1 AT
29018315 AAAATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.35
Consensus pattern (24 bp):
ATTGTATATGGAAATGAAATTGAA
Found at i:29018413 original size:13 final size:14
Alignment explanation
Indices: 29018397--29018426 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
29018387 TTTGAGAAGG
29018397 GATTTGGAGATG-T
1 GATTTGGAGATGCT
29018410 GATTTGGAGATGCT
1 GATTTGGAGATGCT
29018424 GAT
1 GAT
29018427 GTTTATATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.23, C:0.03, G:0.37, T:0.37
Consensus pattern (14 bp):
GATTTGGAGATGCT
Found at i:29018520 original size:23 final size:23
Alignment explanation
Indices: 29018494--29018561 Score: 64
Period size: 28 Copynumber: 2.7 Consensus size: 23
29018484 GATGGATTAT
29018494 ATTATTCTGGTGTGTTTGGGAGG
1 ATTATTCTGGTGTGTTTGGGAGG
*
29018517 ATTATATGATACTGGTGTGTTTTGGAGG
1 A-T-TAT--T-CTGGTGTGTTTGGGAGG
* *
29018545 ATTATACTAGTGTGTTT
1 ATTATTCTGGTGTGTTT
29018562 TGGTTGGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
23 11 0.30
24 1 0.03
25 3 0.08
26 3 0.08
27 2 0.05
28 17 0.46
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (23 bp):
ATTATTCTGGTGTGTTTGGGAGG
Found at i:29018520 original size:28 final size:28
Alignment explanation
Indices: 29018467--29018550 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
29018457 CACTCTGTGC
*
29018467 TATTCTGGTGTATTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
29018496 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
29018524 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
29018551 CTAGTGTGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 33 0.66
29 17 0.34
ACGTcount: A:0.20, C:0.04, G:0.30, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:29027628 original size:13 final size:12
Alignment explanation
Indices: 29027596--29027629 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
29027586 TGACTTATGC
29027596 CACACGGCCAAGT
1 CACAC-GCCAAGT
29027609 CACACGCCTAAGT
1 CACACGCC-AAGT
29027622 CACACGCC
1 CACACGCC
29027630 CGTGTGTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 3 0.15
13 17 0.85
ACGTcount: A:0.29, C:0.44, G:0.18, T:0.09
Consensus pattern (12 bp):
CACACGCCAAGT
Found at i:29032711 original size:21 final size:21
Alignment explanation
Indices: 29032678--29032723 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
29032668 CTTGTATAGC
*
29032678 TATCA-TAAGACATTCATAATA
1 TATCATTAAGACA-TCAAAATA
29032699 TATCATTAA-ACATCAAAATA
1 TATCATTAAGACATCAAAATA
29032719 -ATCAT
1 TATCAT
29032724 GTATTTATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 5 0.22
20 7 0.30
21 8 0.35
22 3 0.13
ACGTcount: A:0.50, C:0.15, G:0.02, T:0.33
Consensus pattern (21 bp):
TATCATTAAGACATCAAAATA
Found at i:29041935 original size:23 final size:23
Alignment explanation
Indices: 29041916--29041962 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
29041906 GTTATTCAGT
29041916 GACATCTCCTATATAAATTCATA
1 GACATCTCCTATATAAATTCATA
*
29041939 GGCATCTCCTATATAAATTCATA
1 GACATCTCCTATATAAATTCATA
29041962 G
1 G
29041963 TTATTCAGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (23 bp):
GACATCTCCTATATAAATTCATA
Found at i:29042271 original size:11 final size:11
Alignment explanation
Indices: 29042248--29042285 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
29042238 GGAAAAGAAG
29042248 AATTAGTAATAA
1 AATTAG-AATAA
29042260 AATTAGAATAA
1 AATTAGAATAA
*
29042271 ATTTAGAATAA
1 AATTAGAATAA
29042282 AATT
1 AATT
29042286 TAAATTGCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 18 0.75
12 6 0.25
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (11 bp):
AATTAGAATAA
Found at i:29042286 original size:12 final size:12
Alignment explanation
Indices: 29042250--29042287 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
29042240 AAAAGAAGAA
29042250 TTAGTAATAAAA-
1 TTAG-AATAAAAT
29042262 TTAGAAT-AAAT
1 TTAGAATAAAAT
29042273 TTAGAATAAAAT
1 TTAGAATAAAAT
29042285 TTA
1 TTA
29042288 AATTGCAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.12
11 10 0.42
12 11 0.46
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (12 bp):
TTAGAATAAAAT
Found at i:29046878 original size:34 final size:34
Alignment explanation
Indices: 29046835--29046904 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
29046825 ACCTGTAACA
*
29046835 CTAAAAAAATTATCATGCTTTCCTTATTAAATAT
1 CTAAAAAAATTATCATACTTTCCTTATTAAATAT
29046869 CTAAAAAAATTATCATACTTTCCTTATTAAATAT
1 CTAAAAAAATTATCATACTTTCCTTATTAAATAT
29046903 CT
1 CT
29046905 TTCTTAACTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.16, G:0.01, T:0.41
Consensus pattern (34 bp):
CTAAAAAAATTATCATACTTTCCTTATTAAATAT
Found at i:29049123 original size:25 final size:25
Alignment explanation
Indices: 29049049--29049126 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
29049039 CTCGGCCCTG
29049049 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
** *
29049074 TCACAT-T-GGCTA--TTCAGCCTT-A
1 TCACATATATAC-ACCTTCA-CATTCA
29049096 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
29049121 TCACAT
1 TCACAT
29049127 CTGCCATTAG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
24 6 0.15
25 17 0.43
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (25 bp):
TCACATATATACACCTTCACATTCA
Found at i:29049172 original size:49 final size:47
Alignment explanation
Indices: 29048998--29049459 Score: 596
Period size: 47 Copynumber: 9.7 Consensus size: 47
29048988 CCCTTCGGGA
* * * * *
29048998 CTTATCACATTTATACACTTTCACATCCATCACGT-TGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCT-GCCATTAGGC
* * * *
29049045 CCTGTCACATATATACACCTTCACATTCATCACAT-TGGCTATTCA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCT-GCCATT-AGGC
*
29049092 CTTATCACATATATACACCTTCACATTCATCACATCTGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCTGCCATTAGGC
*
29049139 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCTGCCATTAGGC
29049188 CTTATCACATATATACACACTTTCACATTCATCACAT-TGGCCATTCA-GC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCT-GCCATT-AGGC
*
29049237 CTTATCACATATATACACCTTCACATTCATCACATCTGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCTGCCATTAGGC
*
29049284 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCTGCCATTAGGC
29049333 CTTATCACATATATACACACTTTCACATTCATCACAT-TGGCCATTCA-GC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCT-GCCATT-AGGC
* *
29049382 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCTGCCATTAGGC
*
29049429 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACTTTCACATTCATC
29049460 GCGTAAAATC
Statistics
Matches: 374, Mismatches: 22, Indels: 38
0.86 0.05 0.09
Matches are distributed among these distances:
46 3 0.01
47 191 0.51
48 2 0.01
49 176 0.47
50 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCTGCCATTAGGC
Found at i:29049195 original size:96 final size:94
Alignment explanation
Indices: 29048998--29049459 Score: 619
Period size: 96 Copynumber: 4.8 Consensus size: 94
29048988 CCCTTCGGGA
* * * * * * * *
29048998 CTTATCACATTTATACACTTTCACATCCATCACGT-TGGCCACTCGGCCCTGTCACATATATACA
1 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGCCTTATCACATATATACA
* *
29049062 CCTTCACATTCATCACATTGGCTATTCAGC
65 CCTTCACATTCATCACATCGGCCATTCAGC
29049092 CTTATCACATATATACACCTTCACATTCATCACATCTGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACCTTCACATTCATCACATCTGCCATTAGGCCTTATCAC--ATATATAC
*
29049157 ACTTTCACATTCATCACATCGGCCATT-AGGC
64 ACCTTCACATTCATCACATCGGCCATTCA-GC
29049188 CTTATCACATATATACACACTTTCACATTCATCACAT-TGGCCATTCA-GCCTTATCACATATAT
1 CTTATCACATATATACAC-C-TTCACATTCATCACATCT-GCCATT-AGGCCTTATCACATATAT
*
29049251 ACACCTTCACATTCATCACATCTGCCATT-AGGC
62 ACACCTTCACATTCATCACATCGGCCATTCA-GC
* *
29049284 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACCTTCACATTCATCACATCTGCCATTAGGCCTTATCACATATATAC
*
29049349 ACACTTTCACATTCATCACATTGGCCATTCAGC
64 AC-C-TTCACATTCATCACATCGGCCATTCAGC
*
29049382 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACCTTCACATTCATCACATCTGCCATTAGGCCTTATCACATATATACAC
*
29049447 ATTCACATTCATC
66 CTTCACATTCATC
29049460 GCGTAAAATC
Statistics
Matches: 334, Mismatches: 19, Indels: 30
0.87 0.05 0.08
Matches are distributed among these distances:
94 57 0.17
95 3 0.01
96 195 0.58
97 3 0.01
98 74 0.22
99 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACCTTCACATTCATCACATCTGCCATTAGGCCTTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTCAGC
Found at i:29049270 original size:145 final size:145
Alignment explanation
Indices: 29048998--29049459 Score: 792
Period size: 145 Copynumber: 3.2 Consensus size: 145
29048988 CCCTTCGGGA
* * * * * * *
29048998 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
29049061 AC-C-TTCACATTCATCACATTGGCTATTCAGCCTTATCACATATATACACCTTCACATTCATCA
66 ACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACACCTTCACATTCATCA
29049124 CATCTGCCATTAGGC
131 CATCTGCCATTAGGC
29049139 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
29049204 ACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACACCTTCACATTCATCA
66 ACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACACCTTCACATTCATCA
29049269 CATCTGCCATTAGGC
131 CATCTGCCATTAGGC
29049284 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
29049349 ACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACACCTTCACATTCATCA
66 ACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACACCTTCACATTCATCA
*
29049414 CATCGGCCATTAGGC
131 CATCTGCCATTAGGC
*
29049429 CTTATCAC--ATATATACACATTCACATTCATC
1 CTTATCACATATATATACACTTTCACATTCATC
29049460 GCGTAAAATC
Statistics
Matches: 307, Mismatches: 10, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
141 10 0.03
142 1 0.00
143 69 0.22
144 1 0.00
145 226 0.74
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (145 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACACCTTCACATTCATCA
CATCTGCCATTAGGC
Found at i:29053262 original size:43 final size:43
Alignment explanation
Indices: 29053201--29053507 Score: 542
Period size: 43 Copynumber: 7.1 Consensus size: 43
29053191 CCTTGCTCGA
** * *
29053201 ATCACCGGCATTAAGCCTGCTAAGCACGAAGACCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
29053244 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
* *
29053287 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGACCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
29053330 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
29053373 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
29053416 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
29053459 ATCACTGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
29053502 ATCACC
1 ATCACC
29053508 AGCATGACTG
Statistics
Matches: 254, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 254 1.00
ACGTcount: A:0.33, C:0.32, G:0.22, T:0.13
Consensus pattern (43 bp):
ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
Found at i:29053681 original size:42 final size:42
Alignment explanation
Indices: 29053490--29053701 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 42
29053480 AGGCACGAAG
* * * * * * *
29053490 GCCCGAATACATATCACCAGCATGACTGCTCTTCGGAACCTG
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* * * * *
29053532 GTCCGG--ATACATCACTAGCATGAATGCTCTTCGGGATTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* * *
29053572 GCCCGG--ATATATCACTAGCATGAATGCTCTTCGGGATTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* *
29053612 GCCCGGATGTA-A-CACCAGCACGAATGCTCTACGGGACTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* *
29053652 ACCCGGATATATATCGCCAGCACGAATGCTCTTCGGGACTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
29053694 GCCCGGAT
1 GCCCGGAT
29053702 CATCGTCGAG
Statistics
Matches: 144, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
40 103 0.72
41 2 0.01
42 39 0.27
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (42 bp):
GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
Found at i:29055757 original size:25 final size:25
Alignment explanation
Indices: 29055683--29055760 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
29055673 CTCGGCCCTG
29055683 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
** *
29055708 TCACAT-T-GGCTA--TTCAGCCTT-A
1 TCACATATATAC-ACCTTCA-CATTCA
29055730 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
29055755 TCACAT
1 TCACAT
29055761 CTGCCATTAG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
24 6 0.15
25 17 0.43
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (25 bp):
TCACATATATACACCTTCACATTCA
Found at i:29055806 original size:49 final size:47
Alignment explanation
Indices: 29055632--29056093 Score: 596
Period size: 47 Copynumber: 9.7 Consensus size: 47
29055622 CCCTTCGGGA
* * * * *
29055632 CTTATCACATTTATACACTTTCACATCCATCACGT-TGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCT-GCCATTAGGC
* * * *
29055679 CCTGTCACATATATACACCTTCACATTCATCACAT-TGGCTATTCA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCT-GCCATT-AGGC
*
29055726 CTTATCACATATATACACCTTCACATTCATCACATCTGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCTGCCATTAGGC
*
29055773 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCTGCCATTAGGC
29055822 CTTATCACATATATACACACTTTCACATTCATCACAT-TGGCCATTCA-GC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCT-GCCATT-AGGC
*
29055871 CTTATCACATATATACACCTTCACATTCATCACATCTGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCTGCCATTAGGC
*
29055918 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCTGCCATTAGGC
29055967 CTTATCACATATATACACACTTTCACATTCATCACAT-TGGCCATTCA-GC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCT-GCCATT-AGGC
* *
29056016 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCTGCCATTAGGC
*
29056063 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACTTTCACATTCATC
29056094 GCGTAAAATC
Statistics
Matches: 374, Mismatches: 22, Indels: 38
0.86 0.05 0.09
Matches are distributed among these distances:
46 3 0.01
47 191 0.51
48 2 0.01
49 176 0.47
50 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCTGCCATTAGGC
Found at i:29055829 original size:96 final size:94
Alignment explanation
Indices: 29055632--29056093 Score: 619
Period size: 96 Copynumber: 4.8 Consensus size: 94
29055622 CCCTTCGGGA
* * * * * * * *
29055632 CTTATCACATTTATACACTTTCACATCCATCACGT-TGGCCACTCGGCCCTGTCACATATATACA
1 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGCCTTATCACATATATACA
* *
29055696 CCTTCACATTCATCACATTGGCTATTCAGC
65 CCTTCACATTCATCACATCGGCCATTCAGC
29055726 CTTATCACATATATACACCTTCACATTCATCACATCTGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACCTTCACATTCATCACATCTGCCATTAGGCCTTATCAC--ATATATAC
*
29055791 ACTTTCACATTCATCACATCGGCCATT-AGGC
64 ACCTTCACATTCATCACATCGGCCATTCA-GC
29055822 CTTATCACATATATACACACTTTCACATTCATCACAT-TGGCCATTCA-GCCTTATCACATATAT
1 CTTATCACATATATACAC-C-TTCACATTCATCACATCT-GCCATT-AGGCCTTATCACATATAT
*
29055885 ACACCTTCACATTCATCACATCTGCCATT-AGGC
62 ACACCTTCACATTCATCACATCGGCCATTCA-GC
* *
29055918 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACCTTCACATTCATCACATCTGCCATTAGGCCTTATCACATATATAC
*
29055983 ACACTTTCACATTCATCACATTGGCCATTCAGC
64 AC-C-TTCACATTCATCACATCGGCCATTCAGC
*
29056016 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACCTTCACATTCATCACATCTGCCATTAGGCCTTATCACATATATACAC
*
29056081 ATTCACATTCATC
66 CTTCACATTCATC
29056094 GCGTAAAATC
Statistics
Matches: 334, Mismatches: 19, Indels: 30
0.87 0.05 0.08
Matches are distributed among these distances:
94 57 0.17
95 3 0.01
96 195 0.58
97 3 0.01
98 74 0.22
99 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACCTTCACATTCATCACATCTGCCATTAGGCCTTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTCAGC
Found at i:29055904 original size:145 final size:145
Alignment explanation
Indices: 29055632--29056093 Score: 792
Period size: 145 Copynumber: 3.2 Consensus size: 145
29055622 CCCTTCGGGA
* * * * * * *
29055632 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
29055695 AC-C-TTCACATTCATCACATTGGCTATTCAGCCTTATCACATATATACACCTTCACATTCATCA
66 ACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACACCTTCACATTCATCA
29055758 CATCTGCCATTAGGC
131 CATCTGCCATTAGGC
29055773 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
29055838 ACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACACCTTCACATTCATCA
66 ACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACACCTTCACATTCATCA
29055903 CATCTGCCATTAGGC
131 CATCTGCCATTAGGC
29055918 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
29055983 ACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACACCTTCACATTCATCA
66 ACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACACCTTCACATTCATCA
*
29056048 CATCGGCCATTAGGC
131 CATCTGCCATTAGGC
*
29056063 CTTATCAC--ATATATACACATTCACATTCATC
1 CTTATCACATATATATACACTTTCACATTCATC
29056094 GCGTAAAATC
Statistics
Matches: 307, Mismatches: 10, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
141 10 0.03
142 1 0.00
143 69 0.22
144 1 0.00
145 226 0.74
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (145 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACACCTTCACATTCATCA
CATCTGCCATTAGGC
Found at i:29064886 original size:13 final size:13
Alignment explanation
Indices: 29064868--29064893 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29064858 ACAAAAGCTG
29064868 TTTGGGATGATGA
1 TTTGGGATGATGA
29064881 TTTGGGATGATGA
1 TTTGGGATGATGA
29064894 GCTGACGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.38, T:0.38
Consensus pattern (13 bp):
TTTGGGATGATGA
Found at i:29066021 original size:32 final size:32
Alignment explanation
Indices: 29065985--29066144 Score: 257
Period size: 32 Copynumber: 5.0 Consensus size: 32
29065975 TATAACTATG
29065985 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
29066017 CTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
29066049 CTACTTTTTTATATGTGAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
29066081 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
29066113 CTACCTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
29066145 ATTTTTTATG
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 116 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:29066086 original size:64 final size:64
Alignment explanation
Indices: 29065985--29066144 Score: 284
Period size: 64 Copynumber: 2.5 Consensus size: 64
29065975 TATAACTATG
*
29065985 CTACTTTTTTATATGTAAAACTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
* *
29066049 CTACTTTTTTATATGTGAACCTAATGTATGATCTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
*
29066113 CTACCTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGAT
29066145 ATTTTTTATG
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 91 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (64 bp):
CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
Found at i:29068173 original size:21 final size:21
Alignment explanation
Indices: 29068149--29068201 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
29068139 CGTTGTTTCT
* *
29068149 AATCTCACTGCTACAGTATCC
1 AATCTCACTGCTACAATAACC
* *
29068170 AATCTCACCGCTATAATAACC
1 AATCTCACTGCTACAATAACC
29068191 AATCTCACTGC
1 AATCTCACTGC
29068202 CACCGCTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.34, G:0.08, T:0.26
Consensus pattern (21 bp):
AATCTCACTGCTACAATAACC
Found at i:29070001 original size:9 final size:9
Alignment explanation
Indices: 29069989--29070016 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
29069979 TGCAACTGCA
29069989 CTTTCAACT
1 CTTTCAACT
29069998 CTTTCAACT
1 CTTTCAACT
29070007 CTTTCAACT
1 CTTTCAACT
29070016 C
1 C
29070017 AGTGGGGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.43
Consensus pattern (9 bp):
CTTTCAACT
Found at i:29072415 original size:55 final size:55
Alignment explanation
Indices: 29072354--29072476 Score: 151
Period size: 55 Copynumber: 2.2 Consensus size: 55
29072344 AGCCCGTGTG
* *
29072354 CAACACTGACTT-TAGGGCACGGCCATGACACACGC-CTGTGTAGCCTACCCATGGA
1 CAACACTGACTTATA-GACACGACCATGACACACGCTC-GTGTAGCCTACCCATGGA
* * *
29072409 CAACACTGACTTATAGACACGACTATGGCACACGCTCGTGTGGCCTACCCATGGA
1 CAACACTGACTTATAGACACGACCATGACACACGCTCGTGTAGCCTACCCATGGA
* *
29072464 CAATACTAACTTA
1 CAACACTGACTTA
29072477 AAAGTTTAAG
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
55 56 0.95
56 3 0.05
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.20
Consensus pattern (55 bp):
CAACACTGACTTATAGACACGACCATGACACACGCTCGTGTAGCCTACCCATGGA
Found at i:29073300 original size:49 final size:50
Alignment explanation
Indices: 29073218--29073356 Score: 171
Period size: 49 Copynumber: 2.8 Consensus size: 50
29073208 AAACATGGGT
*
29073218 TAAGTTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAT-CT-TCA
1 TAAG-TGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTATACTGT-A
* *
29073268 TCAAG-GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTAGTGTA
1 T-AAGTGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTATACTGTA
**
29073318 TAAGTGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 TAAGTGCCAATGCCATGTCCCAGACATGGTCTTACACTAGC
29073357 ACGAAGTTTA
Statistics
Matches: 80, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
48 13 0.16
49 54 0.68
50 9 0.11
51 4 0.05
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (50 bp):
TAAGTGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTATACTGTA
Found at i:29076127 original size:125 final size:124
Alignment explanation
Indices: 29075902--29076150 Score: 435
Period size: 125 Copynumber: 2.0 Consensus size: 124
29075892 CTTTTAATCA
* *
29075902 CATATTATCATTCTTGACCTAGCTTATACAGCAATTTCAAGTAACCAAGCTTACGCATACAAATA
1 CATATTATCATTCTTGACCTAGCTCATACAGCAATTTCAAGTAACCAAGCTTACGCATAAAAATA
29075967 TATTAAATAATCCAATAAGCAATCATATACATTTAATTCCATTATACCATAGCCGAACC
66 TATTAAATAATCCAATAAGCAATCATATACATTTAATTCCATTATACCATAGCCGAACC
* *
29076026 CATATTATCATTCTTGACCTAGCTCATACGGCAATTTCATAGTAACCAAGCTTACGGATAAAAAT
1 CATATTATCATTCTTGACCTAGCTCATACAGCAATTTCA-AGTAACCAAGCTTACGCATAAAAAT
* *
29076091 ATATTAAATAATCTAATAAGCAATCATATACGTTTAATTCCATTATACCATAGCCGAACC
65 ATATTAAATAATCCAATAAGCAATCATATACATTTAATTCCATTATACCATAGCCGAACC
29076151 TGTAAATGAA
Statistics
Matches: 118, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
124 37 0.31
125 81 0.69
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (124 bp):
CATATTATCATTCTTGACCTAGCTCATACAGCAATTTCAAGTAACCAAGCTTACGCATAAAAATA
TATTAAATAATCCAATAAGCAATCATATACATTTAATTCCATTATACCATAGCCGAACC
Found at i:29083127 original size:22 final size:22
Alignment explanation
Indices: 29083099--29083143 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
29083089 TGAAGCCTTG
29083099 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
29083121 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
29083143 T
1 T
29083144 TTTATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:29087721 original size:22 final size:22
Alignment explanation
Indices: 29087693--29087737 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
29087683 AGGGGGAGTG
29087693 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
29087715 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
29087737 T
1 T
29087738 TTTATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:29097031 original size:80 final size:80
Alignment explanation
Indices: 29096947--29097095 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
29096937 TATGGTAACC
* * * *
29096947 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
29097011 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
29097027 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
29097092 CCGG
66 CCGG
29097096 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:29097037 original size:40 final size:38
Alignment explanation
Indices: 29096988--29097095 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
29096978 ATCACGATTT
*
29096988 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
29097028 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
29097068 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
29097096 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:29105150 original size:80 final size:80
Alignment explanation
Indices: 29105066--29105214 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
29105056 TATGGTAACC
* * * *
29105066 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
29105130 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
29105146 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
29105211 CCGG
66 CCGG
29105215 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:29105156 original size:40 final size:38
Alignment explanation
Indices: 29105107--29105214 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
29105097 ATCACGATTT
*
29105107 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
29105147 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
29105187 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
29105215 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:29109065 original size:38 final size:38
Alignment explanation
Indices: 29108975--29109068 Score: 109
Period size: 38 Copynumber: 2.5 Consensus size: 38
29108965 ATCATTTACT
* * * *
29108975 ACACTGACTCAAAGCCTGCTAGGCACTAAGCTTGATTA
1 ACACCGACTCTAAGCCTGCTAGGCACTAAGCCTGAGTA
* *
29109013 ACACCGGCAT-TAAGCCTGTTAGGCACTAAGCCTGAGTA
1 ACACCGAC-TCTAAGCCTGCTAGGCACTAAGCCTGAGTA
*
29109051 ACATCGACTCTAAGCCTG
1 ACACCGACTCTAAGCCTG
29109069 AATAACACTG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
37 1 0.02
38 44 0.96
39 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (38 bp):
ACACCGACTCTAAGCCTGCTAGGCACTAAGCCTGAGTA
Found at i:29109066 original size:22 final size:22
Alignment explanation
Indices: 29109036--29109098 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
29109026 GCCTGTTAGG
29109036 CACTAAGCCTGAGTAACA-TCGA
1 CACTAAGCCTGAGTAACACT-GA
* * *
29109058 CTCTAAGCCTGAATAACACTGG
1 CACTAAGCCTGAGTAACACTGA
29109080 CACTAAGCCTGAGTAACAC
1 CACTAAGCCTGAGTAACAC
29109099 ATCATTTGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 34 0.97
23 1 0.03
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.19
Consensus pattern (22 bp):
CACTAAGCCTGAGTAACACTGA
Found at i:29110223 original size:5 final size:5
Alignment explanation
Indices: 29110213--29110249 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
29110203 TTTTTTTACT
*
29110213 TTTTA TTTTA TTTTA TCTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
29110250 ATTACTTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:29111162 original size:34 final size:34
Alignment explanation
Indices: 29111119--29111183 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
29111109 CAACCAGACA
29111119 CATGTTTCTCTGATTTAGTCCAGGTCCACATGAG
1 CATGTTTCTCTGATTTAGTCCAGGTCCACATGAG
*
29111153 CATGTTTCTCTGATTTAGTCCGGGTCCACAT
1 CATGTTTCTCTGATTTAGTCCAGGTCCACAT
29111184 AAGGACCAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (34 bp):
CATGTTTCTCTGATTTAGTCCAGGTCCACATGAG
Found at i:29112579 original size:32 final size:32
Alignment explanation
Indices: 29112538--29112603 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
29112528 AGTTCTCTTC
29112538 CTCCATTTCTTAAGATATTTTGCTTATTGTGG
1 CTCCATTTCTTAAGATATTTTGCTTATTGTGG
*
29112570 CTCCCTTTCTTAAGATATTTTGCTTATTGTGG
1 CTCCATTTCTTAAGATATTTTGCTTATTGTGG
29112602 CT
1 CT
29112604 ATCTTTGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.17, C:0.18, G:0.15, T:0.50
Consensus pattern (32 bp):
CTCCATTTCTTAAGATATTTTGCTTATTGTGG
Found at i:29141387 original size:22 final size:23
Alignment explanation
Indices: 29141348--29141392 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
29141338 AAATTAAATC
29141348 TCTAAGATTATAAAATCATATCT
1 TCTAAGATTATAAAATCATATCT
* *
29141371 TCTAAGATTGT-ATATCATATCT
1 TCTAAGATTATAAAATCATATCT
29141393 AAGATTGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (23 bp):
TCTAAGATTATAAAATCATATCT
Found at i:29141407 original size:18 final size:17
Alignment explanation
Indices: 29141371--29141503 Score: 176
Period size: 18 Copynumber: 7.5 Consensus size: 17
29141361 AATCATATCT
29141371 TCTAAGATTGTATATCATA
1 TCTAAGATTG-A-ATCATA
29141390 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
*
29141408 TCTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
29141425 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
*
29141443 TCTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
*
29141460 TCTAATATTGCAATCATA
1 TCTAAGATTG-AATCATA
* *
29141478 TTTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
29141495 TCTAAGATT
1 TCTAAGATT
29141504 ACATATCATT
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
17 45 0.44
18 46 0.45
19 11 0.11
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.40
Consensus pattern (17 bp):
TCTAAGATTGAATCATA
Found at i:29141429 original size:35 final size:35
Alignment explanation
Indices: 29141371--29141512 Score: 230
Period size: 35 Copynumber: 4.0 Consensus size: 35
29141361 AATCATATCT
29141371 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
29141408 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
29141443 TCTAAGATTGTATCATATCTAATATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
29141478 TTTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
29141513 TGAAGATTAT
Statistics
Matches: 100, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
35 85 0.85
36 5 0.05
37 10 0.10
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.39
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:29143307 original size:31 final size:31
Alignment explanation
Indices: 29143245--29143316 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
29143235 TTCAGAAATA
*
29143245 TGGGCCCACATGCCCGTGTAGCTTACTCGTG
1 TGGGCCCACATGCCCGTGTAGCTTACCCGTG
* * *
29143276 TGGGCCCACATGTCCGTGTGGAC-TGCCCGTG
1 TGGGCCCACATGCCCGTGTAG-CTTACCCGTG
*
29143307 TGGACCCACA
1 TGGGCCCACA
29143317 CGCCTAACTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 34 0.97
32 1 0.03
ACGTcount: A:0.14, C:0.33, G:0.31, T:0.22
Consensus pattern (31 bp):
TGGGCCCACATGCCCGTGTAGCTTACCCGTG
Found at i:29150159 original size:27 final size:27
Alignment explanation
Indices: 29150121--29150176 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
29150111 ATTTATAAAG
*
29150121 TTCGAGTTCAAGGAATACACACTTACC
1 TTCGAGTTCAAGGAATACAAACTTACC
29150148 TTCGAGTTCAAGGAATACAAACTTACC
1 TTCGAGTTCAAGGAATACAAACTTACC
29150175 TT
1 TT
29150177 AACAAAACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (27 bp):
TTCGAGTTCAAGGAATACAAACTTACC
Found at i:29153719 original size:125 final size:129
Alignment explanation
Indices: 29153504--29154064 Score: 485
Period size: 131 Copynumber: 4.3 Consensus size: 129
29153494 CAACAACATC
*
29153504 TTAAGGTTGTTGCTAATA-TTTAACATTT-AACAATGACTTATTTTG-TTGTTACAAATTTTATT
1 TTAAGGTTGTTGCTAATATTTTAACATTTAAAC-A--ACTTATTTTGACT-TTACAAATTTTATT
* * * * * * * * *
29153566 -AGTATTTCACAACT-ACAAATCATGTCATTGCTATTAATAAGCAGAAAAATAAATTACGTATCA
62 AAGAATTT-GCAA-TGAAAAATCATGTCATTGCAATGAATAAGCATAAAATTAAATTACGTAACG
29153629 ATATT
125 ATATT
** ** *
29153634 TTAAGGTTGTTGCTAATATTTTAATGTTT-AACATGTT-TTTT-AC-TTACAAATTTTATTGAGA
1 TTAAGGTTGTTGCTAATATTTTAACATTTAAACAACTTATTTTGACTTTACAAATTTTATTAAGA
** *
29153695 ATTTGCAATGAAAAATTGTGTCATTGCAATGAATAAGCATAAAATTAAATTACATAACGATATT
66 ATTTGCAATGAAAAATCATGTCATTGCAATGAATAAGCATAAAATTAAATTACGTAACGATATT
* * * *
29153759 TTAAAGCTGTTGCTAATATTGTAACATTTACAACAACTTATTTTGTCTTTACAAATTTTATTAAG
1 TTAAGGTTGTTGCTAATATTTTAACATTTA-AACAACTTATTTTGACTTTACAAATTTTATTAAG
* * ** * *
29153824 AATTTGCAATGACAAATCATATTGTTGCAATGAATAAGCATAAAATTAAATTATGTAACGACATT
65 AATTTGCAATGAAAAATCATGTCATTGCAATGAATAAGCATAAAATTAAATTACGTAACGATATT
* * * * * **
29153889 TTAAGGTTGTTACTAATATTTTAACATTTAGCAATAATTTA-TTTGATCGTTGCGCATTTTATTA
1 TTAAGGTTGTTGCTAATATTTTAACATTTA--AACAACTTATTTTGA-CTTTACAAATTTTATTA
* * ** * * * * *
29153953 AGAATTTGTAATGAAAAATCGTGTTGTTGCAATGAATAAGTATACAATTAAATTATGTAACAACA
63 AGAATTTGCAATGAAAAATCATGTCATTGCAATGAATAAGCATAAAATTAAATTACGTAACGATA
29154018 TT
128 TT
* * * * * * *
29154020 TTAAAGTCGTTCCTAATAATATAATATTTAGTAACAATTTATTTT
1 TTAAGGTTGTTGCTAATATTTTAACATTTA--AACAACTTATTTT
29154065 ATTGTTATAT
Statistics
Matches: 358, Mismatches: 61, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
124 1 0.00
125 85 0.24
126 6 0.02
127 10 0.03
128 6 0.02
129 1 0.00
130 121 0.34
131 125 0.35
132 3 0.01
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (129 bp):
TTAAGGTTGTTGCTAATATTTTAACATTTAAACAACTTATTTTGACTTTACAAATTTTATTAAGA
ATTTGCAATGAAAAATCATGTCATTGCAATGAATAAGCATAAAATTAAATTACGTAACGATATT
Found at i:29153857 original size:130 final size:130
Alignment explanation
Indices: 29153495--29154064 Score: 512
Period size: 130 Copynumber: 4.4 Consensus size: 130
29153485 ATATCAAATC
* * **
29153495 AACAACATCTTAAGGTTGTTGCTAATA-TTTAACATTTAACAATGACTTATTTTGT-TGTTACAA
1 AACAACATTTTAAAGTTGTTGCTAATATTTTAACATTT-ACAACAACTTATTTTGTCT-TTACAA
* * * * * * *
29153558 ATTTTATT-AGTATTTCACAACT-ACAAATCATGTCATTGCTATTAATAAGCAGAAAAATAAATT
64 ATTTTATTAAGAATTT-GCAA-TGAAAAATCATGTCATTGCAATGAATAAGCATAAAATTAAATT
29153621 ACGT
127 ACGT
* * * ** ** *
29153625 ATCAATATTTTAAGGTTGTTGCTAATATTTTAATGTTT--AACATGTT-TTTT-AC-TTACAAAT
1 AACAACATTTTAAAGTTGTTGCTAATATTTTAACATTTACAACAACTTATTTTGTCTTTACAAAT
* ** *
29153685 TTTATTGAGAATTTGCAATGAAAAATTGTGTCATTGCAATGAATAAGCATAAAATTAAATTACAT
66 TTTATTAAGAATTTGCAATGAAAAATCATGTCATTGCAATGAATAAGCATAAAATTAAATTACGT
* * * *
29153750 AACGATATTTTAAAGCTGTTGCTAATATTGTAACATTTACAACAACTTATTTTGTCTTTACAAAT
1 AACAACATTTTAAAGTTGTTGCTAATATTTTAACATTTACAACAACTTATTTTGTCTTTACAAAT
* * ** *
29153815 TTTATTAAGAATTTGCAATGACAAATCATATTGTTGCAATGAATAAGCATAAAATTAAATTATGT
66 TTTATTAAGAATTTGCAATGAAAAATCATGTCATTGCAATGAATAAGCATAAAATTAAATTACGT
* * * * * * * **
29153880 AACGACATTTTAAGGTTGTTACTAATATTTTAACATTTAGCAATAATTTA-TTTGATCGTTGCGC
1 AACAACATTTTAAAGTTGTTGCTAATATTTTAACATTTA-CAACAACTTATTTTG-TCTTTACAA
* * ** * * *
29153944 ATTTTATTAAGAATTTGTAATGAAAAATCGTGTTGTTGCAATGAATAAGTATACAATTAAATTAT
64 ATTTTATTAAGAATTTGCAATGAAAAATCATGTCATTGCAATGAATAAGCATAAAATTAAATTAC
29154009 GT
129 GT
* * * * * * *
29154011 AACAACATTTTAAAGTCGTTCCTAATAATATAATATTTAGTAACAATTTATTTT
1 AACAACATTTTAAAGTTGTTGCTAATATTTTAACATTTA-CAACAACTTATTTT
29154065 ATTGTTATAT
Statistics
Matches: 363, Mismatches: 65, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
124 1 0.00
125 85 0.23
126 6 0.02
127 10 0.03
128 8 0.02
129 1 0.00
130 126 0.35
131 123 0.34
132 3 0.01
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (130 bp):
AACAACATTTTAAAGTTGTTGCTAATATTTTAACATTTACAACAACTTATTTTGTCTTTACAAAT
TTTATTAAGAATTTGCAATGAAAAATCATGTCATTGCAATGAATAAGCATAAAATTAAATTACGT
Found at i:29154796 original size:2 final size:2
Alignment explanation
Indices: 29154789--29154821 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
29154779 GTTATGTGAT
29154789 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
29154822 GTAAAAGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29158944 original size:3 final size:3
Alignment explanation
Indices: 29158936--29158988 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
29158926 ACATCATTTA
29158936 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
29158984 AAT AA
1 AAT AA
29158989 GACTTTGAAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:29160979 original size:2 final size:2
Alignment explanation
Indices: 29160967--29160997 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
29160957 ATAGTTATTA
*
29160967 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
29160998 ATTATGCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:29174607 original size:16 final size:16
Alignment explanation
Indices: 29174586--29174625 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
29174576 TTGAAATTAA
29174586 TAATAACTCTAAAGGC
1 TAATAACTCTAAAGGC
29174602 TAATAACTCTAAAGGC
1 TAATAACTCTAAAGGC
29174618 TAATAACT
1 TAATAACT
29174626 GGAAATGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.28
Consensus pattern (16 bp):
TAATAACTCTAAAGGC
Found at i:29175957 original size:2 final size:2
Alignment explanation
Indices: 29175950--29175985 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
29175940 TTGACAGTTA
29175950 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29175986 TTAAACAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29177938 original size:16 final size:17
Alignment explanation
Indices: 29177917--29177966 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
29177907 ATCTATCATT
29177917 TATTAAATAAAA-ATTA
1 TATTAAATAAAATATTA
*
29177933 TATTAATTAAAATATTA
1 TATTAAATAAAATATTA
*
29177950 T-TTCAATAAAATGATTA
1 TATTAAATAAAAT-ATTA
29177967 AATTTCACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 20 0.69
17 9 0.31
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
TATTAAATAAAATATTA
Found at i:29180991 original size:24 final size:24
Alignment explanation
Indices: 29180929--29180991 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
29180919 GGAAGCTTAT
* *
29180929 AAGAGCCATAATCGGGAAGTTCACA
1 AAGAACCAT-ATCAGGAAGTTCACA
* *
29180954 AAGAACCTTGTCAGGAAGTTCACA
1 AAGAACCATATCAGGAAGTTCACA
29180978 AAGAACCATATCAG
1 AAGAACCATATCAG
29180992 AAAGCTCCGG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 25 0.78
25 7 0.22
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.17
Consensus pattern (24 bp):
AAGAACCATATCAGGAAGTTCACA
Found at i:29184417 original size:2 final size:2
Alignment explanation
Indices: 29184410--29184444 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
29184400 AAGATAATAG
29184410 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
29184445 GTATTTATCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:29187909 original size:3 final size:3
Alignment explanation
Indices: 29187901--29187929 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
29187891 TTAAAATCTT
29187901 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
29187930 CATTTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:29195379 original size:33 final size:36
Alignment explanation
Indices: 29195309--29195382 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
29195299 ACATACAAAA
*
29195309 CAATAAAATAAAAAAATACAACAGTCCAAATCAAGGCC
1 CAATAAAAT-AAAAAATACAACAGGCCAAAT-AAGGCC
*
29195347 CAATAAAAT-AAAAATACAA-AGGCCAGAT-AGGCC
1 CAATAAAATAAAAAATACAACAGGCCAAATAAGGCC
29195380 CAA
1 CAA
29195383 AGCATTGGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
33 8 0.24
35 7 0.21
36 10 0.29
38 9 0.26
ACGTcount: A:0.57, C:0.20, G:0.11, T:0.12
Consensus pattern (36 bp):
CAATAAAATAAAAAATACAACAGGCCAAATAAGGCC
Found at i:29196478 original size:20 final size:18
Alignment explanation
Indices: 29196458--29196491 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
29196448 AAAACACTAT
29196458 TATT-CCTTATTTTTATA
1 TATTACCTTATTTTTATA
29196475 TATTACCTTATTTTTAT
1 TATTACCTTATTTTTAT
29196492 GTGCATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTACCTTATTTTTATA
Found at i:29199674 original size:39 final size:39
Alignment explanation
Indices: 29199629--29199708 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
29199619 AGATGTATAA
29199629 GCCAATGGTGTAAGTAGTTATCATGTAGTAGTATATACT
1 GCCAATGGTGTAAGTAGTTATCATGTAGTAGTATATACT
*
29199668 GCCAATGGTGTAAGTAGTTATCATGTATTAGTATATACT
1 GCCAATGGTGTAAGTAGTTATCATGTAGTAGTATATACT
29199707 GC
1 GC
29199709 TTTCTTTGGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (39 bp):
GCCAATGGTGTAAGTAGTTATCATGTAGTAGTATATACT
Found at i:29212989 original size:40 final size:40
Alignment explanation
Indices: 29212861--29212991 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
29212851 TATGCTGGAA
* * * *
29212861 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
29212901 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
29212941 ATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
29212981 ATTATATCCGG
1 ATTATATCCGG
29212992 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:29216938 original size:40 final size:40
Alignment explanation
Indices: 29216865--29217072 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
29216855 CAATTGAATG
* * ** *
29216865 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * * **
29216905 ATACCCGGGTTAAGACCCGAAGGCCATT-GTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTAATT
* **
29216945 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
29216985 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * **
29217025 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
29217065 ATATCCGG
1 ATATCCGG
29217073 TTGTATTCCG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 4 0.03
40 131 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
Found at i:29217003 original size:80 final size:80
Alignment explanation
Indices: 29216867--29217072 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
29216857 ATTGAATGAT
* * ** * * * *
29216867 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATACCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
29216931 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
29216947 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
29217012 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
29217027 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
29217073 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 102 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:29220353 original size:27 final size:27
Alignment explanation
Indices: 29220315--29220373 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
29220305 GAACACTAGT
29220315 TTAGCCTTATCAAATGATGGATTTATC
1 TTAGCCTTATCAAATGATGGATTTATC
*
29220342 TTAGCCTTATCAGATGATGGATTTATC
1 TTAGCCTTATCAAATGATGGATTTATC
29220369 TTAGC
1 TTAGC
29220374 TGAGTTGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (27 bp):
TTAGCCTTATCAAATGATGGATTTATC
Found at i:29221645 original size:17 final size:18
Alignment explanation
Indices: 29221619--29221652 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
29221609 TTTTTGTTTA
29221619 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
29221636 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
29221653 ATATTTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:29229918 original size:39 final size:38
Alignment explanation
Indices: 29229873--29229948 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
29229863 TGTGGATTGA
* *
29229873 ATAAATTTCCTCGGGTTGGCTTCTATCAAAGCCATGTT
1 ATAAAATTCCTCAGGTTGGCTTCTATCAAAGCCATGTT
* *
29229911 ATAAAATTCCTTAGGTTGGCTTCTATCACAGCCATGTT
1 ATAAAATTCCTCAGGTTGGCTTCTATCAAAGCCATGTT
29229949 TTCTTCACCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (38 bp):
ATAAAATTCCTCAGGTTGGCTTCTATCAAAGCCATGTT
Found at i:29233627 original size:7 final size:7
Alignment explanation
Indices: 29233617--29233648 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
29233607 TGATGAATGA
29233617 ATGAGGG
1 ATGAGGG
29233624 ATGAGGG
1 ATGAGGG
29233631 ATGAGGG
1 ATGAGGG
29233638 ATGAGGG
1 ATGAGGG
29233645 ATGA
1 ATGA
29233649 TTGAAAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.53, T:0.16
Consensus pattern (7 bp):
ATGAGGG
Found at i:29236237 original size:41 final size:41
Alignment explanation
Indices: 29236192--29236309 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
29236182 TGAAAGATAA
29236192 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
29236233 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
29236263 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
29236304 ATGTAG
1 ATGTAG
29236310 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:29236248 original size:71 final size:71
Alignment explanation
Indices: 29236160--29236323 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
29236150 GAGATGTATC
29236160 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
29236225 AGGACA
66 AGGACA
29236231 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
29236296 AGGACA
66 AGGACA
29236302 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
29236324 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:29245342 original size:2 final size:2
Alignment explanation
Indices: 29245335--29245366 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
29245325 TTATTATTAG
29245335 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
29245367 CGTACTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:29248232 original size:26 final size:26
Alignment explanation
Indices: 29248202--29248283 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
29248192 TGAAATTCCC
*
29248202 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
29248228 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
29248254 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
29248280 ATCA
1 ATCA
29248284 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:29255242 original size:26 final size:26
Alignment explanation
Indices: 29255212--29255267 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
29255202 TGAAATTCCC
29255212 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
29255238 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
29255264 ATCA
1 ATCA
29255268 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:29257047 original size:128 final size:128
Alignment explanation
Indices: 29256815--29257047 Score: 299
Period size: 128 Copynumber: 1.8 Consensus size: 128
29256805 GACGAGATTT
* * *
29256815 GATATTTGACAATTCGCGGAATCTTGACCTTACGTGTTGGGTTGCATTCGCGTTTGCTCAAAATA
1 GATATTTGACAATTCGCGGAATCCTGACCTAACGTGTTGGGTTGCATTCGCGATTGCTCAAAATA
* * *
29256880 ATCAAATATCACTTCAAAATTTCACTCATGTCTTTTAAAATCCCTTGAACGAAGGTGATACGC
66 ATCAAATATCACTTCAAAACTTCACTCATATCTTCTAAAATCCCTTGAACGAAGGTGATACGC
* * * * * * *
29256943 GATATTTGGCAATTTGTGGAATCCTGCCCTAACGTGTTGGGTTGCAATT-TCGATTGTTTAAAAT
1 GATATTTGACAATTCGCGGAATCCTGACCTAACGTGTTGGGTTGC-ATTCGCGATTGCTCAAAAT
* *
29257007 AATCAAATATC-CATTCAAGACTTCATTCATATCTTCTAAAA
65 AATCAAATATCAC-TTCAAAACTTCACTCATATCTTCTAAAA
29257048 ATTATTTAAA
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
127 1 0.01
128 84 0.95
129 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (128 bp):
GATATTTGACAATTCGCGGAATCCTGACCTAACGTGTTGGGTTGCATTCGCGATTGCTCAAAATA
ATCAAATATCACTTCAAAACTTCACTCATATCTTCTAAAATCCCTTGAACGAAGGTGATACGC
Found at i:29258026 original size:2 final size:2
Alignment explanation
Indices: 29258019--29258050 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
29258009 ACTTATATTC
29258019 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29258051 GTGTGTGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29258423 original size:52 final size:52
Alignment explanation
Indices: 29258339--29258537 Score: 299
Period size: 52 Copynumber: 3.8 Consensus size: 52
29258329 TAAGATTTTT
* ** * * *
29258339 CACACGGCCTGGCACACGGGCGTGTGGTTTGGCTGTGTGACCCCTATACCTA
1 CACACGGCCTAGCACACGGGCGTGTGACTTGGCCGTATGACCCCTGTACCTA
*
29258391 CACACGGCCTAGCACATGGGCGTGTGACTTGGCCGTATGACCCCTGTACCTA
1 CACACGGCCTAGCACACGGGCGTGTGACTTGGCCGTATGACCCCTGTACCTA
*
29258443 CACACGGCCTAGCACATGGGCGTGTGACTTGGCCGTATGACCCCTGTACCTA
1 CACACGGCCTAGCACACGGGCGTGTGACTTGGCCGTATGACCCCTGTACCTA
* * *
29258495 CACACGGCCTAGCACACGAGCGTGTGACTTGGCCATGTGACCC
1 CACACGGCCTAGCACACGGGCGTGTGACTTGGCCGTATGACCC
29258538 AAGTCAGATA
Statistics
Matches: 136, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 136 1.00
ACGTcount: A:0.19, C:0.33, G:0.28, T:0.21
Consensus pattern (52 bp):
CACACGGCCTAGCACACGGGCGTGTGACTTGGCCGTATGACCCCTGTACCTA
Found at i:29261747 original size:40 final size:40
Alignment explanation
Indices: 29261703--29261850 Score: 228
Period size: 40 Copynumber: 3.7 Consensus size: 40
29261693 ACAACCACAA
*
29261703 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
29261743 GCACAAATGCCTTTGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
29261783 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
*
29261823 GCATAAATGCCTTCGAGG-CTTAGCCCGG
1 GCACAAATGCCTTCG-GGTCTTAGCCCGG
29261851 GTATCATTCA
Statistics
Matches: 101, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
40 98 0.97
41 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:29263627 original size:20 final size:20
Alignment explanation
Indices: 29263590--29263627 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
29263580 GCATTACTGT
*
29263590 ATAATTCATAACATTTACGG
1 ATAATTCATAACAATTACGG
*
29263610 ATAATTCATGACAATTAC
1 ATAATTCATAACAATTAC
29263628 TATTCATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (20 bp):
ATAATTCATAACAATTACGG
Found at i:29264943 original size:57 final size:58
Alignment explanation
Indices: 29264882--29264990 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 58
29264872 TCCTGCTTCG
* * *
29264882 AACATATGCTCATA-AGAGCTTA-ATCAGGATTACCCGTCCGGGCTAAATCCTATCTAT
1 AACATATGCTCA-AGAGAGCTTATATCAGAATTACCAGTCCAGGCTAAATCCTATCTAT
* *
29264939 AACATATGCTCAAGAGGGCTTATATCCGAATTACCAGTCCAGGCTAAATCCT
1 AACATATGCTCAAGAGAGCTTATATCAGAATTACCAGTCCAGGCTAAATCCT
29264991 TTATGTAATG
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
56 1 0.02
57 19 0.42
58 25 0.56
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (58 bp):
AACATATGCTCAAGAGAGCTTATATCAGAATTACCAGTCCAGGCTAAATCCTATCTAT
Found at i:29292818 original size:48 final size:48
Alignment explanation
Indices: 29292745--29293082 Score: 550
Period size: 48 Copynumber: 7.0 Consensus size: 48
29292735 CAAGATAAAT
* *
29292745 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
29292793 ATATGTATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
29292841 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
29292889 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
29292937 CTTTGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
29292985 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * * *
29293033 ATATGTATATTTGGTAAAGCTGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
29293081 AT
1 AT
29293083 GTGTGTATAT
Statistics
Matches: 270, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 270 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:29293273 original size:37 final size:37
Alignment explanation
Indices: 29293223--29293325 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
29293213 GGAAATATAT
29293223 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
29293260 TCCGGGTAAGACCCAATGACTAGGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
29293297 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
29293326 GGACTATTCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:29295165 original size:22 final size:19
Alignment explanation
Indices: 29295126--29295167 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
29295116 TAGAAAGTTG
29295126 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
29295145 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
29295167 A
1 A
29295168 ATTATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:29297255 original size:50 final size:50
Alignment explanation
Indices: 29297151--29297376 Score: 252
Period size: 50 Copynumber: 4.6 Consensus size: 50
29297141 TGACATGTGT
* *
29297151 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-A-TTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGA
* *
29297197 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATATGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGA
* *
29297247 GCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGATATATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGA
* ** * * * *
29297297 G-TCAGTGTAAGACCAAGTCAAGGACAT-GCAATCGACCT--TGATGTGTGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGC-ATCGGCCTCGAGATATGAGA
*
29297345 GCTAGTGTAAGACCATGTCCGGGACATGGCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAT
29297377 TGCCATCTTA
Statistics
Matches: 152, Mismatches: 20, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
46 12 0.08
47 14 0.09
48 39 0.26
49 7 0.05
50 80 0.53
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (50 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGA
Found at i:29297371 original size:98 final size:96
Alignment explanation
Indices: 29297145--29297378 Score: 273
Period size: 98 Copynumber: 2.4 Consensus size: 96
29297135 TTTGGGTGAC
* *
29297145 ATGTGTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCTAGTGTAAG
1 ATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCACATTATGAGAGCTAGTGTAAG
* **
29297208 ACCATGTCTGGGACATGGCATCAGCCTCGAG
66 ACCAAGTCAAGGACATGGCATCAGCCTCGAG
* *
29297239 ATATGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGATATATGAGAG-TCAGT
1 ATGTG--AGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCAC-AT-TATGAGAGCT-AGT
*
29297303 GTAAGACCAAGTCAAGGACAT-GCAATC-GACCTTGATG
61 GTAAGACCAAGTCAAGGACATGGC-ATCAG-CCTCGA-G
*
29297340 -TGTGAGCTAGTGTAAGACCATGTCCGGGACATGGCATTG
1 ATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTG
29297379 CCATCTTACC
Statistics
Matches: 120, Mismatches: 10, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
94 4 0.03
96 12 0.10
97 14 0.12
98 43 0.36
99 6 0.05
100 40 0.33
101 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (96 bp):
ATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCACATTATGAGAGCTAGTGTAAG
ACCAAGTCAAGGACATGGCATCAGCCTCGAG
Found at i:29302932 original size:14 final size:14
Alignment explanation
Indices: 29302889--29302932 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
29302879 AGCTCAAAAG
29302889 AGCTTACTGTTATT
1 AGCTTACTGTTATT
*
29302903 AGC-T-C-GTTA-G
1 AGCTTACTGTTATT
29302913 AGCTTACTGTTATT
1 AGCTTACTGTTATT
29302927 AGCTTA
1 AGCTTA
29302933 TTGGAGCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
10 3 0.12
11 5 0.21
12 2 0.08
13 5 0.21
14 9 0.38
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (14 bp):
AGCTTACTGTTATT
Found at i:29302939 original size:24 final size:24
Alignment explanation
Indices: 29302887--29302943 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
29302877 TCAGCTCAAA
*
29302887 AGAGCTTACTGTTATTAGCTCGTT
1 AGAGCTTACTGTTATTAGCTCATT
*
29302911 AGAGCTTACTGTTATTAGCTTATT
1 AGAGCTTACTGTTATTAGCTCATT
*
29302935 GGAGCTTAC
1 AGAGCTTAC
29302944 CATTTCAGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (24 bp):
AGAGCTTACTGTTATTAGCTCATT
Found at i:29302964 original size:23 final size:23
Alignment explanation
Indices: 29302936--29303011 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
29302926 TAGCTTATTG
29302936 GAGCTTACCATTTCAGCTCG-TA
1 GAGCTTACCATTTCAGCTCGATA
* * *
29302958 TGGGCTTA--TTGTTCAACTCGATA
1 -GAGCTTACCAT-TTCAGCTCGATA
*
29302981 GAGCTTACCATTTCAGCTCAATA
1 GAGCTTACCATTTCAGCTCGATA
29303004 GAGCTTAC
1 GAGCTTAC
29303012 TGTTCATTAG
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
21 1 0.02
22 14 0.33
23 26 0.62
24 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (23 bp):
GAGCTTACCATTTCAGCTCGATA
Found at i:29303411 original size:25 final size:26
Alignment explanation
Indices: 29303383--29303433 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
29303373 CTTATTTCAT
*
29303383 TAAATAAAAAAT-TTTAAAAATATAA
1 TAAATAAAAAATATTTAAAAACATAA
* *
29303408 TAAATCAAATATATTTAAAAACATAA
1 TAAATAAAAAATATTTAAAAACATAA
29303434 AAACAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (26 bp):
TAAATAAAAAATATTTAAAAACATAA
Found at i:29303425 original size:26 final size:24
Alignment explanation
Indices: 29303395--29303443 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
29303385 AATAAAAAAT
*
29303395 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
29303421 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
29303444 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:29305174 original size:40 final size:38
Alignment explanation
Indices: 29305125--29305221 Score: 113
Period size: 40 Copynumber: 2.5 Consensus size: 38
29305115 TACGGTATCT
**
29305125 CTTGGTGTGTAGGGTTGGATGGGTTGATTTTATCCCCATA
1 CTTGGTGTGTAGGGTTGGATGGGTTGAACTTAT-CCC-TA
* * *
29305165 CTTGATGTGTAGGGCTGGGTGGGTTGAACTTATCCCTA
1 CTTGGTGTGTAGGGTTGGATGGGTTGAACTTATCCCTA
* *
29305203 CATGGTGTGTTGGGTTGGA
1 CTTGGTGTGTAGGGTTGGA
29305222 CGGAGATGGT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
38 16 0.34
39 3 0.06
40 28 0.60
ACGTcount: A:0.14, C:0.12, G:0.36, T:0.37
Consensus pattern (38 bp):
CTTGGTGTGTAGGGTTGGATGGGTTGAACTTATCCCTA
Done.